Hsf1p gene transcriptions

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Associate Editor(s)-in-Chief: Henry A. Hoff

"In response to elevated temperatures, cells from many organisms rapidly transcribe a number of mRNAs. In Saccharomyces cerevisiae, this protective response involves two regulatory systems: the heat shock transcription factor (Hsf1) and the Msn2 and Msn4 (Msn2/4) transcription factors."[1]

"Yeast Hsf1 is an essential protein that binds to inverted repeats of nGAAn called heat shock elements (HSEs) within the promoters of many HSPs and activates their transcription."[1]

Human genes

Main article: Human genes

"In response to heat shock, mammalian HSF undergoes nuclear localization, trimerizes, and binds to HSEs."[1]

Interactions

Main article: Interaction gene transcriptions

Consensus sequences

Main article: Consensus sequence gene transcriptions

The upstream activating sequence (UAS) for the Hsf1p is 5'-NGAAN-3' or 5'-(A/C/G/T)GAA(A/C/G/T)-3'.[2]

Complement-inverse copies

Main article: Complement-inverse copy gene transcriptions

Recent "studies on the MDJ1 promoter identified a novel non-consensus HSE that consists of three separated nGAAn motifs, nTTCn-(11-bp)-nGAAn-(5-bp)-nGAAn (58). When we analyzed promoters of the genes induced by HSF for this non-consensus HSE, we found 2.9% of the genes contained this novel HSE."[1]

"Of the 90 heat-induced genes that contain HSEs in their promoters, there is an equal number of HSEs that start with nGAAn and nTTCn, but genes with a -fold change >5-fold have HSEs with the sequences nTTCnnGAAn or nTTCnnNNNnnTTC than any combination starting with nGAAn (66.7%). These findings suggest that the type of Hsf1 binding site is not as important as the topology of the HSE. Previous studies have revealed that all three DNA-binding domains of the trimeric Hsf1 bind to one face of the DNA (59), and our studies confirm that the orientation of the HSE with respect to the transcriptional start site can affect its transcriptional activity."[1]

Complement copies

Main article: Complement copy gene transcriptions

"To identify Hsf1 binding sites in the promoter sequences, we analyzed 1000 bp upstream of the start codon of the loci that represented verifiable [open reading frame] ORFs. Sequences were retrieved from the [Saccharomyces Genome Database] SGD (36, 37) and analyzed using a simple pattern-identification program. We defined three types of HSEs, each having three nGAAn repeats in Perfect (PFT), GAP (GAP), and STEP (STP) arrangements. The perfect HSE (PFT) consists of three contiguous, inverted repeats of the nGAAn sequence, either nGAAnnTTCnnGAAn or nTTCnnGAAnnTTCn. The GAP HSE consists of an nGAAn repeat, followed by any 5 bp and 2 inverted nGAAn repeats (nGAAn-(5-bp)-nGAAnnTTCn) and its complement (nGAAnnTTCn-(5-bp)-nTTCn), as well as the related sequences nTTCn-(5-bp)-nTTCnnGAAn and nTTC-nnGAAn-(5-bp)-nGAAn. The STP HSE has a 5-bp insert between each of the 3 nGAAn repeats, yielding the sequences nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn and nTTCn-(5-bp)-nTTCn-(5-bp)-nTTCn (30). As per previous studies (27, 30), we also allowed a single mismatch (nGAR) in one of the three nGAAn repeats for PFT or GAP."[1]

Inverse copies

Main article: Inverse copy gene transcriptions

"HSEs are composed of inverted, alternating repeats of the 5-bp sequence nGAAn, where n is any nucleotide (53, 54, 55, 56). The number of pentameric units in an HSE varies, but three to six units are thought to be required for heat regulation in vivo (30, 57). Deviations from the consensus in both sequence and/or the distance between the modules can be tolerated, but to what extent is unknown. To determine if there is a correlation between the different HSEs and the affinity of Hsf1 for the motif and, thereby, the level of transcription activation, we searched in the promoters of the genes for three types of HSEs. Each type contains three nGAAn core motifs, but the variants are distinguishable from each other by the location of the core motifs within the HSE [...]."[1]

Hypotheses

Main article: Hypotheses
  1. A1BG has no Hsf1s in either promoter.
  2. A1BG is not transcribed by an Hsf1.
  3. No Hsf1s participates in the transcription of A1BG.

HSE (Tang) samplings

Copying 5'-TGAAA-3' in "⌘F" yields twelve between ZSCAN22 and A1BG and 5'-CGAAC-3' one between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence NGAAN (starting with SuccessablesAAA.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for NGAAN, 52, AGAAG at 4528, TGAAA at 4461, AGAAT at 4406, CGAAC at 4293, TGAAC at 4267, CGAAC at 4187, TGAAT at 4162, TGAAC at 4011, TGAAA at 3984, AGAAC at 3792, CGAAG at 3776, GGAAC at 3570, AGAAG at 3553, CGAAC at 3400, TGAAC at 3241, TGAAC at 3102, TGAAA at 3075, TGAAA at 3018, CGAAT at 2935, TGAAC at 2920, CGAAC at 2713, TGAAC at 2579, TGAAA at 2552, CGAAC at 2378, TGAAA at 2216, TGAAC at 2126, TGAAA at 2099, CGAAC at 1972, TGAAC at 1926, TGAAA at 1790, AGAAA at 1733, TGAAA at 1687, AGAAC at 1648, TGAAC at 1618, AGAAC at 1606, TGAAT at 1545, AGAAA at 1418, TGAAC at 1299, TGAAA at 1145, TGAAG at 1053, CGAAC at 1008, CGAAC at 842, TGAAA at 681, GGAAG at 619, TGAAA at 545, TGAAA at 408, AGAAA at 347, TGAAC at 327, GGAAT at 317, AGAAC at 280, AGAAA at 47, AGAAA at 25.
  2. negative strand, positive direction, looking for NGAAN, 62, GGAAC at 4443, GGAAG at 4263, GGAAG at 4248, AGAAG at 4197, TGAAA at 4091, AGAAC at 4067, AGAAC at 4047, TGAAC at 3936, TGAAA at 3926, AGAAA at 3918, GGAAG at 3871, GGAAC at 3855, AGAAG at 3851, TGAAC at 3837, AGAAT at 3833, GGAAA at 3794, TGAAT at 3780, GGAAG at 3762, GGAAG at 3667, TGAAA at 3596, GGAAT at 3565, TGAAT at 3443, GGAAT at 3439, GGAAT at 3365, AGAAG at 3216, GGAAA at 3165, AGAAC at 3093, AGAAT at 3067, TGAAA at 2917, AGAAT at 2839, GGAAA at 2831, GGAAG at 2784, AGAAC at 2775, GGAAG at 2748, AGAAT at 2723, AGAAA at 2629, GGAAA at 2623, GGAAC at 2578, AGAAT at 2241, AGAAC at 2224, AGAAG at 2192, TGAAA at 2146, AGAAC at 1950, AGAAC at 1810, AGAAG at 1633, GGAAG at 1594, AGAAT at 1418, AGAAT at 1318, AGAAG at 1231, GGAAA at 1089, AGAAG at 1063, TGAAG at 961, TGAAG at 861, CGAAG at 768, TGAAG at 727, AGAAG at 643, AGAAG at 559, CGAAC at 362, GGAAA at 290, TGAAG at 232, GGAAG at 209, AGAAG at 48.
  3. positive strand, negative direction, looking for NGAAN, 93, GGAAT at 4553, AGAAC at 4450, AGAAA at 4394, AGAAA at 4389, AGAAA at 4382, AGAAA at 4085, AGAAA at 4081, AGAAG at 3936, TGAAA at 3922, GGAAG at 3909, TGAAC at 3783, GGAAC at 3723, GGAAT at 3677, AGAAC at 3667, GGAAA at 3663, GGAAG at 3610, AGAAA at 3591, TGAAA at 3507, GGAAC at 3459, AGAAG at 3407, AGAAA at 3376, AGAAA at 3342, TGAAC at 3244, AGAAT at 3235, TGAAA at 3146, AGAAT at 3002, GGAAA at 2967, GGAAA at 2957, GGAAA at 2926, AGAAA at 2838, AGAAA at 2831, AGAAG at 2828, AGAAA at 2821, AGAAA at 2814, AGAAG at 2811, AGAAA at 2804, AGAAA at 2800, TGAAA at 2746, GGAAG at 2730, TGAAC at 2716, TGAAT at 2707, TGAAA at 2619, TGAAG at 2595, GGAAG at 2557, AGAAA at 2505, GGAAA at 2458, TGAAC at 2381, AGAAT at 2372, TGAAA at 2282, CGAAA at 2157, AGAAA at 2055, TGAAC at 1955, AGAAT at 1946, TGAAA at 1855, GGAAT at 1693, GGAAC at 1684, GGAAA at 1676, GGAAA at 1660, AGAAG at 1655, GGAAA at 1642, AGAAA at 1630, TGAAA at 1625, TGAAA at 1582, CGAAG at 1555, AGAAC at 1551, AGAAT at 1520, AGAAT at 1413, TGAAC at 1302, AGAAT at 1293, TGAAA at 1212, TGAAC at 1011, AGAAT at 1002, TGAAC at 845, AGAAT at 836, CGAAA at 494, TGAAA at 473, TGAAG at 367, AGAAA at 357, GGAAG at 331, CGAAA at 312, AGAAA at 303, AGAAT at 291, AGAAC at 286, GGAAG at 241, AGAAA at 226, AGAAT at 196, AGAAA at 135, TGAAG at 132, TGAAA at 126, AGAAA at 102, GGAAG at 81, AGAAA at 52, TGAAT at 19.
  4. positive strand, positive direction, looking for NGAAN, 64, AGAAC at 4388, AGAAA at 4382, GGAAC at 4299, GGAAG at 4241, GGAAA at 4207, AGAAC at 4130, GGAAG at 4061, TGAAC at 4015, CGAAG at 3994, GGAAA at 3945, AGAAA at 3397, AGAAG at 3394, GGAAC at 3373, GGAAG at 3312, AGAAG at 3247, AGAAG at 3057, TGAAG at 3031, GGAAC at 3001, TGAAG at 2947, GGAAT at 2763, TGAAC at 2741, AGAAA at 2585, GGAAG at 2582, TGAAC at 2418, AGAAT at 2364, TGAAG at 2361, AGAAA at 2278, TGAAA at 2273, CGAAA at 2163, TGAAG at 2107, CGAAG at 2095, AGAAA at 1981, TGAAG at 1914, AGAAT at 1886, GGAAA at 1830, GGAAC at 1798, TGAAA at 1746, GGAAA at 1599, CGAAC at 1578, AGAAT at 1537, GGAAG at 1516, GGAAG at 1432, GGAAG at 1405, GGAAG at 1332, GGAAG at 1305, GGAAG at 1264, CGAAA at 1179, GGAAG at 1153, CGAAA at 1095, GGAAG at 1069, GGAAG at 1012, GGAAG at 928, GGAAG at 828, GGAAG at 760, GGAAG at 733, GGAAG at 676, CGAAC at 654, GGAAG at 592, TGAAC at 526, AGAAT at 522, GGAAG at 456, GGAAA at 134, TGAAC at 129, AGAAA at 110.
  1. inverse complement, negative strand, negative direction, looking for NTTCN, 89, TTTCT at 4505, ATTCT at 4409, TTTCT at 4392, TTTCT at 4387, TTTCT at 4380, GTTCG at 4184, GTTCT at 4179, ATTCC at 4165, TTTCT at 4083, GTTCT at 4028, GTTCT at 4020, CTTCA at 3937, TTTCT at 3924, CTTCT at 3910, ATTCT at 3893, GTTCG at 3845, GTTCT at 3759, TTTCT at 3665, GTTCT at 3635, CTTCC at 3611, ATTCC at 3474, TTTCC at 3441, CTTCA at 3408, TTTCT at 3378, GTTCT at 3374, TTTCC at 3345, GTTCT at 3340, GTTCT at 3307, GTTCT at 3274, GTTCC at 3141, ATTCG at 3032, GTTCC at 2964, ATTCC at 2954, ATTCG at 2915, TTTCT at 2892, TTTCA at 2858, TTTCT at 2836, CTTCT at 2829, TTTCT at 2824, TTTCT at 2819, CTTCT at 2812, TTTCT at 2807, TTTCT at 2802, TTTCT at 2798, CTTCA at 2731, CTTCT at 2596, CTTCC at 2558, ATTCT at 2503, TTTCG at 2478, TTTCG at 2472, GTTCC at 2245, TTTCT at 2175, TTTCT at 2053, GTTCT at 2023, GTTCC at 1818, TTTCG at 1678, CTTCC at 1656, TTTCC at 1639, TTTCT at 1628, ATTCT at 1593, CTTCC at 1556, TTTCT at 1549, GTTCG at 1497, TTTCT at 1400, ATTCT at 1365, TTTCC at 1107, TTTCG at 944, GTTCT at 875, ATTCC at 818, GTTCC at 693, GTTCT at 557, GTTCG at 455, GTTCT at 420, CTTCT at 368, CTTCA at 332, ATTCA at 320, CTTCT at 242, TTTCT at 224, ATTCT at 194, TTTCG at 185, ATTCC at 176, TTTCG at 137, CTTCT at 133, GTTCC at 115, TTTCC at 105, TTTCC at 94, CTTCA at 82, GTTCC at 71, TTTCT at 55.
  2. inverse complement, negative strand, positive direction, looking for NTTCN, 60, TTTCT at 4384, CTTCC at 4242, GTTCA at 4201, GTTCT at 4074, CTTCT at 4062, CTTCA at 3995, GTTCC at 3625, CTTCT at 3395, GTTCC at 3352, CTTCT at 3313, CTTCA at 3248, ATTCT at 3074, CTTCT at 3058, CTTCA at 3032, GTTCT at 2955, CTTCT at 2948, GTTCA at 2934, GTTCT at 2923, TTTCA at 2646, CTTCT at 2583, CTTCT at 2362, TTTCA at 2302, TTTCT at 2276, TTTCA at 2264, ATTCC at 2208, ATTCT at 2180, TTTCT at 2165, CTTCA at 2108, CTTCA at 2096, GTTCT at 1988, TTTCT at 1979, GTTCG at 1927, CTTCG at 1915, TTTCG at 1750, TTTCA at 1601, CTTCG at 1517, GTTCG at 1490, CTTCC at 1433, CTTCG at 1406, GTTCG at 1390, CTTCC at 1333, CTTCG at 1306, CTTCA at 1265, TTTCG at 1181, CTTCG at 1154, TTTCC at 1097, CTTCC at 1070, CTTCG at 1013, CTTCA at 929, CTTCA at 829, CTTCG at 761, CTTCC at 734, CTTCC at 677, CTTCG at 593, GTTCA at 509, CTTCG at 457, GTTCC at 306, TTTCT at 137, ATTCT at 117, GTTCT at 108.
  3. inverse complement, positive strand, negative direction, looking for NTTCN, 27, ATTCC at 4543, CTTCA at 4529, GTTCT at 4418, GTTCA at 4176, GTTCA at 4025, CTTCC at 3777, TTTCC at 3689, CTTCT at 3554, ATTCA at 3518, ATTCG at 3501, ATTCT at 3317, TTTCA at 2885, ATTCG at 2453, TTTCT at 1604, ATTCT at 1523, ATTCT at 1416, TTTCA at 1381, GTTCA at 1178, CTTCA at 1054, GTTCG at 720, CTTCT at 620, ATTCC at 537, GTTCT at 345, GTTCA at 254, GTTCT at 45, TTTCT at 23, ATTCT at 7.
  4. inverse complement, positive strand, positive direction, looking for NTTCN, 61, CTTCT at 4264, CTTCC at 4249, CTTCA at 4198, TTTCT at 3929, TTTCA at 3920, CTTCT at 3872, CTTCC at 3852, CTTCG at 3763, CTTCG at 3668, TTTCG at 3598, CTTCG at 3217, TTTCT at 3065, TTTCC at 2919, TTTCC at 2828, ATTCT at 2790, CTTCG at 2785, CTTCG at 2749, TTTCA at 2709, GTTCC at 2693, ATTCA at 2664, GTTCA at 2616, GTTCA at 2594, TTTCG at 2536, GTTCA at 2509, ATTCC at 2457, GTTCG at 2399, CTTCG at 2193, GTTCT at 2190, ATTCC at 2085, TTTCG at 2005, GTTCT at 1948, CTTCG at 1634, CTTCG at 1595, ATTCG at 1540, GTTCA at 1526, GTTCC at 1511, GTTCC at 1427, GTTCC at 1327, GTTCC at 1259, CTTCG at 1232, TTTCC at 1091, CTTCG at 1064, GTTCC at 1007, CTTCT at 962, GTTCC at 923, CTTCT at 862, GTTCC at 823, CTTCG at 769, GTTCA at 755, CTTCG at 728, GTTCC at 671, CTTCG at 644, GTTCC at 587, CTTCG at 560, GTTCC at 503, GTTCG at 339, CTTCT at 233, CTTCC at 210, GTTCT at 178, ATTCC at 123, CTTCT at 49.

Hsf UTRs

  1. Negative strand, negative direction: AGAAG at 4528, TGAAA at 4461, AGAAT at 4406, CGAAC at 4293, TGAAC at 4267, CGAAC at 4187, TGAAT at 4162, TGAAC at 4011, TGAAA at 3984, AGAAC at 3792, CGAAG at 3776, GGAAC at 3570, AGAAG at 3553, CGAAC at 3400, TGAAC at 3241, TGAAC at 3102, TGAAA at 3075, TGAAA at 3018, CGAAT at 2935, TGAAC at 2920.
  2. Positive strand, negative direction: GGAAT at 4553, AGAAC at 4450, AGAAA at 4394, AGAAA at 4389, AGAAA at 4382, AGAAA at 4085, AGAAA at 4081, AGAAG at 3936, TGAAA at 3922, GGAAG at 3909, TGAAC at 3783, GGAAC at 3723, GGAAT at 3677, AGAAC at 3667, GGAAA at 3663, GGAAG at 3610, AGAAA at 3591, TGAAA at 3507, GGAAC at 3459, AGAAG at 3407, AGAAA at 3376, AGAAA at 3342, TGAAC at 3244, AGAAT at 3235, TGAAA at 3146, AGAAT at 3002, GGAAA at 2967, GGAAA at 2957, GGAAA at 2926.
  3. inverse complement, negative strand, negative direction: TTTCT at 4505, ATTCT at 4409, TTTCT at 4392, TTTCT at 4387, TTTCT at 4380, GTTCG at 4184, GTTCT at 4179, ATTCC at 4165, TTTCT at 4083, GTTCT at 4028, GTTCT at 4020, CTTCA at 3937, TTTCT at 3924, CTTCT at 3910, ATTCT at 3893, GTTCG at 3845, GTTCT at 3759, TTTCT at 3665, GTTCT at 3635, CTTCC at 3611, ATTCC at 3474, TTTCC at 3441, CTTCA at 3408, TTTCT at 3378, GTTCT at 3374, TTTCC at 3345, GTTCT at 3340, GTTCT at 3307, GTTCT at 3274, GTTCC at 3141, ATTCG at 3032, GTTCC at 2964, ATTCC at 2954, ATTCG at 2915, TTTCT at 2892, TTTCA at 2858.
  4. inverse complement, positive strand, negative direction: ATTCC at 4543, CTTCA at 4529, GTTCT at 4418, GTTCA at 4176, GTTCA at 4025, CTTCC at 3777, TTTCC at 3689, CTTCT at 3554, ATTCA at 3518, ATTCG at 3501, ATTCT at 3317, TTTCA at 2885.

Hsf negative direction core promoters

  1. Positive strand, negative direction: AGAAA at 2838, AGAAA at 2831, AGAAG at 2828, AGAAA at 2821, AGAAA at 2814, AGAAG at 2811.
  2. inverse complement, negative strand, negative direction: TTTCT at 2836, CTTCT at 2829, TTTCT at 2824, TTTCT at 2819, CTTCT at 2812.

Hsf positive direction core promoters

  1. Negative strand, positive direction: GGAAC at 4443.
  2. inverse complement, negative strand, positive direction: TTTCT at 4384.
  3. Positive strand, positive direction: AGAAC at 4388, AGAAA at 4382, GGAAC at 4299.

Hsf negative direction proximal promoters

  1. Negative strand, negative direction: CGAAC at 2713.
  2. Positive strand, negative direction: AGAAG at 2811, AGAAA at 2804, AGAAA at 2800, TGAAA at 2746, GGAAG at 2730, TGAAC at 2716, TGAAT at 2707, TGAAA at 2619.
  3. inverse complement, negative strand, negative direction: TTTCT at 2807, TTTCT at 2802, TTTCT at 2798, CTTCA at 2731, CTTCT at 2596.

Hsf positive direction proximal promoters

  1. Negative strand, positive direction: GGAAG at 4263, GGAAG at 4248, AGAAG at 4197, TGAAA at 4091, AGAAC at 4067.
  2. inverse complement, negative strand, positive direction: CTTCC at 4242, GTTCA at 4201, GTTCT at 4074, CTTCT at 4062.
  3. Positive strand, positive direction: GGAAG at 4241, GGAAA at 4207, AGAAC at 4130, GGAAG at 4061.
  4. inverse complement, positive strand, positive direction: CTTCT at 4264, CTTCC at 4249, CTTCA at 4198.

Hsf negative direction distal promoters

  1. Negative strand, negative direction: TGAAC at 2579, TGAAA at 2552, CGAAC at 2378, TGAAA at 2216, TGAAC at 2126, TGAAA at 2099, CGAAC at 1972, TGAAC at 1926, TGAAA at 1790, AGAAA at 1733, TGAAA at 1687, AGAAC at 1648, TGAAC at 1618, AGAAC at 1606, TGAAT at 1545, AGAAA at 1418, TGAAC at 1299, TGAAA at 1145, TGAAG at 1053, CGAAC at 1008, CGAAC at 842, TGAAA at 681, GGAAG at 619, TGAAA at 545, TGAAA at 408, AGAAA at 347, TGAAC at 327, GGAAT at 317, AGAAC at 280, AGAAA at 47, AGAAA at 25.
  2. Positive strand, negative direction: TGAAG at 2595, GGAAG at 2557, AGAAA at 2505, GGAAA at 2458, TGAAC at 2381, AGAAT at 2372, TGAAA at 2282, CGAAA at 2157, AGAAA at 2055, TGAAC at 1955, AGAAT at 1946, TGAAA at 1855, GGAAT at 1693, GGAAC at 1684, GGAAA at 1676, GGAAA at 1660, AGAAG at 1655, GGAAA at 1642, AGAAA at 1630, TGAAA at 1625, TGAAA at 1582, CGAAG at 1555, AGAAC at 1551, AGAAT at 1520, AGAAT at 1413, TGAAC at 1302, AGAAT at 1293, TGAAA at 1212, TGAAC at 1011, AGAAT at 1002, TGAAC at 845, AGAAT at 836, CGAAA at 494, TGAAA at 473, TGAAG at 367, AGAAA at 357, GGAAG at 331, CGAAA at 312, AGAAA at 303, AGAAT at 291, AGAAC at 286, GGAAG at 241, AGAAA at 226, AGAAT at 196, AGAAA at 135, TGAAG at 132, TGAAA at 126, AGAAA at 102, GGAAG at 81, AGAAA at 52, TGAAT at 19.
  3. inverse complement, negative strand, negative direction: CTTCT at 2596, CTTCC at 2558, ATTCT at 2503, TTTCG at 2478, TTTCG at 2472, GTTCC at 2245, TTTCT at 2175, TTTCT at 2053, GTTCT at 2023, GTTCC at 1818, TTTCG at 1678, CTTCC at 1656, TTTCC at 1639, TTTCT at 1628, ATTCT at 1593, CTTCC at 1556, TTTCT at 1549, GTTCG at 1497, TTTCT at 1400, ATTCT at 1365, TTTCC at 1107, TTTCG at 944, GTTCT at 875, ATTCC at 818, GTTCC at 693, GTTCT at 557, GTTCG at 455, GTTCT at 420, CTTCT at 368, CTTCA at 332, ATTCA at 320, CTTCT at 242, TTTCT at 224, ATTCT at 194, TTTCG at 185, ATTCC at 176, TTTCG at 137, CTTCT at 133, GTTCC at 115, TTTCC at 105, TTTCC at 94, CTTCA at 82, GTTCC at 71, TTTCT at 55.
  4. inverse complement, positive strand, negative direction: ATTCG at 2453, TTTCT at 1604, ATTCT at 1523, ATTCT at 1416, TTTCA at 1381, GTTCA at 1178, CTTCA at 1054, GTTCG at 720, CTTCT at 620, ATTCC at 537, GTTCT at 345, GTTCA at 254, GTTCT at 45, TTTCT at 23, ATTCT at 7.

Hsf positive direction distal promoters

  1. Negative strand, positive direction: AGAAC at 4047, CTTCA at 3995, TGAAC at 3936, TGAAA at 3926, AGAAA at 3918, GGAAG at 3871, GGAAC at 3855, AGAAG at 3851, TGAAC at 3837, AGAAT at 3833, GGAAA at 3794, TGAAT at 3780, GGAAG at 3762, GGAAG at 3667, GTTCC at 3625, TGAAA at 3596, GGAAT at 3565, TGAAT at 3443, GGAAT at 3439, CTTCT at 3395, GGAAT at 3365, GTTCC at 3352, CTTCT at 3313, CTTCA at 3248, AGAAG at 3216, GGAAA at 3165, AGAAC at 3093, ATTCT at 3074, AGAAT at 3067, CTTCT at 3058, CTTCA at 3032, GTTCT at 2955, CTTCT at 2948, GTTCA at 2934, GTTCT at 2923, TGAAA at 2917, AGAAT at 2839, GGAAA at 2831, GGAAG at 2784, AGAAC at 2775, GGAAG at 2748, AGAAT at 2723, TTTCA at 2646, AGAAA at 2629, GGAAA at 2623, CTTCT at 2583, GGAAC at 2578, CTTCT at 2362, TTTCA at 2302, TTTCT at 2276, TTTCA at 2264, AGAAT at 2241, AGAAC at 2224, ATTCC at 2208, AGAAG at 2192, ATTCT at 2180, TTTCT at 2165, TGAAA at 2146, CTTCA at 2108, CTTCA at 2096, GTTCT at 1988, TTTCT at 1979, AGAAC at 1950, GTTCG at 1927, CTTCG at 1915, AGAAC at 1810, TTTCG at 1750, AGAAG at 1633, TTTCA at 1601, GGAAG at 1594, CTTCG at 1517, GTTCG at 1490, CTTCC at 1433, AGAAT at 1418, CTTCG at 1406, GTTCG at 1390, CTTCC at 1333, AGAAT at 1318, CTTCG at 1306, CTTCA at 1265, AGAAG at 1231, TTTCG at 1181, CTTCG at 1154, TTTCC at 1097, GGAAA at 1089, CTTCC at 1070, AGAAG at 1063, CTTCG at 1013, TGAAG at 961, CTTCA at 929, TGAAG at 861, CTTCA at 829, CGAAG at 768, CTTCG at 761, CTTCC at 734, TGAAG at 727, AGAAG at 643, CTTCC at 677, CTTCG at 593, AGAAG at 559, GTTCA at 509, CTTCG at 457, CGAAC at 362, GTTCC at 306, GGAAA at 290, TGAAG at 232, GGAAG at 209, TTTCT at 137, ATTCT at 117, GTTCT at 108, AGAAG at 48.
  2. Positive strand, positive direction: TGAAC at 4015, CGAAG at 3994, GGAAA at 3945, TTTCT at 3929, TTTCA at 3920, CTTCT at 3872, CTTCC at 3852, CTTCG at 3763, CTTCG at 3668, TTTCG at 3598, AGAAA at 3397, AGAAG at 3394, GGAAC at 3373, GGAAG at 3312, AGAAG at 3247, CTTCG at 3217, TTTCT at 3065, AGAAG at 3057, TGAAG at 3031, GGAAC at 3001, TGAAG at 2947, TTTCC at 2919, TTTCC at 2828, ATTCT at 2790, CTTCG at 2785, GGAAT at 2763, TGAAC at 2741, CTTCG at 2749, TTTCA at 2709, GTTCC at 2693, ATTCA at 2664, GTTCA at 2616, GTTCA at 2594, AGAAA at 2585, GGAAG at 2582, TTTCG at 2536, GTTCA at 2509, ATTCC at 2457, TGAAC at 2418, GTTCG at 2399, AGAAT at 2364, TGAAG at 2361, AGAAA at 2278, TGAAA at 2273, CGAAA at 2163, TGAAG at 2107, CGAAG at 2095, AGAAA at 1981, TGAAG at 1914, AGAAT at 1886, GGAAA at 1830, GGAAC at 1798, TGAAA at 1746, GGAAA at 1599, CGAAC at 1578, AGAAT at 1537, GGAAG at 1516, GGAAG at 1432, GGAAG at 1405, GGAAG at 1332, GGAAG at 1305, GGAAG at 1264, CGAAA at 1179, GGAAG at 1153, CGAAA at 1095, GGAAG at 1069, GGAAG at 1012, GGAAG at 928, GGAAG at 828, GGAAG at 760, GGAAG at 733, GGAAG at 676, CGAAC at 654, GGAAG at 592, TGAAC at 526, AGAAT at 522, GGAAG at 456, GGAAA at 134, TGAAC at 129, AGAAA at 110.
  3. inverse complement, positive strand, positive direction: CTTCG at 2193, GTTCT at 2190, ATTCC at 2085, TTTCG at 2005, GTTCT at 1948, CTTCG at 1634, CTTCG at 1595, ATTCG at 1540, GTTCA at 1526, GTTCC at 1511, GTTCC at 1427, GTTCC at 1327, GTTCC at 1259, CTTCG at 1232, TTTCC at 1091, CTTCG at 1064, GTTCC at 1007, CTTCT at 962, GTTCC at 923, CTTCT at 862, GTTCC at 823, CTTCG at 769, GTTCA at 755, CTTCG at 728, GTTCC at 671, CTTCG at 644, GTTCC at 587, CTTCG at 560, GTTCC at 503, GTTCG at 339, CTTCT at 233, CTTCC at 210, GTTCT at 178, ATTCC at 123, CTTCT at 49.

Hsf (Tang) random dataset samplings

  1. HsfTr0: 86, AGAAC at 4547, TGAAC at 4520, GGAAA at 4509, TGAAG at 4360, AGAAC at 4307, CGAAA at 4295, GGAAA at 4193, TGAAG at 4183, CGAAA at 4138, GGAAA at 4125, TGAAA at 4021, CGAAG at 3936, GGAAA at 3913, CGAAT at 3719, AGAAA at 3656, AGAAC at 3586, GGAAC at 3499, AGAAC at 3493, TGAAA at 3416, CGAAG at 3381, AGAAA at 3365, AGAAA at 3344, AGAAC at 3321, GGAAA at 3275, TGAAC at 3229, GGAAC at 3206, AGAAT at 3149, GGAAT at 3122, GGAAT at 2947, GGAAG at 2941, CGAAG at 2867, GGAAC at 2752, AGAAT at 2676, GGAAC at 2634, GGAAG at 2525, GGAAC at 2500, AGAAA at 2199, GGAAA at 2155, GGAAT at 2014, TGAAA at 2007, AGAAT at 1960, CGAAC at 1953, TGAAA at 1931, GGAAT at 1896, CGAAG at 1843, TGAAC at 1691, TGAAG at 1629, GGAAC at 1532, CGAAA at 1527, GGAAT at 1488, AGAAG at 1478, GGAAA at 1447, TGAAC at 1330, GGAAC at 1301, CGAAC at 1259, AGAAT at 1190, GGAAG at 1149, CGAAG at 1112, GGAAT at 1101, CGAAG at 962, AGAAT at 933, TGAAA at 901, CGAAC at 896, GGAAA at 830, CGAAT at 810, GGAAA at 768, AGAAA at 748, TGAAG at 745, CGAAC at 670, AGAAA at 633, AGAAA at 543, TGAAT at 464, GGAAA at 455, CGAAG at 449, CGAAT at 374, AGAAG at 297, CGAAA at 251, AGAAA at 215, TGAAG at 179, TGAAG at 162, GGAAA at 113, TGAAG at 106, CGAAC at 88, TGAAT at 78, AGAAC at 54, CGAAC at 22.
  2. HsfTr1: 83, CGAAA at 4438, CGAAT at 4427, CGAAG at 4392, GGAAG at 4363, AGAAA at 4353, TGAAT at 4339, AGAAC at 4239, CGAAT at 4217, TGAAC at 4191, TGAAA at 4007, GGAAA at 3969, CGAAC at 3877, AGAAA at 3872, TGAAA at 3794, CGAAT at 3779, GGAAC at 3726, AGAAT at 3695, GGAAG at 3669, CGAAT at 3567, GGAAG at 3562, GGAAA at 3533, AGAAA at 3268, CGAAT at 3227, GGAAA at 3216, CGAAC at 3187, GGAAC at 3182, TGAAT at 3087, AGAAT at 3080, TGAAA at 3070, GGAAT at 2987, CGAAT at 2976, TGAAC at 2907, CGAAT at 2896, TGAAG at 2831, AGAAA at 2797, TGAAG at 2730, TGAAA at 2713, GGAAC at 2659, CGAAC at 2641, AGAAC at 2606, CGAAA at 2588, TGAAG at 2556, GGAAG at 2466, CGAAA at 2456, AGAAA at 2422, CGAAG at 2382, TGAAC at 2328, GGAAC at 2317, TGAAC at 2272, AGAAT at 2268, TGAAA at 2243, GGAAC at 2036, TGAAA at 1940, TGAAA at 1867, TGAAG at 1860, CGAAG at 1808, GGAAA at 1706, GGAAT at 1539, AGAAG at 1535, TGAAC at 1505, CGAAG at 1431, GGAAA at 1421, CGAAA at 1407, TGAAG at 1039, AGAAC at 1034, GGAAC at 939, GGAAG at 928, AGAAG at 888, GGAAG at 690, CGAAC at 610, CGAAG at 543, AGAAG at 502, TGAAG at 499, AGAAC at 470, GGAAG at 467, GGAAG at 462, TGAAG at 458, TGAAT at 454, TGAAC at 391, GGAAA at 383, GGAAC at 175, AGAAG at 159, GGAAC at 94.
  3. HsfTr2: 67, AGAAG at 4551, GGAAT at 4491, GGAAC at 4458, GGAAT at 4355, CGAAT at 4221, GGAAG at 4132, GGAAG at 4128, CGAAC at 4057, TGAAG at 4041, GGAAG at 4012, TGAAA at 3795, CGAAA at 3775, CGAAT at 3685, CGAAA at 3652, CGAAA at 3440, GGAAG at 3373, CGAAG at 3159, TGAAC at 3143, TGAAA at 3120, CGAAA at 3077, TGAAC at 3061, TGAAG at 3055, AGAAT at 3028, CGAAC at 3022, CGAAT at 2990, CGAAA at 2951, AGAAG at 2940, CGAAC at 2799, AGAAT at 2746, CGAAG at 2576, GGAAT at 2507, TGAAT at 2477, AGAAA at 2338, CGAAC at 2236, GGAAA at 2228, GGAAG at 2204, TGAAA at 2127, GGAAA at 2080, TGAAA at 1990, TGAAC at 1890, AGAAA at 1848, AGAAA at 1843, TGAAT at 1685, TGAAA at 1628, CGAAC at 1530, GGAAC at 1456, TGAAA at 1437, AGAAA at 1331, TGAAT at 1292, TGAAT at 1277, AGAAG at 1237, AGAAT at 1199, GGAAA at 1174, GGAAT at 1166, AGAAA at 945, CGAAT at 916, AGAAC at 907, GGAAT at 765, AGAAA at 578, CGAAG at 500, AGAAA at 471, AGAAA at 367, TGAAC at 302, TGAAT at 281, CGAAG at 234, GGAAT at 94, GGAAG at 45.
  4. HsfTr3: 70, AGAAC at 4530, AGAAA at 4420, GGAAG at 4405, AGAAA at 4340, AGAAT at 4315, GGAAG at 4312, GGAAC at 4304, GGAAC at 4264, GGAAA at 4225, TGAAA at 4172, CGAAA at 3966, CGAAA at 3939, CGAAC at 3702, GGAAT at 3670, GGAAC at 3556, CGAAA at 3481, TGAAT at 3460, AGAAG at 3431, CGAAG at 3384, GGAAC at 3281, GGAAA at 3243, TGAAC at 3171, AGAAT at 3162, GGAAG at 3149, CGAAC at 2986, TGAAT at 2971, CGAAT at 2950, TGAAA at 2934, AGAAA at 2917, GGAAA at 2899, GGAAA at 2845, AGAAG at 2831, CGAAC at 2728, AGAAG at 2681, AGAAG at 2674, GGAAG at 2546, TGAAT at 2516, CGAAA at 2461, AGAAG at 2299, TGAAA at 2273, AGAAC at 2242, TGAAG at 2120, AGAAA at 2083, CGAAA at 1979, CGAAC at 1899, AGAAA at 1833, CGAAA at 1781, TGAAT at 1553, TGAAG at 1447, TGAAC at 1434, CGAAC at 1397, GGAAT at 1346, GGAAG at 1319, AGAAC at 1300, CGAAT at 1095, GGAAC at 957, TGAAA at 874, GGAAA at 761, TGAAG at 720, TGAAC at 715, AGAAC at 690, CGAAC at 672, AGAAA at 568, TGAAT at 541, CGAAG at 489, AGAAC at 220, GGAAC at 195, AGAAC at 187, TGAAT at 124, TGAAA at 96.
  5. HsfTr4: 78, TGAAA at 4482, CGAAA at 4469, TGAAG at 4454, GGAAA at 4384, GGAAA at 4323, GGAAA at 4021, TGAAC at 4005, CGAAC at 3963, GGAAA at 3903, GGAAG at 3899, CGAAA at 3876, CGAAC at 3814, CGAAC at 3786, CGAAA at 3768, GGAAC at 3708, GGAAA at 3626, CGAAA at 3485, TGAAC at 3423, AGAAA at 3414, CGAAT at 3345, GGAAG at 3313, TGAAA at 3253, AGAAG at 3181, GGAAC at 3169, TGAAC at 3035, AGAAC at 2997, CGAAT at 2991, AGAAG at 2952, TGAAA at 2873, CGAAT at 2737, GGAAT at 2700, GGAAA at 2609, GGAAG at 2554, AGAAA at 2511, GGAAT at 2503, AGAAA at 2491, AGAAA at 2336, GGAAA at 2263, CGAAT at 2232, AGAAA at 2178, CGAAG at 2070, TGAAG at 2039, TGAAG at 1963, GGAAG at 1865, CGAAG at 1850, AGAAC at 1746, AGAAC at 1739, AGAAT at 1693, AGAAA at 1658, AGAAA at 1611, AGAAG at 1544, TGAAC at 1473, GGAAA at 1386, TGAAT at 1319, CGAAT at 1305, TGAAT at 1297, CGAAT at 1272, TGAAC at 1126, AGAAT at 1099, TGAAT at 994, GGAAA at 859, TGAAA at 818, TGAAA at 721, CGAAG at 680, TGAAT at 663, TGAAA at 598, AGAAC at 578, GGAAG at 575, CGAAT at 537, CGAAA at 528, AGAAG at 487, GGAAT at 392, GGAAT at 378, CGAAG at 338, AGAAC at 266, CGAAA at 222, AGAAT at 150, GGAAA at 36.
  6. HsfTr5: 98, GGAAA at 4523, AGAAT at 4339, CGAAA at 4334, GGAAA at 4320, AGAAT at 4305, CGAAA at 4283, GGAAA at 4225, AGAAG at 4220, AGAAG at 4214, CGAAA at 4210, TGAAA at 4163, GGAAC at 4152, TGAAC at 4044, AGAAC at 3985, TGAAC at 3947, TGAAC at 3940, GGAAA at 3927, TGAAA at 3917, GGAAA at 3874, GGAAC at 3862, TGAAC at 3797, CGAAG at 3590, AGAAT at 3529, GGAAT at 3490, CGAAT at 3448, AGAAC at 3393, CGAAT at 3384, GGAAT at 3338, CGAAT at 3278, TGAAT at 3273, GGAAT at 3184, GGAAG at 3167, GGAAC at 3101, CGAAC at 3068, GGAAT at 3031, GGAAG at 3004, CGAAC at 2890, TGAAC at 2868, CGAAC at 2862, TGAAA at 2770, AGAAA at 2765, GGAAC at 2742, AGAAG at 2714, TGAAC at 2611, CGAAT at 2507, CGAAG at 2463, GGAAC at 2412, TGAAT at 2407, CGAAG at 2400, GGAAG at 2390, GGAAG at 2344, GGAAT at 2339, AGAAC at 2325, AGAAT at 2313, CGAAA at 2281, AGAAA at 2258, GGAAG at 2237, GGAAT at 2156, CGAAT at 2126, AGAAA at 2103, AGAAC at 1947, GGAAC at 1940, GGAAC at 1891, TGAAA at 1843, GGAAG at 1726, TGAAC at 1568, CGAAT at 1557, CGAAC at 1535, TGAAG at 1492, AGAAC at 1429, GGAAA at 1398, AGAAG at 1330, AGAAC at 1195, GGAAG at 1192, CGAAT at 1126, CGAAA at 1032, CGAAA at 992, CGAAC at 825, GGAAT at 776, GGAAA at 634, AGAAC at 612, AGAAT at 558, AGAAG at 555, AGAAG at 541, TGAAC at 534, AGAAT at 501, TGAAA at 486, CGAAG at 472, GGAAT at 446, GGAAT at 374, AGAAC at 341, CGAAG at 285, TGAAA at 223, TGAAT at 127, TGAAC at 62, GGAAC at 47, AGAAG at 31, GGAAA at 27.
  7. HsfTr6: 68, AGAAC at 4403, AGAAA at 4248, CGAAC at 4174, CGAAT at 4132, TGAAT at 4111, TGAAA at 4016, AGAAG at 3970, AGAAT at 3950, GGAAG at 3898, GGAAC at 3888, TGAAA at 3861, GGAAG at 3833, CGAAT at 3809, TGAAC at 3701, AGAAG at 3651, AGAAT at 3619, AGAAT at 3505, CGAAT at 3500, GGAAC at 3343, GGAAA at 3300, GGAAT at 3262, TGAAA at 3187, TGAAC at 3095, TGAAC at 2950, TGAAT at 2941, TGAAT at 2887, GGAAT at 2796, AGAAG at 2773, CGAAC at 2719, TGAAT at 2683, CGAAT at 2620, TGAAT at 2604, GGAAC at 2595, GGAAG at 2579, AGAAT at 2568, GGAAT at 2492, TGAAC at 2424, TGAAT at 2333, TGAAT at 2065, CGAAA at 1979, AGAAG at 1900, CGAAT at 1876, TGAAA at 1713, CGAAC at 1604, AGAAC at 1522, GGAAG at 1503, TGAAA at 1438, CGAAG at 1432, GGAAT at 1362, TGAAT at 1323, TGAAT at 1303, CGAAA at 1236, GGAAG at 1192, AGAAA at 1103, TGAAA at 1097, TGAAT at 1021, AGAAT at 992, GGAAC at 975, GGAAA at 745, AGAAC at 645, TGAAC at 562, AGAAT at 499, GGAAA at 301, TGAAT at 248, CGAAC at 198, AGAAA at 68, CGAAG at 65, AGAAA at 7.
  8. HsfTr7: 76, CGAAA at 4545, GGAAC at 4541, AGAAG at 4401, AGAAA at 4397, CGAAA at 4331, TGAAT at 4308, GGAAC at 4244, TGAAA at 4201, AGAAT at 4106, CGAAT at 4023, CGAAA at 3960, TGAAA at 3932, GGAAA at 3882, GGAAC at 3866, CGAAT at 3858, TGAAA at 3827, CGAAC at 3754, GGAAG at 3710, CGAAG at 3705, GGAAC at 3655, GGAAA at 3572, TGAAA at 3530, AGAAA at 3524, CGAAA at 3484, AGAAT at 3409, GGAAC at 3339, GGAAA at 3320, CGAAT at 3290, GGAAT at 3219, GGAAC at 3197, TGAAC at 3134, GGAAA at 2997, GGAAG at 2971, GGAAA at 2954, GGAAT at 2944, GGAAC at 2920, AGAAC at 2914, AGAAA at 2855, GGAAC at 2701, AGAAG at 2684, TGAAT at 2556, GGAAG at 2433, TGAAG at 2399, CGAAC at 2383, AGAAA at 2281, AGAAT at 2237, GGAAA at 2216, GGAAC at 2107, AGAAA at 2092, CGAAG at 2086, GGAAA at 2062, GGAAA at 2008, TGAAC at 1972, TGAAG at 1955, TGAAC at 1866, AGAAG at 1795, AGAAT at 1642, TGAAT at 1636, GGAAA at 1503, TGAAG at 1455, AGAAT at 1443, AGAAA at 1129, AGAAT at 993, AGAAG at 990, GGAAT at 959, CGAAA at 864, AGAAC at 820, GGAAG at 649, GGAAT at 531, AGAAG at 516, AGAAT at 416, TGAAT at 304, CGAAG at 230, AGAAA at 140, GGAAT at 102, CGAAC at 42.
  9. HsfTr8: 97, AGAAC at 4494, CGAAG at 4485, TGAAC at 4454, GGAAT at 4424, AGAAG at 4385, GGAAG at 4382, CGAAG at 4373, CGAAG at 4341, AGAAA at 4269, AGAAA at 4247, GGAAG at 4168, AGAAA at 4108, CGAAG at 4061, GGAAA at 3991, TGAAG at 3987, AGAAG at 3916, TGAAT at 3886, AGAAA at 3875, GGAAA at 3871, TGAAC at 3796, CGAAT at 3694, GGAAG at 3643, GGAAC at 3527, TGAAT at 3502, AGAAT at 3486, GGAAA at 3424, CGAAG at 3420, GGAAA at 3406, TGAAG at 3325, GGAAG at 3214, CGAAT at 3207, AGAAT at 3202, GGAAC at 3166, GGAAA at 3084, AGAAG at 3080, CGAAA at 3076, AGAAC at 3042, GGAAC at 3031, CGAAA at 2977, GGAAG at 2921, CGAAG at 2888, GGAAT at 2867, CGAAG at 2840, GGAAG at 2756, AGAAT at 2647, AGAAG at 2609, GGAAT at 2535, CGAAA at 2522, TGAAT at 2465, CGAAA at 2406, CGAAC at 2313, GGAAA at 2304, TGAAC at 2257, TGAAG at 2204, AGAAT at 2168, GGAAA at 2163, GGAAA at 2127, AGAAT at 2117, GGAAA at 2099, GGAAA at 2080, GGAAC at 2052, CGAAT at 2047, AGAAT at 2007, GGAAT at 1974, TGAAA at 1955, AGAAT at 1937, CGAAG at 1881, GGAAT at 1838, CGAAT at 1744, TGAAT at 1732, AGAAA at 1687, CGAAT at 1670, GGAAC at 1605, TGAAC at 1582, GGAAC at 1557, TGAAA at 1473, TGAAG at 1435, CGAAT at 1426, AGAAT at 1361, TGAAC at 1341, TGAAA at 1298, AGAAT at 1294, TGAAG at 1187, AGAAC at 1068, TGAAA at 889, AGAAC at 884, CGAAT at 846, GGAAC at 841, GGAAC at 796, TGAAA at 501, AGAAA at 418, TGAAG at 328, AGAAA at 313, GGAAA at 307, AGAAA at 281, GGAAT at 156, CGAAG at 113.
  10. HsfTr9: 83, TGAAT at 4555, TGAAT at 4534, AGAAA at 4498, AGAAT at 4411, CGAAT at 4353, TGAAT at 4340, GGAAA at 4324, AGAAA at 4315, TGAAT at 4242, GGAAT at 4200, GGAAA at 4187, AGAAA at 3852, CGAAG at 3849, TGAAA at 3844, GGAAC at 3839, TGAAC at 3746, GGAAT at 3676, CGAAC at 3652, TGAAG at 3622, TGAAT at 3543, AGAAT at 3490, GGAAG at 3485, GGAAA at 3464, GGAAC at 3424, GGAAA at 3306, GGAAA at 3233, TGAAA at 3216, AGAAA at 3203, AGAAA at 3191, GGAAA at 3181, TGAAG at 3121, GGAAC at 3063, AGAAA at 3018, CGAAT at 2958, GGAAA at 2908, AGAAT at 2886, AGAAT at 2845, GGAAT at 2833, TGAAT at 2508, CGAAA at 2490, AGAAT at 2461, TGAAA at 2457, TGAAA at 2351, GGAAT at 2229, TGAAC at 2219, GGAAA at 2183, GGAAG at 2177, CGAAC at 2101, CGAAA at 2087, GGAAA at 2049, CGAAG at 2035, GGAAT at 1937, AGAAA at 1930, CGAAC at 1869, AGAAA at 1864, CGAAA at 1793, TGAAA at 1745, TGAAA at 1680, GGAAC at 1636, GGAAT at 1434, TGAAT at 1401, TGAAC at 1389, CGAAA at 1376, CGAAT at 1348, GGAAC at 1295, GGAAA at 1278, CGAAC at 1089, GGAAC at 1025, GGAAA at 936, CGAAA at 882, GGAAT at 803, GGAAC at 794, CGAAT at 749, GGAAA at 591, AGAAA at 585, CGAAG at 582, AGAAA at 401, GGAAC at 377, GGAAT at 369, GGAAA at 295, TGAAC at 278, TGAAA at 270, CGAAA at 179.
  11. HsfTr0ci: 80, ATTCC at 4483, ATTCG at 4280, TTTCT at 4221, TTTCC at 4204, GTTCA at 4163, CTTCA at 4096, ATTCT at 3928, TTTCC at 3710, TTTCC at 3687, TTTCT at 3666, CTTCC at 3519, TTTCC at 3515, CTTCA at 3463, ATTCA at 3451, ATTCC at 3390, CTTCA at 3335, CTTCT at 3266, GTTCG at 3257, GTTCA at 3101, CTTCA at 3092, ATTCC at 3050, TTTCT at 3032, TTTCC at 2918, CTTCT at 2830, TTTCT at 2827, ATTCT at 2654, TTTCT at 2569, CTTCT at 2542, GTTCA at 2458, GTTCC at 2431, ATTCT at 2356, TTTCG at 2345, ATTCC at 2337, TTTCA at 2276, TTTCA at 2147, CTTCG at 2118, ATTCG at 2090, GTTCC at 2057, GTTCT at 2049, GTTCT at 1979, TTTCT at 1972, TTTCC at 1922, TTTCC at 1912, TTTCA at 1770, CTTCG at 1764, TTTCT at 1673, CTTCC at 1594, TTTCA at 1571, ATTCC at 1506, TTTCC at 1365, GTTCA at 1359, TTTCG at 1277, ATTCT at 1267, GTTCT at 1229, TTTCT at 1195, TTTCG at 1168, GTTCC at 1131, CTTCC at 1119, TTTCT at 1039, TTTCC at 1006, ATTCC at 994, ATTCT at 954, ATTCT at 891, GTTCA at 885, ATTCA at 793, GTTCG at 781, CTTCT at 692, GTTCC at 688, TTTCA at 658, GTTCT at 651, GTTCG at 647, GTTCC at 619, GTTCC at 536, TTTCG at 477, CTTCA at 311, ATTCA at 269, TTTCT at 131, CTTCC at 122, ATTCC at 117, GTTCG at 85.
  12. HsfTr1ci: 85, ATTCG at 4244, TTTCC at 4231, ATTCA at 4126, CTTCC at 4075, CTTCC at 4067, TTTCA at 4036, GTTCA at 3978, TTTCT at 3953, GTTCA at 3909, CTTCA at 3896, TTTCC at 3839, GTTCG at 3809, ATTCT at 3702, TTTCT at 3690, TTTCC at 3648, TTTCT at 3586, ATTCG at 3555, TTTCG at 3410, ATTCA at 3368, ATTCT at 3333, CTTCG at 3249, ATTCG at 3224, ATTCT at 3090, TTTCC at 3034, ATTCA at 2990, ATTCA at 2979, GTTCG at 2952, GTTCT at 2873, CTTCA at 2864, GTTCT at 2845, TTTCC at 2813, CTTCG at 2707, TTTCG at 2676, TTTCC at 2569, ATTCC at 2450, TTTCG at 2395, ATTCT at 2295, TTTCC at 2290, TTTCT at 2204, TTTCA at 2198, TTTCA at 2181, TTTCC at 2164, TTTCC at 2143, CTTCC at 2093, CTTCA at 2063, ATTCA at 1997, CTTCA at 1991, GTTCG at 1972, CTTCA at 1953, CTTCA at 1794, TTTCC at 1657, GTTCC at 1642, GTTCT at 1597, CTTCT at 1564, CTTCT at 1529, GTTCT at 1500, TTTCG at 1495, ATTCT at 1318, TTTCT at 1293, TTTCT at 1276, GTTCT at 1218, CTTCA at 1211, TTTCT at 1102, TTTCT at 980, TTTCT at 944, GTTCC at 856, TTTCT at 831, ATTCC at 815, ATTCC at 808, ATTCC at 774, TTTCA at 770, CTTCT at 762, CTTCC at 732, ATTCC at 708, TTTCC at 656, CTTCC at 650, GTTCA at 561, TTTCA at 550, TTTCG at 475, TTTCC at 331, GTTCC at 324, CTTCC at 293, TTTCT at 201, ATTCA at 111, TTTCG at 106.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

HsfTr arbitrary UTRs

  1. HsfTr0: AGAAC at 4547, TGAAC at 4520, GGAAA at 4509, TGAAG at 4360, AGAAC at 4307, CGAAA at 4295, GGAAA at 4193, TGAAG at 4183, CGAAA at 4138, GGAAA at 4125, TGAAA at 4021, CGAAG at 3936, GGAAA at 3913, CGAAT at 3719, AGAAA at 3656, AGAAC at 3586, GGAAC at 3499, AGAAC at 3493, TGAAA at 3416, CGAAG at 3381, AGAAA at 3365, AGAAA at 3344, AGAAC at 3321, GGAAA at 3275, TGAAC at 3229, GGAAC at 3206, AGAAT at 3149, GGAAT at 3122, GGAAT at 2947, GGAAG at 2941, CGAAG at 2867.
  2. HsfTr2: AGAAG at 4551, GGAAT at 4491, GGAAC at 4458, GGAAT at 4355, CGAAT at 4221, GGAAG at 4132, GGAAG at 4128, CGAAC at 4057, TGAAG at 4041, GGAAG at 4012, TGAAA at 3795, CGAAA at 3775, CGAAT at 3685, CGAAA at 3652, CGAAA at 3440, GGAAG at 3373, CGAAG at 3159, TGAAC at 3143, TGAAA at 3120, CGAAA at 3077, TGAAC at 3061, TGAAG at 3055, AGAAT at 3028, CGAAC at 3022, CGAAT at 2990, CGAAA at 2951, AGAAG at 2940.
  3. HsfTr4: TGAAA at 4482, CGAAA at 4469, TGAAG at 4454, GGAAA at 4384, GGAAA at 4323, GGAAA at 4021, TGAAC at 4005, CGAAC at 3963, GGAAA at 3903, GGAAG at 3899, CGAAA at 3876, CGAAC at 3814, CGAAC at 3786, CGAAA at 3768, GGAAC at 3708, GGAAA at 3626, CGAAA at 3485, TGAAC at 3423, AGAAA at 3414, CGAAT at 3345, GGAAG at 3313, TGAAA at 3253, AGAAG at 3181, GGAAC at 3169, TGAAC at 3035, AGAAC at 2997, CGAAT at 2991, AGAAG at 2952, TGAAA at 2873.
  4. HsfTr6: AGAAC at 4403, AGAAA at 4248, CGAAC at 4174, CGAAT at 4132, TGAAT at 4111, TGAAA at 4016, AGAAG at 3970, AGAAT at 3950, GGAAG at 3898, GGAAC at 3888, TGAAA at 3861, GGAAG at 3833, CGAAT at 3809, TGAAC at 3701, AGAAG at 3651, AGAAT at 3619, AGAAT at 3505, CGAAT at 3500, GGAAC at 3343, GGAAA at 3300, GGAAT at 3262, TGAAA at 3187, TGAAC at 3095, TGAAC at 2950, TGAAT at 2941, TGAAT at 2887.
  5. HsfTr8: AGAAC at 4494, CGAAG at 4485, TGAAC at 4454, GGAAT at 4424, AGAAG at 4385, GGAAG at 4382, CGAAG at 4373, CGAAG at 4341, AGAAA at 4269, AGAAA at 4247, GGAAG at 4168, AGAAA at 4108, CGAAG at 4061, GGAAA at 3991, TGAAG at 3987, AGAAG at 3916, TGAAT at 3886, AGAAA at 3875, GGAAA at 3871, TGAAC at 3796, CGAAT at 3694, GGAAG at 3643, GGAAC at 3527, TGAAT at 3502, AGAAT at 3486, GGAAA at 3424, CGAAG at 3420, GGAAA at 3406, TGAAG at 3325, GGAAG at 3214, CGAAT at 3207, AGAAT at 3202, GGAAC at 3166, GGAAA at 3084, AGAAG at 3080, CGAAA at 3076, AGAAC at 3042, GGAAC at 3031, CGAAA at 2977, GGAAG at 2921, CGAAG at 2888, GGAAT at 2867.
  6. HsfTr0ci: ATTCC at 4483, ATTCG at 4280, TTTCT at 4221, TTTCC at 4204, GTTCA at 4163, CTTCA at 4096, ATTCT at 3928, TTTCC at 3710, TTTCC at 3687, TTTCT at 3666, CTTCC at 3519, TTTCC at 3515, CTTCA at 3463, ATTCA at 3451, ATTCC at 3390, CTTCA at 3335, CTTCT at 3266, GTTCG at 3257, GTTCA at 3101, CTTCA at 3092, ATTCC at 3050, TTTCT at 3032, TTTCC at 2918.

HsfTr alternate UTRs

  1. HsfTr1: CGAAA at 4438, CGAAT at 4427, CGAAG at 4392, GGAAG at 4363, AGAAA at 4353, TGAAT at 4339, AGAAC at 4239, CGAAT at 4217, TGAAC at 4191, TGAAA at 4007, GGAAA at 3969, CGAAC at 3877, AGAAA at 3872, TGAAA at 3794, CGAAT at 3779, GGAAC at 3726, AGAAT at 3695, GGAAG at 3669, CGAAT at 3567, GGAAG at 3562, GGAAA at 3533, AGAAA at 3268, CGAAT at 3227, GGAAA at 3216, CGAAC at 3187, GGAAC at 3182, TGAAT at 3087, AGAAT at 3080, TGAAA at 3070, GGAAT at 2987, CGAAT at 2976, TGAAC at 2907, CGAAT at 2896.
  2. HsfTr3: AGAAC at 4530, AGAAA at 4420, GGAAG at 4405, AGAAA at 4340, AGAAT at 4315, GGAAG at 4312, GGAAC at 4304, GGAAC at 4264, GGAAA at 4225, TGAAA at 4172, CGAAA at 3966, CGAAA at 3939, CGAAC at 3702, GGAAT at 3670, GGAAC at 3556, CGAAA at 3481, TGAAT at 3460, AGAAG at 3431, CGAAG at 3384, GGAAC at 3281, GGAAA at 3243, TGAAC at 3171, AGAAT at 3162, GGAAG at 3149, CGAAC at 2986, TGAAT at 2971, CGAAT at 2950, TGAAA at 2934, AGAAA at 2917, GGAAA at 2899.
  3. HsfTr5: GGAAA at 4523, AGAAT at 4339, CGAAA at 4334, GGAAA at 4320, AGAAT at 4305, CGAAA at 4283, GGAAA at 4225, AGAAG at 4220, AGAAG at 4214, CGAAA at 4210, TGAAA at 4163, GGAAC at 4152, TGAAC at 4044, AGAAC at 3985, TGAAC at 3947, TGAAC at 3940, GGAAA at 3927, TGAAA at 3917, GGAAA at 3874, GGAAC at 3862, TGAAC at 3797, CGAAG at 3590, AGAAT at 3529, GGAAT at 3490, CGAAT at 3448, AGAAC at 3393, CGAAT at 3384, GGAAT at 3338, CGAAT at 3278, TGAAT at 3273, GGAAT at 3184, GGAAG at 3167, GGAAC at 3101, CGAAC at 3068, GGAAT at 3031, GGAAG at 3004, CGAAC at 2890, TGAAC at 2868, CGAAC at 2862.
  4. HsfTr7: 76, CGAAA at 4545, GGAAC at 4541, AGAAG at 4401, AGAAA at 4397, CGAAA at 4331, TGAAT at 4308, GGAAC at 4244, TGAAA at 4201, AGAAT at 4106, CGAAT at 4023, CGAAA at 3960, TGAAA at 3932, GGAAA at 3882, GGAAC at 3866, CGAAT at 3858, TGAAA at 3827, CGAAC at 3754, GGAAG at 3710, CGAAG at 3705, GGAAC at 3655, GGAAA at 3572, TGAAA at 3530, AGAAA at 3524, CGAAA at 3484, AGAAT at 3409, GGAAC at 3339, GGAAA at 3320, CGAAT at 3290, GGAAT at 3219, GGAAC at 3197, TGAAC at 3134, GGAAA at 2997, GGAAG at 2971, GGAAA at 2954, GGAAT at 2944, GGAAC at 2920, AGAAC at 2914, AGAAA at 2855.
  5. HsfTr9: TGAAT at 4555, TGAAT at 4534, AGAAA at 4498, AGAAT at 4411, CGAAT at 4353, TGAAT at 4340, GGAAA at 4324, AGAAA at 4315, TGAAT at 4242, GGAAT at 4200, GGAAA at 4187, AGAAA at 3852, CGAAG at 3849, TGAAA at 3844, GGAAC at 3839, TGAAC at 3746, GGAAT at 3676, CGAAC at 3652, TGAAG at 3622, TGAAT at 3543, AGAAT at 3490, GGAAG at 3485, GGAAA at 3464, GGAAC at 3424, GGAAA at 3306, GGAAA at 3233, TGAAA at 3216, AGAAA at 3203, AGAAA at 3191, GGAAA at 3181, TGAAG at 3121, GGAAC at 3063, AGAAA at 3018, CGAAT at 2958, GGAAA at 2908, AGAAT at 2886.
  6. HsfTr1ci: ATTCG at 4244, TTTCC at 4231, ATTCA at 4126, CTTCC at 4075, CTTCC at 4067, TTTCA at 4036, GTTCA at 3978, TTTCT at 3953, GTTCA at 3909, CTTCA at 3896, TTTCC at 3839, GTTCG at 3809, ATTCT at 3702, TTTCT at 3690, TTTCC at 3648, TTTCT at 3586, ATTCG at 3555, TTTCG at 3410, ATTCA at 3368, ATTCT at 3333, CTTCG at 3249, ATTCG at 3224, ATTCT at 3090, TTTCC at 3034, ATTCA at 2990, ATTCA at 2979, GTTCG at 2952, GTTCT at 2873, CTTCA at 2864.

HsfTr arbitrary negative direction core promoters

  1. HsfTr8: CGAAG at 2840.
  2. HsfTr0ci: CTTCT at 2830, TTTCT at 2827.

HsfTr alternate negative direction core promoters

  1. HsfTr1: TGAAG at 2831.
  2. HsfTr3: GGAAA at 2845, AGAAG at 2831.
  3. HsfTr9: AGAAT at 2845, GGAAT at 2833.
  4. HsfTr1ci: GTTCT at 2845, TTTCC at 2813.

HsfTr arbitrary positive direction core promoters

  1. HsfTr1: CGAAA at 4438, CGAAT at 4427, CGAAG at 4392, GGAAG at 4363, AGAAA at 4353, TGAAT at 4339.
  2. HsfTr3: AGAAA at 4420, GGAAG at 4405, AGAAA at 4340, AGAAT at 4315, GGAAG at 4312, GGAAC at 4304.
  3. HsfTr5: AGAAT at 4339, CGAAA at 4334, GGAAA at 4320, AGAAT at 4305, CGAAA at 4283.
  4. HsfTr7: AGAAG at 4401, AGAAA at 4397, CGAAA at 4331, TGAAT at 4308.
  5. HsfTr9: AGAAT at 4411, CGAAT at 4353, TGAAT at 4340, GGAAA at 4324, AGAAA at 4315.

HsfTr alternate positive direction core promoters

  1. HsfTr0: AGAAC at 4547, TGAAC at 4520, GGAAA at 4509, TGAAG at 4360, AGAAC at 4307, CGAAA at 4295.
  2. HsfTr2: AGAAG at 4551, GGAAT at 4491, GGAAC at 4458, GGAAT at 4355.
  3. HsfTr4: TGAAA at 4482, CGAAA at 4469, TGAAG at 4454, GGAAA at 4384, GGAAA at 4323.
  4. HsfTr6: AGAAC at 4403.
  5. HsfTr8: GGAAT at 4424, AGAAG at 4385, GGAAG at 4382, CGAAG at 4373, CGAAG at 4341, AGAAA at 4269.
  6. HsfTr0ci: ATTCG at 4280.

HsfTr arbitrary negative direction proximal promoters

  1. HsfTr0: GGAAC at 2752, AGAAT at 2676, GGAAC at 2634.
  2. HsfTr2: CGAAC at 2799, AGAAT at 2746.
  3. HsfTr4: CGAAT at 2737, GGAAT at 2700, GGAAA at 2609.
  4. HsfTr6: GGAAT at 2796, AGAAG at 2773, CGAAC at 2719, TGAAT at 2683, CGAAT at 2620, TGAAT at 2604.
  5. HsfTr8: GGAAG at 2756, AGAAT at 2647, AGAAG at 2609.
  6. HsfTr0ci: ATTCT at 2654.

HsfTr alternate negative direction proximal promoters

  1. HsfTr1: AGAAA at 2797, TGAAG at 2730, TGAAA at 2713, GGAAC at 2659, CGAAC at 2641, AGAAC at 2606.
  2. HsfTr3: CGAAC at 2728, AGAAG at 2681, AGAAG at 2674.
  3. HsfTr5: TGAAA at 2770, AGAAA at 2765, GGAAC at 2742, AGAAG at 2714, TGAAC at 2611.
  4. HsfTr7: GGAAC at 2701, AGAAG at 2684.
  5. HsfTr1ci: CTTCG at 2707, TTTCG at 2676.

HsfTr arbitrary positive direction proximal promoters

  1. HsfTr1: AGAAC at 4239, CGAAT at 4217, TGAAC at 4191.
  2. HsfTr3: GGAAC at 4264, GGAAA at 4225, TGAAA at 4172.
  3. HsfTr5: GGAAA at 4225, AGAAG at 4220, AGAAG at 4214, CGAAA at 4210, TGAAA at 4163, GGAAC at 4152.
  4. HsfTr7: GGAAC at 4244, TGAAA at 4201, AGAAT at 4106.
  5. HsfTr9: TGAAT at 4242, GGAAT at 4200, GGAAA at 4187.
  6. HsfTr1ci: ATTCG at 4244, TTTCC at 4231, ATTCA at 4126, CTTCC at 4075, CTTCC at 4067.

HsfTr alternate positive direction proximal promoters

  1. HsfTr0: GGAAA at 4193, TGAAG at 4183, CGAAA at 4138, GGAAA at 4125.
  2. HsfTr2: CGAAT at 4221, GGAAG at 4132, GGAAG at 4128, CGAAC at 4057.
  3. HsfTr6: AGAAA at 4248, CGAAC at 4174, CGAAT at 4132, TGAAT at 4111.
  4. HsfTr8: AGAAA at 4247, GGAAG at 4168, AGAAA at 4108, CGAAG at 4061.
  5. HsfTr0ci: TTTCT at 4221, TTTCC at 4204, GTTCA at 4163, CTTCA at 4096.

HsfTr arbitrary negative direction distal promoters

  1. HsfTr0: GGAAG at 2525, GGAAC at 2500, AGAAA at 2199, GGAAA at 2155, GGAAT at 2014, TGAAA at 2007, AGAAT at 1960, CGAAC at 1953, TGAAA at 1931, GGAAT at 1896, CGAAG at 1843, TGAAC at 1691, TGAAG at 1629, GGAAC at 1532, CGAAA at 1527, GGAAT at 1488, AGAAG at 1478, GGAAA at 1447, TGAAC at 1330, GGAAC at 1301, CGAAC at 1259, AGAAT at 1190, GGAAG at 1149, CGAAG at 1112, GGAAT at 1101, CGAAG at 962, AGAAT at 933, TGAAA at 901, CGAAC at 896, GGAAA at 830, CGAAT at 810, GGAAA at 768, AGAAA at 748, TGAAG at 745, CGAAC at 670, AGAAA at 633, AGAAA at 543, TGAAT at 464, GGAAA at 455, CGAAG at 449, CGAAT at 374, AGAAG at 297, CGAAA at 251, AGAAA at 215, TGAAG at 179, TGAAG at 162, GGAAA at 113, TGAAG at 106, CGAAC at 88, TGAAT at 78, AGAAC at 54, CGAAC at 22.
  2. HsfTr2: CGAAG at 2576, GGAAT at 2507, TGAAT at 2477, AGAAA at 2338, CGAAC at 2236, GGAAA at 2228, GGAAG at 2204, TGAAA at 2127, GGAAA at 2080, TGAAA at 1990, TGAAC at 1890, AGAAA at 1848, AGAAA at 1843, TGAAT at 1685, TGAAA at 1628, CGAAC at 1530, GGAAC at 1456, TGAAA at 1437, AGAAA at 1331, TGAAT at 1292, TGAAT at 1277, AGAAG at 1237, AGAAT at 1199, GGAAA at 1174, GGAAT at 1166, AGAAA at 945, CGAAT at 916, AGAAC at 907, GGAAT at 765, AGAAA at 578, CGAAG at 500, AGAAA at 471, AGAAA at 367, TGAAC at 302, TGAAT at 281, CGAAG at 234, GGAAT at 94, GGAAG at 45.
  3. HsfTr4: GGAAG at 2554, AGAAA at 2511, GGAAT at 2503, AGAAA at 2491, AGAAA at 2336, GGAAA at 2263, CGAAT at 2232, AGAAA at 2178, CGAAG at 2070, TGAAG at 2039, TGAAG at 1963, GGAAG at 1865, CGAAG at 1850, AGAAC at 1746, AGAAC at 1739, AGAAT at 1693, AGAAA at 1658, AGAAA at 1611, AGAAG at 1544, TGAAC at 1473, GGAAA at 1386, TGAAT at 1319, CGAAT at 1305, TGAAT at 1297, CGAAT at 1272, TGAAC at 1126, AGAAT at 1099, TGAAT at 994, GGAAA at 859, TGAAA at 818, TGAAA at 721, CGAAG at 680, TGAAT at 663, TGAAA at 598, AGAAC at 578, GGAAG at 575, CGAAT at 537, CGAAA at 528, AGAAG at 487, GGAAT at 392, GGAAT at 378, CGAAG at 338, AGAAC at 266, CGAAA at 222, AGAAT at 150, GGAAA at 36.
  4. HsfTr6: GGAAC at 2595, GGAAG at 2579, AGAAT at 2568, GGAAT at 2492, TGAAC at 2424, TGAAT at 2333, TGAAT at 2065, CGAAA at 1979, AGAAG at 1900, CGAAT at 1876, TGAAA at 1713, CGAAC at 1604, AGAAC at 1522, GGAAG at 1503, TGAAA at 1438, CGAAG at 1432, GGAAT at 1362, TGAAT at 1323, TGAAT at 1303, CGAAA at 1236, GGAAG at 1192, AGAAA at 1103, TGAAA at 1097, TGAAT at 1021, AGAAT at 992, GGAAC at 975, GGAAA at 745, AGAAC at 645, TGAAC at 562, AGAAT at 499, GGAAA at 301, TGAAT at 248, CGAAC at 198, AGAAA at 68, CGAAG at 65, AGAAA at 7.
  5. HsfTr8: GGAAT at 2535, CGAAA at 2522, TGAAT at 2465, CGAAA at 2406, CGAAC at 2313, GGAAA at 2304, TGAAC at 2257, TGAAG at 2204, AGAAT at 2168, GGAAA at 2163, GGAAA at 2127, AGAAT at 2117, GGAAA at 2099, GGAAA at 2080, GGAAC at 2052, CGAAT at 2047, AGAAT at 2007, GGAAT at 1974, TGAAA at 1955, AGAAT at 1937, CGAAG at 1881, GGAAT at 1838, CGAAT at 1744, TGAAT at 1732, AGAAA at 1687, CGAAT at 1670, GGAAC at 1605, TGAAC at 1582, GGAAC at 1557, TGAAA at 1473, TGAAG at 1435, CGAAT at 1426, AGAAT at 1361, TGAAC at 1341, TGAAA at 1298, AGAAT at 1294, TGAAG at 1187, AGAAC at 1068, TGAAA at 889, AGAAC at 884, CGAAT at 846, GGAAC at 841, GGAAC at 796, TGAAA at 501, AGAAA at 418, TGAAG at 328, AGAAA at 313, GGAAA at 307, AGAAA at 281, GGAAT at 156, CGAAG at 113.
  6. HsfTr0ci: TTTCT at 2569, CTTCT at 2542, GTTCA at 2458, GTTCC at 2431, ATTCT at 2356, TTTCG at 2345, ATTCC at 2337, TTTCA at 2276, TTTCA at 2147, CTTCG at 2118, ATTCG at 2090, GTTCC at 2057, GTTCT at 2049, GTTCT at 1979, TTTCT at 1972, TTTCC at 1922, TTTCC at 1912, TTTCA at 1770, CTTCG at 1764, TTTCT at 1673, CTTCC at 1594, TTTCA at 1571, ATTCC at 1506, TTTCC at 1365, GTTCA at 1359, TTTCG at 1277, ATTCT at 1267, GTTCT at 1229, TTTCT at 1195, TTTCG at 1168, GTTCC at 1131, CTTCC at 1119, TTTCT at 1039, TTTCC at 1006, ATTCC at 994, ATTCT at 954, ATTCT at 891, GTTCA at 885, ATTCA at 793, GTTCG at 781, CTTCT at 692, GTTCC at 688, TTTCA at 658, GTTCT at 651, GTTCG at 647, GTTCC at 619, GTTCC at 536, TTTCG at 477, CTTCA at 311, ATTCA at 269, TTTCT at 131, CTTCC at 122, ATTCC at 117, GTTCG at 85.

HsfTr alternate negative direction distal promoters

  1. HsfTr1: CGAAA at 2588, TGAAG at 2556, GGAAG at 2466, CGAAA at 2456, AGAAA at 2422, CGAAG at 2382, TGAAC at 2328, GGAAC at 2317, TGAAC at 2272, AGAAT at 2268, TGAAA at 2243, GGAAC at 2036, TGAAA at 1940, TGAAA at 1867, TGAAG at 1860, CGAAG at 1808, GGAAA at 1706, GGAAT at 1539, AGAAG at 1535, TGAAC at 1505, CGAAG at 1431, GGAAA at 1421, CGAAA at 1407, TGAAG at 1039, AGAAC at 1034, GGAAC at 939, GGAAG at 928, AGAAG at 888, GGAAG at 690, CGAAC at 610, CGAAG at 543, AGAAG at 502, TGAAG at 499, AGAAC at 470, GGAAG at 467, GGAAG at 462, TGAAG at 458, TGAAT at 454, TGAAC at 391, GGAAA at 383, GGAAC at 175, AGAAG at 159, GGAAC at 94.
  2. HsfTr3: GGAAG at 2546, TGAAT at 2516, CGAAA at 2461, AGAAG at 2299, TGAAA at 2273, AGAAC at 2242, TGAAG at 2120, AGAAA at 2083, CGAAA at 1979, CGAAC at 1899, AGAAA at 1833, CGAAA at 1781, TGAAT at 1553, TGAAG at 1447, TGAAC at 1434, CGAAC at 1397, GGAAT at 1346, GGAAG at 1319, AGAAC at 1300, CGAAT at 1095, GGAAC at 957, TGAAA at 874, GGAAA at 761, TGAAG at 720, TGAAC at 715, AGAAC at 690, CGAAC at 672, AGAAA at 568, TGAAT at 541, CGAAG at 489, AGAAC at 220, GGAAC at 195, AGAAC at 187, TGAAT at 124, TGAAA at 96.
  3. HsfTr5: CGAAT at 2507, CGAAG at 2463, GGAAC at 2412, TGAAT at 2407, CGAAG at 2400, GGAAG at 2390, GGAAG at 2344, GGAAT at 2339, AGAAC at 2325, AGAAT at 2313, CGAAA at 2281, AGAAA at 2258, GGAAG at 2237, GGAAT at 2156, CGAAT at 2126, AGAAA at 2103, AGAAC at 1947, GGAAC at 1940, GGAAC at 1891, TGAAA at 1843, GGAAG at 1726, TGAAC at 1568, CGAAT at 1557, CGAAC at 1535, TGAAG at 1492, AGAAC at 1429, GGAAA at 1398, AGAAG at 1330, AGAAC at 1195, GGAAG at 1192, CGAAT at 1126, CGAAA at 1032, CGAAA at 992, CGAAC at 825, GGAAT at 776, GGAAA at 634, AGAAC at 612, AGAAT at 558, AGAAG at 555, AGAAG at 541, TGAAC at 534, AGAAT at 501, TGAAA at 486, CGAAG at 472, GGAAT at 446, GGAAT at 374, AGAAC at 341, CGAAG at 285, TGAAA at 223, TGAAT at 127, TGAAC at 62, GGAAC at 47, AGAAG at 31, GGAAA at 27.
  4. HsfTr7: TGAAT at 2556, GGAAG at 2433, TGAAG at 2399, CGAAC at 2383, AGAAA at 2281, AGAAT at 2237, GGAAA at 2216, GGAAC at 2107, AGAAA at 2092, CGAAG at 2086, GGAAA at 2062, GGAAA at 2008, TGAAC at 1972, TGAAG at 1955, TGAAC at 1866, AGAAG at 1795, AGAAT at 1642, TGAAT at 1636, GGAAA at 1503, TGAAG at 1455, AGAAT at 1443, AGAAA at 1129, AGAAT at 993, AGAAG at 990, GGAAT at 959, CGAAA at 864, AGAAC at 820, GGAAG at 649, GGAAT at 531, AGAAG at 516, AGAAT at 416, TGAAT at 304, CGAAG at 230, AGAAA at 140, GGAAT at 102, CGAAC at 42.
  5. HsfTr9: TGAAT at 2508, CGAAA at 2490, AGAAT at 2461, TGAAA at 2457, TGAAA at 2351, GGAAT at 2229, TGAAC at 2219, GGAAA at 2183, GGAAG at 2177, CGAAC at 2101, CGAAA at 2087, GGAAA at 2049, CGAAG at 2035, GGAAT at 1937, AGAAA at 1930, CGAAC at 1869, AGAAA at 1864, CGAAA at 1793, TGAAA at 1745, TGAAA at 1680, GGAAC at 1636, GGAAT at 1434, TGAAT at 1401, TGAAC at 1389, CGAAA at 1376, CGAAT at 1348, GGAAC at 1295, GGAAA at 1278, CGAAC at 1089, GGAAC at 1025, GGAAA at 936, CGAAA at 882, GGAAT at 803, GGAAC at 794, CGAAT at 749, GGAAA at 591, AGAAA at 585, CGAAG at 582, AGAAA at 401, GGAAC at 377, GGAAT at 369, GGAAA at 295, TGAAC at 278, TGAAA at 270, CGAAA at 179.
  6. HsfTr1ci: TTTCC at 2569, ATTCC at 2450, TTTCG at 2395, ATTCT at 2295, TTTCC at 2290, TTTCT at 2204, TTTCA at 2198, TTTCA at 2181, TTTCC at 2164, TTTCC at 2143, CTTCC at 2093, CTTCA at 2063, ATTCA at 1997, CTTCA at 1991, GTTCG at 1972, CTTCA at 1953, CTTCA at 1794, TTTCC at 1657, GTTCC at 1642, GTTCT at 1597, CTTCT at 1564, CTTCT at 1529, GTTCT at 1500, TTTCG at 1495, ATTCT at 1318, TTTCT at 1293, TTTCT at 1276, GTTCT at 1218, CTTCA at 1211, TTTCT at 1102, TTTCT at 980, TTTCT at 944, GTTCC at 856, TTTCT at 831, ATTCC at 815, ATTCC at 808, ATTCC at 774, TTTCA at 770, CTTCT at 762, CTTCC at 732, ATTCC at 708, TTTCC at 656, CTTCC at 650, GTTCA at 561, TTTCA at 550, TTTCG at 475, TTTCC at 331, GTTCC at 324, CTTCC at 293, TTTCT at 201, ATTCA at 111, TTTCG at 106.

HsfTr arbitrary positive direction distal promoters

  1. HsfTr1: TGAAA at 4007, GGAAA at 3969, CGAAC at 3877, AGAAA at 3872, TGAAA at 3794, CGAAT at 3779, GGAAC at 3726, AGAAT at 3695, GGAAG at 3669, CGAAT at 3567, GGAAG at 3562, GGAAA at 3533, AGAAA at 3268, CGAAT at 3227, GGAAA at 3216, CGAAC at 3187, GGAAC at 3182, TGAAT at 3087, AGAAT at 3080, TGAAA at 3070, GGAAT at 2987, CGAAT at 2976, TGAAC at 2907, CGAAT at 2896, TGAAG at 2831, AGAAA at 2797, TGAAG at 2730, TGAAA at 2713, GGAAC at 2659, CGAAC at 2641, AGAAC at 2606, CGAAA at 2588, TGAAG at 2556, GGAAG at 2466, CGAAA at 2456, AGAAA at 2422, CGAAG at 2382, TGAAC at 2328, GGAAC at 2317, TGAAC at 2272, AGAAT at 2268, TGAAA at 2243, GGAAC at 2036, TGAAA at 1940, TGAAA at 1867, TGAAG at 1860, CGAAG at 1808, GGAAA at 1706, GGAAT at 1539, AGAAG at 1535, TGAAC at 1505, CGAAG at 1431, GGAAA at 1421, CGAAA at 1407, TGAAG at 1039, AGAAC at 1034, GGAAC at 939, GGAAG at 928, AGAAG at 888, GGAAG at 690, CGAAC at 610, CGAAG at 543, AGAAG at 502, TGAAG at 499, AGAAC at 470, GGAAG at 467, GGAAG at 462, TGAAG at 458, TGAAT at 454, TGAAC at 391, GGAAA at 383, GGAAC at 175, AGAAG at 159, GGAAC at 94.
  2. HsfTr3: CGAAA at 3966, CGAAA at 3939, CGAAC at 3702, GGAAT at 3670, GGAAC at 3556, CGAAA at 3481, TGAAT at 3460, AGAAG at 3431, CGAAG at 3384, GGAAC at 3281, GGAAA at 3243, TGAAC at 3171, AGAAT at 3162, GGAAG at 3149, CGAAC at 2986, TGAAT at 2971, CGAAT at 2950, TGAAA at 2934, AGAAA at 2917, GGAAA at 2899, GGAAA at 2845, AGAAG at 2831, CGAAC at 2728, AGAAG at 2681, AGAAG at 2674, GGAAG at 2546, TGAAT at 2516, CGAAA at 2461, AGAAG at 2299, TGAAA at 2273, AGAAC at 2242, TGAAG at 2120, AGAAA at 2083, CGAAA at 1979, CGAAC at 1899, AGAAA at 1833, CGAAA at 1781, TGAAT at 1553, TGAAG at 1447, TGAAC at 1434, CGAAC at 1397, GGAAT at 1346, GGAAG at 1319, AGAAC at 1300, CGAAT at 1095, GGAAC at 957, TGAAA at 874, GGAAA at 761, TGAAG at 720, TGAAC at 715, AGAAC at 690, CGAAC at 672, AGAAA at 568, TGAAT at 541, CGAAG at 489, AGAAC at 220, GGAAC at 195, AGAAC at 187, TGAAT at 124, TGAAA at 96.
  3. HsfTr5: TGAAC at 4044, AGAAC at 3985, TGAAC at 3947, TGAAC at 3940, GGAAA at 3927, TGAAA at 3917, GGAAA at 3874, GGAAC at 3862, TGAAC at 3797, CGAAG at 3590, AGAAT at 3529, GGAAT at 3490, CGAAT at 3448, AGAAC at 3393, CGAAT at 3384, GGAAT at 3338, CGAAT at 3278, TGAAT at 3273, GGAAT at 3184, GGAAG at 3167, GGAAC at 3101, CGAAC at 3068, GGAAT at 3031, GGAAG at 3004, CGAAC at 2890, TGAAC at 2868, CGAAC at 2862, TGAAA at 2770, AGAAA at 2765, GGAAC at 2742, AGAAG at 2714, TGAAC at 2611, CGAAT at 2507, CGAAG at 2463, GGAAC at 2412, TGAAT at 2407, CGAAG at 2400, GGAAG at 2390, GGAAG at 2344, GGAAT at 2339, AGAAC at 2325, AGAAT at 2313, CGAAA at 2281, AGAAA at 2258, GGAAG at 2237, GGAAT at 2156, CGAAT at 2126, AGAAA at 2103, AGAAC at 1947, GGAAC at 1940, GGAAC at 1891, TGAAA at 1843, GGAAG at 1726, TGAAC at 1568, CGAAT at 1557, CGAAC at 1535, TGAAG at 1492, AGAAC at 1429, GGAAA at 1398, AGAAG at 1330, AGAAC at 1195, GGAAG at 1192, CGAAT at 1126, CGAAA at 1032, CGAAA at 992, CGAAC at 825, GGAAT at 776, GGAAA at 634, AGAAC at 612, AGAAT at 558, AGAAG at 555, AGAAG at 541, TGAAC at 534, AGAAT at 501, TGAAA at 486, CGAAG at 472, GGAAT at 446, GGAAT at 374, AGAAC at 341, CGAAG at 285, TGAAA at 223, TGAAT at 127, TGAAC at 62, GGAAC at 47, AGAAG at 31, GGAAA at 27.
  4. HsfTr7: CGAAT at 4023, CGAAA at 3960, TGAAA at 3932, GGAAA at 3882, GGAAC at 3866, CGAAT at 3858, TGAAA at 3827, CGAAC at 3754, GGAAG at 3710, CGAAG at 3705, GGAAC at 3655, GGAAA at 3572, TGAAA at 3530, AGAAA at 3524, CGAAA at 3484, AGAAT at 3409, GGAAC at 3339, GGAAA at 3320, CGAAT at 3290, GGAAT at 3219, GGAAC at 3197, TGAAC at 3134, GGAAA at 2997, GGAAG at 2971, GGAAA at 2954, GGAAT at 2944, GGAAC at 2920, AGAAC at 2914, AGAAA at 2855, GGAAC at 2701, AGAAG at 2684, TGAAT at 2556, GGAAG at 2433, TGAAG at 2399, CGAAC at 2383, AGAAA at 2281, AGAAT at 2237, GGAAA at 2216, GGAAC at 2107, AGAAA at 2092, CGAAG at 2086, GGAAA at 2062, GGAAA at 2008, TGAAC at 1972, TGAAG at 1955, TGAAC at 1866, AGAAG at 1795, AGAAT at 1642, TGAAT at 1636, GGAAA at 1503, TGAAG at 1455, AGAAT at 1443, AGAAA at 1129, AGAAT at 993, AGAAG at 990, GGAAT at 959, CGAAA at 864, AGAAC at 820, GGAAG at 649, GGAAT at 531, AGAAG at 516, AGAAT at 416, TGAAT at 304, CGAAG at 230, AGAAA at 140, GGAAT at 102, CGAAC at 42.
  5. HsfTr9: AGAAA at 3852, CGAAG at 3849, TGAAA at 3844, GGAAC at 3839, TGAAC at 3746, GGAAT at 3676, CGAAC at 3652, TGAAG at 3622, TGAAT at 3543, AGAAT at 3490, GGAAG at 3485, GGAAA at 3464, GGAAC at 3424, GGAAA at 3306, GGAAA at 3233, TGAAA at 3216, AGAAA at 3203, AGAAA at 3191, GGAAA at 3181, TGAAG at 3121, GGAAC at 3063, AGAAA at 3018, CGAAT at 2958, GGAAA at 2908, AGAAT at 2886, AGAAT at 2845, GGAAT at 2833, TGAAT at 2508, CGAAA at 2490, AGAAT at 2461, TGAAA at 2457, TGAAA at 2351, GGAAT at 2229, TGAAC at 2219, GGAAA at 2183, GGAAG at 2177, CGAAC at 2101, CGAAA at 2087, GGAAA at 2049, CGAAG at 2035, GGAAT at 1937, AGAAA at 1930, CGAAC at 1869, AGAAA at 1864, CGAAA at 1793, TGAAA at 1745, TGAAA at 1680, GGAAC at 1636, GGAAT at 1434, TGAAT at 1401, TGAAC at 1389, CGAAA at 1376, CGAAT at 1348, GGAAC at 1295, GGAAA at 1278, CGAAC at 1089, GGAAC at 1025, GGAAA at 936, CGAAA at 882, GGAAT at 803, GGAAC at 794, CGAAT at 749, GGAAA at 591, AGAAA at 585, CGAAG at 582, AGAAA at 401, GGAAC at 377, GGAAT at 369, GGAAA at 295, TGAAC at 278, TGAAA at 270, CGAAA at 179.
  6. HsfTr1ci: TTTCA at 4036, GTTCA at 3978, TTTCT at 3953, GTTCA at 3909, CTTCA at 3896, TTTCC at 3839, GTTCG at 3809, ATTCT at 3702, TTTCT at 3690, TTTCC at 3648, TTTCT at 3586, ATTCG at 3555, TTTCG at 3410, ATTCA at 3368, ATTCT at 3333, CTTCG at 3249, ATTCG at 3224, ATTCT at 3090, TTTCC at 3034, ATTCA at 2990, ATTCA at 2979, GTTCG at 2952, GTTCT at 2873, CTTCA at 2864, GTTCT at 2845, TTTCC at 2813, CTTCG at 2707, TTTCG at 2676, TTTCC at 2569, ATTCC at 2450, TTTCG at 2395, ATTCT at 2295, TTTCC at 2290, TTTCT at 2204, TTTCA at 2198, TTTCA at 2181, TTTCC at 2164, TTTCC at 2143, CTTCC at 2093, CTTCA at 2063, ATTCA at 1997, CTTCA at 1991, GTTCG at 1972, CTTCA at 1953, CTTCA at 1794, TTTCC at 1657, GTTCC at 1642, GTTCT at 1597, CTTCT at 1564, CTTCT at 1529, GTTCT at 1500, TTTCG at 1495, ATTCT at 1318, TTTCT at 1293, TTTCT at 1276, GTTCT at 1218, CTTCA at 1211, TTTCT at 1102, TTTCT at 980, TTTCT at 944, GTTCC at 856, TTTCT at 831, ATTCC at 815, ATTCC at 808, ATTCC at 774, TTTCA at 770, CTTCT at 762, CTTCC at 732, ATTCC at 708, TTTCC at 656, CTTCC at 650, GTTCA at 561, TTTCA at 550, TTTCG at 475, TTTCC at 331, GTTCC at 324, CTTCC at 293, TTTCT at 201, ATTCA at 111, TTTCG at 106.

HsfTr alternate positive direction distal promoters

  1. HsfTr0: TGAAA at 4021, CGAAG at 3936, GGAAA at 3913, CGAAT at 3719, AGAAA at 3656, AGAAC at 3586, GGAAC at 3499, AGAAC at 3493, TGAAA at 3416, CGAAG at 3381, AGAAA at 3365, AGAAA at 3344, AGAAC at 3321, GGAAA at 3275, TGAAC at 3229, GGAAC at 3206, AGAAT at 3149, GGAAT at 3122, GGAAT at 2947, GGAAG at 2941, CGAAG at 2867, GGAAC at 2752, AGAAT at 2676, GGAAC at 2634, GGAAG at 2525, GGAAC at 2500, AGAAA at 2199, GGAAA at 2155, GGAAT at 2014, TGAAA at 2007, AGAAT at 1960, CGAAC at 1953, TGAAA at 1931, GGAAT at 1896, CGAAG at 1843, TGAAC at 1691, TGAAG at 1629, GGAAC at 1532, CGAAA at 1527, GGAAT at 1488, AGAAG at 1478, GGAAA at 1447, TGAAC at 1330, GGAAC at 1301, CGAAC at 1259, AGAAT at 1190, GGAAG at 1149, CGAAG at 1112, GGAAT at 1101, CGAAG at 962, AGAAT at 933, TGAAA at 901, CGAAC at 896, GGAAA at 830, CGAAT at 810, GGAAA at 768, AGAAA at 748, TGAAG at 745, CGAAC at 670, AGAAA at 633, AGAAA at 543, TGAAT at 464, GGAAA at 455, CGAAG at 449, CGAAT at 374, AGAAG at 297, CGAAA at 251, AGAAA at 215, TGAAG at 179, TGAAG at 162, GGAAA at 113, TGAAG at 106, CGAAC at 88, TGAAT at 78, AGAAC at 54, CGAAC at 22.
  2. HsfTr2: TGAAG at 4041, GGAAG at 4012, TGAAA at 3795, CGAAA at 3775, CGAAT at 3685, CGAAA at 3652, CGAAA at 3440, GGAAG at 3373, CGAAG at 3159, TGAAC at 3143, TGAAA at 3120, CGAAA at 3077, TGAAC at 3061, TGAAG at 3055, AGAAT at 3028, CGAAC at 3022, CGAAT at 2990, CGAAA at 2951, AGAAG at 2940, CGAAC at 2799, AGAAT at 2746, CGAAG at 2576, GGAAT at 2507, TGAAT at 2477, AGAAA at 2338, CGAAC at 2236, GGAAA at 2228, GGAAG at 2204, TGAAA at 2127, GGAAA at 2080, TGAAA at 1990, TGAAC at 1890, AGAAA at 1848, AGAAA at 1843, TGAAT at 1685, TGAAA at 1628, CGAAC at 1530, GGAAC at 1456, TGAAA at 1437, AGAAA at 1331, TGAAT at 1292, TGAAT at 1277, AGAAG at 1237, AGAAT at 1199, GGAAA at 1174, GGAAT at 1166, AGAAA at 945, CGAAT at 916, AGAAC at 907, GGAAT at 765, AGAAA at 578, CGAAG at 500, AGAAA at 471, AGAAA at 367, TGAAC at 302, TGAAT at 281, CGAAG at 234, GGAAT at 94, GGAAG at 45.
  3. HsfTr4: GGAAA at 4021, TGAAC at 4005, CGAAC at 3963, GGAAA at 3903, GGAAG at 3899, CGAAA at 3876, CGAAC at 3814, CGAAC at 3786, CGAAA at 3768, GGAAC at 3708, GGAAA at 3626, CGAAA at 3485, TGAAC at 3423, AGAAA at 3414, CGAAT at 3345, GGAAG at 3313, TGAAA at 3253, AGAAG at 3181, GGAAC at 3169, TGAAC at 3035, AGAAC at 2997, CGAAT at 2991, AGAAG at 2952, TGAAA at 2873, CGAAT at 2737, GGAAT at 2700, GGAAA at 2609, GGAAG at 2554, AGAAA at 2511, GGAAT at 2503, AGAAA at 2491, AGAAA at 2336, GGAAA at 2263, CGAAT at 2232, AGAAA at 2178, CGAAG at 2070, TGAAG at 2039, TGAAG at 1963, GGAAG at 1865, CGAAG at 1850, AGAAC at 1746, AGAAC at 1739, AGAAT at 1693, AGAAA at 1658, AGAAA at 1611, AGAAG at 1544, TGAAC at 1473, GGAAA at 1386, TGAAT at 1319, CGAAT at 1305, TGAAT at 1297, CGAAT at 1272, TGAAC at 1126, AGAAT at 1099, TGAAT at 994, GGAAA at 859, TGAAA at 818, TGAAA at 721, CGAAG at 680, TGAAT at 663, TGAAA at 598, AGAAC at 578, GGAAG at 575, CGAAT at 537, CGAAA at 528, AGAAG at 487, GGAAT at 392, GGAAT at 378, CGAAG at 338, AGAAC at 266, CGAAA at 222, AGAAT at 150, GGAAA at 36.
  4. HsfTr6: TGAAA at 4016, AGAAG at 3970, AGAAT at 3950, GGAAG at 3898, GGAAC at 3888, TGAAA at 3861, GGAAG at 3833, CGAAT at 3809, TGAAC at 3701, AGAAG at 3651, AGAAT at 3619, AGAAT at 3505, CGAAT at 3500, GGAAC at 3343, GGAAA at 3300, GGAAT at 3262, TGAAA at 3187, TGAAC at 3095, TGAAC at 2950, TGAAT at 2941, TGAAT at 2887, GGAAT at 2796, AGAAG at 2773, CGAAC at 2719, TGAAT at 2683, CGAAT at 2620, TGAAT at 2604, GGAAC at 2595, GGAAG at 2579, AGAAT at 2568, GGAAT at 2492, TGAAC at 2424, TGAAT at 2333, TGAAT at 2065, CGAAA at 1979, AGAAG at 1900, CGAAT at 1876, TGAAA at 1713, CGAAC at 1604, AGAAC at 1522, GGAAG at 1503, TGAAA at 1438, CGAAG at 1432, GGAAT at 1362, TGAAT at 1323, TGAAT at 1303, CGAAA at 1236, GGAAG at 1192, AGAAA at 1103, TGAAA at 1097, TGAAT at 1021, AGAAT at 992, GGAAC at 975, GGAAA at 745, AGAAC at 645, TGAAC at 562, AGAAT at 499, GGAAA at 301, TGAAT at 248, CGAAC at 198, AGAAA at 68, CGAAG at 65, AGAAA at 7.
  5. HsfTr8: GGAAA at 3991, TGAAG at 3987, AGAAG at 3916, TGAAT at 3886, AGAAA at 3875, GGAAA at 3871, TGAAC at 3796, CGAAT at 3694, GGAAG at 3643, GGAAC at 3527, TGAAT at 3502, AGAAT at 3486, GGAAA at 3424, CGAAG at 3420, GGAAA at 3406, TGAAG at 3325, GGAAG at 3214, CGAAT at 3207, AGAAT at 3202, GGAAC at 3166, GGAAA at 3084, AGAAG at 3080, CGAAA at 3076, AGAAC at 3042, GGAAC at 3031, CGAAA at 2977, GGAAG at 2921, CGAAG at 2888, GGAAT at 2867, CGAAG at 2840, GGAAG at 2756, AGAAT at 2647, AGAAG at 2609, GGAAT at 2535, CGAAA at 2522, TGAAT at 2465, CGAAA at 2406, CGAAC at 2313, GGAAA at 2304, TGAAC at 2257, TGAAG at 2204, AGAAT at 2168, GGAAA at 2163, GGAAA at 2127, AGAAT at 2117, GGAAA at 2099, GGAAA at 2080, GGAAC at 2052, CGAAT at 2047, AGAAT at 2007, GGAAT at 1974, TGAAA at 1955, AGAAT at 1937, CGAAG at 1881, GGAAT at 1838, CGAAT at 1744, TGAAT at 1732, AGAAA at 1687, CGAAT at 1670, GGAAC at 1605, TGAAC at 1582, GGAAC at 1557, TGAAA at 1473, TGAAG at 1435, CGAAT at 1426, AGAAT at 1361, TGAAC at 1341, TGAAA at 1298, AGAAT at 1294, TGAAG at 1187, AGAAC at 1068, TGAAA at 889, AGAAC at 884, CGAAT at 846, GGAAC at 841, GGAAC at 796, TGAAA at 501, AGAAA at 418, TGAAG at 328, AGAAA at 313, GGAAA at 307, AGAAA at 281, GGAAT at 156, CGAAG at 113.
  6. HsfTr0ci: ATTCT at 3928, TTTCC at 3710, TTTCC at 3687, TTTCT at 3666, CTTCC at 3519, TTTCC at 3515, CTTCA at 3463, ATTCA at 3451, ATTCC at 3390, CTTCA at 3335, CTTCT at 3266, GTTCG at 3257, GTTCA at 3101, CTTCA at 3092, ATTCC at 3050, TTTCT at 3032, TTTCC at 2918, CTTCT at 2830, TTTCT at 2827, ATTCT at 2654, TTTCT at 2569, CTTCT at 2542, GTTCA at 2458, GTTCC at 2431, ATTCT at 2356, TTTCG at 2345, ATTCC at 2337, TTTCA at 2276, TTTCA at 2147, CTTCG at 2118, ATTCG at 2090, GTTCC at 2057, GTTCT at 2049, GTTCT at 1979, TTTCT at 1972, TTTCC at 1922, TTTCC at 1912, TTTCA at 1770, CTTCG at 1764, TTTCT at 1673, CTTCC at 1594, TTTCA at 1571, ATTCC at 1506, TTTCC at 1365, GTTCA at 1359, TTTCG at 1277, ATTCT at 1267, GTTCT at 1229, TTTCT at 1195, TTTCG at 1168, GTTCC at 1131, CTTCC at 1119, TTTCT at 1039, TTTCC at 1006, ATTCC at 994, ATTCT at 954, ATTCT at 891, GTTCA at 885, ATTCA at 793, GTTCG at 781, CTTCT at 692, GTTCC at 688, TTTCA at 658, GTTCT at 651, GTTCG at 647, GTTCC at 619, GTTCC at 536, TTTCG at 477, CTTCA at 311, ATTCA at 269, TTTCT at 131, CTTCC at 122, ATTCC at 117, GTTCG at 85.

HSE1 (Eastmond) samplings

For the Basic programs testing consensus sequence nGAAnnTTCnnGAAn (starting with SuccessablesHSE1.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGAAnnTTCnnGAAn, 0.
  2. negative strand, positive direction, looking for nGAAnnTTCnnGAAn, 0.
  3. positive strand, negative direction, looking for nGAAnnTTCnnGAAn, 0.
  4. positive strand, positive direction, looking for nGAAnnTTCnnGAAn, 0.
  5. complement, negative strand, negative direction, looking for nCTTnnAAGnnCTTn, 0.
  6. complement, negative strand, positive direction, looking for nCTTnnAAGnnCTTn, 0.
  7. complement, positive strand, negative direction, looking for nCTTnnAAGnnCTTn, 0.
  8. complement, positive strand, positive direction, looking for nCTTnnAAGnnCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCnnGAAnnTTCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCnnGAAnnTTCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCnnGAAnnTTCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCnnGAAnnTTCn, 0.
  13. inverse negative strand, negative direction, looking for nAAGnnCTTnnAAGn, 0.
  14. inverse negative strand, positive direction, looking for nAAGnnCTTnnAAGn, 0.
  15. inverse positive strand, negative direction, looking for nAAGnnCTTnnAAGn, 0.
  16. inverse positive strand, positive direction, looking for nAAGnnCTTnnAAGn, 0.

HSE2 (Eastmond) samplings

For the Basic programs testing consensus sequence nTTCnnGAAnnTTCn (starting with SuccessablesHSE2.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found: HSE2 is the inverse complement of HSE1.

HSE2 (Eastmond) analysis and results

Main article: Complex locus A1BG and ZNF497 § Name of response elements

Response element (AAAAAA).<Author reference>

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 0 2 0 0
Randoms UTR arbitrary negative 0 10 0 0
Randoms UTR alternate negative 0 10 0 0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 0 10 0 0
Randoms Core alternate negative 0 10 0 0
Reals Core positive 0 2 0 0
Randoms Core arbitrary positive 0 10 0 0
Randoms Core alternate positive 0 10 0 0
Reals Proximal negative 0 2 0 0
Randoms Proximal arbitrary negative 0 10 0 0
Randoms Proximal alternate negative 0 10 0 0
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 0 10 0 0
Randoms Proximal alternate positive 0 10 0 0
Reals Distal negative 0 2 0 0
Randoms Distal arbitrary negative 0 10 0 0
Randoms Distal alternate negative 0 10 0 0
Reals Distal positive 0 2 0 0
Randoms Distal arbitrary positive 0 10 0 0
Randoms Distal alternate positive 0 10 0 0

Comparison:

The occurrences of real responsive element consensus sequences are larger than the randoms. This suggests that the real responsive element consensus sequences are likely active or activable.

HSE3 (Eastmond) samplings

For the Basic programs testing consensus sequence nGAAn-(5-bp)-nGAAnnTTCn (starting with SuccessablesHSE3.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGAAn-(5-bp)-nGAAnnTTCn, 1, GGAATTCACATGAACCTTCA at 332.
  2. negative strand, positive direction, looking for nGAAn-(5-bp)-nGAAnnTTCn, 0.
  3. positive strand, negative direction, looking for nGAAn-(5-bp)-nGAAnnTTCn, 0.
  4. positive strand, positive direction, looking for nGAAn-(5-bp)-nGAAnnTTCn, 0.
  5. complement, negative strand, negative direction, looking for nCTTn-(5-bp)-nCTTnnAAGn, 0.
  6. complement, negative strand, positive direction, looking for nCTTn-(5-bp)-nCTTnnAAGn, 0.
  7. complement, positive strand, negative direction, looking for nCTTn-(5-bp)-nCTTnnAAGn, 1, CCTTAAGTGTACTTGGAAGT at 332.
  8. complement, positive strand, positive direction, looking for nCTTn-(5-bp)-nCTTnnAAGn, 0.
  9. inverse complement, negative strand, negative direction, looking for nGAAnnTTCn-(5-bp)-nTTCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nGAAnnTTCn-(5-bp)-nTTCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nGAAnnTTCn-(5-bp)-nTTCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nGAAnnTTCn-(5-bp)-nTTCn, 0.
  13. inverse negative strand, negative direction, looking for nCTTnnAAGn-(5-bp)-nAAGn, 0.
  14. inverse negative strand, positive direction, looking for nCTTnnAAGn-(5-bp)-nAAGn, 0.
  15. inverse positive strand, negative direction, looking for nCTTnnAAGn-(5-bp)-nAAGn, 0.
  16. inverse positive strand, positive direction, looking for nCTTnnAAGn-(5-bp)-nAAGn, 0.

HSE3 distal promoters

Main article: Distal promoter gene transcriptions

Negative strand, negative direction: GGAATTCACATGAACCTTCA at 332, and complement.

HSE3 (Eastmond) random dataset samplings

  1. RDr0: 0.
  2. RDr1: 0.
  3. RDr2: 0.
  4. RDr3: 0.
  5. RDr4: 0.
  6. RDr5: 0.
  7. RDr6: 0.
  8. RDr7: 0.
  9. RDr8: 0.
  10. RDr9: 0.
  11. RDr0ci: 0.
  12. RDr1ci: 0.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

RDr arbitrary UTRs

RDr alternate UTRs

RDr arbitrary negative direction core promoters

RDr alternate negative direction core promoters

RDr arbitrary positive direction core promoters

RDr alternate positive direction core promoters

RDr arbitrary negative direction proximal promoters

RDr alternate negative direction proximal promoters

RDr arbitrary positive direction proximal promoters

RDr alternate positive direction proximal promoters

RDr arbitrary negative direction distal promoters

RDr alternate negative direction distal promoters

RDr arbitrary positive direction distal promoters

RDr alternate positive direction distal promoters

HSE3 (Eastmond) analysis and results

Main article: Complex locus A1BG and ZNF497 § Name of response elements

Response element (AAAAAA).<Author reference>

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 0 2 0 0
Randoms UTR arbitrary negative 0 10 0 0
Randoms UTR alternate negative 0 10 0 0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 0 10 0 0
Randoms Core alternate negative 0 10 0 0
Reals Core positive 0 2 0 0
Randoms Core arbitrary positive 0 10 0 0
Randoms Core alternate positive 0 10 0 0
Reals Proximal negative 0 2 0 0
Randoms Proximal arbitrary negative 0 10 0 0
Randoms Proximal alternate negative 0 10 0 0
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 0 10 0 0
Randoms Proximal alternate positive 0 10 0 0
Reals Distal negative 0 2 0 0
Randoms Distal arbitrary negative 0 10 0 0
Randoms Distal alternate negative 0 10 0 0
Reals Distal positive 0 2 0 0
Randoms Distal arbitrary positive 0 10 0 0
Randoms Distal alternate positive 0 10 0 0

Comparison:

The occurrences of real responsive element consensus sequences are larger than the randoms. This suggests that the real responsive element consensus sequences are likely active or activable.

HSE4 (Eastmond) samplings

For the Basic programs testing consensus sequence nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn (starting with SuccessablesHSE4.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn, 0.
  2. negative strand, positive direction, looking for nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn, 0.
  3. positive strand, negative direction, looking for nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn, 1, AGAAGAAAAAAGAAAAGAGAAGAAA at 2831.
  4. positive strand, positive direction, looking for nGAAn-(5-bp)-nGAAn-(5-bp)-nGAAn, 0.
  5. complement, negative strand, negative direction, looking for nCTTn-(5-bp)-nCTTn-(5-bp)-nCTTn, 1, TCTTCTTTTTTCTTTTCTCTTCTTT at 2831.
  6. complement, negative strand, positive direction, looking for nCTTn-(5-bp)-nCTTn-(5-bp)-nCTTn, 0.
  7. complement, positive strand, negative direction, looking for nCTTn-(5-bp)-nCTTn-(5-bp)-nCTTn, 0.
  8. complement, positive strand, positive direction, looking for nCTTn-(5-bp)-nCTTn-(5-bp)-nCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCn-(5-bp)-nTTCn-(5-bp)-nTTCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCn-(5-bp)-nTTCn-(5-bp)-nTTCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCn-(5-bp)-nTTCn-(5-bp)-nTTCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCn-(5-bp)-nTTCn-(5-bp)-nTTCn, 0.
  13. inverse negative strand, negative direction, looking for nAAGn-(5-bp)-nAAGn-(5-bp)-nAAGn, 0.
  14. inverse negative strand, positive direction, looking for nAAGn-(5-bp)-nAAGn-(5-bp)-nAAGn, 0.
  15. inverse positive strand, negative direction, looking for nAAGn-(5-bp)-nAAGn-(5-bp)-nAAGn, 0.
  16. inverse positive strand, positive direction, looking for nAAGn-(5-bp)-nAAGn-(5-bp)-nAAGn, 0.

HSE4 distal promoters

Main article: Distal promoter gene transcriptions

Positive strand, negative direction: AGAAGAAAAAAGAAAAGAGAAGAAA at 2831, and complement.

HSE4 (Eastmond) random dataset samplings

  1. RDr0: 0.
  2. RDr1: 0.
  3. RDr2: 0.
  4. RDr3: 0.
  5. RDr4: 0.
  6. RDr5: 0.
  7. RDr6: 0.
  8. RDr7: 0.
  9. RDr8: 0.
  10. RDr9: 0.
  11. RDr0ci: 0.
  12. RDr1ci: 0.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

RDr arbitrary UTRs

RDr alternate UTRs

RDr arbitrary negative direction core promoters

RDr alternate negative direction core promoters

RDr arbitrary positive direction core promoters

RDr alternate positive direction core promoters

RDr arbitrary negative direction proximal promoters

RDr alternate negative direction proximal promoters

RDr arbitrary positive direction proximal promoters

RDr alternate positive direction proximal promoters

RDr arbitrary negative direction distal promoters

RDr alternate negative direction distal promoters

RDr arbitrary positive direction distal promoters

RDr alternate positive direction distal promoters

HSE4 (Eastmond) analysis and results

Main article: Complex locus A1BG and ZNF497 § Name of response elements

Response element (AAAAAA).<Author reference>

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 0 2 0 0
Randoms UTR arbitrary negative 0 10 0 0
Randoms UTR alternate negative 0 10 0 0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 0 10 0 0
Randoms Core alternate negative 0 10 0 0
Reals Core positive 0 2 0 0
Randoms Core arbitrary positive 0 10 0 0
Randoms Core alternate positive 0 10 0 0
Reals Proximal negative 0 2 0 0
Randoms Proximal arbitrary negative 0 10 0 0
Randoms Proximal alternate negative 0 10 0 0
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 0 10 0 0
Randoms Proximal alternate positive 0 10 0 0
Reals Distal negative 0 2 0 0
Randoms Distal arbitrary negative 0 10 0 0
Randoms Distal alternate negative 0 10 0 0
Reals Distal positive 0 2 0 0
Randoms Distal arbitrary positive 0 10 0 0
Randoms Distal alternate positive 0 10 0 0

Comparison:

The occurrences of real responsive element consensus sequences are larger than the randoms. This suggests that the real responsive element consensus sequences are likely active or activable.

HSE5 (Eastmond) samplings

For the Basic programs testing consensus sequence nTTCn-(5-bp)-nTTCnnGAAn (starting with SuccessablesHSE5.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nTTCn-(5-bp)-nTTCnnGAAn, 0.
  2. negative strand, positive direction, looking for nTTCn-(5-bp)-nTTCnnGAAn, 0.
  3. positive strand, negative direction, looking for nTTCn-(5-bp)-nTTCnnGAAn, 0.
  4. positive strand, positive direction, looking for nTTCn-(5-bp)-nTTCnnGAAn, 0.
  5. complement, negative strand, negative direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  6. complement, negative strand, positive direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  7. complement, positive strand, negative direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  8. complement, positive strand, positive direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCnnGAAn-(5-bp)-nGAAn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCnnGAAn-(5-bp)-nGAAn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCnnGAAn-(5-bp)-nGAAn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCnnGAAn-(5-bp)-nGAAn, 0.
  13. inverse negative strand, negative direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  14. inverse negative strand, positive direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  15. inverse positive strand, negative direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.
  16. inverse positive strand, positive direction, looking for nAAGn-(5-bp)-nAAGnnCTTn, 0.

HSE6 (Eastmond) samplings

For the Basic programs testing consensus sequence nTTCn-nnGAAn-(5-bp)-nGAAn (starting with SuccessablesHSE6.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nTTCn-nnGAAn-(5-bp)-nGAAn, 0.
  2. negative strand, positive direction, looking for nTTCn-nnGAAn-(5-bp)-nGAAn, 0.
  3. positive strand, negative direction, looking for nTTCn-nnGAAn-(5-bp)-nGAAn, 0.
  4. positive strand, positive direction, looking for nTTCn-nnGAAn-(5-bp)-nGAAn, 0.
  5. complement, negative strand, negative direction, looking for nAAGn-nnCTTn-(5-bp)-nCTTn, 0.
  6. complement, negative strand, positive direction, looking for nAAGn-nnCTTn-(5-bp)-nCTTn, 0.
  7. complement, positive strand, negative direction, looking for nAAGn-nnCTTn-(5-bp)-nCTTn, 0.
  8. complement, positive strand, positive direction, looking for nAAGn-nnCTTn-(5-bp)-nCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCn-(5-bp)-nTTCnn-nGAAn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCn-(5-bp)-nTTCnn-nGAAn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCn-(5-bp)-nTTCnn-nGAAn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCn-(5-bp)-nTTCnn-nGAAn, 0.
  13. inverse negative strand, negative direction, looking for nAAGn-(5-bp)-nAAGnn-nCTTn, 0.
  14. inverse negative strand, positive direction, looking for nAAGn-(5-bp)-nAAGnn-nCTTn, 0.
  15. inverse positive strand, negative direction, looking for nAAGn-(5-bp)-nAAGnn-nCTTn, 0.
  16. inverse positive strand, positive direction, looking for nAAGn-(5-bp)-nAAGnn-nCTTn, 0.

HSE7 PFT1 (Eastmond) samplings

For the Basic programs testing consensus sequence nGA(A/G)nnTTCnnGAAn (starting with Successables PFT1.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGA(A/G)nnTTCnnGAAn, 0.
  2. negative strand, positive direction, looking for nGA(A/G)nnTTCnnGAAn, 0.
  3. positive strand, negative direction, looking for nGA(A/G)nnTTCnnGAAn, 0.
  4. positive strand, positive direction, looking for nGA(A/G)nnTTCnnGAAn, 0.
  5. complement, negative strand, negative direction, looking for nCT(C/T)nnAAGnnCTTn, 0.
  6. complement, negative strand, positive direction, looking for nCT(C/T)nnAAGnnCTTn, 0.
  7. complement, positive strand, negative direction, looking for nCT(C/T)nnAAGnnCTTn, 0.
  8. complement, positive strand, positive direction, looking for nCT(C/T)nnAAGnnCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCnnGAAnn(C/T)TCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCnnGAAnn(C/T)TCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCnnGAAnn(C/T)TCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCnnGAAnn(C/T)TCn, 0.
  13. inverse negative strand, negative direction, looking for nAAGnnCTTnn(A/G)AGn, 0.
  14. inverse negative strand, positive direction, looking for nAAGnnCTTnn(A/G)AGn, 0.
  15. inverse positive strand, negative direction, looking for nAAGnnCTTnn(A/G)AGn, 0.
  16. inverse positive strand, positive direction, looking for nAAGnnCTTnn(A/G)AGn, 0.

HSE7 PFT2 (Eastmond) samplings

For the Basic programs testing consensus sequence nGAAnnTTCnnGARn (starting with SuccessablesHSE1.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGAAnnTTCnnGA(A/G)n, 0.
  2. negative strand, positive direction, looking for nGAAnnTTCnnGA(A/G)n, 0.
  3. positive strand, negative direction, looking for nGAAnnTTCnnGA(A/G)n, 0.
  4. positive strand, positive direction, looking for nGAAnnTTCnnGA(A/G)n, 0.
  5. complement, negative strand, negative direction, looking for nCTTnnAAGnnCT(C/T)n, 0.
  6. complement, negative strand, positive direction, looking for nCTTnnAAGnnCT(C/T)n, 0.
  7. complement, positive strand, negative direction, looking for nCTTnnAAGnnCT(C/T)n, 0.
  8. complement, positive strand, positive direction, looking for nCTTnnAAGnnCT(C/T)n, 0.
  9. inverse complement, negative strand, negative direction, looking for n(C/T)TCnnGAAnnTTCn, 0.
  10. inverse complement, negative strand, positive direction, looking for n(C/T)TCnnGAAnnTTCn, 0.
  11. inverse complement, positive strand, negative direction, looking for n(C/T)TCnnGAAnnTTCn, 0.
  12. inverse complement, positive strand, positive direction, looking for n(C/T)TCnnGAAnnTTCn, 0.
  13. inverse negative strand, negative direction, looking for n(A/G)AGnnCTTnnAAGn, 0.
  14. inverse negative strand, positive direction, looking for n(A/G)AGnnCTTnnAAGn, 0.
  15. inverse positive strand, negative direction, looking for n(A/G)AGnnCTTnnAAGn, 0.
  16. inverse positive strand, positive direction, looking for n(A/G)AGnnCTTnnAAGn, 0.

HSE8 GAP1 (Eastmond) samplings

For the Basic programs testing consensus sequence nGA(A/G)n-(5-bp)-nGAAnnTTCn (starting with SuccessablesGAP1.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGA(A/G)n-(5-bp)-nGAAnnTTCn, 1, GGAATTCACATGAACCTTCA at 332.
  2. negative strand, positive direction, looking for nGA(A/G)n-(5-bp)-nGAAnnTTCn, 0.
  3. positive strand, negative direction, looking for nGA(A/G)n-(5-bp)-nGAAnnTTCn, 0.
  4. positive strand, positive direction, looking for nGA(A/G)n-(5-bp)-nGAAnnTTCn, 0.
  5. complement, negative strand, negative direction, looking for nCT(C/T)n-(5-bp)-nCTTnnAAGn, 0.
  6. complement, negative strand, positive direction, looking for nCT(C/T)n-(5-bp)-nCTTnnAAGn, 0.
  7. complement, positive strand, negative direction, looking for nCT(C/T)n-(5-bp)-nCTTnnAAGn, 1, CCTTAAGTGTACTTGGAAGT at 332.
  8. complement, positive strand, positive direction, looking for nCT(C/T)n-(5-bp)-nCTTnnAAGn, 0.
  9. inverse complement, negative strand, negative direction, looking for nGAAnnTTCn-(5-bp)-n(C/T)TCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nGAAnnTTCn-(5-bp)-n(C/T)TCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nGAAnnTTCn-(5-bp)-n(C/T)TCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nGAAnnTTCn-(5-bp)-n(C/T)TCn, 0.
  13. inverse negative strand, negative direction, looking for nCTTnnAAGn-(5-bp)-n(A/G)AGn, 0.
  14. inverse negative strand, positive direction, looking for nCTTnnAAGn-(5-bp)-n(A/G)AGn, 0.
  15. inverse positive strand, negative direction, looking for nCTTnnAAGn-(5-bp)-n(A/G)AGn, 0.
  16. inverse positive strand, positive direction, looking for nCTTnnAAGn-(5-bp)-n(A/G)AGn, 0.

HSE8 GAP1 (Eastmond) distal promoters

Main article: Distal promoter gene transcriptions

Negative strand, negative direction: GGAATTCACATGAACCTTCA at 332, and complement.

HSE8 GAP1 (Eastmond) random dataset samplings

  1. RDr0: 0.
  2. RDr1: 0.
  3. RDr2: 0.
  4. RDr3: 0.
  5. RDr4: 0.
  6. RDr5: 0.
  7. RDr6: 0.
  8. RDr7: 0.
  9. RDr8: 0.
  10. RDr9: 0.
  11. RDr0ci: 0.
  12. RDr1ci: 0.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

RDr arbitrary UTRs

RDr alternate UTRs

RDr arbitrary negative direction core promoters

RDr alternate negative direction core promoters

RDr arbitrary positive direction core promoters

RDr alternate positive direction core promoters

RDr arbitrary negative direction proximal promoters

RDr alternate negative direction proximal promoters

RDr arbitrary positive direction proximal promoters

RDr alternate positive direction proximal promoters

RDr arbitrary negative direction distal promoters

RDr alternate negative direction distal promoters

RDr arbitrary positive direction distal promoters

RDr alternate positive direction distal promoters

HSE8 GAP1 (Eastmond) analysis and results

Main article: Complex locus A1BG and ZNF497 § Name of response elements

Response element (AAAAAA).<Author reference>

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 0 2 0 0
Randoms UTR arbitrary negative 0 10 0 0
Randoms UTR alternate negative 0 10 0 0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 0 10 0 0
Randoms Core alternate negative 0 10 0 0
Reals Core positive 0 2 0 0
Randoms Core arbitrary positive 0 10 0 0
Randoms Core alternate positive 0 10 0 0
Reals Proximal negative 0 2 0 0
Randoms Proximal arbitrary negative 0 10 0 0
Randoms Proximal alternate negative 0 10 0 0
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 0 10 0 0
Randoms Proximal alternate positive 0 10 0 0
Reals Distal negative 0 2 0 0
Randoms Distal arbitrary negative 0 10 0 0
Randoms Distal alternate negative 0 10 0 0
Reals Distal positive 0 2 0 0
Randoms Distal arbitrary positive 0 10 0 0
Randoms Distal alternate positive 0 10 0 0

Comparison:

The occurrences of real responsive element consensus sequences are larger than the randoms. This suggests that the real responsive element consensus sequences are likely active or activable.

HSE9 GAP2 (Eastmond) samplings

For the Basic programs testing consensus sequence nGAAn-(5-bp)-nGARnnTTCn (starting with SuccessablesHSE3.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nGAAn-(5-bp)-nGA(A/G)nnTTCn, 1, GGAATTCACATGAACCTTCA at 332.
  2. negative strand, positive direction, looking for nGAAn-(5-bp)-nGA(A/G)nnTTCn, 0.
  3. positive strand, negative direction, looking for nGAAn-(5-bp)-nGA(A/G)nnTTCn, 0.
  4. positive strand, positive direction, looking for nGAAn-(5-bp)-nGA(A/G)nnTTCn, 0.
  5. complement, negative strand, negative direction, looking for nCTTn-(5-bp)-nCT(C/T)nnAAGn, 0.
  6. complement, negative strand, positive direction, looking for nCTTn-(5-bp)-nCT(C/T)nnAAGn, 0.
  7. complement, positive strand, negative direction, looking for nCTTn-(5-bp)-nCT(C/T)nnAAGn, 1, CCTTAAGTGTACTTGGAAGT at 332.
  8. complement, positive strand, positive direction, looking for nCTTn-(5-bp)-nCT(C/T)nnAAGn, 0.
  9. inverse complement, negative strand, negative direction, looking for nGAAnn(C/T)TCn-(5-bp)-nTTCn, 0.
  10. inverse complement, negative strand, positive direction, looking for nGAAnn(C/T)TCn-(5-bp)-nTTCn, 0.
  11. inverse complement, positive strand, negative direction, looking for nGAAnn(C/T)TCn-(5-bp)-nTTCn, 0.
  12. inverse complement, positive strand, positive direction, looking for nGAAnn(C/T)TCn-(5-bp)-nTTCn, 0.
  13. inverse negative strand, negative direction, looking for nCTTnn(A/G)AGn-(5-bp)-nAAGn, 0.
  14. inverse negative strand, positive direction, looking for nCTTnn(A/G)AGn-(5-bp)-nAAGn, 0.
  15. inverse positive strand, negative direction, looking for nCTTnn(A/G)AGn-(5-bp)-nAAGn, 0.
  16. inverse positive strand, positive direction, looking for nCTTnn(A/G)AGn-(5-bp)-nAAGn, 0.

HSE9 GAP2 (Eastmond) distal promoters

Main article: Distal promoter gene transcriptions

Negative strand, negative direction: GGAATTCACATGAACCTTCA at 332, and complement.

HSE9 GAP2 (Eastmond) random dataset samplings

  1. RDr0: 0.
  2. RDr1: 0.
  3. RDr2: 0.
  4. RDr3: 0.
  5. RDr4: 0.
  6. RDr5: 0.
  7. RDr6: 0.
  8. RDr7: 0.
  9. RDr8: 0.
  10. RDr9: 0.
  11. RDr0ci: 0.
  12. RDr1ci: 0.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

RDr arbitrary UTRs

RDr alternate UTRs

RDr arbitrary negative direction core promoters

RDr alternate negative direction core promoters

RDr arbitrary positive direction core promoters

RDr alternate positive direction core promoters

RDr arbitrary negative direction proximal promoters

RDr alternate negative direction proximal promoters

RDr arbitrary positive direction proximal promoters

RDr alternate positive direction proximal promoters

RDr arbitrary negative direction distal promoters

RDr alternate negative direction distal promoters

RDr arbitrary positive direction distal promoters

RDr alternate positive direction distal promoters

HSE9 GAP2 (Eastmond) analysis and results

Main article: Complex locus A1BG and ZNF497 § Name of response elements

Response element (AAAAAA).<Author reference>

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 0 2 0 0
Randoms UTR arbitrary negative 0 10 0 0
Randoms UTR alternate negative 0 10 0 0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 0 10 0 0
Randoms Core alternate negative 0 10 0 0
Reals Core positive 0 2 0 0
Randoms Core arbitrary positive 0 10 0 0
Randoms Core alternate positive 0 10 0 0
Reals Proximal negative 0 2 0 0
Randoms Proximal arbitrary negative 0 10 0 0
Randoms Proximal alternate negative 0 10 0 0
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 0 10 0 0
Randoms Proximal alternate positive 0 10 0 0
Reals Distal negative 0 2 0 0
Randoms Distal arbitrary negative 0 10 0 0
Randoms Distal alternate negative 0 10 0 0
Reals Distal positive 0 2 0 0
Randoms Distal arbitrary positive 0 10 0 0
Randoms Distal alternate positive 0 10 0 0

Comparison:

The occurrences of real responsive element consensus sequences are larger than the randoms. This suggests that the real responsive element consensus sequences are likely active or activable.

HSE10 (Eastmond) samplings

For the Basic programs testing consensus sequence nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn (starting with SuccessablesHSE3.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn, 0.
  2. negative strand, positive direction, looking for nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn, 0.
  3. positive strand, negative direction, looking for nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn, 0.
  4. positive strand, positive direction, looking for nTTCn-(11-bp)-nGAAn-(5 bp)-nGAAn, 0.
  5. complement, negative strand, negative direction, looking for nAAGn-(11-bp)-nCTTn-(5-bp)-nCTTn, 0.
  6. complement, negative strand, positive direction, looking for nAAGn-(11-bp)-nCTTn-(5-bp)-nCTTn, 0.
  7. complement, positive strand, negative direction, looking for nAAGn-(11-bp)-nCTTn-(5-bp)-nCTTn, 0.
  8. complement, positive strand, positive direction, looking for nAAGn-(11-bp)-nCTTn-(5-bp)-nCTTn, 0.
  9. inverse complement, negative strand, negative direction, looking for nTTCn-(5-bp)-nTTCn-(11-bp)-nGAAn, 0.
  10. inverse complement, negative strand, positive direction, looking for nTTCn-(5-bp)-nTTCn-(11-bp)-nGAAn, 0.
  11. inverse complement, positive strand, negative direction, looking for nTTCn-(5-bp)-nTTCn-(11-bp)-nGAAn, 0.
  12. inverse complement, positive strand, positive direction, looking for nTTCn-(5-bp)-nTTCn-(11-bp)-nGAAn, 0.
  13. inverse negative strand, negative direction, looking for nAAGn-(5-bp)-nAAGn-(11-bp)-nCTTn, 0.
  14. inverse negative strand, positive direction, looking for nAAGn-(5-bp)-nAAGn-(11-bp)-nCTTn, 0.
  15. inverse positive strand, negative direction, looking for nAAGn-(5-bp)-nAAGn-(11-bp)-nCTTn, 0.
  16. inverse positive strand, positive direction, looking for nAAGn-(5-bp)-nAAGn-(11-bp)-nCTTn, 0.

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

See also

References

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 Dawn L. Eastmond and Hillary C. M. Nelson (October 27, 2006). "Genome-wide Analysis Reveals New Roles for the Activation Domains of the Saccharomyces cerevisiae Heat Shock Transcription Factor (Hsf1) during the Transient Heat Shock Response". Journal of Biological Chemistry. 281 (43): P32909–32921. doi:10.1074/jbc.M602454200. Retrieved 19 January 2021.
  2. ↑ Hongting Tang, Yanling Wu, Jiliang Deng, Nanzhu Chen, Zhaohui Zheng, Yongjun Wei, Xiaozhou Luo, and Jay D. Keasling (6 August 2020). "Promoter Architecture and Promoter Engineering in Saccharomyces cerevisiae". Metabolites. 10 (8): 320–39. doi:10.3390/metabo10080320. PMID 32781665 Check |pmid= value (help). Retrieved 18 September 2020.

External links

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