Multiple sequence alignment - TraesCS7D01G140600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G140600 chr7D 100.000 3553 0 0 1 3553 89792656 89789104 0.000000e+00 6562.0
1 TraesCS7D01G140600 chr7D 93.201 1515 87 13 829 2335 89521881 89523387 0.000000e+00 2213.0
2 TraesCS7D01G140600 chr7D 87.893 1462 124 31 1237 2670 89731734 89730298 0.000000e+00 1670.0
3 TraesCS7D01G140600 chr7D 92.493 1079 76 5 1229 2305 89486419 89487494 0.000000e+00 1539.0
4 TraesCS7D01G140600 chr7D 90.234 471 40 5 368 834 89521289 89521757 8.430000e-171 610.0
5 TraesCS7D01G140600 chr7D 85.401 411 46 10 1935 2342 89598038 89598437 7.100000e-112 414.0
6 TraesCS7D01G140600 chr7D 96.032 126 5 0 240 365 89521017 89521142 4.650000e-49 206.0
7 TraesCS7D01G140600 chr7D 92.424 132 8 2 3423 3553 203945189 203945319 1.680000e-43 187.0
8 TraesCS7D01G140600 chr7D 87.097 155 16 4 3177 3327 194481942 194482096 4.720000e-39 172.0
9 TraesCS7D01G140600 chr7B 85.067 3268 297 115 4 3160 40445004 40441817 0.000000e+00 3155.0
10 TraesCS7D01G140600 chr7B 89.831 1416 118 15 1227 2633 40576451 40575053 0.000000e+00 1794.0
11 TraesCS7D01G140600 chr7B 89.794 1117 76 14 1229 2342 40346741 40347822 0.000000e+00 1397.0
12 TraesCS7D01G140600 chr7B 86.308 650 62 17 2100 2742 40558188 40557559 0.000000e+00 682.0
13 TraesCS7D01G140600 chr7B 92.252 413 25 4 2757 3164 40574778 40574368 2.380000e-161 579.0
14 TraesCS7D01G140600 chr7B 77.259 321 24 15 2757 3033 40353091 40353406 3.700000e-30 143.0
15 TraesCS7D01G140600 chr7B 94.444 90 5 0 3333 3422 40574377 40574288 4.780000e-29 139.0
16 TraesCS7D01G140600 chr7A 90.036 1957 146 28 1237 3164 91017271 91015335 0.000000e+00 2488.0
17 TraesCS7D01G140600 chr7A 81.919 2345 262 93 902 3160 90665372 90663104 0.000000e+00 1832.0
18 TraesCS7D01G140600 chr7A 89.478 1283 110 15 1035 2305 90586295 90587564 0.000000e+00 1598.0
19 TraesCS7D01G140600 chr7A 89.359 780 61 12 1035 1803 90614137 90614905 0.000000e+00 961.0
20 TraesCS7D01G140600 chr7A 88.846 780 65 12 1035 1803 90615027 90615795 0.000000e+00 939.0
21 TraesCS7D01G140600 chr7A 94.007 534 25 3 337 864 90665908 90665376 0.000000e+00 802.0
22 TraesCS7D01G140600 chr7A 89.286 560 51 7 240 794 90585642 90586197 0.000000e+00 693.0
23 TraesCS7D01G140600 chr7A 87.149 498 49 11 1035 1528 90615915 90616401 5.180000e-153 551.0
24 TraesCS7D01G140600 chr7A 86.307 241 19 5 243 469 90613845 90614085 2.120000e-62 250.0
25 TraesCS7D01G140600 chr7A 85.520 221 23 4 3 223 90585447 90585658 4.620000e-54 222.0
26 TraesCS7D01G140600 chr7A 86.792 159 17 3 3172 3326 115736417 115736259 1.310000e-39 174.0
27 TraesCS7D01G140600 chr7A 80.612 196 23 7 2867 3049 90617103 90617296 1.720000e-28 137.0
28 TraesCS7D01G140600 chr7A 90.816 98 9 0 493 590 90584994 90585091 8.000000e-27 132.0
29 TraesCS7D01G140600 chrUn 89.017 1730 141 20 1221 2919 91490441 91492152 0.000000e+00 2097.0
30 TraesCS7D01G140600 chr6D 93.893 131 8 0 3423 3553 362216135 362216265 7.780000e-47 198.0
31 TraesCS7D01G140600 chr6D 92.366 131 8 1 3423 3553 353304632 353304504 6.060000e-43 185.0
32 TraesCS7D01G140600 chr6D 91.603 131 11 0 3423 3553 80155678 80155808 7.840000e-42 182.0
33 TraesCS7D01G140600 chr2B 93.893 131 8 0 3423 3553 206763701 206763571 7.780000e-47 198.0
34 TraesCS7D01G140600 chr2B 93.077 130 9 0 3423 3552 135239091 135239220 1.300000e-44 191.0
35 TraesCS7D01G140600 chr5B 90.066 151 15 0 3177 3327 185725244 185725394 2.800000e-46 196.0
36 TraesCS7D01G140600 chr2A 90.196 153 11 4 3177 3327 181847631 181847781 2.800000e-46 196.0
37 TraesCS7D01G140600 chr2A 87.195 164 15 5 3172 3330 218122407 218122245 7.840000e-42 182.0
38 TraesCS7D01G140600 chr6B 92.366 131 10 0 3423 3553 153363359 153363489 1.680000e-43 187.0
39 TraesCS7D01G140600 chr3A 84.456 193 26 4 3160 3349 581251513 581251704 1.680000e-43 187.0
40 TraesCS7D01G140600 chr3A 85.106 188 17 9 3162 3342 686528405 686528222 7.840000e-42 182.0
41 TraesCS7D01G140600 chr1A 88.889 153 13 3 3177 3326 12817853 12818004 6.060000e-43 185.0
42 TraesCS7D01G140600 chr5A 86.905 168 17 5 3163 3326 692060245 692060411 2.180000e-42 183.0
43 TraesCS7D01G140600 chr5A 87.195 164 15 6 3177 3335 382336458 382336296 7.840000e-42 182.0
44 TraesCS7D01G140600 chr6A 91.603 131 11 0 3423 3553 177819462 177819332 7.840000e-42 182.0
45 TraesCS7D01G140600 chr6A 82.234 197 24 10 3170 3359 49741738 49741546 3.670000e-35 159.0
46 TraesCS7D01G140600 chr3B 87.975 158 10 5 3180 3330 637087847 637087692 1.010000e-40 178.0
47 TraesCS7D01G140600 chr3B 87.755 49 3 2 455 502 748775805 748775851 2.000000e-03 54.7
48 TraesCS7D01G140600 chr4B 89.286 140 12 3 3415 3553 47658649 47658512 4.720000e-39 172.0
49 TraesCS7D01G140600 chr4A 86.585 164 13 6 3180 3335 69833236 69833074 4.720000e-39 172.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G140600 chr7D 89789104 89792656 3552 True 6562.000000 6562 100.000000 1 3553 1 chr7D.!!$R2 3552
1 TraesCS7D01G140600 chr7D 89730298 89731734 1436 True 1670.000000 1670 87.893000 1237 2670 1 chr7D.!!$R1 1433
2 TraesCS7D01G140600 chr7D 89486419 89487494 1075 False 1539.000000 1539 92.493000 1229 2305 1 chr7D.!!$F1 1076
3 TraesCS7D01G140600 chr7D 89521017 89523387 2370 False 1009.666667 2213 93.155667 240 2335 3 chr7D.!!$F5 2095
4 TraesCS7D01G140600 chr7B 40441817 40445004 3187 True 3155.000000 3155 85.067000 4 3160 1 chr7B.!!$R1 3156
5 TraesCS7D01G140600 chr7B 40346741 40347822 1081 False 1397.000000 1397 89.794000 1229 2342 1 chr7B.!!$F1 1113
6 TraesCS7D01G140600 chr7B 40574288 40576451 2163 True 837.333333 1794 92.175667 1227 3422 3 chr7B.!!$R3 2195
7 TraesCS7D01G140600 chr7B 40557559 40558188 629 True 682.000000 682 86.308000 2100 2742 1 chr7B.!!$R2 642
8 TraesCS7D01G140600 chr7A 91015335 91017271 1936 True 2488.000000 2488 90.036000 1237 3164 1 chr7A.!!$R1 1927
9 TraesCS7D01G140600 chr7A 90663104 90665908 2804 True 1317.000000 1832 87.963000 337 3160 2 chr7A.!!$R3 2823
10 TraesCS7D01G140600 chr7A 90584994 90587564 2570 False 661.250000 1598 88.775000 3 2305 4 chr7A.!!$F1 2302
11 TraesCS7D01G140600 chr7A 90613845 90617296 3451 False 567.600000 961 86.454600 243 3049 5 chr7A.!!$F2 2806
12 TraesCS7D01G140600 chrUn 91490441 91492152 1711 False 2097.000000 2097 89.017000 1221 2919 1 chrUn.!!$F1 1698

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
87 539 0.108138 CCAGTAAGGGAAGCAGACCG 60.108 60.0 0.0 0.0 0.0 4.79 F
1720 3444 0.764271 TGTCACAGAGGTTGATGGCA 59.236 50.0 0.0 0.0 0.0 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2054 4030 0.108898 CTCTCTTGTCAGGCCTCACG 60.109 60.0 0.0 0.0 0.0 4.35 R
3494 6029 0.037975 CTTTCCACCACTTGCCATGC 60.038 55.0 0.0 0.0 0.0 4.06 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 539 0.108138 CCAGTAAGGGAAGCAGACCG 60.108 60.000 0.00 0.00 0.00 4.79
89 541 0.896226 AGTAAGGGAAGCAGACCGTC 59.104 55.000 0.00 0.00 0.00 4.79
231 684 7.768807 AGATACAGATAAGATACCACTCCAC 57.231 40.000 0.00 0.00 0.00 4.02
375 983 4.244066 GCATGCCAAATAACATGTTGACA 58.756 39.130 21.42 3.97 44.43 3.58
397 1008 9.829507 TGACACAATTTTCCTCAAAACAAATAT 57.170 25.926 0.00 0.00 34.24 1.28
594 1206 5.402398 GGCATCAGTTATGAAAGTTGTTCC 58.598 41.667 0.00 0.00 39.39 3.62
625 1237 9.676195 TGTGAAGTAAAATATTCATGTGTGTTG 57.324 29.630 0.00 0.00 37.72 3.33
690 1304 9.722056 GATAAAGTGTTTCGCATGAGATAAATT 57.278 29.630 0.00 0.00 0.00 1.82
852 1601 4.897025 ACTATTCTACTACGCAGTCCAC 57.103 45.455 0.00 0.00 43.93 4.02
931 1682 9.220635 GAAAACAAAAATGATAAACTTTGTGCC 57.779 29.630 0.22 0.00 40.23 5.01
1328 3038 0.895100 TTTTGCTTCTCGCCCAGCAT 60.895 50.000 3.50 0.00 45.41 3.79
1542 3252 2.202810 GACTACAGCAGCGAGGCC 60.203 66.667 0.00 0.00 0.00 5.19
1720 3444 0.764271 TGTCACAGAGGTTGATGGCA 59.236 50.000 0.00 0.00 0.00 4.92
1740 3464 1.568504 TACCTCTCCGCTTCACCAAT 58.431 50.000 0.00 0.00 0.00 3.16
1781 3505 2.185350 CGGCGAGGTCTGCTTCAT 59.815 61.111 0.00 0.00 0.00 2.57
1882 3692 1.765597 GACCCACGGACAGGAAAGGT 61.766 60.000 0.00 0.00 0.00 3.50
1885 3695 2.027625 CACGGACAGGAAAGGTCGC 61.028 63.158 0.00 0.00 36.12 5.19
2010 3986 2.543067 GATCAAGGGCTCCAAGGCGT 62.543 60.000 0.00 0.00 42.43 5.68
2071 4047 0.034059 AACGTGAGGCCTGACAAGAG 59.966 55.000 22.80 8.26 0.00 2.85
2123 4099 2.759795 GCTGAGCTCCCCTTTGGT 59.240 61.111 12.15 0.00 34.77 3.67
2216 4287 3.692406 GTGAGGCCGACCGAGGTT 61.692 66.667 0.00 0.00 42.76 3.50
2287 4358 1.841663 ATGGCAGTCGTCAAACGCAC 61.842 55.000 0.00 0.00 42.21 5.34
2349 4424 2.742053 GCTTTTCATCGGACTTGCACTA 59.258 45.455 0.00 0.00 0.00 2.74
2403 4478 9.453325 TTTTGTCGTATTTTCATTGTAAAGTCC 57.547 29.630 0.00 0.00 0.00 3.85
2439 4558 5.360714 GGGCTTTCTATTGGACAATGATCAA 59.639 40.000 0.00 0.00 32.50 2.57
2440 4559 6.041296 GGGCTTTCTATTGGACAATGATCAAT 59.959 38.462 0.00 9.62 35.57 2.57
2441 4560 6.921857 GGCTTTCTATTGGACAATGATCAATG 59.078 38.462 9.28 9.28 33.72 2.82
2442 4561 7.417116 GGCTTTCTATTGGACAATGATCAATGT 60.417 37.037 16.28 16.28 33.72 2.71
2443 4562 8.623903 GCTTTCTATTGGACAATGATCAATGTA 58.376 33.333 16.30 1.90 33.72 2.29
2446 4565 9.685276 TTCTATTGGACAATGATCAATGTAGTT 57.315 29.630 16.30 5.15 33.72 2.24
2449 4568 8.991243 ATTGGACAATGATCAATGTAGTTTTG 57.009 30.769 16.30 7.99 30.89 2.44
2450 4569 7.757941 TGGACAATGATCAATGTAGTTTTGA 57.242 32.000 16.30 0.00 37.49 2.69
2451 4570 7.592938 TGGACAATGATCAATGTAGTTTTGAC 58.407 34.615 16.30 5.97 36.02 3.18
2584 4713 2.288458 CGCAAAAACTAAGACGGTCCAA 59.712 45.455 4.14 0.00 0.00 3.53
2617 4746 9.919348 TTACAAGTTAATACTCACAAAAACGAC 57.081 29.630 0.00 0.00 31.99 4.34
2640 4920 5.047092 ACAGCAATCCAATCTTACAAAAGGG 60.047 40.000 0.00 0.00 33.22 3.95
2644 5086 6.934083 GCAATCCAATCTTACAAAAGGGAAAA 59.066 34.615 0.00 0.00 33.22 2.29
2645 5087 7.095229 GCAATCCAATCTTACAAAAGGGAAAAC 60.095 37.037 0.00 0.00 33.22 2.43
2674 5116 1.537202 AGAGAAATCAACTGCGGCAAC 59.463 47.619 3.44 0.00 0.00 4.17
2706 5150 8.156820 TCAGCTAATTGCCTGCTAGATAAAATA 58.843 33.333 0.00 0.00 44.23 1.40
2849 5342 4.562394 CGCACCAAATGTCCATTGAATAAC 59.438 41.667 0.00 0.00 0.00 1.89
2986 5509 2.121963 TTCCCCTCCTGCCTGTGT 60.122 61.111 0.00 0.00 0.00 3.72
2992 5516 1.691196 CCTCCTGCCTGTGTTTGAAA 58.309 50.000 0.00 0.00 0.00 2.69
3069 5597 6.801862 GTGAAGTTTATGCATGTTGGTACTTC 59.198 38.462 10.16 16.58 40.18 3.01
3150 5685 6.778834 TCATTCCAGAAAATACACATGCAT 57.221 33.333 0.00 0.00 0.00 3.96
3188 5723 9.613428 ATCTAAGTATGCTTTAGTTATTGCACA 57.387 29.630 0.00 0.00 38.29 4.57
3189 5724 9.613428 TCTAAGTATGCTTTAGTTATTGCACAT 57.387 29.630 0.00 0.00 38.29 3.21
3190 5725 9.869844 CTAAGTATGCTTTAGTTATTGCACATC 57.130 33.333 0.00 0.00 38.29 3.06
3191 5726 8.511604 AAGTATGCTTTAGTTATTGCACATCT 57.488 30.769 0.00 0.00 38.29 2.90
3192 5727 9.613428 AAGTATGCTTTAGTTATTGCACATCTA 57.387 29.630 0.00 0.00 38.29 1.98
3193 5728 9.613428 AGTATGCTTTAGTTATTGCACATCTAA 57.387 29.630 0.00 0.00 38.29 2.10
3196 5731 9.740239 ATGCTTTAGTTATTGCACATCTAAATG 57.260 29.630 10.70 7.95 38.29 2.32
3197 5732 8.955388 TGCTTTAGTTATTGCACATCTAAATGA 58.045 29.630 10.70 0.00 36.67 2.57
3198 5733 9.226345 GCTTTAGTTATTGCACATCTAAATGAC 57.774 33.333 10.70 0.00 36.67 3.06
3201 5736 9.665719 TTAGTTATTGCACATCTAAATGACTCA 57.334 29.630 0.00 0.00 33.65 3.41
3202 5737 8.565896 AGTTATTGCACATCTAAATGACTCAA 57.434 30.769 0.00 0.00 36.67 3.02
3203 5738 9.182214 AGTTATTGCACATCTAAATGACTCAAT 57.818 29.630 0.00 0.00 36.67 2.57
3204 5739 9.443283 GTTATTGCACATCTAAATGACTCAATC 57.557 33.333 0.00 0.00 36.67 2.67
3205 5740 7.634671 ATTGCACATCTAAATGACTCAATCA 57.365 32.000 0.00 0.00 43.13 2.57
3246 5781 7.858052 AAAGAGAATAGAAAATGTTTGCACG 57.142 32.000 0.00 0.00 0.00 5.34
3247 5782 6.801539 AGAGAATAGAAAATGTTTGCACGA 57.198 33.333 0.00 0.00 0.00 4.35
3248 5783 7.202016 AGAGAATAGAAAATGTTTGCACGAA 57.798 32.000 0.00 0.00 0.00 3.85
3249 5784 7.820648 AGAGAATAGAAAATGTTTGCACGAAT 58.179 30.769 0.00 0.00 0.00 3.34
3250 5785 7.965107 AGAGAATAGAAAATGTTTGCACGAATC 59.035 33.333 0.00 0.00 0.00 2.52
3251 5786 7.820648 AGAATAGAAAATGTTTGCACGAATCT 58.179 30.769 0.00 0.00 0.00 2.40
3252 5787 7.965107 AGAATAGAAAATGTTTGCACGAATCTC 59.035 33.333 0.00 0.00 0.00 2.75
3253 5788 5.695851 AGAAAATGTTTGCACGAATCTCT 57.304 34.783 0.00 0.00 0.00 3.10
3254 5789 5.455392 AGAAAATGTTTGCACGAATCTCTG 58.545 37.500 0.00 0.00 0.00 3.35
3255 5790 4.836125 AAATGTTTGCACGAATCTCTGT 57.164 36.364 0.00 0.00 0.00 3.41
3256 5791 3.818961 ATGTTTGCACGAATCTCTGTG 57.181 42.857 0.00 0.00 39.10 3.66
3257 5792 2.560504 TGTTTGCACGAATCTCTGTGT 58.439 42.857 0.00 0.00 38.36 3.72
3258 5793 3.723260 TGTTTGCACGAATCTCTGTGTA 58.277 40.909 0.00 0.00 38.36 2.90
3259 5794 4.123506 TGTTTGCACGAATCTCTGTGTAA 58.876 39.130 0.00 0.00 38.61 2.41
3260 5795 4.572795 TGTTTGCACGAATCTCTGTGTAAA 59.427 37.500 4.83 4.83 44.56 2.01
3261 5796 5.065346 TGTTTGCACGAATCTCTGTGTAAAA 59.935 36.000 9.55 2.00 46.85 1.52
3262 5797 5.940192 TTGCACGAATCTCTGTGTAAAAT 57.060 34.783 0.00 0.00 37.67 1.82
3263 5798 5.530519 TGCACGAATCTCTGTGTAAAATC 57.469 39.130 0.00 0.00 38.36 2.17
3264 5799 4.994217 TGCACGAATCTCTGTGTAAAATCA 59.006 37.500 0.00 0.00 38.36 2.57
3265 5800 5.468409 TGCACGAATCTCTGTGTAAAATCAA 59.532 36.000 0.00 0.00 38.36 2.57
3266 5801 6.149308 TGCACGAATCTCTGTGTAAAATCAAT 59.851 34.615 0.00 0.00 38.36 2.57
3267 5802 6.467047 GCACGAATCTCTGTGTAAAATCAATG 59.533 38.462 0.00 0.00 38.36 2.82
3268 5803 7.624134 GCACGAATCTCTGTGTAAAATCAATGA 60.624 37.037 0.00 0.00 38.36 2.57
3269 5804 7.689812 CACGAATCTCTGTGTAAAATCAATGAC 59.310 37.037 0.00 0.00 0.00 3.06
3270 5805 7.387673 ACGAATCTCTGTGTAAAATCAATGACA 59.612 33.333 0.00 0.00 0.00 3.58
3271 5806 8.393366 CGAATCTCTGTGTAAAATCAATGACAT 58.607 33.333 0.00 0.00 0.00 3.06
3274 5809 8.722480 TCTCTGTGTAAAATCAATGACATAGG 57.278 34.615 0.00 0.00 33.35 2.57
3275 5810 8.539544 TCTCTGTGTAAAATCAATGACATAGGA 58.460 33.333 0.00 0.00 33.35 2.94
3276 5811 8.492673 TCTGTGTAAAATCAATGACATAGGAC 57.507 34.615 0.00 0.00 33.35 3.85
3277 5812 8.321353 TCTGTGTAAAATCAATGACATAGGACT 58.679 33.333 0.00 0.00 33.35 3.85
3278 5813 8.862325 TGTGTAAAATCAATGACATAGGACTT 57.138 30.769 0.00 0.00 0.00 3.01
3279 5814 9.952030 TGTGTAAAATCAATGACATAGGACTTA 57.048 29.630 0.00 0.00 0.00 2.24
3284 5819 9.911788 AAAATCAATGACATAGGACTTAGATGT 57.088 29.630 0.00 0.00 36.52 3.06
3285 5820 8.899427 AATCAATGACATAGGACTTAGATGTG 57.101 34.615 0.00 0.00 33.99 3.21
3286 5821 6.283694 TCAATGACATAGGACTTAGATGTGC 58.716 40.000 0.00 0.00 33.99 4.57
3287 5822 5.876651 ATGACATAGGACTTAGATGTGCA 57.123 39.130 0.00 0.00 33.99 4.57
3288 5823 5.011090 TGACATAGGACTTAGATGTGCAC 57.989 43.478 10.75 10.75 33.99 4.57
3289 5824 4.711846 TGACATAGGACTTAGATGTGCACT 59.288 41.667 19.41 3.19 33.99 4.40
3290 5825 5.891551 TGACATAGGACTTAGATGTGCACTA 59.108 40.000 19.41 4.84 33.99 2.74
3291 5826 6.150396 ACATAGGACTTAGATGTGCACTAC 57.850 41.667 19.41 11.76 32.62 2.73
3292 5827 5.894393 ACATAGGACTTAGATGTGCACTACT 59.106 40.000 19.41 18.10 32.62 2.57
3293 5828 6.381420 ACATAGGACTTAGATGTGCACTACTT 59.619 38.462 19.41 3.77 32.62 2.24
3294 5829 7.560262 ACATAGGACTTAGATGTGCACTACTTA 59.440 37.037 19.41 9.90 32.62 2.24
3295 5830 8.580720 CATAGGACTTAGATGTGCACTACTTAT 58.419 37.037 19.41 1.80 0.00 1.73
3296 5831 6.810911 AGGACTTAGATGTGCACTACTTATG 58.189 40.000 19.41 11.81 0.00 1.90
3297 5832 5.986135 GGACTTAGATGTGCACTACTTATGG 59.014 44.000 19.41 9.78 0.00 2.74
3298 5833 5.360591 ACTTAGATGTGCACTACTTATGGC 58.639 41.667 19.41 0.00 0.00 4.40
3299 5834 3.912496 AGATGTGCACTACTTATGGCA 57.088 42.857 19.41 0.00 0.00 4.92
3374 5909 4.699735 TGTAGTGAACAAATGAATCGCCAT 59.300 37.500 0.00 0.00 34.29 4.40
3422 5957 1.972978 GGAACCCCGAGCGCTATAT 59.027 57.895 11.50 0.00 0.00 0.86
3423 5958 0.389948 GGAACCCCGAGCGCTATATG 60.390 60.000 11.50 1.83 0.00 1.78
3424 5959 0.317479 GAACCCCGAGCGCTATATGT 59.683 55.000 11.50 2.59 0.00 2.29
3425 5960 0.756903 AACCCCGAGCGCTATATGTT 59.243 50.000 11.50 9.56 0.00 2.71
3426 5961 0.033504 ACCCCGAGCGCTATATGTTG 59.966 55.000 11.50 0.00 0.00 3.33
3427 5962 0.670546 CCCCGAGCGCTATATGTTGG 60.671 60.000 11.50 0.00 0.00 3.77
3428 5963 0.317160 CCCGAGCGCTATATGTTGGA 59.683 55.000 11.50 0.00 0.00 3.53
3429 5964 1.066858 CCCGAGCGCTATATGTTGGAT 60.067 52.381 11.50 0.00 0.00 3.41
3430 5965 2.612972 CCCGAGCGCTATATGTTGGATT 60.613 50.000 11.50 0.00 0.00 3.01
3431 5966 3.368013 CCCGAGCGCTATATGTTGGATTA 60.368 47.826 11.50 0.00 0.00 1.75
3432 5967 4.433615 CCGAGCGCTATATGTTGGATTAT 58.566 43.478 11.50 0.00 0.00 1.28
3433 5968 5.451381 CCCGAGCGCTATATGTTGGATTATA 60.451 44.000 11.50 0.00 0.00 0.98
3434 5969 5.687730 CCGAGCGCTATATGTTGGATTATAG 59.312 44.000 11.50 0.00 33.44 1.31
3435 5970 6.459710 CCGAGCGCTATATGTTGGATTATAGA 60.460 42.308 11.50 0.00 32.47 1.98
3436 5971 7.142021 CGAGCGCTATATGTTGGATTATAGAT 58.858 38.462 11.50 0.00 32.47 1.98
3437 5972 7.114106 CGAGCGCTATATGTTGGATTATAGATG 59.886 40.741 11.50 0.00 32.47 2.90
3438 5973 7.212976 AGCGCTATATGTTGGATTATAGATGG 58.787 38.462 8.99 0.00 32.47 3.51
3439 5974 6.425114 GCGCTATATGTTGGATTATAGATGGG 59.575 42.308 0.00 0.00 32.47 4.00
3440 5975 6.425114 CGCTATATGTTGGATTATAGATGGGC 59.575 42.308 0.00 0.00 32.47 5.36
3441 5976 7.512992 GCTATATGTTGGATTATAGATGGGCT 58.487 38.462 0.00 0.00 32.47 5.19
3442 5977 7.995488 GCTATATGTTGGATTATAGATGGGCTT 59.005 37.037 0.00 0.00 32.47 4.35
3445 5980 6.126863 TGTTGGATTATAGATGGGCTTAGG 57.873 41.667 0.00 0.00 0.00 2.69
3446 5981 4.844349 TGGATTATAGATGGGCTTAGGC 57.156 45.455 0.00 0.00 37.82 3.93
3460 5995 4.625607 GCTTAGGCCCATATAAGACAGT 57.374 45.455 12.46 0.00 31.87 3.55
3461 5996 5.740290 GCTTAGGCCCATATAAGACAGTA 57.260 43.478 12.46 0.00 31.87 2.74
3462 5997 6.110411 GCTTAGGCCCATATAAGACAGTAA 57.890 41.667 12.46 0.00 31.87 2.24
3463 5998 6.712276 GCTTAGGCCCATATAAGACAGTAAT 58.288 40.000 12.46 0.00 31.87 1.89
3464 5999 6.819146 GCTTAGGCCCATATAAGACAGTAATC 59.181 42.308 12.46 0.00 31.87 1.75
3465 6000 5.763876 AGGCCCATATAAGACAGTAATCC 57.236 43.478 0.00 0.00 0.00 3.01
3466 6001 4.536489 AGGCCCATATAAGACAGTAATCCC 59.464 45.833 0.00 0.00 0.00 3.85
3467 6002 4.536489 GGCCCATATAAGACAGTAATCCCT 59.464 45.833 0.00 0.00 0.00 4.20
3468 6003 5.491982 GCCCATATAAGACAGTAATCCCTG 58.508 45.833 0.00 0.00 38.45 4.45
3469 6004 5.571658 GCCCATATAAGACAGTAATCCCTGG 60.572 48.000 0.00 0.00 36.75 4.45
3470 6005 5.548056 CCCATATAAGACAGTAATCCCTGGT 59.452 44.000 0.00 0.00 36.75 4.00
3471 6006 6.044404 CCCATATAAGACAGTAATCCCTGGTT 59.956 42.308 0.00 0.00 36.75 3.67
3472 6007 7.236847 CCCATATAAGACAGTAATCCCTGGTTA 59.763 40.741 0.00 0.00 36.75 2.85
3473 6008 8.656806 CCATATAAGACAGTAATCCCTGGTTAA 58.343 37.037 0.00 0.00 36.75 2.01
3476 6011 6.893020 AAGACAGTAATCCCTGGTTAATCT 57.107 37.500 0.00 0.00 36.75 2.40
3477 6012 6.893020 AGACAGTAATCCCTGGTTAATCTT 57.107 37.500 0.00 0.00 36.75 2.40
3478 6013 7.272144 AGACAGTAATCCCTGGTTAATCTTT 57.728 36.000 0.00 0.00 36.75 2.52
3479 6014 8.388656 AGACAGTAATCCCTGGTTAATCTTTA 57.611 34.615 0.00 0.00 36.75 1.85
3480 6015 8.832735 AGACAGTAATCCCTGGTTAATCTTTAA 58.167 33.333 0.00 0.00 36.75 1.52
3481 6016 9.110502 GACAGTAATCCCTGGTTAATCTTTAAG 57.889 37.037 0.00 0.00 36.75 1.85
3482 6017 8.053355 ACAGTAATCCCTGGTTAATCTTTAAGG 58.947 37.037 0.00 0.00 36.75 2.69
3483 6018 7.013369 CAGTAATCCCTGGTTAATCTTTAAGGC 59.987 40.741 0.00 0.00 0.00 4.35
3484 6019 4.245251 TCCCTGGTTAATCTTTAAGGCC 57.755 45.455 0.00 0.00 0.00 5.19
3485 6020 3.053170 TCCCTGGTTAATCTTTAAGGCCC 60.053 47.826 0.00 0.00 0.00 5.80
3486 6021 3.309556 CCCTGGTTAATCTTTAAGGCCCA 60.310 47.826 0.00 0.00 0.00 5.36
3487 6022 4.546674 CCTGGTTAATCTTTAAGGCCCAT 58.453 43.478 0.00 0.00 0.00 4.00
3488 6023 4.962362 CCTGGTTAATCTTTAAGGCCCATT 59.038 41.667 0.00 0.00 0.00 3.16
3489 6024 5.425217 CCTGGTTAATCTTTAAGGCCCATTT 59.575 40.000 0.00 0.00 0.00 2.32
3490 6025 6.609616 CCTGGTTAATCTTTAAGGCCCATTTA 59.390 38.462 0.00 0.00 0.00 1.40
3491 6026 7.201911 CCTGGTTAATCTTTAAGGCCCATTTAG 60.202 40.741 0.00 0.00 0.00 1.85
3492 6027 6.609616 TGGTTAATCTTTAAGGCCCATTTAGG 59.390 38.462 0.00 0.00 37.03 2.69
3493 6028 6.610020 GGTTAATCTTTAAGGCCCATTTAGGT 59.390 38.462 0.00 0.00 34.66 3.08
3494 6029 7.417456 GGTTAATCTTTAAGGCCCATTTAGGTG 60.417 40.741 0.00 0.00 34.66 4.00
3495 6030 3.361786 TCTTTAAGGCCCATTTAGGTGC 58.638 45.455 0.00 0.00 34.66 5.01
3496 6031 2.909504 TTAAGGCCCATTTAGGTGCA 57.090 45.000 0.00 0.00 35.87 4.57
3497 6032 3.396685 TTAAGGCCCATTTAGGTGCAT 57.603 42.857 0.00 0.00 35.87 3.96
3498 6033 1.488390 AAGGCCCATTTAGGTGCATG 58.512 50.000 0.00 0.00 35.87 4.06
3499 6034 0.397535 AGGCCCATTTAGGTGCATGG 60.398 55.000 0.00 0.00 39.92 3.66
3500 6035 1.442987 GCCCATTTAGGTGCATGGC 59.557 57.895 0.00 0.00 39.02 4.40
3501 6036 1.329171 GCCCATTTAGGTGCATGGCA 61.329 55.000 0.00 0.00 39.02 4.92
3502 6037 1.193323 CCCATTTAGGTGCATGGCAA 58.807 50.000 0.00 0.00 41.47 4.52
3503 6038 1.137479 CCCATTTAGGTGCATGGCAAG 59.863 52.381 0.00 0.00 41.47 4.01
3504 6039 1.826720 CCATTTAGGTGCATGGCAAGT 59.173 47.619 0.00 0.00 41.47 3.16
3505 6040 2.417651 CCATTTAGGTGCATGGCAAGTG 60.418 50.000 0.00 0.00 41.47 3.16
3506 6041 1.255882 TTTAGGTGCATGGCAAGTGG 58.744 50.000 0.00 0.00 41.47 4.00
3507 6042 0.112218 TTAGGTGCATGGCAAGTGGT 59.888 50.000 0.00 0.00 41.47 4.16
3508 6043 0.608856 TAGGTGCATGGCAAGTGGTG 60.609 55.000 0.00 0.00 41.47 4.17
3509 6044 2.652530 GTGCATGGCAAGTGGTGG 59.347 61.111 0.00 0.00 41.47 4.61
3510 6045 1.902918 GTGCATGGCAAGTGGTGGA 60.903 57.895 0.00 0.00 41.47 4.02
3511 6046 1.152589 TGCATGGCAAGTGGTGGAA 60.153 52.632 0.00 0.00 34.76 3.53
3512 6047 0.758310 TGCATGGCAAGTGGTGGAAA 60.758 50.000 0.00 0.00 34.76 3.13
3513 6048 0.037975 GCATGGCAAGTGGTGGAAAG 60.038 55.000 0.00 0.00 0.00 2.62
3514 6049 1.331214 CATGGCAAGTGGTGGAAAGT 58.669 50.000 0.00 0.00 0.00 2.66
3515 6050 1.688197 CATGGCAAGTGGTGGAAAGTT 59.312 47.619 0.00 0.00 0.00 2.66
3516 6051 1.859302 TGGCAAGTGGTGGAAAGTTT 58.141 45.000 0.00 0.00 0.00 2.66
3517 6052 3.019799 TGGCAAGTGGTGGAAAGTTTA 57.980 42.857 0.00 0.00 0.00 2.01
3518 6053 2.955660 TGGCAAGTGGTGGAAAGTTTAG 59.044 45.455 0.00 0.00 0.00 1.85
3519 6054 2.956333 GGCAAGTGGTGGAAAGTTTAGT 59.044 45.455 0.00 0.00 0.00 2.24
3520 6055 4.139038 GGCAAGTGGTGGAAAGTTTAGTA 58.861 43.478 0.00 0.00 0.00 1.82
3521 6056 4.023450 GGCAAGTGGTGGAAAGTTTAGTAC 60.023 45.833 0.00 0.00 0.00 2.73
3522 6057 4.023450 GCAAGTGGTGGAAAGTTTAGTACC 60.023 45.833 7.94 7.94 0.00 3.34
3523 6058 5.127491 CAAGTGGTGGAAAGTTTAGTACCA 58.873 41.667 11.85 11.85 35.97 3.25
3524 6059 5.578157 AGTGGTGGAAAGTTTAGTACCAT 57.422 39.130 16.52 7.45 40.01 3.55
3525 6060 6.691255 AGTGGTGGAAAGTTTAGTACCATA 57.309 37.500 16.52 1.18 40.01 2.74
3526 6061 6.470278 AGTGGTGGAAAGTTTAGTACCATAC 58.530 40.000 16.52 10.31 40.01 2.39
3527 6062 6.271624 AGTGGTGGAAAGTTTAGTACCATACT 59.728 38.462 16.52 11.80 40.01 2.12
3528 6063 6.370718 GTGGTGGAAAGTTTAGTACCATACTG 59.629 42.308 16.52 0.00 40.01 2.74
3529 6064 5.353400 GGTGGAAAGTTTAGTACCATACTGC 59.647 44.000 9.39 0.00 39.81 4.40
3530 6065 6.171213 GTGGAAAGTTTAGTACCATACTGCT 58.829 40.000 0.00 0.00 39.81 4.24
3531 6066 7.325694 GTGGAAAGTTTAGTACCATACTGCTA 58.674 38.462 0.00 0.00 39.81 3.49
3532 6067 7.985752 GTGGAAAGTTTAGTACCATACTGCTAT 59.014 37.037 0.00 0.00 39.81 2.97
3533 6068 8.545472 TGGAAAGTTTAGTACCATACTGCTATT 58.455 33.333 0.00 0.00 39.81 1.73
3538 6073 9.643735 AGTTTAGTACCATACTGCTATTAGAGT 57.356 33.333 0.00 0.00 39.81 3.24
3539 6074 9.680315 GTTTAGTACCATACTGCTATTAGAGTG 57.320 37.037 0.00 0.00 39.81 3.51
3540 6075 9.636789 TTTAGTACCATACTGCTATTAGAGTGA 57.363 33.333 0.00 0.00 39.81 3.41
3541 6076 7.753309 AGTACCATACTGCTATTAGAGTGAG 57.247 40.000 0.00 0.00 37.69 3.51
3542 6077 7.519057 AGTACCATACTGCTATTAGAGTGAGA 58.481 38.462 0.00 0.00 37.69 3.27
3543 6078 6.892658 ACCATACTGCTATTAGAGTGAGAG 57.107 41.667 0.00 0.00 0.00 3.20
3544 6079 6.369629 ACCATACTGCTATTAGAGTGAGAGT 58.630 40.000 0.00 0.00 0.00 3.24
3545 6080 6.264292 ACCATACTGCTATTAGAGTGAGAGTG 59.736 42.308 0.00 0.00 0.00 3.51
3546 6081 6.488344 CCATACTGCTATTAGAGTGAGAGTGA 59.512 42.308 0.00 0.00 0.00 3.41
3547 6082 7.176515 CCATACTGCTATTAGAGTGAGAGTGAT 59.823 40.741 0.00 0.00 0.00 3.06
3548 6083 9.225436 CATACTGCTATTAGAGTGAGAGTGATA 57.775 37.037 0.00 0.00 0.00 2.15
3549 6084 7.504924 ACTGCTATTAGAGTGAGAGTGATAC 57.495 40.000 0.00 0.00 0.00 2.24
3550 6085 6.488683 ACTGCTATTAGAGTGAGAGTGATACC 59.511 42.308 0.00 0.00 0.00 2.73
3551 6086 5.770663 TGCTATTAGAGTGAGAGTGATACCC 59.229 44.000 0.00 0.00 0.00 3.69
3552 6087 5.184287 GCTATTAGAGTGAGAGTGATACCCC 59.816 48.000 0.00 0.00 0.00 4.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 573 2.459060 TTCGTAGAATCAACCCGCAA 57.541 45.000 0.00 0.00 45.90 4.85
366 974 7.064371 TGTTTTGAGGAAAATTGTGTCAACATG 59.936 33.333 0.00 0.00 35.83 3.21
397 1008 6.345298 TGTTACACACTGACAATTTCTCTCA 58.655 36.000 0.00 0.00 0.00 3.27
437 1048 6.510879 ACATATTCCATGCATAGCAGAATG 57.489 37.500 17.23 11.87 43.65 2.67
594 1206 7.216881 CACATGAATATTTTACTTCACACGCAG 59.783 37.037 0.00 0.00 34.43 5.18
690 1304 8.966868 ACTTCTTTTTCAAAGATGGTAGAACAA 58.033 29.630 13.65 0.00 0.00 2.83
852 1601 9.878599 ACTCATCTAAACAACTAAAATGTTTCG 57.121 29.630 7.81 3.18 45.27 3.46
996 1760 4.360951 TTGTCCGTGTTTTTATCCTCCT 57.639 40.909 0.00 0.00 0.00 3.69
1542 3252 3.288308 AAGGAGAGACGCCGTGCAG 62.288 63.158 0.00 0.00 0.00 4.41
1599 3309 2.915659 TGGAACCGCAGACCGAGT 60.916 61.111 0.00 0.00 40.02 4.18
1650 3374 0.251916 CCCGCATGAGTCCCTTGTAA 59.748 55.000 0.00 0.00 0.00 2.41
1720 3444 1.568504 TTGGTGAAGCGGAGAGGTAT 58.431 50.000 0.00 0.00 0.00 2.73
1740 3464 2.203862 TGGTCGATGTCCACCCCA 60.204 61.111 0.00 0.00 0.00 4.96
2010 3986 0.875908 GCGAATAGCTCCATCGTGCA 60.876 55.000 14.63 0.00 44.04 4.57
2054 4030 0.108898 CTCTCTTGTCAGGCCTCACG 60.109 60.000 0.00 0.00 0.00 4.35
2071 4047 0.691078 TGCCACCCAGTATCCTCCTC 60.691 60.000 0.00 0.00 0.00 3.71
2123 4099 1.136305 GCAAGTAGGTGGCTATCGACA 59.864 52.381 0.00 0.00 0.00 4.35
2216 4287 0.473694 TGCCACCTTTCCTCTCCAGA 60.474 55.000 0.00 0.00 0.00 3.86
2416 4532 6.455360 TTGATCATTGTCCAATAGAAAGCC 57.545 37.500 0.00 0.00 0.00 4.35
2617 4746 5.185635 TCCCTTTTGTAAGATTGGATTGCTG 59.814 40.000 0.00 0.00 32.92 4.41
2644 5086 7.225538 CCGCAGTTGATTTCTCTTAATAGATGT 59.774 37.037 0.00 0.00 0.00 3.06
2645 5087 7.571026 CCGCAGTTGATTTCTCTTAATAGATG 58.429 38.462 0.00 0.00 0.00 2.90
2674 5116 4.501071 AGCAGGCAATTAGCTGATTTTTG 58.499 39.130 0.05 2.13 44.79 2.44
2706 5150 9.401873 CGAATGAATATGTTGATGCATTTGTAT 57.598 29.630 0.00 0.00 0.00 2.29
2728 5178 8.863049 GTGAACTGAATTTATGAAATTGCGAAT 58.137 29.630 2.02 0.00 40.97 3.34
2745 5215 6.389830 ACATATGTTTTGCTGTGAACTGAA 57.610 33.333 1.41 0.00 0.00 3.02
2849 5342 2.689983 GTGCATCAGGGTAAAGATTGGG 59.310 50.000 0.00 0.00 0.00 4.12
2986 5509 3.488384 GCTGTGATTGTGACGGTTTCAAA 60.488 43.478 3.81 0.00 35.39 2.69
2992 5516 0.179032 TTGGCTGTGATTGTGACGGT 60.179 50.000 0.00 0.00 0.00 4.83
3069 5597 5.220624 CGAGAGAAATCTTGAGCCAATTGAG 60.221 44.000 7.12 0.00 0.00 3.02
3164 5699 9.869844 GATGTGCAATAACTAAAGCATACTTAG 57.130 33.333 0.00 0.00 39.43 2.18
3165 5700 9.613428 AGATGTGCAATAACTAAAGCATACTTA 57.387 29.630 0.00 0.00 39.43 2.24
3166 5701 8.511604 AGATGTGCAATAACTAAAGCATACTT 57.488 30.769 0.00 0.00 39.43 2.24
3167 5702 9.613428 TTAGATGTGCAATAACTAAAGCATACT 57.387 29.630 0.00 0.00 39.43 2.12
3170 5705 9.740239 CATTTAGATGTGCAATAACTAAAGCAT 57.260 29.630 15.19 1.26 39.43 3.79
3171 5706 8.955388 TCATTTAGATGTGCAATAACTAAAGCA 58.045 29.630 15.19 0.00 36.79 3.91
3172 5707 9.226345 GTCATTTAGATGTGCAATAACTAAAGC 57.774 33.333 15.19 8.28 36.79 3.51
3175 5710 9.665719 TGAGTCATTTAGATGTGCAATAACTAA 57.334 29.630 0.00 0.00 34.77 2.24
3176 5711 9.665719 TTGAGTCATTTAGATGTGCAATAACTA 57.334 29.630 0.00 0.00 34.77 2.24
3177 5712 8.565896 TTGAGTCATTTAGATGTGCAATAACT 57.434 30.769 0.00 0.00 34.77 2.24
3178 5713 9.443283 GATTGAGTCATTTAGATGTGCAATAAC 57.557 33.333 0.00 0.00 33.74 1.89
3179 5714 9.176460 TGATTGAGTCATTTAGATGTGCAATAA 57.824 29.630 0.00 3.20 33.74 1.40
3180 5715 8.735692 TGATTGAGTCATTTAGATGTGCAATA 57.264 30.769 0.00 0.00 33.74 1.90
3181 5716 7.634671 TGATTGAGTCATTTAGATGTGCAAT 57.365 32.000 0.00 9.14 34.91 3.56
3182 5717 7.634671 ATGATTGAGTCATTTAGATGTGCAA 57.365 32.000 0.00 0.00 45.25 4.08
3183 5718 7.989170 AGTATGATTGAGTCATTTAGATGTGCA 59.011 33.333 0.00 0.00 45.25 4.57
3184 5719 8.375608 AGTATGATTGAGTCATTTAGATGTGC 57.624 34.615 0.00 0.00 45.25 4.57
3220 5755 8.755018 CGTGCAAACATTTTCTATTCTCTTTTT 58.245 29.630 0.00 0.00 0.00 1.94
3221 5756 8.134895 TCGTGCAAACATTTTCTATTCTCTTTT 58.865 29.630 0.00 0.00 0.00 2.27
3222 5757 7.648142 TCGTGCAAACATTTTCTATTCTCTTT 58.352 30.769 0.00 0.00 0.00 2.52
3223 5758 7.202016 TCGTGCAAACATTTTCTATTCTCTT 57.798 32.000 0.00 0.00 0.00 2.85
3224 5759 6.801539 TCGTGCAAACATTTTCTATTCTCT 57.198 33.333 0.00 0.00 0.00 3.10
3225 5760 7.965107 AGATTCGTGCAAACATTTTCTATTCTC 59.035 33.333 0.00 0.00 0.00 2.87
3226 5761 7.820648 AGATTCGTGCAAACATTTTCTATTCT 58.179 30.769 0.00 0.00 0.00 2.40
3227 5762 7.965107 AGAGATTCGTGCAAACATTTTCTATTC 59.035 33.333 0.00 0.00 0.00 1.75
3228 5763 7.752239 CAGAGATTCGTGCAAACATTTTCTATT 59.248 33.333 0.00 0.00 0.00 1.73
3229 5764 7.094634 ACAGAGATTCGTGCAAACATTTTCTAT 60.095 33.333 0.00 0.00 0.00 1.98
3230 5765 6.204688 ACAGAGATTCGTGCAAACATTTTCTA 59.795 34.615 0.00 0.00 0.00 2.10
3231 5766 5.009010 ACAGAGATTCGTGCAAACATTTTCT 59.991 36.000 0.00 0.00 0.00 2.52
3232 5767 5.116074 CACAGAGATTCGTGCAAACATTTTC 59.884 40.000 0.00 0.00 0.00 2.29
3233 5768 4.977963 CACAGAGATTCGTGCAAACATTTT 59.022 37.500 0.00 0.00 0.00 1.82
3234 5769 4.036734 ACACAGAGATTCGTGCAAACATTT 59.963 37.500 0.00 0.00 36.57 2.32
3235 5770 3.565482 ACACAGAGATTCGTGCAAACATT 59.435 39.130 0.00 0.00 36.57 2.71
3236 5771 3.141398 ACACAGAGATTCGTGCAAACAT 58.859 40.909 0.00 0.00 36.57 2.71
3237 5772 2.560504 ACACAGAGATTCGTGCAAACA 58.439 42.857 0.00 0.00 36.57 2.83
3238 5773 4.725556 TTACACAGAGATTCGTGCAAAC 57.274 40.909 0.00 0.00 36.57 2.93
3239 5774 5.743026 TTTTACACAGAGATTCGTGCAAA 57.257 34.783 0.00 0.00 36.57 3.68
3240 5775 5.468409 TGATTTTACACAGAGATTCGTGCAA 59.532 36.000 0.00 0.00 36.57 4.08
3241 5776 4.994217 TGATTTTACACAGAGATTCGTGCA 59.006 37.500 0.00 0.00 36.57 4.57
3242 5777 5.530519 TGATTTTACACAGAGATTCGTGC 57.469 39.130 0.00 0.00 36.57 5.34
3243 5778 7.689812 GTCATTGATTTTACACAGAGATTCGTG 59.310 37.037 0.00 0.00 39.10 4.35
3244 5779 7.387673 TGTCATTGATTTTACACAGAGATTCGT 59.612 33.333 0.00 0.00 0.00 3.85
3245 5780 7.742151 TGTCATTGATTTTACACAGAGATTCG 58.258 34.615 0.00 0.00 0.00 3.34
3248 5783 9.334947 CCTATGTCATTGATTTTACACAGAGAT 57.665 33.333 0.00 0.00 0.00 2.75
3249 5784 8.539544 TCCTATGTCATTGATTTTACACAGAGA 58.460 33.333 0.00 0.00 0.00 3.10
3250 5785 8.607459 GTCCTATGTCATTGATTTTACACAGAG 58.393 37.037 0.00 0.00 0.00 3.35
3251 5786 8.321353 AGTCCTATGTCATTGATTTTACACAGA 58.679 33.333 0.00 0.00 0.00 3.41
3252 5787 8.498054 AGTCCTATGTCATTGATTTTACACAG 57.502 34.615 0.00 0.00 0.00 3.66
3253 5788 8.862325 AAGTCCTATGTCATTGATTTTACACA 57.138 30.769 0.00 0.00 0.00 3.72
3258 5793 9.911788 ACATCTAAGTCCTATGTCATTGATTTT 57.088 29.630 0.00 0.00 0.00 1.82
3259 5794 9.334947 CACATCTAAGTCCTATGTCATTGATTT 57.665 33.333 0.00 0.00 31.60 2.17
3260 5795 7.443575 GCACATCTAAGTCCTATGTCATTGATT 59.556 37.037 0.00 0.00 31.60 2.57
3261 5796 6.933521 GCACATCTAAGTCCTATGTCATTGAT 59.066 38.462 0.00 0.00 31.60 2.57
3262 5797 6.127083 TGCACATCTAAGTCCTATGTCATTGA 60.127 38.462 0.00 0.00 31.60 2.57
3263 5798 6.018425 GTGCACATCTAAGTCCTATGTCATTG 60.018 42.308 13.17 0.00 31.60 2.82
3264 5799 6.051717 GTGCACATCTAAGTCCTATGTCATT 58.948 40.000 13.17 0.00 31.60 2.57
3265 5800 5.365025 AGTGCACATCTAAGTCCTATGTCAT 59.635 40.000 21.04 0.00 31.60 3.06
3266 5801 4.711846 AGTGCACATCTAAGTCCTATGTCA 59.288 41.667 21.04 0.00 31.60 3.58
3267 5802 5.269505 AGTGCACATCTAAGTCCTATGTC 57.730 43.478 21.04 0.00 31.60 3.06
3268 5803 5.894393 AGTAGTGCACATCTAAGTCCTATGT 59.106 40.000 21.04 0.00 34.22 2.29
3269 5804 6.398234 AGTAGTGCACATCTAAGTCCTATG 57.602 41.667 21.04 0.00 0.00 2.23
3270 5805 8.580720 CATAAGTAGTGCACATCTAAGTCCTAT 58.419 37.037 21.04 7.23 0.00 2.57
3271 5806 7.014326 CCATAAGTAGTGCACATCTAAGTCCTA 59.986 40.741 21.04 5.31 0.00 2.94
3272 5807 6.183360 CCATAAGTAGTGCACATCTAAGTCCT 60.183 42.308 21.04 3.27 0.00 3.85
3273 5808 5.986135 CCATAAGTAGTGCACATCTAAGTCC 59.014 44.000 21.04 0.00 0.00 3.85
3274 5809 5.463724 GCCATAAGTAGTGCACATCTAAGTC 59.536 44.000 21.04 0.00 0.00 3.01
3275 5810 5.104941 TGCCATAAGTAGTGCACATCTAAGT 60.105 40.000 21.04 4.63 0.00 2.24
3276 5811 5.359756 TGCCATAAGTAGTGCACATCTAAG 58.640 41.667 21.04 9.39 0.00 2.18
3277 5812 5.351948 TGCCATAAGTAGTGCACATCTAA 57.648 39.130 21.04 1.29 0.00 2.10
3279 5814 3.912496 TGCCATAAGTAGTGCACATCT 57.088 42.857 21.04 13.53 0.00 2.90
3284 5819 3.912496 AGATGTGCCATAAGTAGTGCA 57.088 42.857 0.00 0.00 0.00 4.57
3285 5820 5.201713 TCTAGATGTGCCATAAGTAGTGC 57.798 43.478 0.00 0.00 0.00 4.40
3335 5870 9.862371 TGTTCACTACAACAAAAACAATACAAT 57.138 25.926 0.00 0.00 33.21 2.71
3336 5871 9.692749 TTGTTCACTACAACAAAAACAATACAA 57.307 25.926 0.00 0.00 42.11 2.41
3374 5909 9.974980 TTATCAAGTTGTAGATGCGATATGTAA 57.025 29.630 2.11 0.00 0.00 2.41
3416 5951 7.512992 AGCCCATCTATAATCCAACATATAGC 58.487 38.462 0.00 0.00 33.85 2.97
3422 5957 5.514834 GCCTAAGCCCATCTATAATCCAACA 60.515 44.000 0.00 0.00 0.00 3.33
3423 5958 4.944317 GCCTAAGCCCATCTATAATCCAAC 59.056 45.833 0.00 0.00 0.00 3.77
3424 5959 5.179452 GCCTAAGCCCATCTATAATCCAA 57.821 43.478 0.00 0.00 0.00 3.53
3425 5960 4.844349 GCCTAAGCCCATCTATAATCCA 57.156 45.455 0.00 0.00 0.00 3.41
3439 5974 4.625607 ACTGTCTTATATGGGCCTAAGC 57.374 45.455 4.53 2.34 38.76 3.09
3440 5975 7.331791 GGATTACTGTCTTATATGGGCCTAAG 58.668 42.308 4.53 4.81 0.00 2.18
3441 5976 6.214819 GGGATTACTGTCTTATATGGGCCTAA 59.785 42.308 4.53 0.00 0.00 2.69
3442 5977 5.724854 GGGATTACTGTCTTATATGGGCCTA 59.275 44.000 4.53 0.00 0.00 3.93
3443 5978 4.536489 GGGATTACTGTCTTATATGGGCCT 59.464 45.833 4.53 0.00 0.00 5.19
3444 5979 4.536489 AGGGATTACTGTCTTATATGGGCC 59.464 45.833 0.00 0.00 0.00 5.80
3445 5980 5.491982 CAGGGATTACTGTCTTATATGGGC 58.508 45.833 0.00 0.00 33.81 5.36
3446 5981 5.548056 ACCAGGGATTACTGTCTTATATGGG 59.452 44.000 0.00 0.00 36.75 4.00
3447 5982 6.688073 ACCAGGGATTACTGTCTTATATGG 57.312 41.667 0.00 0.00 36.75 2.74
3450 5985 9.670442 AGATTAACCAGGGATTACTGTCTTATA 57.330 33.333 0.00 0.00 36.75 0.98
3451 5986 8.568617 AGATTAACCAGGGATTACTGTCTTAT 57.431 34.615 0.00 0.00 36.75 1.73
3452 5987 7.989947 AGATTAACCAGGGATTACTGTCTTA 57.010 36.000 0.00 0.00 36.75 2.10
3453 5988 6.893020 AGATTAACCAGGGATTACTGTCTT 57.107 37.500 0.00 0.00 36.75 3.01
3454 5989 6.893020 AAGATTAACCAGGGATTACTGTCT 57.107 37.500 0.00 0.00 36.75 3.41
3455 5990 9.110502 CTTAAAGATTAACCAGGGATTACTGTC 57.889 37.037 0.00 0.00 36.75 3.51
3456 5991 8.053355 CCTTAAAGATTAACCAGGGATTACTGT 58.947 37.037 0.00 0.00 36.75 3.55
3457 5992 7.013369 GCCTTAAAGATTAACCAGGGATTACTG 59.987 40.741 0.00 0.00 38.21 2.74
3458 5993 7.061054 GCCTTAAAGATTAACCAGGGATTACT 58.939 38.462 0.00 0.00 0.00 2.24
3459 5994 6.264744 GGCCTTAAAGATTAACCAGGGATTAC 59.735 42.308 0.00 0.00 0.00 1.89
3460 5995 6.370453 GGCCTTAAAGATTAACCAGGGATTA 58.630 40.000 0.00 0.00 0.00 1.75
3461 5996 5.208890 GGCCTTAAAGATTAACCAGGGATT 58.791 41.667 0.00 0.00 0.00 3.01
3462 5997 4.387550 GGGCCTTAAAGATTAACCAGGGAT 60.388 45.833 0.84 0.00 0.00 3.85
3463 5998 3.053170 GGGCCTTAAAGATTAACCAGGGA 60.053 47.826 0.84 0.00 0.00 4.20
3464 5999 3.296854 GGGCCTTAAAGATTAACCAGGG 58.703 50.000 0.84 0.00 0.00 4.45
3465 6000 3.976015 TGGGCCTTAAAGATTAACCAGG 58.024 45.455 4.53 0.00 0.00 4.45
3466 6001 6.544928 AAATGGGCCTTAAAGATTAACCAG 57.455 37.500 4.53 0.00 0.00 4.00
3467 6002 6.609616 CCTAAATGGGCCTTAAAGATTAACCA 59.390 38.462 4.53 0.00 0.00 3.67
3468 6003 6.610020 ACCTAAATGGGCCTTAAAGATTAACC 59.390 38.462 4.53 0.00 41.11 2.85
3469 6004 7.489160 CACCTAAATGGGCCTTAAAGATTAAC 58.511 38.462 4.53 0.00 41.11 2.01
3470 6005 6.097696 GCACCTAAATGGGCCTTAAAGATTAA 59.902 38.462 4.53 0.00 41.11 1.40
3471 6006 5.596772 GCACCTAAATGGGCCTTAAAGATTA 59.403 40.000 4.53 0.00 41.11 1.75
3472 6007 4.405680 GCACCTAAATGGGCCTTAAAGATT 59.594 41.667 4.53 0.00 41.11 2.40
3473 6008 3.960755 GCACCTAAATGGGCCTTAAAGAT 59.039 43.478 4.53 0.00 41.11 2.40
3474 6009 3.245443 TGCACCTAAATGGGCCTTAAAGA 60.245 43.478 4.53 0.00 41.11 2.52
3475 6010 3.096092 TGCACCTAAATGGGCCTTAAAG 58.904 45.455 4.53 0.00 41.11 1.85
3476 6011 3.176924 TGCACCTAAATGGGCCTTAAA 57.823 42.857 4.53 0.00 41.11 1.52
3477 6012 2.909504 TGCACCTAAATGGGCCTTAA 57.090 45.000 4.53 0.00 41.11 1.85
3478 6013 2.665165 CATGCACCTAAATGGGCCTTA 58.335 47.619 4.53 0.00 41.11 2.69
3479 6014 1.488390 CATGCACCTAAATGGGCCTT 58.512 50.000 4.53 0.00 41.11 4.35
3480 6015 0.397535 CCATGCACCTAAATGGGCCT 60.398 55.000 4.53 0.00 39.82 5.19
3481 6016 2.031674 GCCATGCACCTAAATGGGCC 62.032 60.000 0.00 0.00 43.10 5.80
3482 6017 1.329171 TGCCATGCACCTAAATGGGC 61.329 55.000 4.03 0.00 43.10 5.36
3483 6018 1.137479 CTTGCCATGCACCTAAATGGG 59.863 52.381 4.03 0.00 43.10 4.00
3484 6019 1.826720 ACTTGCCATGCACCTAAATGG 59.173 47.619 0.00 0.00 45.25 3.16
3485 6020 2.417651 CCACTTGCCATGCACCTAAATG 60.418 50.000 0.00 0.00 38.71 2.32
3486 6021 1.826720 CCACTTGCCATGCACCTAAAT 59.173 47.619 0.00 0.00 38.71 1.40
3487 6022 1.255882 CCACTTGCCATGCACCTAAA 58.744 50.000 0.00 0.00 38.71 1.85
3488 6023 0.112218 ACCACTTGCCATGCACCTAA 59.888 50.000 0.00 0.00 38.71 2.69
3489 6024 0.608856 CACCACTTGCCATGCACCTA 60.609 55.000 0.00 0.00 38.71 3.08
3490 6025 1.904865 CACCACTTGCCATGCACCT 60.905 57.895 0.00 0.00 38.71 4.00
3491 6026 2.652530 CACCACTTGCCATGCACC 59.347 61.111 0.00 0.00 38.71 5.01
3492 6027 1.462731 TTCCACCACTTGCCATGCAC 61.463 55.000 0.00 0.00 38.71 4.57
3493 6028 0.758310 TTTCCACCACTTGCCATGCA 60.758 50.000 0.00 0.00 36.47 3.96
3494 6029 0.037975 CTTTCCACCACTTGCCATGC 60.038 55.000 0.00 0.00 0.00 4.06
3495 6030 1.331214 ACTTTCCACCACTTGCCATG 58.669 50.000 0.00 0.00 0.00 3.66
3496 6031 2.086610 AACTTTCCACCACTTGCCAT 57.913 45.000 0.00 0.00 0.00 4.40
3497 6032 1.859302 AAACTTTCCACCACTTGCCA 58.141 45.000 0.00 0.00 0.00 4.92
3498 6033 2.956333 ACTAAACTTTCCACCACTTGCC 59.044 45.455 0.00 0.00 0.00 4.52
3499 6034 4.023450 GGTACTAAACTTTCCACCACTTGC 60.023 45.833 0.00 0.00 0.00 4.01
3500 6035 5.127491 TGGTACTAAACTTTCCACCACTTG 58.873 41.667 0.00 0.00 31.29 3.16
3501 6036 5.376756 TGGTACTAAACTTTCCACCACTT 57.623 39.130 0.00 0.00 31.29 3.16
3502 6037 5.578157 ATGGTACTAAACTTTCCACCACT 57.422 39.130 0.00 0.00 38.78 4.00
3503 6038 6.370718 CAGTATGGTACTAAACTTTCCACCAC 59.629 42.308 0.00 0.00 38.78 4.16
3504 6039 6.469410 CAGTATGGTACTAAACTTTCCACCA 58.531 40.000 0.00 0.00 40.15 4.17
3505 6040 5.353400 GCAGTATGGTACTAAACTTTCCACC 59.647 44.000 0.00 0.00 37.23 4.61
3506 6041 6.418585 GCAGTATGGTACTAAACTTTCCAC 57.581 41.667 0.00 0.00 37.23 4.02
3521 6056 6.488344 TCACTCTCACTCTAATAGCAGTATGG 59.512 42.308 0.00 0.00 35.86 2.74
3522 6057 7.503521 TCACTCTCACTCTAATAGCAGTATG 57.496 40.000 0.00 0.00 40.87 2.39
3523 6058 9.226606 GTATCACTCTCACTCTAATAGCAGTAT 57.773 37.037 0.00 0.00 0.00 2.12
3524 6059 7.662258 GGTATCACTCTCACTCTAATAGCAGTA 59.338 40.741 0.00 0.00 0.00 2.74
3525 6060 6.488683 GGTATCACTCTCACTCTAATAGCAGT 59.511 42.308 0.00 0.00 0.00 4.40
3526 6061 6.072175 GGGTATCACTCTCACTCTAATAGCAG 60.072 46.154 0.00 0.00 0.00 4.24
3527 6062 5.770663 GGGTATCACTCTCACTCTAATAGCA 59.229 44.000 0.00 0.00 0.00 3.49
3528 6063 5.184287 GGGGTATCACTCTCACTCTAATAGC 59.816 48.000 0.00 0.00 0.00 2.97
3529 6064 6.827586 GGGGTATCACTCTCACTCTAATAG 57.172 45.833 0.00 0.00 0.00 1.73


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.