Multiple sequence alignment - TraesCS4B01G205200

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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 TraesCS4B01G205200 chr4B 100.000 4359 0 0 738 5096 437215705 437211347 0.000000e+00 8050
1 TraesCS4B01G205200 chr4B 100.000 460 0 0 1 460 437216442 437215983 0.000000e+00 850
2 TraesCS4B01G205200 chr4A 95.303 2789 80 23 1776 4541 111088945 111091705 0.000000e+00 4377
3 TraesCS4B01G205200 chr4A 89.107 1019 50 21 738 1738 111087889 111088864 0.000000e+00 1210
4 TraesCS4B01G205200 chr4A 91.630 227 13 2 230 456 111087604 111087824 4.960000e-80 309
5 TraesCS4B01G205200 chr4A 86.275 255 10 7 3 238 111087333 111087581 2.350000e-63 254
6 TraesCS4B01G205200 chr4D 95.323 2694 80 19 2300 4957 353759782 353757099 0.000000e+00 4235
7 TraesCS4B01G205200 chr4D 94.388 1568 71 9 738 2301 353761396 353759842 0.000000e+00 2392
8 TraesCS4B01G205200 chr4D 92.308 468 24 9 3 460 353761914 353761449 0.000000e+00 654
9 TraesCS4B01G205200 chr2B 81.591 880 95 27 3160 4023 595292858 595293686 0.000000e+00 665
10 TraesCS4B01G205200 chr3D 90.130 385 16 3 18 381 14156629 14157012 9.920000e-132 481


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 TraesCS4B01G205200 chr4B 437211347 437216442 5095 True 4450.0 8050 100.000000 1 5096 2 chr4B.!!$R1 5095
1 TraesCS4B01G205200 chr4A 111087333 111091705 4372 False 1537.5 4377 90.578750 3 4541 4 chr4A.!!$F1 4538
2 TraesCS4B01G205200 chr4D 353757099 353761914 4815 True 2427.0 4235 94.006333 3 4957 3 chr4D.!!$R1 4954
3 TraesCS4B01G205200 chr2B 595292858 595293686 828 False 665.0 665 81.591000 3160 4023 1 chr2B.!!$F1 863

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
142 179 0.319083 ACAACGCCCACTAATGACGA 59.681 50.000 0.00 0.0 0.00 4.20 F
144 181 1.127951 CAACGCCCACTAATGACGAAC 59.872 52.381 0.00 0.0 0.00 3.95 F
1330 1415 1.154225 CGAAATTCACCTGTGCGCC 60.154 57.895 4.18 0.0 0.00 6.53 F
1540 1628 0.247736 AAGCTCCGCTCCACTGTAAG 59.752 55.000 0.00 0.0 38.25 2.34 F
1931 2076 0.252284 AGAAGTGGATCGGACACCCT 60.252 55.000 0.00 0.0 39.63 4.34 F
3095 3303 1.219124 CGACTACCACAGGCAGCAT 59.781 57.895 0.00 0.0 29.64 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1413 1501 0.321021 AGCAGCTCTCCACTCACAAG 59.679 55.000 0.00 0.0 0.00 3.16 R
1441 1529 0.397564 TTGCACACTGAGATCTGGCA 59.602 50.000 0.00 0.0 0.00 4.92 R
2563 2770 1.661463 AGAAGATTGGTGAGGCAGGA 58.339 50.000 0.00 0.0 0.00 3.86 R
2907 3114 2.313342 TGGGTTAACATTGCCCCAGTAT 59.687 45.455 8.10 0.0 42.21 2.12 R
3900 4135 2.227388 CACTTCTGGGTTGATCAACTGC 59.773 50.000 31.81 19.3 40.94 4.40 R
4819 5090 0.669932 GCAAACATGCCATTTCCGCA 60.670 50.000 0.00 0.0 41.28 5.69 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
44 45 3.313874 CGAAGCCATCACCCTCCT 58.686 61.111 0.00 0.00 0.00 3.69
45 46 1.153289 CGAAGCCATCACCCTCCTG 60.153 63.158 0.00 0.00 0.00 3.86
46 47 1.452833 GAAGCCATCACCCTCCTGC 60.453 63.158 0.00 0.00 0.00 4.85
47 48 1.919600 GAAGCCATCACCCTCCTGCT 61.920 60.000 0.00 0.00 0.00 4.24
48 49 0.621571 AAGCCATCACCCTCCTGCTA 60.622 55.000 0.00 0.00 0.00 3.49
139 176 2.737783 CGTAAACAACGCCCACTAATGA 59.262 45.455 0.00 0.00 46.10 2.57
140 177 3.423907 CGTAAACAACGCCCACTAATGAC 60.424 47.826 0.00 0.00 46.10 3.06
141 178 1.153353 AACAACGCCCACTAATGACG 58.847 50.000 0.00 0.00 0.00 4.35
142 179 0.319083 ACAACGCCCACTAATGACGA 59.681 50.000 0.00 0.00 0.00 4.20
143 180 1.270412 ACAACGCCCACTAATGACGAA 60.270 47.619 0.00 0.00 0.00 3.85
144 181 1.127951 CAACGCCCACTAATGACGAAC 59.872 52.381 0.00 0.00 0.00 3.95
170 215 1.485066 ACCAAATCCTCGCCTAATCGT 59.515 47.619 0.00 0.00 0.00 3.73
192 237 2.704065 GGTTCTAAATCTGGGATCCGGA 59.296 50.000 6.61 6.61 43.71 5.14
231 306 3.490759 CCATCGACCGCACTGCAC 61.491 66.667 1.11 0.00 0.00 4.57
280 355 2.970324 GAACGGCACTGCACGGAA 60.970 61.111 13.99 0.00 0.00 4.30
370 445 3.621805 TCGTTGGAGCAAGCCGGA 61.622 61.111 5.05 0.00 0.00 5.14
854 934 3.003480 CCCGTTCATTCTCAACTTCCTC 58.997 50.000 0.00 0.00 0.00 3.71
1112 1197 3.034878 CGTCGGGATCTGATCGCT 58.965 61.111 25.88 0.00 39.80 4.93
1133 1218 2.279120 GGATCTCGCTGCTCGTGG 60.279 66.667 0.00 0.00 39.67 4.94
1266 1351 2.586900 GAGAACGAGAAGAACGAGGTG 58.413 52.381 0.00 0.00 34.70 4.00
1272 1357 2.164338 GAGAAGAACGAGGTGAGGACT 58.836 52.381 0.00 0.00 0.00 3.85
1329 1414 1.797537 GCGAAATTCACCTGTGCGC 60.798 57.895 0.00 0.00 36.12 6.09
1330 1415 1.154225 CGAAATTCACCTGTGCGCC 60.154 57.895 4.18 0.00 0.00 6.53
1331 1416 1.154225 GAAATTCACCTGTGCGCCG 60.154 57.895 4.18 0.00 0.00 6.46
1402 1490 4.828072 ACTGAGTGGGTCTAGAATTTCC 57.172 45.455 0.00 0.00 0.00 3.13
1413 1501 5.121925 GGTCTAGAATTTCCTGAAAACGACC 59.878 44.000 0.00 5.32 33.56 4.79
1441 1529 1.074405 TGGAGAGCTGCTTTGTTCCAT 59.926 47.619 16.80 0.00 30.21 3.41
1461 1549 0.801251 GCCAGATCTCAGTGTGCAAC 59.199 55.000 0.00 0.00 37.35 4.17
1463 1551 1.073964 CAGATCTCAGTGTGCAACCG 58.926 55.000 0.00 0.00 34.36 4.44
1464 1552 0.671781 AGATCTCAGTGTGCAACCGC 60.672 55.000 0.00 0.00 34.36 5.68
1509 1597 1.897560 GGCACCACTGTTTAGAGCTT 58.102 50.000 0.00 0.00 0.00 3.74
1510 1598 3.053831 GGCACCACTGTTTAGAGCTTA 57.946 47.619 0.00 0.00 0.00 3.09
1511 1599 3.610911 GGCACCACTGTTTAGAGCTTAT 58.389 45.455 0.00 0.00 0.00 1.73
1512 1600 4.766375 GGCACCACTGTTTAGAGCTTATA 58.234 43.478 0.00 0.00 0.00 0.98
1536 1624 2.125350 GGAAGCTCCGCTCCACTG 60.125 66.667 0.00 0.00 38.25 3.66
1538 1626 1.605058 GGAAGCTCCGCTCCACTGTA 61.605 60.000 0.00 0.00 38.25 2.74
1540 1628 0.247736 AAGCTCCGCTCCACTGTAAG 59.752 55.000 0.00 0.00 38.25 2.34
1569 1658 2.898729 ATTACAGAGATCCAGTGGCG 57.101 50.000 3.51 0.00 0.00 5.69
1590 1679 4.541779 CGATGCTTTAGAGAACTATCGCT 58.458 43.478 0.00 0.00 39.24 4.93
1593 1682 5.830000 TGCTTTAGAGAACTATCGCTGTA 57.170 39.130 0.00 0.00 36.32 2.74
1595 1684 4.977347 GCTTTAGAGAACTATCGCTGTACC 59.023 45.833 0.00 0.00 36.32 3.34
1639 1728 7.651027 TCAGAATGTGAGATCAACTGAGATA 57.349 36.000 0.00 0.00 37.40 1.98
1667 1764 3.242804 GCAATGCTTCTGAGATCTTGCTC 60.243 47.826 0.00 0.00 33.75 4.26
1715 1818 6.711277 TCTGAATTACATAGACTGCCTGTTT 58.289 36.000 0.00 0.00 0.00 2.83
1750 1889 5.330455 TCTCTCATGTAGTGTTTGCCTAG 57.670 43.478 0.00 0.00 0.00 3.02
1754 1893 6.108687 TCTCATGTAGTGTTTGCCTAGAATG 58.891 40.000 0.00 0.00 0.00 2.67
1755 1894 5.804639 TCATGTAGTGTTTGCCTAGAATGT 58.195 37.500 0.00 0.00 0.00 2.71
1768 1907 8.523915 TTGCCTAGAATGTTACATGATTCAAT 57.476 30.769 0.00 0.00 31.98 2.57
1829 1973 6.844696 TCTGTACAGACAAACTTAGCAAAG 57.155 37.500 21.74 0.00 35.38 2.77
1931 2076 0.252284 AGAAGTGGATCGGACACCCT 60.252 55.000 0.00 0.00 39.63 4.34
2011 2156 9.565090 AAATTCTCGATTCATCTCATTTCCATA 57.435 29.630 0.00 0.00 0.00 2.74
2095 2240 9.877178 CACTGTTCCTTTAAAGTATACAGATCT 57.123 33.333 29.18 15.92 34.10 2.75
2289 2435 7.202016 TGCTTATGTGACTTTCTTTTGGTAG 57.798 36.000 0.00 0.00 0.00 3.18
2358 2565 4.620803 CGCTCAAGTGTTATAGTCCAACCT 60.621 45.833 0.00 0.00 0.00 3.50
2410 2617 3.272574 TGAAAACAAGCCAAATTGCCA 57.727 38.095 0.00 0.00 33.28 4.92
2471 2678 8.948631 ATATCTTCGTCATTACATTCTTGTGT 57.051 30.769 0.00 0.00 36.53 3.72
2505 2712 9.049523 TCACATTAATTTTACATTTTGCTGCAA 57.950 25.926 11.69 11.69 0.00 4.08
2506 2713 9.661187 CACATTAATTTTACATTTTGCTGCAAA 57.339 25.926 22.84 22.84 0.00 3.68
2563 2770 3.157087 CCAAATCTACCACCTTGCTTGT 58.843 45.455 0.00 0.00 0.00 3.16
2613 2820 1.691976 CCCTGTCAAGGTGTGTGTAGA 59.308 52.381 0.00 0.00 42.74 2.59
2666 2873 3.099905 CTCCTATCCTGTCCTGACACAA 58.900 50.000 0.00 0.00 36.21 3.33
2990 3197 3.684103 TTTCTAAACTTGTGCCACGTG 57.316 42.857 9.08 9.08 0.00 4.49
3003 3210 1.873591 GCCACGTGAGTCTCATGTTTT 59.126 47.619 22.59 1.71 43.56 2.43
3095 3303 1.219124 CGACTACCACAGGCAGCAT 59.781 57.895 0.00 0.00 29.64 3.79
3158 3367 9.774742 CTATTTGCTAATAGTTTGTTTGTCCTC 57.225 33.333 16.81 0.00 38.83 3.71
3247 3457 3.153919 TGCCAGGATTTTCAACACCTAC 58.846 45.455 0.00 0.00 0.00 3.18
3475 3688 7.277098 TCGCTGATATGGTTTGTTTTCTACTAC 59.723 37.037 0.00 0.00 0.00 2.73
3861 4096 2.429250 TCCATTCAGCTTCAATGCATGG 59.571 45.455 0.00 0.00 36.17 3.66
4228 4464 6.490721 TCCAATAAACCAATTACACCTTCGTT 59.509 34.615 0.00 0.00 0.00 3.85
4292 4528 3.596214 CTGGCTGTTTGTATTACCGTCT 58.404 45.455 0.00 0.00 0.00 4.18
4300 4536 7.556733 TGTTTGTATTACCGTCTCTTTTTGT 57.443 32.000 0.00 0.00 0.00 2.83
4318 4554 2.846193 TGTGGAACTTGTGCTCCTTAC 58.154 47.619 0.00 0.00 38.04 2.34
4386 4622 6.657117 GGTGCCATTTTGGGTTTGTTATTAAT 59.343 34.615 0.00 0.00 38.19 1.40
4387 4623 7.175816 GGTGCCATTTTGGGTTTGTTATTAATT 59.824 33.333 0.00 0.00 38.19 1.40
4388 4624 8.572185 GTGCCATTTTGGGTTTGTTATTAATTT 58.428 29.630 0.00 0.00 38.19 1.82
4389 4625 9.136323 TGCCATTTTGGGTTTGTTATTAATTTT 57.864 25.926 0.00 0.00 38.19 1.82
4421 4657 7.255035 GCTGCAAAGATATTTCTCTGATGCTTA 60.255 37.037 0.00 0.00 38.63 3.09
4436 4673 4.325204 TGATGCTTACACGTCGTTGTATTC 59.675 41.667 0.00 0.00 31.98 1.75
4517 4761 7.463544 TCAGTATCAAGCACATTTAACATTCG 58.536 34.615 0.00 0.00 0.00 3.34
4531 4775 3.417069 ACATTCGGGATTTGACACTCA 57.583 42.857 0.00 0.00 0.00 3.41
4558 4802 2.586258 ATGACGCTGATCACCTGTAC 57.414 50.000 0.00 0.00 0.00 2.90
4565 4809 3.581755 GCTGATCACCTGTACGTGTTAA 58.418 45.455 0.00 0.00 35.18 2.01
4576 4832 5.272167 TGTACGTGTTAAGCTATGTTTGC 57.728 39.130 0.00 0.00 0.00 3.68
4599 4856 5.511888 GCCCACTACCTTGTCTGTTTACTTA 60.512 44.000 0.00 0.00 0.00 2.24
4614 4871 6.346096 TGTTTACTTACTTCTGAAGCACAGT 58.654 36.000 17.00 16.64 45.86 3.55
4627 4884 1.521450 GCACAGTTGCTGAGCCACAT 61.521 55.000 11.41 0.00 46.17 3.21
4628 4885 0.240145 CACAGTTGCTGAGCCACATG 59.760 55.000 11.41 8.59 35.18 3.21
4641 4899 3.421844 AGCCACATGGTAAGGTTTCTTC 58.578 45.455 0.00 0.00 37.57 2.87
4650 4908 5.856156 TGGTAAGGTTTCTTCGTATGTGAA 58.144 37.500 0.00 0.00 34.59 3.18
4651 4909 6.469410 TGGTAAGGTTTCTTCGTATGTGAAT 58.531 36.000 0.00 0.00 34.59 2.57
4652 4910 6.938030 TGGTAAGGTTTCTTCGTATGTGAATT 59.062 34.615 0.00 0.00 34.59 2.17
4653 4911 7.446013 TGGTAAGGTTTCTTCGTATGTGAATTT 59.554 33.333 0.00 0.00 34.59 1.82
4654 4912 7.961283 GGTAAGGTTTCTTCGTATGTGAATTTC 59.039 37.037 0.00 0.00 34.59 2.17
4656 4914 8.842358 AAGGTTTCTTCGTATGTGAATTTCTA 57.158 30.769 0.00 0.00 0.00 2.10
4657 4915 9.449719 AAGGTTTCTTCGTATGTGAATTTCTAT 57.550 29.630 0.00 0.00 0.00 1.98
4658 4916 8.883731 AGGTTTCTTCGTATGTGAATTTCTATG 58.116 33.333 0.00 0.00 0.00 2.23
4662 4930 7.684670 TCTTCGTATGTGAATTTCTATGTTGC 58.315 34.615 0.00 0.00 0.00 4.17
4694 4963 5.975939 GCAAAATAATTGCTAGCTGGAGAAG 59.024 40.000 17.23 0.00 41.87 2.85
4704 4974 6.291377 TGCTAGCTGGAGAAGGTAATATTTG 58.709 40.000 17.23 0.00 38.38 2.32
4741 5012 2.845659 ACCAGGGTCAGATTATCCACA 58.154 47.619 0.00 0.00 0.00 4.17
4753 5024 7.173218 GTCAGATTATCCACAAGAAAACTGACA 59.827 37.037 15.21 0.00 45.13 3.58
4756 5027 6.618287 TTATCCACAAGAAAACTGACAGTG 57.382 37.500 9.33 0.00 0.00 3.66
4767 5038 3.413846 ACTGACAGTGTTGCATCTGAT 57.586 42.857 7.47 5.46 35.84 2.90
4778 5049 6.425721 AGTGTTGCATCTGATTTTGGAAATTG 59.574 34.615 0.00 0.00 0.00 2.32
4784 5055 7.716123 TGCATCTGATTTTGGAAATTGTTTCTT 59.284 29.630 2.84 0.00 39.59 2.52
4789 5060 5.964887 TTTTGGAAATTGTTTCTTCAGCG 57.035 34.783 2.84 0.00 39.59 5.18
4804 5075 2.825836 GCGACCTGAAGGGCCATG 60.826 66.667 6.18 0.00 41.34 3.66
4805 5076 2.124570 CGACCTGAAGGGCCATGG 60.125 66.667 7.63 7.63 41.34 3.66
4819 5090 2.025863 GCCATGGCCTCTGCTTGTAAT 61.026 52.381 27.24 0.00 37.74 1.89
4821 5092 1.066605 CATGGCCTCTGCTTGTAATGC 59.933 52.381 3.32 0.00 37.74 3.56
4829 5100 2.801063 CTGCTTGTAATGCGGAAATGG 58.199 47.619 0.00 0.00 45.46 3.16
4851 5122 0.746063 TGTTTGCCACCTGCTGAAAG 59.254 50.000 0.00 0.00 42.00 2.62
4853 5124 1.408702 GTTTGCCACCTGCTGAAAGAA 59.591 47.619 0.00 0.00 42.00 2.52
4898 5169 4.986659 GCAATTCTGCTGATTGTTTTCACT 59.013 37.500 13.25 0.00 45.74 3.41
4901 5172 7.148853 GCAATTCTGCTGATTGTTTTCACTTAG 60.149 37.037 13.25 0.00 45.74 2.18
4904 5175 5.474532 TCTGCTGATTGTTTTCACTTAGCAT 59.525 36.000 0.00 0.00 45.45 3.79
4908 5179 6.620733 GCTGATTGTTTTCACTTAGCATACGT 60.621 38.462 0.00 0.00 40.17 3.57
4909 5180 7.197071 TGATTGTTTTCACTTAGCATACGTT 57.803 32.000 0.00 0.00 0.00 3.99
4932 5203 1.197721 CGTTCAGTTCACTCATTGCCC 59.802 52.381 0.00 0.00 0.00 5.36
4937 5208 1.026718 GTTCACTCATTGCCCGAGGG 61.027 60.000 3.22 3.22 35.08 4.30
4938 5209 1.198094 TTCACTCATTGCCCGAGGGA 61.198 55.000 13.28 0.00 41.17 4.20
4939 5210 1.198094 TCACTCATTGCCCGAGGGAA 61.198 55.000 13.28 0.00 39.96 3.97
4941 5212 1.821332 CTCATTGCCCGAGGGAAGC 60.821 63.158 13.28 0.00 36.27 3.86
4970 5249 3.762407 TGGCACACACTTTAGCTAGAA 57.238 42.857 0.00 0.00 0.00 2.10
4971 5250 4.079980 TGGCACACACTTTAGCTAGAAA 57.920 40.909 0.00 0.00 0.00 2.52
4972 5251 4.651778 TGGCACACACTTTAGCTAGAAAT 58.348 39.130 0.00 0.00 0.00 2.17
4973 5252 5.070001 TGGCACACACTTTAGCTAGAAATT 58.930 37.500 0.00 0.00 0.00 1.82
4974 5253 5.181245 TGGCACACACTTTAGCTAGAAATTC 59.819 40.000 0.00 0.00 0.00 2.17
4975 5254 5.412904 GGCACACACTTTAGCTAGAAATTCT 59.587 40.000 0.00 0.00 0.00 2.40
4976 5255 6.072452 GGCACACACTTTAGCTAGAAATTCTT 60.072 38.462 0.00 0.00 0.00 2.52
4977 5256 6.798959 GCACACACTTTAGCTAGAAATTCTTG 59.201 38.462 0.00 0.00 0.00 3.02
4978 5257 7.520614 GCACACACTTTAGCTAGAAATTCTTGT 60.521 37.037 0.00 0.00 0.00 3.16
4979 5258 7.800380 CACACACTTTAGCTAGAAATTCTTGTG 59.200 37.037 14.80 14.80 0.00 3.33
4980 5259 7.715249 ACACACTTTAGCTAGAAATTCTTGTGA 59.285 33.333 20.31 2.89 0.00 3.58
4981 5260 8.725148 CACACTTTAGCTAGAAATTCTTGTGAT 58.275 33.333 12.31 1.74 0.00 3.06
4982 5261 9.289782 ACACTTTAGCTAGAAATTCTTGTGATT 57.710 29.630 0.00 0.00 0.00 2.57
4983 5262 9.766277 CACTTTAGCTAGAAATTCTTGTGATTC 57.234 33.333 0.00 0.00 0.00 2.52
4984 5263 9.507329 ACTTTAGCTAGAAATTCTTGTGATTCA 57.493 29.630 0.00 0.00 0.00 2.57
4989 5268 9.852091 AGCTAGAAATTCTTGTGATTCAAAATC 57.148 29.630 0.00 0.00 35.48 2.17
4990 5269 9.852091 GCTAGAAATTCTTGTGATTCAAAATCT 57.148 29.630 0.00 0.00 35.48 2.40
5006 5285 9.844257 ATTCAAAATCTTTAATTGTTTGGGACA 57.156 25.926 0.00 0.00 36.19 4.02
5007 5286 8.885494 TCAAAATCTTTAATTGTTTGGGACAG 57.115 30.769 0.00 0.00 42.39 3.51
5008 5287 8.482128 TCAAAATCTTTAATTGTTTGGGACAGT 58.518 29.630 0.00 0.00 42.39 3.55
5009 5288 8.764287 CAAAATCTTTAATTGTTTGGGACAGTC 58.236 33.333 0.00 0.00 42.39 3.51
5010 5289 7.839680 AATCTTTAATTGTTTGGGACAGTCT 57.160 32.000 0.00 0.00 42.39 3.24
5011 5290 7.839680 ATCTTTAATTGTTTGGGACAGTCTT 57.160 32.000 0.00 0.00 42.39 3.01
5012 5291 7.654022 TCTTTAATTGTTTGGGACAGTCTTT 57.346 32.000 0.00 0.00 42.39 2.52
5013 5292 7.712797 TCTTTAATTGTTTGGGACAGTCTTTC 58.287 34.615 0.00 0.00 42.39 2.62
5014 5293 7.559897 TCTTTAATTGTTTGGGACAGTCTTTCT 59.440 33.333 0.00 0.00 42.39 2.52
5015 5294 7.654022 TTAATTGTTTGGGACAGTCTTTCTT 57.346 32.000 0.00 0.00 42.39 2.52
5016 5295 5.774498 ATTGTTTGGGACAGTCTTTCTTC 57.226 39.130 0.00 0.00 42.39 2.87
5017 5296 4.503714 TGTTTGGGACAGTCTTTCTTCT 57.496 40.909 0.00 0.00 42.39 2.85
5018 5297 5.623956 TGTTTGGGACAGTCTTTCTTCTA 57.376 39.130 0.00 0.00 42.39 2.10
5019 5298 5.611374 TGTTTGGGACAGTCTTTCTTCTAG 58.389 41.667 0.00 0.00 42.39 2.43
5020 5299 3.963428 TGGGACAGTCTTTCTTCTAGC 57.037 47.619 0.00 0.00 0.00 3.42
5021 5300 3.511477 TGGGACAGTCTTTCTTCTAGCT 58.489 45.455 0.00 0.00 0.00 3.32
5022 5301 3.259374 TGGGACAGTCTTTCTTCTAGCTG 59.741 47.826 0.00 0.00 0.00 4.24
5023 5302 3.511934 GGGACAGTCTTTCTTCTAGCTGA 59.488 47.826 0.00 0.00 0.00 4.26
5024 5303 4.021016 GGGACAGTCTTTCTTCTAGCTGAA 60.021 45.833 0.00 0.00 0.00 3.02
5025 5304 4.926832 GGACAGTCTTTCTTCTAGCTGAAC 59.073 45.833 0.00 0.00 0.00 3.18
5026 5305 5.279256 GGACAGTCTTTCTTCTAGCTGAACT 60.279 44.000 0.00 0.00 0.00 3.01
5027 5306 5.537188 ACAGTCTTTCTTCTAGCTGAACTG 58.463 41.667 0.00 4.48 31.61 3.16
5028 5307 5.303078 ACAGTCTTTCTTCTAGCTGAACTGA 59.697 40.000 15.54 7.88 30.59 3.41
5029 5308 6.014669 ACAGTCTTTCTTCTAGCTGAACTGAT 60.015 38.462 15.54 0.00 30.59 2.90
5030 5309 6.873076 CAGTCTTTCTTCTAGCTGAACTGATT 59.127 38.462 0.00 0.00 0.00 2.57
5031 5310 7.063308 CAGTCTTTCTTCTAGCTGAACTGATTC 59.937 40.741 0.00 0.00 35.18 2.52
5032 5311 6.034470 GTCTTTCTTCTAGCTGAACTGATTCG 59.966 42.308 0.00 0.00 37.69 3.34
5033 5312 5.392767 TTCTTCTAGCTGAACTGATTCGT 57.607 39.130 0.00 0.00 37.69 3.85
5034 5313 4.738124 TCTTCTAGCTGAACTGATTCGTG 58.262 43.478 0.00 0.00 37.69 4.35
5035 5314 4.459337 TCTTCTAGCTGAACTGATTCGTGA 59.541 41.667 0.00 0.00 37.69 4.35
5036 5315 4.991153 TCTAGCTGAACTGATTCGTGAT 57.009 40.909 0.00 0.00 37.69 3.06
5037 5316 4.676546 TCTAGCTGAACTGATTCGTGATG 58.323 43.478 0.00 0.00 37.69 3.07
5038 5317 3.325293 AGCTGAACTGATTCGTGATGT 57.675 42.857 0.00 0.00 37.69 3.06
5039 5318 4.456280 AGCTGAACTGATTCGTGATGTA 57.544 40.909 0.00 0.00 37.69 2.29
5040 5319 4.428209 AGCTGAACTGATTCGTGATGTAG 58.572 43.478 0.00 0.00 37.69 2.74
5041 5320 3.000724 GCTGAACTGATTCGTGATGTAGC 59.999 47.826 0.00 0.00 37.69 3.58
5042 5321 4.176271 CTGAACTGATTCGTGATGTAGCA 58.824 43.478 0.00 0.00 37.69 3.49
5043 5322 3.926527 TGAACTGATTCGTGATGTAGCAC 59.073 43.478 0.00 0.00 37.69 4.40
5044 5323 2.893637 ACTGATTCGTGATGTAGCACC 58.106 47.619 0.00 0.00 35.37 5.01
5045 5324 2.497675 ACTGATTCGTGATGTAGCACCT 59.502 45.455 0.00 0.00 35.37 4.00
5046 5325 3.055819 ACTGATTCGTGATGTAGCACCTT 60.056 43.478 0.00 0.00 35.37 3.50
5047 5326 3.521560 TGATTCGTGATGTAGCACCTTC 58.478 45.455 0.00 0.00 35.37 3.46
5048 5327 3.056179 TGATTCGTGATGTAGCACCTTCA 60.056 43.478 0.00 0.00 35.37 3.02
5049 5328 3.394674 TTCGTGATGTAGCACCTTCAA 57.605 42.857 0.00 0.00 35.37 2.69
5050 5329 3.394674 TCGTGATGTAGCACCTTCAAA 57.605 42.857 0.00 0.00 35.37 2.69
5051 5330 3.734463 TCGTGATGTAGCACCTTCAAAA 58.266 40.909 0.00 0.00 35.37 2.44
5052 5331 4.130857 TCGTGATGTAGCACCTTCAAAAA 58.869 39.130 0.00 0.00 35.37 1.94
5079 5358 8.747538 ATTACCTAGTTTTCTTCAACTTGTGT 57.252 30.769 0.00 0.00 38.07 3.72
5080 5359 6.436843 ACCTAGTTTTCTTCAACTTGTGTG 57.563 37.500 0.00 0.00 38.07 3.82
5081 5360 5.944007 ACCTAGTTTTCTTCAACTTGTGTGT 59.056 36.000 0.00 0.00 38.07 3.72
5082 5361 6.128007 ACCTAGTTTTCTTCAACTTGTGTGTG 60.128 38.462 0.00 0.00 38.07 3.82
5083 5362 5.705609 AGTTTTCTTCAACTTGTGTGTGT 57.294 34.783 0.00 0.00 32.81 3.72
5084 5363 6.811253 AGTTTTCTTCAACTTGTGTGTGTA 57.189 33.333 0.00 0.00 32.81 2.90
5085 5364 6.608610 AGTTTTCTTCAACTTGTGTGTGTAC 58.391 36.000 0.00 0.00 32.81 2.90
5086 5365 6.430000 AGTTTTCTTCAACTTGTGTGTGTACT 59.570 34.615 0.00 0.00 32.81 2.73
5087 5366 6.417191 TTTCTTCAACTTGTGTGTGTACTC 57.583 37.500 0.00 0.00 0.00 2.59
5088 5367 4.439057 TCTTCAACTTGTGTGTGTACTCC 58.561 43.478 0.00 0.00 0.00 3.85
5089 5368 3.897141 TCAACTTGTGTGTGTACTCCA 57.103 42.857 0.00 0.00 0.00 3.86
5090 5369 4.209307 TCAACTTGTGTGTGTACTCCAA 57.791 40.909 0.00 0.00 0.00 3.53
5091 5370 4.776349 TCAACTTGTGTGTGTACTCCAAT 58.224 39.130 0.00 0.00 0.00 3.16
5092 5371 4.574421 TCAACTTGTGTGTGTACTCCAATG 59.426 41.667 0.00 0.00 0.00 2.82
5093 5372 4.150897 ACTTGTGTGTGTACTCCAATGT 57.849 40.909 0.00 0.00 0.00 2.71
5094 5373 4.127171 ACTTGTGTGTGTACTCCAATGTC 58.873 43.478 0.00 0.00 0.00 3.06
5095 5374 4.141711 ACTTGTGTGTGTACTCCAATGTCT 60.142 41.667 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.350310 ACCGACAGGAGTTTGGGGTT 61.350 55.000 0.00 0.00 41.02 4.11
1 2 1.765597 GACCGACAGGAGTTTGGGGT 61.766 60.000 0.00 0.00 41.02 4.95
44 45 1.202604 GCGGGTAAGGTTAGCATAGCA 60.203 52.381 1.66 0.00 33.00 3.49
45 46 1.509703 GCGGGTAAGGTTAGCATAGC 58.490 55.000 1.66 0.77 33.00 2.97
46 47 1.414919 TGGCGGGTAAGGTTAGCATAG 59.585 52.381 1.66 0.00 33.00 2.23
47 48 1.498264 TGGCGGGTAAGGTTAGCATA 58.502 50.000 1.66 0.00 33.00 3.14
48 49 0.621609 TTGGCGGGTAAGGTTAGCAT 59.378 50.000 1.66 0.00 33.00 3.79
137 174 1.279846 GATTTGGTAGGGGGTTCGTCA 59.720 52.381 0.00 0.00 0.00 4.35
139 176 0.622136 GGATTTGGTAGGGGGTTCGT 59.378 55.000 0.00 0.00 0.00 3.85
140 177 0.916809 AGGATTTGGTAGGGGGTTCG 59.083 55.000 0.00 0.00 0.00 3.95
141 178 1.134189 CGAGGATTTGGTAGGGGGTTC 60.134 57.143 0.00 0.00 0.00 3.62
142 179 0.916809 CGAGGATTTGGTAGGGGGTT 59.083 55.000 0.00 0.00 0.00 4.11
143 180 1.632965 GCGAGGATTTGGTAGGGGGT 61.633 60.000 0.00 0.00 0.00 4.95
144 181 1.148498 GCGAGGATTTGGTAGGGGG 59.852 63.158 0.00 0.00 0.00 5.40
170 215 2.438021 CCGGATCCCAGATTTAGAACCA 59.562 50.000 6.06 0.00 0.00 3.67
280 355 3.009723 CGGGCGATTAATCAATGCCTAT 58.990 45.455 23.70 0.00 37.92 2.57
370 445 2.594303 CACACCACGCCACACCAT 60.594 61.111 0.00 0.00 0.00 3.55
379 454 2.899838 CCACCACACCACACCACG 60.900 66.667 0.00 0.00 0.00 4.94
832 912 2.372172 AGGAAGTTGAGAATGAACGGGT 59.628 45.455 0.00 0.00 37.26 5.28
894 974 3.964688 ACCCAAAACCTTCCGAGATTTTT 59.035 39.130 0.00 0.00 0.00 1.94
1112 1197 2.498248 GAGCAGCGAGATCCAGCA 59.502 61.111 11.83 0.00 35.48 4.41
1290 1375 4.384247 CGCTAACAGCTAGAATGATGCTAC 59.616 45.833 0.00 0.00 39.60 3.58
1402 1490 2.287915 CCACTCACAAGGTCGTTTTCAG 59.712 50.000 0.00 0.00 0.00 3.02
1413 1501 0.321021 AGCAGCTCTCCACTCACAAG 59.679 55.000 0.00 0.00 0.00 3.16
1441 1529 0.397564 TTGCACACTGAGATCTGGCA 59.602 50.000 0.00 0.00 0.00 4.92
1461 1549 0.707822 GCAAAAACTAATGCACGCGG 59.292 50.000 12.47 0.00 42.12 6.46
1527 1615 1.195448 CAAAGCACTTACAGTGGAGCG 59.805 52.381 6.05 0.00 46.01 5.03
1536 1624 7.201652 GGATCTCTGTAATTCCAAAGCACTTAC 60.202 40.741 0.00 0.00 0.00 2.34
1538 1626 5.649831 GGATCTCTGTAATTCCAAAGCACTT 59.350 40.000 0.00 0.00 0.00 3.16
1540 1628 4.943705 TGGATCTCTGTAATTCCAAAGCAC 59.056 41.667 0.00 0.00 35.38 4.40
1547 1636 3.471680 GCCACTGGATCTCTGTAATTCC 58.528 50.000 0.00 0.00 0.00 3.01
1569 1658 5.285651 ACAGCGATAGTTCTCTAAAGCATC 58.714 41.667 0.00 0.00 36.12 3.91
1590 1679 3.450904 AGATCCAGGTTAAGCTGGTACA 58.549 45.455 39.16 27.34 41.28 2.90
1593 1682 2.839228 AGAGATCCAGGTTAAGCTGGT 58.161 47.619 39.16 30.01 41.28 4.00
1595 1684 4.836825 TGAAAGAGATCCAGGTTAAGCTG 58.163 43.478 24.59 24.59 0.00 4.24
1612 1701 6.872547 TCTCAGTTGATCTCACATTCTGAAAG 59.127 38.462 0.00 0.00 34.08 2.62
1639 1728 3.969287 TCTCAGAAGCATTGCTACTGT 57.031 42.857 12.39 0.00 38.25 3.55
1644 1733 2.683867 GCAAGATCTCAGAAGCATTGCT 59.316 45.455 5.03 5.03 42.56 3.91
1702 1805 2.969950 AGTACCACAAACAGGCAGTCTA 59.030 45.455 0.00 0.00 0.00 2.59
1703 1806 1.768870 AGTACCACAAACAGGCAGTCT 59.231 47.619 0.00 0.00 0.00 3.24
1706 1809 2.146342 CTCAGTACCACAAACAGGCAG 58.854 52.381 0.00 0.00 0.00 4.85
1715 1818 2.586648 TGAGAGAGCTCAGTACCACA 57.413 50.000 17.77 3.31 45.88 4.17
1768 1907 8.575589 ACAACACTGAATTTTCTACAATATGCA 58.424 29.630 0.00 0.00 0.00 3.96
1829 1973 3.381908 AGACACGATCAGATTGGTCTACC 59.618 47.826 15.29 0.00 34.13 3.18
1931 2076 4.421058 CGTGACGGATGAGTTCAAATCTA 58.579 43.478 0.00 0.00 0.00 1.98
2011 2156 8.413229 GTGTTCATTACAAAATAGTATGGCCAT 58.587 33.333 24.45 24.45 38.80 4.40
2129 2274 5.132502 CCATTGGCTATGACCTTATGAACA 58.867 41.667 10.57 0.00 36.26 3.18
2209 2355 4.899352 ACTCAAAGGCTTCACTGACTAT 57.101 40.909 0.00 0.00 0.00 2.12
2289 2435 5.974751 CGTCCTTTCTATCTAGAACAGAAGC 59.025 44.000 15.75 9.68 41.64 3.86
2505 2712 2.303022 AGTGGTTCGGTGACATCTGATT 59.697 45.455 0.00 0.00 0.00 2.57
2506 2713 1.902508 AGTGGTTCGGTGACATCTGAT 59.097 47.619 0.00 0.00 0.00 2.90
2563 2770 1.661463 AGAAGATTGGTGAGGCAGGA 58.339 50.000 0.00 0.00 0.00 3.86
2613 2820 8.050778 TGACAGAATAAACACAAAAACAGAGT 57.949 30.769 0.00 0.00 0.00 3.24
2666 2873 6.658849 TGTACAAGATATTTACACCCATGCT 58.341 36.000 0.00 0.00 0.00 3.79
2907 3114 2.313342 TGGGTTAACATTGCCCCAGTAT 59.687 45.455 8.10 0.00 42.21 2.12
3095 3303 4.929479 AGGTCAAAGTATTACCAATGCCA 58.071 39.130 0.00 0.00 35.64 4.92
3158 3367 6.594159 ACAACTCATAACCGAAGACTTATTGG 59.406 38.462 0.00 0.00 0.00 3.16
3247 3457 3.819564 TCAATGTTCATCCTAGGTCCG 57.180 47.619 9.08 0.00 0.00 4.79
3861 4096 8.796475 ACATGTTATTATACCATCCAGAATTGC 58.204 33.333 0.00 0.00 0.00 3.56
3900 4135 2.227388 CACTTCTGGGTTGATCAACTGC 59.773 50.000 31.81 19.30 40.94 4.40
4292 4528 3.130340 GGAGCACAAGTTCCACAAAAAGA 59.870 43.478 0.00 0.00 43.95 2.52
4300 4536 1.414919 ACGTAAGGAGCACAAGTTCCA 59.585 47.619 1.30 0.00 46.66 3.53
4318 4554 2.354821 GGGAAGTGCATAGGCTAAAACG 59.645 50.000 0.00 0.00 41.91 3.60
4421 4657 4.304110 AGACAATGAATACAACGACGTGT 58.696 39.130 0.00 4.78 35.43 4.49
4517 4761 8.345565 GTCATATGTTAATGAGTGTCAAATCCC 58.654 37.037 1.90 0.00 36.57 3.85
4531 4775 5.698089 CAGGTGATCAGCGTCATATGTTAAT 59.302 40.000 18.64 0.00 0.00 1.40
4558 4802 2.486203 TGGGCAAACATAGCTTAACACG 59.514 45.455 0.00 0.00 0.00 4.49
4565 4809 1.916181 AGGTAGTGGGCAAACATAGCT 59.084 47.619 0.00 0.00 0.00 3.32
4576 4832 4.618920 AGTAAACAGACAAGGTAGTGGG 57.381 45.455 0.00 0.00 0.00 4.61
4614 4871 1.614051 CCTTACCATGTGGCTCAGCAA 60.614 52.381 0.00 0.00 39.32 3.91
4627 4884 5.471556 TCACATACGAAGAAACCTTACCA 57.528 39.130 0.00 0.00 0.00 3.25
4628 4885 6.980051 ATTCACATACGAAGAAACCTTACC 57.020 37.500 0.00 0.00 0.00 2.85
4641 4899 6.775088 ACAGCAACATAGAAATTCACATACG 58.225 36.000 0.00 0.00 0.00 3.06
4676 4944 5.950544 TTACCTTCTCCAGCTAGCAATTA 57.049 39.130 18.83 0.00 0.00 1.40
4678 4946 6.694445 ATATTACCTTCTCCAGCTAGCAAT 57.306 37.500 18.83 6.18 0.00 3.56
4694 4963 2.605818 TGCAGCGTCGACAAATATTACC 59.394 45.455 17.16 0.00 0.00 2.85
4704 4974 2.126071 TAAGGCTGCAGCGTCGAC 60.126 61.111 31.98 18.20 43.26 4.20
4741 5012 4.641989 AGATGCAACACTGTCAGTTTTCTT 59.358 37.500 1.67 0.00 0.00 2.52
4753 5024 5.534207 TTTCCAAAATCAGATGCAACACT 57.466 34.783 0.00 0.00 0.00 3.55
4756 5027 6.790285 ACAATTTCCAAAATCAGATGCAAC 57.210 33.333 0.00 0.00 0.00 4.17
4767 5038 5.518487 GTCGCTGAAGAAACAATTTCCAAAA 59.482 36.000 0.00 0.00 40.54 2.44
4784 5055 3.706373 GGCCCTTCAGGTCGCTGA 61.706 66.667 0.00 0.00 38.26 4.26
4789 5060 2.440980 GCCATGGCCCTTCAGGTC 60.441 66.667 27.24 0.00 42.51 3.85
4804 5075 1.718757 CCGCATTACAAGCAGAGGCC 61.719 60.000 0.00 0.00 42.56 5.19
4805 5076 0.744414 TCCGCATTACAAGCAGAGGC 60.744 55.000 0.00 0.00 41.61 4.70
4819 5090 0.669932 GCAAACATGCCATTTCCGCA 60.670 50.000 0.00 0.00 41.28 5.69
4840 5111 4.500375 GCAAACATCTTTCTTTCAGCAGGT 60.500 41.667 0.00 0.00 0.00 4.00
4851 5122 3.431415 AGTAAGGGGGCAAACATCTTTC 58.569 45.455 0.00 0.00 0.00 2.62
4853 5124 2.618045 CGAGTAAGGGGGCAAACATCTT 60.618 50.000 0.00 0.00 0.00 2.40
4908 5179 2.254546 ATGAGTGAACTGAACGGCAA 57.745 45.000 0.00 0.00 0.00 4.52
4909 5180 1.872952 CAATGAGTGAACTGAACGGCA 59.127 47.619 0.00 0.00 0.00 5.69
4913 5184 1.197721 CGGGCAATGAGTGAACTGAAC 59.802 52.381 0.00 0.00 0.00 3.18
4932 5203 1.001378 CCACTTTGTTTGCTTCCCTCG 60.001 52.381 0.00 0.00 0.00 4.63
4937 5208 1.926510 GTGTGCCACTTTGTTTGCTTC 59.073 47.619 0.00 0.00 0.00 3.86
4938 5209 1.274728 TGTGTGCCACTTTGTTTGCTT 59.725 42.857 0.00 0.00 35.11 3.91
4939 5210 0.894141 TGTGTGCCACTTTGTTTGCT 59.106 45.000 0.00 0.00 35.11 3.91
4957 5236 9.766277 GAATCACAAGAATTTCTAGCTAAAGTG 57.234 33.333 0.00 0.00 0.00 3.16
4958 5237 9.507329 TGAATCACAAGAATTTCTAGCTAAAGT 57.493 29.630 0.00 0.00 0.00 2.66
4963 5242 9.852091 GATTTTGAATCACAAGAATTTCTAGCT 57.148 29.630 0.00 0.00 39.77 3.32
4964 5243 9.852091 AGATTTTGAATCACAAGAATTTCTAGC 57.148 29.630 0.00 0.00 39.77 3.42
4980 5259 9.844257 TGTCCCAAACAATTAAAGATTTTGAAT 57.156 25.926 0.00 0.00 34.03 2.57
4981 5260 9.323985 CTGTCCCAAACAATTAAAGATTTTGAA 57.676 29.630 0.00 0.00 37.45 2.69
4982 5261 8.482128 ACTGTCCCAAACAATTAAAGATTTTGA 58.518 29.630 0.00 0.00 37.45 2.69
4983 5262 8.661352 ACTGTCCCAAACAATTAAAGATTTTG 57.339 30.769 0.00 0.00 37.45 2.44
4984 5263 8.704668 AGACTGTCCCAAACAATTAAAGATTTT 58.295 29.630 3.76 0.00 37.45 1.82
4985 5264 8.250143 AGACTGTCCCAAACAATTAAAGATTT 57.750 30.769 3.76 0.00 37.45 2.17
4986 5265 7.839680 AGACTGTCCCAAACAATTAAAGATT 57.160 32.000 3.76 0.00 37.45 2.40
4987 5266 7.839680 AAGACTGTCCCAAACAATTAAAGAT 57.160 32.000 3.76 0.00 37.45 2.40
4988 5267 7.559897 AGAAAGACTGTCCCAAACAATTAAAGA 59.440 33.333 3.76 0.00 37.45 2.52
4989 5268 7.716612 AGAAAGACTGTCCCAAACAATTAAAG 58.283 34.615 3.76 0.00 37.45 1.85
4990 5269 7.654022 AGAAAGACTGTCCCAAACAATTAAA 57.346 32.000 3.76 0.00 37.45 1.52
4991 5270 7.559897 AGAAGAAAGACTGTCCCAAACAATTAA 59.440 33.333 3.76 0.00 37.45 1.40
4992 5271 7.060421 AGAAGAAAGACTGTCCCAAACAATTA 58.940 34.615 3.76 0.00 37.45 1.40
4993 5272 5.893824 AGAAGAAAGACTGTCCCAAACAATT 59.106 36.000 3.76 0.00 37.45 2.32
4994 5273 5.449553 AGAAGAAAGACTGTCCCAAACAAT 58.550 37.500 3.76 0.00 37.45 2.71
4995 5274 4.855340 AGAAGAAAGACTGTCCCAAACAA 58.145 39.130 3.76 0.00 37.45 2.83
4996 5275 4.503714 AGAAGAAAGACTGTCCCAAACA 57.496 40.909 3.76 0.00 36.18 2.83
4997 5276 4.452795 GCTAGAAGAAAGACTGTCCCAAAC 59.547 45.833 3.76 0.00 0.00 2.93
4998 5277 4.348168 AGCTAGAAGAAAGACTGTCCCAAA 59.652 41.667 3.76 0.00 0.00 3.28
4999 5278 3.904339 AGCTAGAAGAAAGACTGTCCCAA 59.096 43.478 3.76 0.00 0.00 4.12
5000 5279 3.259374 CAGCTAGAAGAAAGACTGTCCCA 59.741 47.826 3.76 0.00 0.00 4.37
5001 5280 3.511934 TCAGCTAGAAGAAAGACTGTCCC 59.488 47.826 3.76 0.00 0.00 4.46
5002 5281 4.792521 TCAGCTAGAAGAAAGACTGTCC 57.207 45.455 3.76 0.00 0.00 4.02
5003 5282 5.633182 CAGTTCAGCTAGAAGAAAGACTGTC 59.367 44.000 0.00 0.00 36.78 3.51
5004 5283 5.303078 TCAGTTCAGCTAGAAGAAAGACTGT 59.697 40.000 0.00 0.00 36.78 3.55
5005 5284 5.777802 TCAGTTCAGCTAGAAGAAAGACTG 58.222 41.667 0.00 1.82 36.78 3.51
5006 5285 6.603940 ATCAGTTCAGCTAGAAGAAAGACT 57.396 37.500 0.00 0.00 36.78 3.24
5007 5286 6.034470 CGAATCAGTTCAGCTAGAAGAAAGAC 59.966 42.308 0.00 0.00 36.78 3.01
5008 5287 6.096036 CGAATCAGTTCAGCTAGAAGAAAGA 58.904 40.000 0.00 0.00 36.78 2.52
5009 5288 5.866633 ACGAATCAGTTCAGCTAGAAGAAAG 59.133 40.000 0.00 0.00 36.78 2.62
5010 5289 5.635280 CACGAATCAGTTCAGCTAGAAGAAA 59.365 40.000 0.00 0.00 36.78 2.52
5011 5290 5.048013 TCACGAATCAGTTCAGCTAGAAGAA 60.048 40.000 0.00 0.00 36.78 2.52
5012 5291 4.459337 TCACGAATCAGTTCAGCTAGAAGA 59.541 41.667 0.00 0.00 36.78 2.87
5013 5292 4.738124 TCACGAATCAGTTCAGCTAGAAG 58.262 43.478 0.00 0.00 36.78 2.85
5014 5293 4.783764 TCACGAATCAGTTCAGCTAGAA 57.216 40.909 0.00 0.00 33.86 2.10
5015 5294 4.158579 ACATCACGAATCAGTTCAGCTAGA 59.841 41.667 0.00 0.00 33.86 2.43
5016 5295 4.428209 ACATCACGAATCAGTTCAGCTAG 58.572 43.478 0.00 0.00 33.86 3.42
5017 5296 4.456280 ACATCACGAATCAGTTCAGCTA 57.544 40.909 0.00 0.00 33.86 3.32
5018 5297 3.325293 ACATCACGAATCAGTTCAGCT 57.675 42.857 0.00 0.00 33.86 4.24
5019 5298 3.000724 GCTACATCACGAATCAGTTCAGC 59.999 47.826 0.00 0.00 33.86 4.26
5020 5299 4.032217 GTGCTACATCACGAATCAGTTCAG 59.968 45.833 0.00 0.00 33.86 3.02
5021 5300 3.926527 GTGCTACATCACGAATCAGTTCA 59.073 43.478 0.00 0.00 33.86 3.18
5022 5301 3.307242 GGTGCTACATCACGAATCAGTTC 59.693 47.826 0.00 0.00 37.83 3.01
5023 5302 3.055819 AGGTGCTACATCACGAATCAGTT 60.056 43.478 0.00 0.00 37.83 3.16
5024 5303 2.497675 AGGTGCTACATCACGAATCAGT 59.502 45.455 0.00 0.00 37.83 3.41
5025 5304 3.170791 AGGTGCTACATCACGAATCAG 57.829 47.619 0.00 0.00 37.83 2.90
5026 5305 3.056179 TGAAGGTGCTACATCACGAATCA 60.056 43.478 0.00 0.00 37.83 2.57
5027 5306 3.521560 TGAAGGTGCTACATCACGAATC 58.478 45.455 0.00 0.00 37.83 2.52
5028 5307 3.610040 TGAAGGTGCTACATCACGAAT 57.390 42.857 0.00 0.00 37.83 3.34
5029 5308 3.394674 TTGAAGGTGCTACATCACGAA 57.605 42.857 0.00 0.00 37.83 3.85
5030 5309 3.394674 TTTGAAGGTGCTACATCACGA 57.605 42.857 0.00 0.00 37.83 4.35
5031 5310 4.481930 TTTTTGAAGGTGCTACATCACG 57.518 40.909 0.00 0.00 37.83 4.35
5053 5332 9.185680 ACACAAGTTGAAGAAAACTAGGTAATT 57.814 29.630 10.54 0.00 39.48 1.40
5054 5333 8.621286 CACACAAGTTGAAGAAAACTAGGTAAT 58.379 33.333 10.54 0.00 39.48 1.89
5055 5334 7.608761 ACACACAAGTTGAAGAAAACTAGGTAA 59.391 33.333 10.54 0.00 39.48 2.85
5056 5335 7.065324 CACACACAAGTTGAAGAAAACTAGGTA 59.935 37.037 10.54 0.00 39.48 3.08
5057 5336 5.944007 ACACACAAGTTGAAGAAAACTAGGT 59.056 36.000 10.54 0.00 39.48 3.08
5058 5337 6.128007 ACACACACAAGTTGAAGAAAACTAGG 60.128 38.462 10.54 0.00 39.48 3.02
5059 5338 6.842163 ACACACACAAGTTGAAGAAAACTAG 58.158 36.000 10.54 0.00 39.48 2.57
5060 5339 6.811253 ACACACACAAGTTGAAGAAAACTA 57.189 33.333 10.54 0.00 39.48 2.24
5061 5340 5.705609 ACACACACAAGTTGAAGAAAACT 57.294 34.783 10.54 0.00 42.21 2.66
5062 5341 6.608610 AGTACACACACAAGTTGAAGAAAAC 58.391 36.000 10.54 0.00 0.00 2.43
5063 5342 6.128117 GGAGTACACACACAAGTTGAAGAAAA 60.128 38.462 10.54 0.00 0.00 2.29
5064 5343 5.353123 GGAGTACACACACAAGTTGAAGAAA 59.647 40.000 10.54 0.00 0.00 2.52
5065 5344 4.873827 GGAGTACACACACAAGTTGAAGAA 59.126 41.667 10.54 0.00 0.00 2.52
5066 5345 4.081365 TGGAGTACACACACAAGTTGAAGA 60.081 41.667 10.54 0.00 0.00 2.87
5067 5346 4.188462 TGGAGTACACACACAAGTTGAAG 58.812 43.478 10.54 4.21 0.00 3.02
5068 5347 4.209307 TGGAGTACACACACAAGTTGAA 57.791 40.909 10.54 0.00 0.00 2.69
5069 5348 3.897141 TGGAGTACACACACAAGTTGA 57.103 42.857 10.54 0.00 0.00 3.18
5070 5349 4.335315 ACATTGGAGTACACACACAAGTTG 59.665 41.667 0.00 0.00 30.57 3.16
5071 5350 4.523083 ACATTGGAGTACACACACAAGTT 58.477 39.130 0.00 0.00 30.57 2.66
5072 5351 4.127171 GACATTGGAGTACACACACAAGT 58.873 43.478 0.00 0.00 30.57 3.16
5073 5352 4.380531 AGACATTGGAGTACACACACAAG 58.619 43.478 0.00 0.00 30.57 3.16
5074 5353 4.415881 AGACATTGGAGTACACACACAA 57.584 40.909 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.