Multiple sequence alignment - TraesCS6A01G037700

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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 TraesCS6A01G037700 chr6A 100.000 3779 0 0 1 3779 18701339 18705117 0.000000e+00 6979
1 TraesCS6A01G037700 chr6A 82.843 204 25 6 1725 1927 18836704 18836510 1.400000e-39 174
2 TraesCS6A01G037700 chr6D 89.979 3293 197 78 1 3198 18019701 18016447 0.000000e+00 4130
3 TraesCS6A01G037700 chr6D 88.114 387 35 8 3399 3779 18016242 18015861 2.070000e-122 449
4 TraesCS6A01G037700 chr6D 89.655 87 9 0 2116 2202 309343185 309343271 1.110000e-20 111
5 TraesCS6A01G037700 chr6B 84.971 1384 99 44 593 1929 32335180 32333859 0.000000e+00 1303
6 TraesCS6A01G037700 chr6B 86.533 995 86 32 1933 2907 32333819 32332853 0.000000e+00 1051
7 TraesCS6A01G037700 chr6B 86.991 638 36 21 1 595 32335845 32335212 0.000000e+00 675
8 TraesCS6A01G037700 chr6B 86.146 397 29 14 3390 3779 32332273 32331896 4.550000e-109 405
9 TraesCS6A01G037700 chr4A 81.040 327 41 14 1180 1499 610710238 610710550 1.360000e-59 241
10 TraesCS6A01G037700 chr2D 89.655 87 9 0 2116 2202 471372054 471371968 1.110000e-20 111
11 TraesCS6A01G037700 chr2D 87.629 97 11 1 2107 2202 471896140 471896044 1.110000e-20 111
12 TraesCS6A01G037700 chr2B 85.185 108 14 2 2096 2202 550510877 550510771 3.990000e-20 110
13 TraesCS6A01G037700 chr2B 85.185 108 12 4 2096 2202 550996477 550996373 1.440000e-19 108
14 TraesCS6A01G037700 chr2A 86.598 97 12 1 2107 2202 613037371 613037275 5.160000e-19 106
15 TraesCS6A01G037700 chr2A 86.598 97 12 1 2107 2202 613174198 613174102 5.160000e-19 106


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 TraesCS6A01G037700 chr6A 18701339 18705117 3778 False 6979.0 6979 100.00000 1 3779 1 chr6A.!!$F1 3778
1 TraesCS6A01G037700 chr6D 18015861 18019701 3840 True 2289.5 4130 89.04650 1 3779 2 chr6D.!!$R1 3778
2 TraesCS6A01G037700 chr6B 32331896 32335845 3949 True 858.5 1303 86.16025 1 3779 4 chr6B.!!$R1 3778

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
248 261 0.242017 GCCATTGTGCCAACTCAGTC 59.758 55.0 0.00 0.00 0.0 3.51 F
1242 1356 0.108138 ACTACATCCTCAAGCACGGC 60.108 55.0 0.00 0.00 0.0 5.68 F
2092 2271 0.179129 GTTTTCCATGGCGCTGATGG 60.179 55.0 24.78 24.78 41.7 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 2241 0.179129 CATCAGCGCCATGGAAAACC 60.179 55.000 18.40 0.00 0.00 3.27 R
2574 2762 1.141881 CATCTGGTCCCCGACGAAG 59.858 63.158 0.00 0.00 32.65 3.79 R
3388 3803 0.321021 ACTCTTGGAGCAGCACTGAG 59.679 55.000 0.81 1.24 32.04 3.35 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
34 35 2.682856 TGTGCACAAAGGACAAAGTCTC 59.317 45.455 19.28 0.00 46.21 3.36
193 194 2.191802 TCGTAAACGAGCACACGAAAA 58.808 42.857 0.14 0.00 44.22 2.29
221 230 5.093457 TCGATTCGCCTCGATGAATATTAC 58.907 41.667 0.00 0.00 42.38 1.89
222 231 4.028429 CGATTCGCCTCGATGAATATTACG 60.028 45.833 7.43 0.00 41.12 3.18
241 254 1.457267 AGTGGTGCCATTGTGCCAA 60.457 52.632 0.00 0.00 32.26 4.52
248 261 0.242017 GCCATTGTGCCAACTCAGTC 59.758 55.000 0.00 0.00 0.00 3.51
256 269 1.202687 TGCCAACTCAGTCTGTTCCAG 60.203 52.381 0.00 0.00 0.00 3.86
303 319 5.343307 AAATTATGGTTGGCATCCAAGTC 57.657 39.130 20.44 0.00 44.82 3.01
346 362 5.048713 GTGTCAGAAAGGTCCTTGTTTATGG 60.049 44.000 4.45 0.00 0.00 2.74
355 371 5.127682 AGGTCCTTGTTTATGGATGCATTTC 59.872 40.000 4.56 0.00 33.24 2.17
404 421 2.834549 TCCTTCTGGATCCTGACTGTTC 59.165 50.000 20.06 0.00 37.46 3.18
409 426 2.830923 CTGGATCCTGACTGTTCTGTCT 59.169 50.000 14.23 0.00 37.79 3.41
531 575 1.271652 ACCCGTATCATTGGTGCACAA 60.272 47.619 20.43 3.78 44.54 3.33
565 609 2.967362 TCGCGCCGATTATTGGATAAT 58.033 42.857 0.00 0.00 38.12 1.28
656 738 5.524284 GCGTTTATCTCAGAATGCTCTCTA 58.476 41.667 0.00 0.00 35.45 2.43
850 949 3.418047 CCAAAACCGAGTGAATAACCCT 58.582 45.455 0.00 0.00 0.00 4.34
860 959 5.908341 GAGTGAATAACCCTCGAGAATCTT 58.092 41.667 15.71 0.31 0.00 2.40
943 1050 3.427503 GCCATTACCAACTCAATTCCACG 60.428 47.826 0.00 0.00 0.00 4.94
956 1063 5.484715 TCAATTCCACGGGACTAAACTAAG 58.515 41.667 0.00 0.00 0.00 2.18
962 1069 0.463295 GGGACTAAACTAAGCCGGGC 60.463 60.000 12.11 12.11 0.00 6.13
1019 1126 1.284841 ATGGAGCCTGGGGGAAGAAG 61.285 60.000 0.00 0.00 33.58 2.85
1020 1127 1.925972 GGAGCCTGGGGGAAGAAGT 60.926 63.158 0.00 0.00 33.58 3.01
1021 1128 1.604915 GAGCCTGGGGGAAGAAGTC 59.395 63.158 0.00 0.00 33.58 3.01
1026 1134 0.833949 CTGGGGGAAGAAGTCCTAGC 59.166 60.000 0.00 0.00 46.92 3.42
1071 1182 4.534168 CAACAGCTCACATTCTTGTCTTG 58.466 43.478 0.00 0.00 32.34 3.02
1072 1183 3.813443 ACAGCTCACATTCTTGTCTTGT 58.187 40.909 0.00 0.00 32.34 3.16
1074 1185 3.058432 CAGCTCACATTCTTGTCTTGTGG 60.058 47.826 2.80 0.00 40.82 4.17
1076 1187 3.743521 CTCACATTCTTGTCTTGTGGGA 58.256 45.455 0.00 0.00 43.11 4.37
1089 1200 0.487325 TGTGGGACAGAAGAGGAGGA 59.513 55.000 0.00 0.00 41.80 3.71
1091 1202 1.084866 TGGGACAGAAGAGGAGGAGA 58.915 55.000 0.00 0.00 0.00 3.71
1095 1209 2.093711 GGACAGAAGAGGAGGAGAAAGC 60.094 54.545 0.00 0.00 0.00 3.51
1099 1213 4.466015 ACAGAAGAGGAGGAGAAAGCTTAG 59.534 45.833 0.00 0.00 0.00 2.18
1118 1232 3.569135 AGGGGGTATATCAGAGGAAGG 57.431 52.381 0.00 0.00 0.00 3.46
1126 1240 1.324014 ATCAGAGGAAGGAGAGGGGA 58.676 55.000 0.00 0.00 0.00 4.81
1127 1241 0.633921 TCAGAGGAAGGAGAGGGGAG 59.366 60.000 0.00 0.00 0.00 4.30
1128 1242 0.398381 CAGAGGAAGGAGAGGGGAGG 60.398 65.000 0.00 0.00 0.00 4.30
1129 1243 1.764454 GAGGAAGGAGAGGGGAGGC 60.764 68.421 0.00 0.00 0.00 4.70
1135 1249 3.934962 GAGAGGGGAGGCGGCATC 61.935 72.222 13.08 6.01 0.00 3.91
1242 1356 0.108138 ACTACATCCTCAAGCACGGC 60.108 55.000 0.00 0.00 0.00 5.68
1263 1377 2.282040 GGCTGCTGGAGTGCTGTT 60.282 61.111 0.00 0.00 34.93 3.16
1272 1386 1.032014 GGAGTGCTGTTCCTGCAAAA 58.968 50.000 0.00 0.00 39.78 2.44
1293 1407 0.614415 CTGGTGAGCTCCCTCTCTGT 60.614 60.000 12.15 0.00 38.93 3.41
1294 1408 0.613292 TGGTGAGCTCCCTCTCTGTC 60.613 60.000 12.15 0.00 38.93 3.51
1295 1409 0.324275 GGTGAGCTCCCTCTCTGTCT 60.324 60.000 12.15 0.00 38.93 3.41
1296 1410 1.102978 GTGAGCTCCCTCTCTGTCTC 58.897 60.000 12.15 0.00 38.93 3.36
1299 1413 0.998928 AGCTCCCTCTCTGTCTCTGA 59.001 55.000 0.00 0.00 0.00 3.27
1308 1422 4.580167 CCTCTCTGTCTCTGAATGTAGGAG 59.420 50.000 0.00 0.00 0.00 3.69
1311 1425 4.923415 TCTGTCTCTGAATGTAGGAGTGA 58.077 43.478 0.00 0.00 0.00 3.41
1314 1428 7.119387 TCTGTCTCTGAATGTAGGAGTGATTA 58.881 38.462 0.00 0.00 0.00 1.75
1319 1433 7.615757 TCTCTGAATGTAGGAGTGATTAGTTGA 59.384 37.037 0.00 0.00 0.00 3.18
1320 1434 8.311395 TCTGAATGTAGGAGTGATTAGTTGAT 57.689 34.615 0.00 0.00 0.00 2.57
1346 1460 2.619697 TTCCCCTTTCATGCATGGAA 57.380 45.000 25.97 22.65 0.00 3.53
1353 1467 3.869246 CCTTTCATGCATGGAAATTGCTC 59.131 43.478 25.97 0.00 40.77 4.26
1371 1485 0.612453 TCCATGCCAATGCTTGCAGA 60.612 50.000 0.87 0.00 41.46 4.26
1411 1530 8.851145 TGATTGTGAATCATAGTCTACTAGTCC 58.149 37.037 0.00 0.00 42.69 3.85
1435 1554 8.786898 TCCAGTAGCATTAGCAATAATTTGATC 58.213 33.333 0.00 0.00 45.49 2.92
1437 1556 9.955208 CAGTAGCATTAGCAATAATTTGATCAA 57.045 29.630 3.38 3.38 45.49 2.57
1439 1558 9.185192 GTAGCATTAGCAATAATTTGATCAACC 57.815 33.333 7.89 0.00 45.49 3.77
1450 1569 4.582701 TTTGATCAACCTGCATCGTTTT 57.417 36.364 7.89 0.00 0.00 2.43
1451 1570 3.829886 TGATCAACCTGCATCGTTTTC 57.170 42.857 0.00 0.00 0.00 2.29
1508 1627 4.437682 TGGAACCTTACATCCATGATCC 57.562 45.455 0.00 0.00 40.74 3.36
1511 1630 3.498774 ACCTTACATCCATGATCCAGC 57.501 47.619 0.00 0.00 0.00 4.85
1635 1754 5.587844 ACATGATCCAAGCTTGAACATAGTC 59.412 40.000 28.05 13.49 0.00 2.59
1641 1760 3.287867 AGCTTGAACATAGTCCCCATG 57.712 47.619 0.00 0.00 0.00 3.66
1650 1769 3.198635 ACATAGTCCCCATGTCAGTCAAG 59.801 47.826 0.00 0.00 30.82 3.02
1652 1771 2.338809 AGTCCCCATGTCAGTCAAGAA 58.661 47.619 0.00 0.00 0.00 2.52
1653 1772 2.039084 AGTCCCCATGTCAGTCAAGAAC 59.961 50.000 0.00 0.00 0.00 3.01
1654 1773 2.039084 GTCCCCATGTCAGTCAAGAACT 59.961 50.000 0.00 0.00 39.44 3.01
1655 1774 2.303022 TCCCCATGTCAGTCAAGAACTC 59.697 50.000 0.00 0.00 35.45 3.01
1656 1775 2.038952 CCCCATGTCAGTCAAGAACTCA 59.961 50.000 0.00 0.00 35.45 3.41
1657 1776 3.496692 CCCCATGTCAGTCAAGAACTCAA 60.497 47.826 0.00 0.00 35.45 3.02
1658 1777 4.136796 CCCATGTCAGTCAAGAACTCAAA 58.863 43.478 0.00 0.00 35.45 2.69
1659 1778 4.580167 CCCATGTCAGTCAAGAACTCAAAA 59.420 41.667 0.00 0.00 35.45 2.44
1669 1788 6.767902 AGTCAAGAACTCAAAATTCTAGCACA 59.232 34.615 0.00 0.00 35.31 4.57
1697 1816 4.081406 TGATGTGGCAATTTGAGCTAGTT 58.919 39.130 0.00 0.00 0.00 2.24
1698 1817 3.921119 TGTGGCAATTTGAGCTAGTTG 57.079 42.857 0.00 0.00 0.00 3.16
1699 1818 2.030007 TGTGGCAATTTGAGCTAGTTGC 60.030 45.455 7.91 7.91 44.55 4.17
1703 1822 4.284378 GCAATTTGAGCTAGTTGCCTAG 57.716 45.455 5.62 0.00 44.23 3.02
1704 1823 3.691609 GCAATTTGAGCTAGTTGCCTAGT 59.308 43.478 5.62 0.00 42.35 2.57
1705 1824 4.876107 GCAATTTGAGCTAGTTGCCTAGTA 59.124 41.667 5.62 0.00 42.35 1.82
1706 1825 5.007136 GCAATTTGAGCTAGTTGCCTAGTAG 59.993 44.000 5.62 0.00 42.35 2.57
1764 1883 4.031418 TGAATTTGTTGTGCTCTGTGTG 57.969 40.909 0.00 0.00 0.00 3.82
1775 1894 3.127895 GTGCTCTGTGTGTTTGTTTGGTA 59.872 43.478 0.00 0.00 0.00 3.25
1780 1899 4.093703 TCTGTGTGTTTGTTTGGTAACTCG 59.906 41.667 0.00 0.00 35.24 4.18
1781 1900 3.103007 GTGTGTTTGTTTGGTAACTCGC 58.897 45.455 0.00 0.00 35.24 5.03
1863 1982 1.153549 GAAGCGCGGGATGTTCTCT 60.154 57.895 8.83 0.00 0.00 3.10
1869 1988 0.537188 GCGGGATGTTCTCTCAGGAA 59.463 55.000 0.00 0.00 0.00 3.36
1881 2000 1.075698 TCTCAGGAAGAGGAGGACGTT 59.924 52.381 0.00 0.00 44.81 3.99
1920 2039 2.955660 CAAGTTGGGCAACAAGTAAGGA 59.044 45.455 0.00 0.00 41.82 3.36
1938 2093 6.674419 AGTAAGGAATCCTCACCTAAACATCT 59.326 38.462 0.56 0.00 35.25 2.90
1940 2095 4.100189 AGGAATCCTCACCTAAACATCTCG 59.900 45.833 0.00 0.00 34.47 4.04
1946 2101 5.011738 TCCTCACCTAAACATCTCGAAAACT 59.988 40.000 0.00 0.00 0.00 2.66
1957 2112 7.962964 ACATCTCGAAAACTTGAGAACAATA 57.037 32.000 0.00 0.00 43.89 1.90
1962 2117 8.670135 TCTCGAAAACTTGAGAACAATACAAAA 58.330 29.630 0.00 0.00 38.25 2.44
2031 2187 5.195001 TGAAATCAAAACCCCTTCGAAAG 57.805 39.130 0.00 0.00 0.00 2.62
2036 2192 2.969300 AAACCCCTTCGAAAGCGGCA 62.969 55.000 1.45 0.00 38.28 5.69
2050 2206 4.096558 GGCATGTTTCGCGGCGAA 62.097 61.111 31.54 31.54 44.28 4.70
2057 2213 4.270392 TTCGCGGCGAAAAGATGA 57.730 50.000 32.82 11.01 43.00 2.92
2059 2215 0.946700 TTCGCGGCGAAAAGATGACA 60.947 50.000 32.82 9.45 43.00 3.58
2060 2216 1.225745 CGCGGCGAAAAGATGACAC 60.226 57.895 19.16 0.00 0.00 3.67
2061 2217 1.866237 GCGGCGAAAAGATGACACA 59.134 52.632 12.98 0.00 0.00 3.72
2063 2219 1.135689 GCGGCGAAAAGATGACACAAT 60.136 47.619 12.98 0.00 0.00 2.71
2064 2220 2.668279 GCGGCGAAAAGATGACACAATT 60.668 45.455 12.98 0.00 0.00 2.32
2065 2221 3.163594 CGGCGAAAAGATGACACAATTC 58.836 45.455 0.00 0.00 0.00 2.17
2067 2223 4.161333 GGCGAAAAGATGACACAATTCAG 58.839 43.478 0.00 0.00 0.00 3.02
2072 2241 6.576313 CGAAAAGATGACACAATTCAGACTTG 59.424 38.462 0.00 0.00 31.15 3.16
2078 2247 5.890334 TGACACAATTCAGACTTGGTTTTC 58.110 37.500 5.56 0.00 0.00 2.29
2092 2271 0.179129 GTTTTCCATGGCGCTGATGG 60.179 55.000 24.78 24.78 41.70 3.51
2101 2280 0.599728 GGCGCTGATGGTCTGAGATC 60.600 60.000 7.64 0.00 0.00 2.75
2104 2283 1.955778 CGCTGATGGTCTGAGATCTCT 59.044 52.381 22.95 1.75 0.00 3.10
2105 2284 2.287728 CGCTGATGGTCTGAGATCTCTG 60.288 54.545 22.95 21.64 0.00 3.35
2286 2468 4.408821 TCCATGAGCGCCACCACC 62.409 66.667 2.29 0.00 0.00 4.61
2450 2635 1.152368 AGCAGCAGGCCAAGAACTT 59.848 52.632 5.01 0.00 46.50 2.66
2478 2666 2.512515 GACTGGATGCCGACTGCC 60.513 66.667 0.00 0.00 40.16 4.85
2742 2969 1.300931 CATGGGCGACATCTACGGG 60.301 63.158 0.00 0.00 37.84 5.28
2767 2994 1.511464 AGCACGACGAACGACGATC 60.511 57.895 22.29 13.79 45.77 3.69
2828 3056 1.228245 ACCCCTGTGCATGTGTGAC 60.228 57.895 0.00 0.00 0.00 3.67
2830 3058 0.822944 CCCCTGTGCATGTGTGACAA 60.823 55.000 0.00 0.00 0.00 3.18
2832 3060 1.269206 CCCTGTGCATGTGTGACAAAC 60.269 52.381 0.00 0.00 0.00 2.93
2837 3065 4.502016 TGTGCATGTGTGACAAACAAAAT 58.498 34.783 1.72 0.00 41.57 1.82
2838 3066 4.934001 TGTGCATGTGTGACAAACAAAATT 59.066 33.333 1.72 0.00 41.57 1.82
2860 3088 6.942886 TTTGTTCTTTGTGTTCATGTTGTC 57.057 33.333 0.00 0.00 0.00 3.18
2889 3117 6.402981 AAAATGGAAAGAGGTGGGTATACT 57.597 37.500 2.25 0.00 0.00 2.12
2984 3213 6.038271 CCCTTAGGTTGGACATAATTCTTTCG 59.962 42.308 0.00 0.00 0.00 3.46
3049 3280 4.222114 GTGTAAAGTGCAAATGTGAGCTC 58.778 43.478 6.82 6.82 0.00 4.09
3091 3322 8.192110 GGTAAATTTTAGCAAATATTCGTCCCA 58.808 33.333 12.31 0.00 31.89 4.37
3094 3325 2.348411 AGCAAATATTCGTCCCAGGG 57.652 50.000 0.00 0.00 0.00 4.45
3098 3329 3.686120 GCAAATATTCGTCCCAGGGGTAA 60.686 47.826 5.33 0.00 36.47 2.85
3099 3330 4.528920 CAAATATTCGTCCCAGGGGTAAA 58.471 43.478 5.33 0.00 36.47 2.01
3131 3387 9.120538 ACAAGTTATGATGTTGAACTACACTTT 57.879 29.630 0.00 0.00 33.13 2.66
3177 3440 8.931385 AAAATGTATGATTGTAATGTCTTGCC 57.069 30.769 0.00 0.00 0.00 4.52
3209 3505 9.499479 AATTATGAGATTGAATTATGCTCGAGT 57.501 29.630 15.13 0.00 0.00 4.18
3210 3506 6.782298 ATGAGATTGAATTATGCTCGAGTG 57.218 37.500 15.13 0.00 0.00 3.51
3211 3507 4.509230 TGAGATTGAATTATGCTCGAGTGC 59.491 41.667 15.13 1.33 0.00 4.40
3212 3508 4.701765 AGATTGAATTATGCTCGAGTGCT 58.298 39.130 15.13 1.53 0.00 4.40
3213 3509 5.121811 AGATTGAATTATGCTCGAGTGCTT 58.878 37.500 15.13 2.23 0.00 3.91
3215 3511 3.198068 TGAATTATGCTCGAGTGCTTCC 58.802 45.455 15.13 0.00 0.00 3.46
3219 3515 4.465632 TTATGCTCGAGTGCTTCCTAAA 57.534 40.909 15.13 0.00 0.00 1.85
3220 3516 2.831685 TGCTCGAGTGCTTCCTAAAA 57.168 45.000 15.13 0.00 0.00 1.52
3221 3517 2.688507 TGCTCGAGTGCTTCCTAAAAG 58.311 47.619 15.13 0.00 0.00 2.27
3235 3531 8.818141 GCTTCCTAAAAGCAAAGATAAAACTT 57.182 30.769 4.96 0.00 42.56 2.66
3236 3532 9.261180 GCTTCCTAAAAGCAAAGATAAAACTTT 57.739 29.630 4.96 0.00 42.56 2.66
3246 3542 9.389755 AGCAAAGATAAAACTTTTAAAAAGCCA 57.610 25.926 1.66 0.00 37.91 4.75
3247 3543 9.995957 GCAAAGATAAAACTTTTAAAAAGCCAA 57.004 25.926 1.66 0.00 37.91 4.52
3250 3546 9.899661 AAGATAAAACTTTTAAAAAGCCAAGGT 57.100 25.926 1.66 0.00 0.00 3.50
3251 3547 9.542462 AGATAAAACTTTTAAAAAGCCAAGGTC 57.458 29.630 1.66 0.00 0.00 3.85
3252 3548 9.320352 GATAAAACTTTTAAAAAGCCAAGGTCA 57.680 29.630 1.66 0.00 0.00 4.02
3253 3549 7.609760 AAAACTTTTAAAAAGCCAAGGTCAG 57.390 32.000 1.66 0.00 0.00 3.51
3254 3550 5.932619 ACTTTTAAAAAGCCAAGGTCAGT 57.067 34.783 1.66 0.00 0.00 3.41
3270 3566 7.940850 CAAGGTCAGTTGGAAATTTTCTAAGA 58.059 34.615 8.04 1.61 30.41 2.10
3302 3598 6.920210 GCTAGCAAAAAGAAGTCAACTGAAAT 59.080 34.615 10.63 0.00 0.00 2.17
3313 3658 6.441088 AGTCAACTGAAATTTCCTACTCCT 57.559 37.500 15.48 2.74 0.00 3.69
3317 3662 9.232473 GTCAACTGAAATTTCCTACTCCTAAAT 57.768 33.333 15.48 0.00 0.00 1.40
3341 3686 7.945033 TTCTTATGAAATTTCAAACTGTGCC 57.055 32.000 23.91 0.00 41.13 5.01
3350 3765 1.761784 TCAAACTGTGCCTTGGCAAAT 59.238 42.857 16.55 1.88 0.00 2.32
3351 3766 2.170187 TCAAACTGTGCCTTGGCAAATT 59.830 40.909 16.55 8.03 0.00 1.82
3354 3769 1.202557 ACTGTGCCTTGGCAAATTGTG 60.203 47.619 16.55 1.66 0.00 3.33
3383 3798 8.309163 TGAAACAAACAGGAATTAAATCATGC 57.691 30.769 5.13 0.00 34.59 4.06
3384 3799 7.930325 TGAAACAAACAGGAATTAAATCATGCA 59.070 29.630 5.13 0.00 34.59 3.96
3385 3800 7.656707 AACAAACAGGAATTAAATCATGCAC 57.343 32.000 5.13 0.00 34.59 4.57
3386 3801 6.757237 ACAAACAGGAATTAAATCATGCACA 58.243 32.000 5.13 0.00 34.59 4.57
3387 3802 6.869913 ACAAACAGGAATTAAATCATGCACAG 59.130 34.615 5.13 0.00 34.59 3.66
3388 3803 5.002464 ACAGGAATTAAATCATGCACAGC 57.998 39.130 5.13 0.00 34.59 4.40
3392 3807 5.067413 AGGAATTAAATCATGCACAGCTCAG 59.933 40.000 0.00 0.00 0.00 3.35
3407 3822 0.321021 CTCAGTGCTGCTCCAAGAGT 59.679 55.000 0.00 0.00 31.39 3.24
3430 3845 7.542025 AGTTCTTGCATTCAAAGAATATGGAC 58.458 34.615 1.34 0.00 0.00 4.02
3432 3847 7.707624 TCTTGCATTCAAAGAATATGGACTT 57.292 32.000 0.00 0.00 0.00 3.01
3433 3848 7.541162 TCTTGCATTCAAAGAATATGGACTTG 58.459 34.615 0.00 0.00 0.00 3.16
3434 3849 7.394077 TCTTGCATTCAAAGAATATGGACTTGA 59.606 33.333 0.00 0.00 0.00 3.02
3435 3850 7.465353 TGCATTCAAAGAATATGGACTTGAA 57.535 32.000 0.00 0.00 0.00 2.69
3459 3874 6.718454 CTCAGTGGAGTTGATACAGAAAAG 57.282 41.667 0.00 0.00 36.36 2.27
3482 3897 7.061566 AGGCAGTAATAAAACACCAACATTT 57.938 32.000 0.00 0.00 0.00 2.32
3523 3947 7.875327 AAAGTAAACCTTACACAGATGTTGT 57.125 32.000 0.00 0.00 40.48 3.32
3550 3974 6.796705 ACTGTGTAACCTTACATGCTTAAC 57.203 37.500 1.32 0.00 44.59 2.01
3560 3984 8.770010 ACCTTACATGCTTAACTCTAGTAGAT 57.230 34.615 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 1.329599 CACATCACCATGCATGTCTCG 59.670 52.381 24.58 12.07 30.48 4.04
79 80 6.164876 AGATTATATGCTAAGCTGCAGAGTG 58.835 40.000 20.43 4.97 46.71 3.51
80 81 6.014755 TGAGATTATATGCTAAGCTGCAGAGT 60.015 38.462 20.43 6.33 46.71 3.24
193 194 2.044555 TCGAGGCGAATCGACCTGT 61.045 57.895 19.90 0.00 46.20 4.00
221 230 2.562912 GCACAATGGCACCACTCG 59.437 61.111 0.00 0.00 0.00 4.18
222 231 2.964978 GGCACAATGGCACCACTC 59.035 61.111 0.00 0.00 43.14 3.51
256 269 7.826260 TTTTTCTTTCACATTCACCAAGTTC 57.174 32.000 0.00 0.00 0.00 3.01
282 295 3.706086 GGACTTGGATGCCAACCATAATT 59.294 43.478 0.00 0.00 38.75 1.40
283 296 3.299503 GGACTTGGATGCCAACCATAAT 58.700 45.455 0.00 0.00 38.75 1.28
303 319 1.492176 ACAGGTTAGCCATGATGAGGG 59.508 52.381 0.00 0.00 37.19 4.30
397 414 2.611722 GCCAGGAAGAGACAGAACAGTC 60.612 54.545 0.00 0.00 38.81 3.51
404 421 0.108424 CGAAGGCCAGGAAGAGACAG 60.108 60.000 5.01 0.00 0.00 3.51
409 426 2.184533 TCATTACGAAGGCCAGGAAGA 58.815 47.619 5.01 0.00 0.00 2.87
531 575 0.737715 GCGCGATGAAGGTCAGACTT 60.738 55.000 12.10 0.00 0.00 3.01
565 609 8.828644 TCAAATTTGCGTAGTAAGAAAACACTA 58.171 29.630 13.54 0.00 31.13 2.74
582 626 4.498682 CCCTCTTCGGATGATCAAATTTGC 60.499 45.833 13.54 1.14 33.16 3.68
588 632 0.104855 CGCCCTCTTCGGATGATCAA 59.895 55.000 0.00 0.00 33.16 2.57
850 949 3.449018 CCTCCTTCCTCAAAGATTCTCGA 59.551 47.826 0.00 0.00 37.12 4.04
860 959 1.909302 GGATGTCACCTCCTTCCTCAA 59.091 52.381 0.00 0.00 0.00 3.02
943 1050 0.463295 GCCCGGCTTAGTTTAGTCCC 60.463 60.000 0.71 0.00 0.00 4.46
962 1069 2.202570 GGCTGCTGCATTTCGCTG 60.203 61.111 17.89 0.00 43.06 5.18
1019 1126 1.227002 GTAGTGGCAGCGCTAGGAC 60.227 63.158 10.99 0.00 0.00 3.85
1020 1127 2.423898 GGTAGTGGCAGCGCTAGGA 61.424 63.158 10.99 0.00 0.00 2.94
1021 1128 2.107141 GGTAGTGGCAGCGCTAGG 59.893 66.667 10.99 0.00 0.00 3.02
1026 1134 2.510238 GCAGAGGTAGTGGCAGCG 60.510 66.667 0.00 0.00 0.00 5.18
1060 1171 4.103153 TCTTCTGTCCCACAAGACAAGAAT 59.897 41.667 0.00 0.00 45.77 2.40
1071 1182 1.190643 CTCCTCCTCTTCTGTCCCAC 58.809 60.000 0.00 0.00 0.00 4.61
1072 1183 1.084866 TCTCCTCCTCTTCTGTCCCA 58.915 55.000 0.00 0.00 0.00 4.37
1074 1185 2.093711 GCTTTCTCCTCCTCTTCTGTCC 60.094 54.545 0.00 0.00 0.00 4.02
1076 1187 2.901291 AGCTTTCTCCTCCTCTTCTGT 58.099 47.619 0.00 0.00 0.00 3.41
1085 1196 1.585895 ACCCCCTAAGCTTTCTCCTC 58.414 55.000 3.20 0.00 0.00 3.71
1089 1200 5.727630 TCTGATATACCCCCTAAGCTTTCT 58.272 41.667 3.20 0.00 0.00 2.52
1091 1202 4.846940 CCTCTGATATACCCCCTAAGCTTT 59.153 45.833 3.20 0.00 0.00 3.51
1095 1209 5.026790 CCTTCCTCTGATATACCCCCTAAG 58.973 50.000 0.00 0.00 0.00 2.18
1099 1213 3.077695 TCTCCTTCCTCTGATATACCCCC 59.922 52.174 0.00 0.00 0.00 5.40
1118 1232 3.934962 GATGCCGCCTCCCCTCTC 61.935 72.222 0.00 0.00 0.00 3.20
1126 1240 2.048784 CATCGATCGATGCCGCCT 60.049 61.111 37.03 12.00 44.27 5.52
1133 1247 2.743718 GGCACCCCATCGATCGAT 59.256 61.111 24.60 24.60 34.81 3.59
1134 1248 3.911698 CGGCACCCCATCGATCGA 61.912 66.667 21.86 21.86 0.00 3.59
1135 1249 4.969196 CCGGCACCCCATCGATCG 62.969 72.222 9.36 9.36 0.00 3.69
1136 1250 3.809374 GACCGGCACCCCATCGATC 62.809 68.421 0.00 0.00 0.00 3.69
1137 1251 3.861797 GACCGGCACCCCATCGAT 61.862 66.667 0.00 0.00 0.00 3.59
1285 1399 4.531854 TCCTACATTCAGAGACAGAGAGG 58.468 47.826 0.00 0.00 0.00 3.69
1293 1407 7.615757 TCAACTAATCACTCCTACATTCAGAGA 59.384 37.037 0.00 0.00 0.00 3.10
1294 1408 7.776107 TCAACTAATCACTCCTACATTCAGAG 58.224 38.462 0.00 0.00 0.00 3.35
1295 1409 7.718334 TCAACTAATCACTCCTACATTCAGA 57.282 36.000 0.00 0.00 0.00 3.27
1296 1410 9.469807 GTATCAACTAATCACTCCTACATTCAG 57.530 37.037 0.00 0.00 0.00 3.02
1308 1422 7.339482 AGGGGAAAGAAGTATCAACTAATCAC 58.661 38.462 0.00 0.00 33.75 3.06
1311 1425 8.390921 TGAAAGGGGAAAGAAGTATCAACTAAT 58.609 33.333 0.00 0.00 33.75 1.73
1314 1428 6.200878 TGAAAGGGGAAAGAAGTATCAACT 57.799 37.500 0.00 0.00 37.65 3.16
1319 1433 4.934356 TGCATGAAAGGGGAAAGAAGTAT 58.066 39.130 0.00 0.00 0.00 2.12
1320 1434 4.380843 TGCATGAAAGGGGAAAGAAGTA 57.619 40.909 0.00 0.00 0.00 2.24
1411 1530 9.955208 TTGATCAAATTATTGCTAATGCTACTG 57.045 29.630 5.45 0.00 40.48 2.74
1435 1554 2.988493 CCATTGAAAACGATGCAGGTTG 59.012 45.455 6.69 0.00 0.00 3.77
1437 1556 2.238521 ACCATTGAAAACGATGCAGGT 58.761 42.857 0.00 0.00 0.00 4.00
1439 1558 4.507388 ACAAAACCATTGAAAACGATGCAG 59.493 37.500 0.00 0.00 0.00 4.41
1472 1591 4.232091 AGGTTCCAAGTAGAACTCCAAGA 58.768 43.478 4.58 0.00 44.56 3.02
1563 1682 2.440409 AGCTCTTTGTAGGTGCATTGG 58.560 47.619 0.00 0.00 0.00 3.16
1575 1694 7.066766 ACAGATTTCTAGGCAATTAGCTCTTTG 59.933 37.037 0.00 0.00 44.79 2.77
1635 1754 2.038952 TGAGTTCTTGACTGACATGGGG 59.961 50.000 0.00 0.00 39.19 4.96
1641 1760 7.041780 TGCTAGAATTTTGAGTTCTTGACTGAC 60.042 37.037 0.00 0.00 39.19 3.51
1650 1769 8.482429 CACATTTTGTGCTAGAATTTTGAGTTC 58.518 33.333 0.00 0.00 41.89 3.01
1652 1771 7.935338 CACATTTTGTGCTAGAATTTTGAGT 57.065 32.000 0.00 0.00 41.89 3.41
1669 1788 4.453136 GCTCAAATTGCCACATCACATTTT 59.547 37.500 0.00 0.00 0.00 1.82
1697 1816 6.188407 AGTGTTTCAGAGATACTACTAGGCA 58.812 40.000 0.00 0.00 0.00 4.75
1698 1817 6.702716 AGTGTTTCAGAGATACTACTAGGC 57.297 41.667 0.00 0.00 0.00 3.93
1699 1818 8.514330 AGAAGTGTTTCAGAGATACTACTAGG 57.486 38.462 0.00 0.00 35.70 3.02
1705 1824 9.274206 GGTAAAAAGAAGTGTTTCAGAGATACT 57.726 33.333 0.00 0.00 35.70 2.12
1706 1825 9.274206 AGGTAAAAAGAAGTGTTTCAGAGATAC 57.726 33.333 0.00 0.00 35.70 2.24
1764 1883 2.356695 ACCTGCGAGTTACCAAACAAAC 59.643 45.455 0.00 0.00 38.12 2.93
1781 1900 0.747283 GCCATTCCTCTGCAGACCTG 60.747 60.000 13.74 3.03 0.00 4.00
1863 1982 1.257743 CAACGTCCTCCTCTTCCTGA 58.742 55.000 0.00 0.00 0.00 3.86
1869 1988 1.924731 TGATGACAACGTCCTCCTCT 58.075 50.000 0.00 0.00 0.00 3.69
1881 2000 0.770499 TGGCTTGGAGGTTGATGACA 59.230 50.000 0.00 0.00 0.00 3.58
1920 2039 5.677319 TTCGAGATGTTTAGGTGAGGATT 57.323 39.130 0.00 0.00 0.00 3.01
1938 2093 8.237949 TGTTTTGTATTGTTCTCAAGTTTTCGA 58.762 29.630 0.00 0.00 36.97 3.71
1969 2124 4.641094 TGTTTGTGTAGTCGGAATTTTGGT 59.359 37.500 0.00 0.00 0.00 3.67
1970 2125 5.176407 TGTTTGTGTAGTCGGAATTTTGG 57.824 39.130 0.00 0.00 0.00 3.28
1977 2132 6.094325 AGTTGATTTTTGTTTGTGTAGTCGGA 59.906 34.615 0.00 0.00 0.00 4.55
1979 2134 6.964370 TCAGTTGATTTTTGTTTGTGTAGTCG 59.036 34.615 0.00 0.00 0.00 4.18
2013 2168 1.539827 CGCTTTCGAAGGGGTTTTGAT 59.460 47.619 15.08 0.00 37.76 2.57
2050 2206 5.829924 ACCAAGTCTGAATTGTGTCATCTTT 59.170 36.000 15.63 0.00 0.00 2.52
2053 2209 5.695851 AACCAAGTCTGAATTGTGTCATC 57.304 39.130 15.63 0.00 0.00 2.92
2055 2211 5.163561 GGAAAACCAAGTCTGAATTGTGTCA 60.164 40.000 15.63 0.00 0.00 3.58
2056 2212 5.163561 TGGAAAACCAAGTCTGAATTGTGTC 60.164 40.000 15.63 4.07 0.00 3.67
2057 2213 4.709397 TGGAAAACCAAGTCTGAATTGTGT 59.291 37.500 15.63 10.58 0.00 3.72
2059 2215 5.221501 CCATGGAAAACCAAGTCTGAATTGT 60.222 40.000 5.56 2.78 0.00 2.71
2060 2216 5.232463 CCATGGAAAACCAAGTCTGAATTG 58.768 41.667 5.56 10.66 0.00 2.32
2061 2217 4.262592 GCCATGGAAAACCAAGTCTGAATT 60.263 41.667 18.40 0.00 0.00 2.17
2063 2219 2.627699 GCCATGGAAAACCAAGTCTGAA 59.372 45.455 18.40 0.00 0.00 3.02
2064 2220 2.238521 GCCATGGAAAACCAAGTCTGA 58.761 47.619 18.40 0.00 0.00 3.27
2065 2221 1.068333 CGCCATGGAAAACCAAGTCTG 60.068 52.381 18.40 0.00 0.00 3.51
2067 2223 0.388520 GCGCCATGGAAAACCAAGTC 60.389 55.000 18.40 0.00 0.00 3.01
2072 2241 0.179129 CATCAGCGCCATGGAAAACC 60.179 55.000 18.40 0.00 0.00 3.27
2078 2247 2.184830 CAGACCATCAGCGCCATGG 61.185 63.158 26.97 26.97 45.74 3.66
2086 2261 4.646040 AGAACAGAGATCTCAGACCATCAG 59.354 45.833 24.39 5.33 0.00 2.90
2092 2271 5.146010 ACCAAAGAACAGAGATCTCAGAC 57.854 43.478 24.39 14.96 0.00 3.51
2101 2280 2.158755 ACCACCTGACCAAAGAACAGAG 60.159 50.000 0.00 0.00 34.07 3.35
2104 2283 1.474320 CGACCACCTGACCAAAGAACA 60.474 52.381 0.00 0.00 0.00 3.18
2105 2284 1.226746 CGACCACCTGACCAAAGAAC 58.773 55.000 0.00 0.00 0.00 3.01
2286 2468 1.213733 CGCTGGTCATGATGAGCTCG 61.214 60.000 23.14 20.75 44.58 5.03
2391 2576 3.966026 CTGGTCGACGAACGGCTCC 62.966 68.421 9.13 0.55 46.52 4.70
2574 2762 1.141881 CATCTGGTCCCCGACGAAG 59.858 63.158 0.00 0.00 32.65 3.79
2742 2969 2.029964 TTCGTCGTGCTGAACCCC 59.970 61.111 0.00 0.00 0.00 4.95
2750 2977 1.511464 AGATCGTCGTTCGTCGTGC 60.511 57.895 10.78 5.55 40.80 5.34
2790 3018 3.129287 GGTCACGGCATCATCAGAATTTT 59.871 43.478 0.00 0.00 0.00 1.82
2832 3060 9.053135 CAACATGAACACAAAGAACAAATTTTG 57.947 29.630 7.59 7.59 39.55 2.44
2837 3065 6.686630 AGACAACATGAACACAAAGAACAAA 58.313 32.000 0.00 0.00 0.00 2.83
2838 3066 6.266168 AGACAACATGAACACAAAGAACAA 57.734 33.333 0.00 0.00 0.00 2.83
2843 3071 8.854979 TTTTCATAGACAACATGAACACAAAG 57.145 30.769 0.00 0.00 41.02 2.77
2845 3073 9.247126 CATTTTTCATAGACAACATGAACACAA 57.753 29.630 0.00 0.00 41.02 3.33
2860 3088 5.716703 ACCCACCTCTTTCCATTTTTCATAG 59.283 40.000 0.00 0.00 0.00 2.23
2889 3117 9.850628 CAGAAGAAGAATCAAATTAATCAAGCA 57.149 29.630 0.00 0.00 0.00 3.91
2984 3213 2.232756 ATTGCGGGGAAAACAACAAC 57.767 45.000 0.00 0.00 0.00 3.32
3085 3316 4.080687 TGTTAAAATTTACCCCTGGGACG 58.919 43.478 16.20 0.00 38.96 4.79
3088 3319 6.428083 AACTTGTTAAAATTTACCCCTGGG 57.572 37.500 5.50 5.50 42.03 4.45
3131 3387 4.536295 TCTCCACTCACATGGGTAGATA 57.464 45.455 0.00 0.00 40.49 1.98
3132 3388 3.404869 TCTCCACTCACATGGGTAGAT 57.595 47.619 0.00 0.00 40.49 1.98
3133 3389 2.919772 TCTCCACTCACATGGGTAGA 57.080 50.000 0.00 0.00 40.49 2.59
3137 3393 3.424703 ACATTTTCTCCACTCACATGGG 58.575 45.455 0.00 0.00 40.49 4.00
3198 3494 4.465632 TTTAGGAAGCACTCGAGCATAA 57.534 40.909 13.61 1.04 36.85 1.90
3199 3495 4.433615 CTTTTAGGAAGCACTCGAGCATA 58.566 43.478 13.61 0.00 36.85 3.14
3201 3497 2.688507 CTTTTAGGAAGCACTCGAGCA 58.311 47.619 13.61 0.00 36.85 4.26
3202 3498 1.395262 GCTTTTAGGAAGCACTCGAGC 59.605 52.381 13.61 0.00 42.56 5.03
3210 3506 8.818141 AAGTTTTATCTTTGCTTTTAGGAAGC 57.182 30.769 3.91 3.91 43.29 3.86
3220 3516 9.389755 TGGCTTTTTAAAAGTTTTATCTTTGCT 57.610 25.926 17.30 0.00 37.65 3.91
3221 3517 9.995957 TTGGCTTTTTAAAAGTTTTATCTTTGC 57.004 25.926 17.30 9.57 37.65 3.68
3225 3521 9.542462 GACCTTGGCTTTTTAAAAGTTTTATCT 57.458 29.630 17.30 0.00 0.00 1.98
3226 3522 9.320352 TGACCTTGGCTTTTTAAAAGTTTTATC 57.680 29.630 17.30 9.81 0.00 1.75
3227 3523 9.325198 CTGACCTTGGCTTTTTAAAAGTTTTAT 57.675 29.630 17.30 1.67 0.00 1.40
3228 3524 8.315482 ACTGACCTTGGCTTTTTAAAAGTTTTA 58.685 29.630 17.30 3.88 0.00 1.52
3229 3525 7.165485 ACTGACCTTGGCTTTTTAAAAGTTTT 58.835 30.769 17.30 6.06 0.00 2.43
3230 3526 6.707290 ACTGACCTTGGCTTTTTAAAAGTTT 58.293 32.000 17.30 0.00 0.00 2.66
3231 3527 6.294361 ACTGACCTTGGCTTTTTAAAAGTT 57.706 33.333 17.30 0.00 0.00 2.66
3232 3528 5.932619 ACTGACCTTGGCTTTTTAAAAGT 57.067 34.783 17.30 0.00 0.00 2.66
3233 3529 5.523552 CCAACTGACCTTGGCTTTTTAAAAG 59.476 40.000 12.62 12.62 34.50 2.27
3234 3530 5.187967 TCCAACTGACCTTGGCTTTTTAAAA 59.812 36.000 0.00 0.00 40.66 1.52
3235 3531 4.712337 TCCAACTGACCTTGGCTTTTTAAA 59.288 37.500 0.00 0.00 40.66 1.52
3236 3532 4.282496 TCCAACTGACCTTGGCTTTTTAA 58.718 39.130 0.00 0.00 40.66 1.52
3237 3533 3.904717 TCCAACTGACCTTGGCTTTTTA 58.095 40.909 0.00 0.00 40.66 1.52
3238 3534 2.745968 TCCAACTGACCTTGGCTTTTT 58.254 42.857 0.00 0.00 40.66 1.94
3239 3535 2.452600 TCCAACTGACCTTGGCTTTT 57.547 45.000 0.00 0.00 40.66 2.27
3240 3536 2.452600 TTCCAACTGACCTTGGCTTT 57.547 45.000 0.00 0.00 40.66 3.51
3241 3537 2.452600 TTTCCAACTGACCTTGGCTT 57.547 45.000 0.00 0.00 40.66 4.35
3242 3538 2.683211 ATTTCCAACTGACCTTGGCT 57.317 45.000 0.00 0.00 40.66 4.75
3243 3539 3.751479 AAATTTCCAACTGACCTTGGC 57.249 42.857 0.00 0.00 40.66 4.52
3244 3540 5.535753 AGAAAATTTCCAACTGACCTTGG 57.464 39.130 1.57 0.00 42.04 3.61
3245 3541 7.940850 TCTTAGAAAATTTCCAACTGACCTTG 58.059 34.615 1.57 0.00 0.00 3.61
3246 3542 8.533569 TTCTTAGAAAATTTCCAACTGACCTT 57.466 30.769 1.57 0.00 0.00 3.50
3247 3543 8.533569 TTTCTTAGAAAATTTCCAACTGACCT 57.466 30.769 4.77 0.00 0.00 3.85
3268 3564 9.672673 TGACTTCTTTTTGCTAGCTATATTTCT 57.327 29.630 17.23 0.00 0.00 2.52
3275 3571 6.288294 TCAGTTGACTTCTTTTTGCTAGCTA 58.712 36.000 17.23 5.31 0.00 3.32
3278 3574 8.862550 AATTTCAGTTGACTTCTTTTTGCTAG 57.137 30.769 0.00 0.00 0.00 3.42
3284 3580 9.190317 AGTAGGAAATTTCAGTTGACTTCTTTT 57.810 29.630 19.49 0.00 0.00 2.27
3291 3587 8.617290 TTTAGGAGTAGGAAATTTCAGTTGAC 57.383 34.615 19.49 9.17 0.00 3.18
3317 3662 7.725251 AGGCACAGTTTGAAATTTCATAAGAA 58.275 30.769 21.10 9.98 37.00 2.52
3320 3665 6.705381 CCAAGGCACAGTTTGAAATTTCATAA 59.295 34.615 21.10 14.60 37.00 1.90
3322 3667 5.058490 CCAAGGCACAGTTTGAAATTTCAT 58.942 37.500 21.10 4.34 37.00 2.57
3323 3668 4.440880 CCAAGGCACAGTTTGAAATTTCA 58.559 39.130 16.91 16.91 34.92 2.69
3324 3669 3.248363 GCCAAGGCACAGTTTGAAATTTC 59.752 43.478 11.41 11.41 41.49 2.17
3339 3684 3.970721 GCCACAATTTGCCAAGGC 58.029 55.556 3.61 3.61 42.35 4.35
3350 3765 1.480137 CCTGTTTGTTTCAGGCCACAA 59.520 47.619 5.01 3.42 44.46 3.33
3351 3766 1.110442 CCTGTTTGTTTCAGGCCACA 58.890 50.000 5.01 0.00 44.46 4.17
3357 3772 8.437742 GCATGATTTAATTCCTGTTTGTTTCAG 58.562 33.333 0.00 0.00 0.00 3.02
3360 3775 7.714377 TGTGCATGATTTAATTCCTGTTTGTTT 59.286 29.630 0.00 0.00 0.00 2.83
3373 3788 4.690184 CACTGAGCTGTGCATGATTTAA 57.310 40.909 0.00 0.00 0.00 1.52
3387 3802 1.004080 TCTTGGAGCAGCACTGAGC 60.004 57.895 0.81 0.00 46.19 4.26
3388 3803 0.321021 ACTCTTGGAGCAGCACTGAG 59.679 55.000 0.81 1.24 32.04 3.35
3392 3807 1.889545 AAGAACTCTTGGAGCAGCAC 58.110 50.000 0.00 0.00 34.38 4.40
3407 3822 7.707624 AGTCCATATTCTTTGAATGCAAGAA 57.292 32.000 0.47 0.47 35.04 2.52
3425 3840 3.692257 CTCCACTGAGTTCAAGTCCAT 57.308 47.619 0.00 0.00 33.70 3.41
3459 3874 6.926272 TGAAATGTTGGTGTTTTATTACTGCC 59.074 34.615 0.00 0.00 0.00 4.85
3514 3938 7.259290 AGGTTACACAGTTTTACAACATCTG 57.741 36.000 0.00 0.00 35.05 2.90
3523 3947 7.811117 AAGCATGTAAGGTTACACAGTTTTA 57.189 32.000 4.71 0.00 45.47 1.52
3533 3957 9.690913 TCTACTAGAGTTAAGCATGTAAGGTTA 57.309 33.333 0.00 0.00 0.00 2.85
3550 3974 6.431543 TCCTTTGGCGAGAATATCTACTAGAG 59.568 42.308 0.00 0.00 0.00 2.43
3560 3984 2.695666 CCTCTCTCCTTTGGCGAGAATA 59.304 50.000 7.56 0.00 35.98 1.75
3621 4045 7.123355 TGTCATCCATGTCATTGTAGTATCA 57.877 36.000 0.00 0.00 0.00 2.15
3624 4048 6.823182 CCTTTGTCATCCATGTCATTGTAGTA 59.177 38.462 0.00 0.00 0.00 1.82
3634 4058 5.221501 CCTTTTGTTCCTTTGTCATCCATGT 60.222 40.000 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.