Multiple sequence alignment - TraesCS6B01G419400

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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 TraesCS6B01G419400 chr6B 100.000 2291 0 0 1 2291 691033557 691035847 0.000000e+00 4231
1 TraesCS6B01G419400 chr6A 79.793 1737 157 99 143 1762 600772136 600773795 0.000000e+00 1085
2 TraesCS6B01G419400 chr6A 87.554 233 4 6 1823 2031 600773816 600774047 1.760000e-61 246
3 TraesCS6B01G419400 chr6D 79.587 1548 157 85 36 1480 454613873 454615364 0.000000e+00 961
4 TraesCS6B01G419400 chr6D 90.423 355 20 5 1823 2173 454615672 454616016 2.680000e-124 455


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 TraesCS6B01G419400 chr6B 691033557 691035847 2290 False 4231.0 4231 100.0000 1 2291 1 chr6B.!!$F1 2290
1 TraesCS6B01G419400 chr6A 600772136 600774047 1911 False 665.5 1085 83.6735 143 2031 2 chr6A.!!$F1 1888
2 TraesCS6B01G419400 chr6D 454613873 454616016 2143 False 708.0 961 85.0050 36 2173 2 chr6D.!!$F1 2137

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
964 1126 0.322008 CAAAGGAAGGAAGGCGAGCT 60.322 55.0 0.0 0.0 0.0 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2207 2485 0.249868 CCACTCGCCACTGACTGAAA 60.25 55.0 0.0 0.0 0.0 2.69 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
23 24 4.944962 TCAACTAATGCTTCGGTCAATG 57.055 40.909 0.00 0.00 0.00 2.82
24 25 3.126858 TCAACTAATGCTTCGGTCAATGC 59.873 43.478 0.00 0.00 0.00 3.56
25 26 2.710377 ACTAATGCTTCGGTCAATGCA 58.290 42.857 0.00 0.00 39.83 3.96
26 27 3.282021 ACTAATGCTTCGGTCAATGCAT 58.718 40.909 0.00 0.00 46.46 3.96
27 28 4.450976 ACTAATGCTTCGGTCAATGCATA 58.549 39.130 0.00 0.00 44.15 3.14
28 29 5.065914 ACTAATGCTTCGGTCAATGCATAT 58.934 37.500 0.00 0.00 44.15 1.78
29 30 6.230472 ACTAATGCTTCGGTCAATGCATATA 58.770 36.000 0.00 0.00 44.15 0.86
30 31 6.881065 ACTAATGCTTCGGTCAATGCATATAT 59.119 34.615 0.00 0.00 44.15 0.86
31 32 8.040727 ACTAATGCTTCGGTCAATGCATATATA 58.959 33.333 0.00 0.00 44.15 0.86
32 33 7.870509 AATGCTTCGGTCAATGCATATATAT 57.129 32.000 0.00 0.00 44.15 0.86
33 34 7.870509 ATGCTTCGGTCAATGCATATATATT 57.129 32.000 0.00 0.00 43.27 1.28
34 35 7.307493 TGCTTCGGTCAATGCATATATATTC 57.693 36.000 0.00 0.00 0.00 1.75
50 51 8.607459 CATATATATTCAACTCGGCAAGGAATC 58.393 37.037 0.00 0.00 31.28 2.52
57 58 1.514873 CGGCAAGGAATCGCAAAGC 60.515 57.895 0.00 0.00 0.00 3.51
72 73 2.553247 GCAAAGCAGGGAGGAACTTACT 60.553 50.000 0.00 0.00 41.55 2.24
73 74 3.307480 GCAAAGCAGGGAGGAACTTACTA 60.307 47.826 0.00 0.00 41.55 1.82
74 75 4.254492 CAAAGCAGGGAGGAACTTACTAC 58.746 47.826 0.00 0.00 41.55 2.73
76 84 3.725634 AGCAGGGAGGAACTTACTACAT 58.274 45.455 0.00 0.00 41.55 2.29
79 87 4.680975 GCAGGGAGGAACTTACTACATGTC 60.681 50.000 0.00 0.00 41.55 3.06
85 93 5.978814 AGGAACTTACTACATGTCCATGAC 58.021 41.667 13.93 0.00 36.56 3.06
87 95 5.581085 GGAACTTACTACATGTCCATGACAC 59.419 44.000 13.93 0.00 45.65 3.67
95 103 2.678580 TCCATGACACCTCCGCGA 60.679 61.111 8.23 0.00 0.00 5.87
107 118 3.004419 CACCTCCGCGAGTTCTCATAATA 59.996 47.826 8.23 0.00 0.00 0.98
138 152 4.082245 ACCAAAGGTTAGATGAAAATGGCG 60.082 41.667 0.00 0.00 27.29 5.69
139 153 3.782889 AAGGTTAGATGAAAATGGCGC 57.217 42.857 0.00 0.00 0.00 6.53
140 154 1.670811 AGGTTAGATGAAAATGGCGCG 59.329 47.619 0.00 0.00 0.00 6.86
219 233 1.149148 GCCACTCTCACGTCTTTTCC 58.851 55.000 0.00 0.00 0.00 3.13
299 313 3.355378 TCATGAATCGACAAAAGGCCAT 58.645 40.909 5.01 0.00 0.00 4.40
336 354 1.203523 TGCACAAGTTTTCACACCACC 59.796 47.619 0.00 0.00 0.00 4.61
387 433 9.530129 GAAACACTATTTCTCAACTGTTTATCG 57.470 33.333 0.00 0.00 33.18 2.92
400 446 5.271625 ACTGTTTATCGTGCACGTATCTAG 58.728 41.667 35.74 26.96 40.80 2.43
401 447 5.163683 ACTGTTTATCGTGCACGTATCTAGT 60.164 40.000 35.74 27.51 40.80 2.57
426 483 1.001633 TGAAACCCGGTAGCAACTCTC 59.998 52.381 0.00 0.00 0.00 3.20
433 490 2.600731 CGGTAGCAACTCTCAAGACAG 58.399 52.381 0.00 0.00 0.00 3.51
446 517 2.163815 TCAAGACAGTAGCGAGTTAGCC 59.836 50.000 0.00 0.00 38.01 3.93
458 529 0.413832 AGTTAGCCAGGGAGACAGGA 59.586 55.000 0.00 0.00 0.00 3.86
485 562 2.495866 GGCCGGCCATCAATGTTG 59.504 61.111 40.73 0.00 35.81 3.33
514 591 3.151710 TGTCAGATACGCCGGGGG 61.152 66.667 23.83 9.88 0.00 5.40
539 616 1.015109 GATGAGTGGTGCTGCTGATG 58.985 55.000 0.00 0.00 0.00 3.07
568 648 0.616111 AGTCTGCCTCCGTCTCCATT 60.616 55.000 0.00 0.00 0.00 3.16
584 690 1.065418 CCATTATATGGGGCGGGAGAC 60.065 57.143 0.00 0.00 46.86 3.36
617 723 1.611419 CACCACCTCCATCCATGCT 59.389 57.895 0.00 0.00 0.00 3.79
621 727 1.479323 CCACCTCCATCCATGCTTTTG 59.521 52.381 0.00 0.00 0.00 2.44
624 730 0.462789 CTCCATCCATGCTTTTGCCC 59.537 55.000 0.00 0.00 46.87 5.36
627 733 1.080722 ATCCATGCTTTTGCCCCCA 59.919 52.632 0.00 0.00 46.87 4.96
628 734 1.266867 ATCCATGCTTTTGCCCCCAC 61.267 55.000 0.00 0.00 46.87 4.61
630 736 2.607442 ATGCTTTTGCCCCCACCC 60.607 61.111 0.00 0.00 46.87 4.61
632 738 2.997315 GCTTTTGCCCCCACCCTC 60.997 66.667 0.00 0.00 40.15 4.30
642 750 3.717294 CCACCCTCCCCCTCGTTG 61.717 72.222 0.00 0.00 0.00 4.10
662 770 4.767255 CCTGCGACCAGACCCAGC 62.767 72.222 0.00 0.00 41.77 4.85
669 777 2.352805 CCAGACCCAGCCCAGTTC 59.647 66.667 0.00 0.00 0.00 3.01
712 829 4.511454 TGTGTGTGAAGCTGTGAAATACTC 59.489 41.667 0.00 0.00 0.00 2.59
713 830 4.065088 TGTGTGAAGCTGTGAAATACTCC 58.935 43.478 0.00 0.00 0.00 3.85
753 870 2.124983 ATGCCGCTACTGCCAGTG 60.125 61.111 7.83 0.00 35.36 3.66
756 873 4.393155 CCGCTACTGCCAGTGCCA 62.393 66.667 7.83 0.00 36.33 4.92
757 874 2.816958 CGCTACTGCCAGTGCCAG 60.817 66.667 7.83 0.00 36.33 4.85
758 875 2.348998 GCTACTGCCAGTGCCAGT 59.651 61.111 11.98 11.98 36.33 4.00
832 981 2.093816 TGCTAGCTCACTTCATCCACAG 60.094 50.000 17.23 0.00 0.00 3.66
835 984 1.028868 GCTCACTTCATCCACAGGCC 61.029 60.000 0.00 0.00 0.00 5.19
853 1002 2.892425 GAATCGCCGAGCACCAGG 60.892 66.667 0.00 0.00 0.00 4.45
854 1003 4.473520 AATCGCCGAGCACCAGGG 62.474 66.667 0.00 0.00 0.00 4.45
930 1089 3.050275 GCCGGTGGCTTGTGAGAC 61.050 66.667 1.90 0.00 46.69 3.36
961 1123 1.303317 GGCAAAGGAAGGAAGGCGA 60.303 57.895 0.00 0.00 0.00 5.54
964 1126 0.322008 CAAAGGAAGGAAGGCGAGCT 60.322 55.000 0.00 0.00 0.00 4.09
990 1152 3.741476 CTGCTCTTGTTGGCCGGC 61.741 66.667 21.18 21.18 0.00 6.13
991 1153 4.269523 TGCTCTTGTTGGCCGGCT 62.270 61.111 28.56 0.00 0.00 5.52
992 1154 3.435186 GCTCTTGTTGGCCGGCTC 61.435 66.667 28.56 17.27 0.00 4.70
993 1155 3.121030 CTCTTGTTGGCCGGCTCG 61.121 66.667 28.56 8.52 0.00 5.03
1008 1170 1.133253 CTCGTCTTGCATGGCAACG 59.867 57.895 8.64 8.64 43.99 4.10
1200 1389 4.144703 GCGAGGTCGGGGAGGTTC 62.145 72.222 0.89 0.00 40.23 3.62
1201 1390 3.459063 CGAGGTCGGGGAGGTTCC 61.459 72.222 0.00 0.00 35.23 3.62
1311 1500 8.688151 AGGTAGATAAGATAGATAAATCCGTGC 58.312 37.037 0.00 0.00 0.00 5.34
1327 1516 1.679977 TGCCCTTCTCAGCCATTGC 60.680 57.895 0.00 0.00 37.95 3.56
1350 1545 4.473520 TGCTTCAGCTAGGCGCCC 62.474 66.667 26.15 8.19 42.66 6.13
1351 1546 4.168291 GCTTCAGCTAGGCGCCCT 62.168 66.667 26.15 10.94 40.39 5.19
1370 1565 4.502087 GCCCTCTGCTTTCAAGTTTCAATT 60.502 41.667 0.00 0.00 36.87 2.32
1418 1617 2.027192 CCTGTAACCTTTGCTAGCCTCA 60.027 50.000 13.29 0.00 0.00 3.86
1419 1618 3.003480 CTGTAACCTTTGCTAGCCTCAC 58.997 50.000 13.29 1.31 0.00 3.51
1423 1622 0.615331 CCTTTGCTAGCCTCACCTGA 59.385 55.000 13.29 0.00 0.00 3.86
1427 1626 4.517285 CTTTGCTAGCCTCACCTGATAAA 58.483 43.478 13.29 0.86 0.00 1.40
1431 1630 4.061596 GCTAGCCTCACCTGATAAACATC 58.938 47.826 2.29 0.00 0.00 3.06
1480 1679 8.539770 AATCGATGGATGTACAAATAGATGAC 57.460 34.615 0.00 0.00 31.83 3.06
1525 1755 4.538283 GCTGCTGCTGCTCATGCG 62.538 66.667 22.10 0.16 43.34 4.73
1554 1784 4.952262 TCATTGCTGCTACTTGAACATC 57.048 40.909 0.00 0.00 0.00 3.06
1559 1789 3.513119 TGCTGCTACTTGAACATCTCTCT 59.487 43.478 0.00 0.00 0.00 3.10
1562 1792 5.065704 TGCTACTTGAACATCTCTCTGAC 57.934 43.478 0.00 0.00 0.00 3.51
1564 1794 3.584406 ACTTGAACATCTCTCTGACCG 57.416 47.619 0.00 0.00 0.00 4.79
1566 1796 3.322254 ACTTGAACATCTCTCTGACCGTT 59.678 43.478 0.00 0.00 0.00 4.44
1599 1829 4.771577 TGTGCATTTCTCCAACCATAATGT 59.228 37.500 0.00 0.00 0.00 2.71
1600 1830 5.948758 TGTGCATTTCTCCAACCATAATGTA 59.051 36.000 0.00 0.00 0.00 2.29
1602 1832 5.359576 TGCATTTCTCCAACCATAATGTACC 59.640 40.000 0.00 0.00 0.00 3.34
1603 1833 5.594317 GCATTTCTCCAACCATAATGTACCT 59.406 40.000 0.00 0.00 0.00 3.08
1604 1834 6.770785 GCATTTCTCCAACCATAATGTACCTA 59.229 38.462 0.00 0.00 0.00 3.08
1606 1836 9.354673 CATTTCTCCAACCATAATGTACCTATT 57.645 33.333 0.00 0.00 0.00 1.73
1641 1871 7.933577 TGGTTGCTATCATCTTAATCTCGAAAT 59.066 33.333 0.00 0.00 0.00 2.17
1642 1872 8.778358 GGTTGCTATCATCTTAATCTCGAAATT 58.222 33.333 0.00 0.00 0.00 1.82
1650 1880 9.102757 TCATCTTAATCTCGAAATTTTCTCCAG 57.897 33.333 7.50 1.52 0.00 3.86
1663 1893 1.739562 CTCCAGCCAGTTCGTCAGC 60.740 63.158 0.00 0.00 0.00 4.26
1664 1894 2.031012 CCAGCCAGTTCGTCAGCA 59.969 61.111 0.00 0.00 0.00 4.41
1702 1940 3.507162 AAAAATGCCAGGAAAAAGGGG 57.493 42.857 0.00 0.00 0.00 4.79
1706 1944 2.376063 GCCAGGAAAAAGGGGCAAT 58.624 52.632 0.00 0.00 45.70 3.56
1709 1947 1.977129 CCAGGAAAAAGGGGCAATCAA 59.023 47.619 0.00 0.00 0.00 2.57
1754 1998 0.603975 GTGGGAGATATTCCTGCCGC 60.604 60.000 0.00 0.00 46.28 6.53
1775 2030 1.080093 CACGACCGCACCATACAGT 60.080 57.895 0.00 0.00 0.00 3.55
1779 2034 0.389426 GACCGCACCATACAGTTCGT 60.389 55.000 0.00 0.00 0.00 3.85
1806 2061 5.909610 GCTGATAATAATTCTGCGTTTGGAC 59.090 40.000 0.00 0.00 0.00 4.02
1807 2062 6.371809 TGATAATAATTCTGCGTTTGGACC 57.628 37.500 0.00 0.00 0.00 4.46
1808 2063 5.883115 TGATAATAATTCTGCGTTTGGACCA 59.117 36.000 0.00 0.00 0.00 4.02
1809 2064 4.701956 AATAATTCTGCGTTTGGACCAG 57.298 40.909 0.00 0.00 0.00 4.00
1810 2065 1.247567 AATTCTGCGTTTGGACCAGG 58.752 50.000 0.00 0.00 0.00 4.45
1811 2066 0.609131 ATTCTGCGTTTGGACCAGGG 60.609 55.000 0.00 0.00 0.00 4.45
1812 2067 1.701031 TTCTGCGTTTGGACCAGGGA 61.701 55.000 0.00 0.00 0.00 4.20
1813 2068 1.966451 CTGCGTTTGGACCAGGGAC 60.966 63.158 0.00 0.00 0.00 4.46
1814 2069 2.112297 GCGTTTGGACCAGGGACA 59.888 61.111 0.00 0.00 0.00 4.02
1815 2070 1.966451 GCGTTTGGACCAGGGACAG 60.966 63.158 0.00 0.00 0.00 3.51
1816 2071 1.302511 CGTTTGGACCAGGGACAGG 60.303 63.158 0.00 0.00 42.48 4.00
1817 2072 1.074951 GTTTGGACCAGGGACAGGG 59.925 63.158 0.00 0.00 40.36 4.45
1818 2073 2.160171 TTTGGACCAGGGACAGGGG 61.160 63.158 0.00 0.00 40.36 4.79
1819 2074 4.675303 TGGACCAGGGACAGGGGG 62.675 72.222 0.00 0.00 40.36 5.40
1853 2108 4.465512 GATGCGTGCCGTGCTTGG 62.466 66.667 0.00 0.00 0.00 3.61
1899 2161 1.896339 TACGTACGTGTCGTGTCCGG 61.896 60.000 30.25 0.00 41.39 5.14
1994 2272 2.028476 CGGACAACCAGGTTATGACTCA 60.028 50.000 3.89 0.00 35.59 3.41
2052 2330 0.317020 GTCGTGCCTTTGCTGTCAAC 60.317 55.000 0.00 0.00 38.71 3.18
2070 2348 0.532862 ACCTGCAACCAACTCGAGTG 60.533 55.000 20.85 10.28 0.00 3.51
2113 2391 1.024046 ACGCATACGCATGGCTGAAA 61.024 50.000 0.00 0.00 45.53 2.69
2120 2398 2.094675 ACGCATGGCTGAAATTTAGCT 58.905 42.857 9.59 0.00 40.92 3.32
2122 2400 2.159338 CGCATGGCTGAAATTTAGCTGT 60.159 45.455 9.59 0.00 40.92 4.40
2125 2403 4.604976 CATGGCTGAAATTTAGCTGTAGC 58.395 43.478 9.59 0.00 40.92 3.58
2140 2418 3.248125 GCTGTAGCTACTACTGTACTCCG 59.752 52.174 23.84 0.00 37.91 4.63
2142 2420 4.186926 TGTAGCTACTACTGTACTCCGTG 58.813 47.826 23.84 0.00 37.78 4.94
2155 2433 1.893137 ACTCCGTGCTGAATGTCTGTA 59.107 47.619 0.00 0.00 0.00 2.74
2156 2434 2.497675 ACTCCGTGCTGAATGTCTGTAT 59.502 45.455 0.00 0.00 0.00 2.29
2157 2435 2.862536 CTCCGTGCTGAATGTCTGTATG 59.137 50.000 0.00 0.00 0.00 2.39
2163 2441 5.519927 CGTGCTGAATGTCTGTATGAATGTA 59.480 40.000 0.00 0.00 0.00 2.29
2164 2442 6.508563 CGTGCTGAATGTCTGTATGAATGTAC 60.509 42.308 0.00 0.00 0.00 2.90
2201 2479 8.908786 TTGTATAAGGAGAATGGATAGCTTTG 57.091 34.615 0.00 0.00 0.00 2.77
2202 2480 7.453393 TGTATAAGGAGAATGGATAGCTTTGG 58.547 38.462 0.00 0.00 0.00 3.28
2203 2481 3.872459 AGGAGAATGGATAGCTTTGGG 57.128 47.619 0.00 0.00 0.00 4.12
2204 2482 3.126453 AGGAGAATGGATAGCTTTGGGT 58.874 45.455 0.00 0.00 0.00 4.51
2205 2483 3.117738 AGGAGAATGGATAGCTTTGGGTG 60.118 47.826 0.00 0.00 0.00 4.61
2206 2484 3.117888 GGAGAATGGATAGCTTTGGGTGA 60.118 47.826 0.00 0.00 0.00 4.02
2207 2485 4.446889 GGAGAATGGATAGCTTTGGGTGAT 60.447 45.833 0.00 0.00 0.00 3.06
2208 2486 5.134725 AGAATGGATAGCTTTGGGTGATT 57.865 39.130 0.00 0.00 0.00 2.57
2209 2487 5.522641 AGAATGGATAGCTTTGGGTGATTT 58.477 37.500 0.00 0.00 0.00 2.17
2210 2488 5.595952 AGAATGGATAGCTTTGGGTGATTTC 59.404 40.000 0.00 0.00 0.00 2.17
2211 2489 4.314522 TGGATAGCTTTGGGTGATTTCA 57.685 40.909 0.00 0.00 0.00 2.69
2212 2490 4.272489 TGGATAGCTTTGGGTGATTTCAG 58.728 43.478 0.00 0.00 0.00 3.02
2213 2491 4.263905 TGGATAGCTTTGGGTGATTTCAGT 60.264 41.667 0.00 0.00 0.00 3.41
2214 2492 4.336713 GGATAGCTTTGGGTGATTTCAGTC 59.663 45.833 0.00 0.00 0.00 3.51
2215 2493 3.228188 AGCTTTGGGTGATTTCAGTCA 57.772 42.857 0.00 0.00 0.00 3.41
2216 2494 3.152341 AGCTTTGGGTGATTTCAGTCAG 58.848 45.455 0.00 0.00 0.00 3.51
2217 2495 2.887152 GCTTTGGGTGATTTCAGTCAGT 59.113 45.455 0.00 0.00 0.00 3.41
2218 2496 3.304928 GCTTTGGGTGATTTCAGTCAGTG 60.305 47.826 0.00 0.00 0.00 3.66
2219 2497 2.566833 TGGGTGATTTCAGTCAGTGG 57.433 50.000 0.00 0.00 0.00 4.00
2220 2498 1.168714 GGGTGATTTCAGTCAGTGGC 58.831 55.000 0.00 0.00 0.00 5.01
2221 2499 0.798776 GGTGATTTCAGTCAGTGGCG 59.201 55.000 0.00 0.00 0.00 5.69
2222 2500 1.608025 GGTGATTTCAGTCAGTGGCGA 60.608 52.381 0.00 0.00 0.00 5.54
2223 2501 1.728971 GTGATTTCAGTCAGTGGCGAG 59.271 52.381 0.00 0.00 0.00 5.03
2224 2502 1.344438 TGATTTCAGTCAGTGGCGAGT 59.656 47.619 0.00 0.00 0.00 4.18
2225 2503 1.728971 GATTTCAGTCAGTGGCGAGTG 59.271 52.381 0.00 0.00 37.63 3.51
2226 2504 0.249868 TTTCAGTCAGTGGCGAGTGG 60.250 55.000 3.52 0.00 37.03 4.00
2227 2505 2.047844 CAGTCAGTGGCGAGTGGG 60.048 66.667 3.52 0.00 33.46 4.61
2228 2506 2.203640 AGTCAGTGGCGAGTGGGA 60.204 61.111 3.52 0.00 0.00 4.37
2229 2507 2.048127 GTCAGTGGCGAGTGGGAC 60.048 66.667 3.52 0.00 0.00 4.46
2230 2508 3.311110 TCAGTGGCGAGTGGGACC 61.311 66.667 3.52 0.00 0.00 4.46
2231 2509 3.625897 CAGTGGCGAGTGGGACCA 61.626 66.667 0.00 0.00 0.00 4.02
2232 2510 2.847234 AGTGGCGAGTGGGACCAA 60.847 61.111 0.00 0.00 34.63 3.67
2233 2511 2.112297 GTGGCGAGTGGGACCAAA 59.888 61.111 0.00 0.00 34.63 3.28
2234 2512 1.966451 GTGGCGAGTGGGACCAAAG 60.966 63.158 0.00 0.00 34.63 2.77
2235 2513 2.359975 GGCGAGTGGGACCAAAGG 60.360 66.667 0.00 0.00 0.00 3.11
2236 2514 2.359975 GCGAGTGGGACCAAAGGG 60.360 66.667 0.00 0.00 41.29 3.95
2237 2515 2.890766 GCGAGTGGGACCAAAGGGA 61.891 63.158 0.00 0.00 38.05 4.20
2238 2516 1.296715 CGAGTGGGACCAAAGGGAG 59.703 63.158 0.00 0.00 38.05 4.30
2239 2517 1.192146 CGAGTGGGACCAAAGGGAGA 61.192 60.000 0.00 0.00 38.05 3.71
2240 2518 0.615850 GAGTGGGACCAAAGGGAGAG 59.384 60.000 0.00 0.00 38.05 3.20
2241 2519 1.002011 GTGGGACCAAAGGGAGAGC 60.002 63.158 0.00 0.00 38.05 4.09
2242 2520 1.151810 TGGGACCAAAGGGAGAGCT 60.152 57.895 0.00 0.00 38.05 4.09
2243 2521 0.772124 TGGGACCAAAGGGAGAGCTT 60.772 55.000 0.00 0.00 38.05 3.74
2244 2522 0.405973 GGGACCAAAGGGAGAGCTTT 59.594 55.000 0.00 0.00 38.05 3.51
2245 2523 1.539157 GGACCAAAGGGAGAGCTTTG 58.461 55.000 0.00 0.00 39.49 2.77
2249 2527 2.276732 CAAAGGGAGAGCTTTGGTGA 57.723 50.000 0.00 0.00 37.03 4.02
2250 2528 2.800250 CAAAGGGAGAGCTTTGGTGAT 58.200 47.619 0.00 0.00 37.03 3.06
2251 2529 3.160269 CAAAGGGAGAGCTTTGGTGATT 58.840 45.455 0.00 0.00 37.03 2.57
2252 2530 3.532641 AAGGGAGAGCTTTGGTGATTT 57.467 42.857 0.00 0.00 0.00 2.17
2253 2531 3.532641 AGGGAGAGCTTTGGTGATTTT 57.467 42.857 0.00 0.00 0.00 1.82
2254 2532 4.657814 AGGGAGAGCTTTGGTGATTTTA 57.342 40.909 0.00 0.00 0.00 1.52
2255 2533 4.998051 AGGGAGAGCTTTGGTGATTTTAA 58.002 39.130 0.00 0.00 0.00 1.52
2256 2534 5.583932 AGGGAGAGCTTTGGTGATTTTAAT 58.416 37.500 0.00 0.00 0.00 1.40
2257 2535 5.654209 AGGGAGAGCTTTGGTGATTTTAATC 59.346 40.000 0.00 0.00 35.97 1.75
2258 2536 5.418840 GGGAGAGCTTTGGTGATTTTAATCA 59.581 40.000 1.12 1.12 42.78 2.57
2259 2537 6.071391 GGGAGAGCTTTGGTGATTTTAATCAA 60.071 38.462 6.73 0.00 46.13 2.57
2260 2538 7.378181 GGAGAGCTTTGGTGATTTTAATCAAA 58.622 34.615 6.73 0.00 46.13 2.69
2261 2539 8.037166 GGAGAGCTTTGGTGATTTTAATCAAAT 58.963 33.333 6.73 0.00 46.13 2.32
2275 2553 9.807649 ATTTTAATCAAATCTATCTTGCACACC 57.192 29.630 0.00 0.00 27.71 4.16
2276 2554 7.936496 TTAATCAAATCTATCTTGCACACCA 57.064 32.000 0.00 0.00 0.00 4.17
2277 2555 6.446781 AATCAAATCTATCTTGCACACCAG 57.553 37.500 0.00 0.00 0.00 4.00
2278 2556 4.910195 TCAAATCTATCTTGCACACCAGT 58.090 39.130 0.00 0.00 0.00 4.00
2279 2557 6.048732 TCAAATCTATCTTGCACACCAGTA 57.951 37.500 0.00 0.00 0.00 2.74
2280 2558 6.472016 TCAAATCTATCTTGCACACCAGTAA 58.528 36.000 0.00 0.00 0.00 2.24
2281 2559 6.939730 TCAAATCTATCTTGCACACCAGTAAA 59.060 34.615 0.00 0.00 0.00 2.01
2282 2560 7.446931 TCAAATCTATCTTGCACACCAGTAAAA 59.553 33.333 0.00 0.00 0.00 1.52
2283 2561 7.759489 AATCTATCTTGCACACCAGTAAAAA 57.241 32.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.677091 GCATTGACCGAAGCATTAGTTGAAT 60.677 40.000 0.00 0.00 0.00 2.57
1 2 4.379394 GCATTGACCGAAGCATTAGTTGAA 60.379 41.667 0.00 0.00 0.00 2.69
2 3 3.126858 GCATTGACCGAAGCATTAGTTGA 59.873 43.478 0.00 0.00 0.00 3.18
3 4 3.119884 TGCATTGACCGAAGCATTAGTTG 60.120 43.478 0.00 0.00 31.05 3.16
4 5 3.081061 TGCATTGACCGAAGCATTAGTT 58.919 40.909 0.00 0.00 31.05 2.24
5 6 2.710377 TGCATTGACCGAAGCATTAGT 58.290 42.857 0.00 0.00 31.05 2.24
6 7 3.976793 ATGCATTGACCGAAGCATTAG 57.023 42.857 0.00 0.00 44.63 1.73
7 8 8.962884 ATATATATGCATTGACCGAAGCATTA 57.037 30.769 3.54 0.00 44.63 1.90
8 9 7.870509 ATATATATGCATTGACCGAAGCATT 57.129 32.000 3.54 0.00 44.63 3.56
10 11 6.878389 TGAATATATATGCATTGACCGAAGCA 59.122 34.615 3.54 0.00 41.73 3.91
11 12 7.307493 TGAATATATATGCATTGACCGAAGC 57.693 36.000 3.54 0.00 0.00 3.86
12 13 8.939929 AGTTGAATATATATGCATTGACCGAAG 58.060 33.333 3.54 0.00 0.00 3.79
13 14 8.846943 AGTTGAATATATATGCATTGACCGAA 57.153 30.769 3.54 0.00 0.00 4.30
14 15 7.275560 CGAGTTGAATATATATGCATTGACCGA 59.724 37.037 3.54 0.00 0.00 4.69
15 16 7.394099 CGAGTTGAATATATATGCATTGACCG 58.606 38.462 3.54 3.36 0.00 4.79
16 17 7.677276 GCCGAGTTGAATATATATGCATTGACC 60.677 40.741 3.54 0.00 0.00 4.02
17 18 7.148423 TGCCGAGTTGAATATATATGCATTGAC 60.148 37.037 3.54 0.60 0.00 3.18
18 19 6.878389 TGCCGAGTTGAATATATATGCATTGA 59.122 34.615 3.54 0.00 0.00 2.57
19 20 7.075674 TGCCGAGTTGAATATATATGCATTG 57.924 36.000 3.54 0.00 0.00 2.82
20 21 7.148188 CCTTGCCGAGTTGAATATATATGCATT 60.148 37.037 3.54 0.00 0.00 3.56
21 22 6.317140 CCTTGCCGAGTTGAATATATATGCAT 59.683 38.462 3.79 3.79 0.00 3.96
22 23 5.643348 CCTTGCCGAGTTGAATATATATGCA 59.357 40.000 0.00 0.00 0.00 3.96
23 24 5.874810 TCCTTGCCGAGTTGAATATATATGC 59.125 40.000 0.00 0.00 0.00 3.14
24 25 7.905604 TTCCTTGCCGAGTTGAATATATATG 57.094 36.000 0.00 0.00 0.00 1.78
25 26 7.492669 CGATTCCTTGCCGAGTTGAATATATAT 59.507 37.037 0.00 0.00 0.00 0.86
26 27 6.811665 CGATTCCTTGCCGAGTTGAATATATA 59.188 38.462 0.00 0.00 0.00 0.86
27 28 5.639506 CGATTCCTTGCCGAGTTGAATATAT 59.360 40.000 0.00 0.00 0.00 0.86
28 29 4.988540 CGATTCCTTGCCGAGTTGAATATA 59.011 41.667 0.00 0.00 0.00 0.86
29 30 3.809832 CGATTCCTTGCCGAGTTGAATAT 59.190 43.478 0.00 0.00 0.00 1.28
30 31 3.194861 CGATTCCTTGCCGAGTTGAATA 58.805 45.455 0.00 0.00 0.00 1.75
31 32 2.009774 CGATTCCTTGCCGAGTTGAAT 58.990 47.619 0.00 0.00 0.00 2.57
32 33 1.438651 CGATTCCTTGCCGAGTTGAA 58.561 50.000 0.00 0.00 0.00 2.69
33 34 1.019278 GCGATTCCTTGCCGAGTTGA 61.019 55.000 0.00 0.00 0.00 3.18
34 35 1.298157 TGCGATTCCTTGCCGAGTTG 61.298 55.000 0.00 0.00 0.00 3.16
50 51 0.890996 AAGTTCCTCCCTGCTTTGCG 60.891 55.000 0.00 0.00 0.00 4.85
57 58 4.141914 GGACATGTAGTAAGTTCCTCCCTG 60.142 50.000 0.00 0.00 0.00 4.45
72 73 1.480545 CGGAGGTGTCATGGACATGTA 59.519 52.381 11.66 0.94 44.63 2.29
73 74 0.250234 CGGAGGTGTCATGGACATGT 59.750 55.000 11.66 0.00 44.63 3.21
74 75 1.091771 GCGGAGGTGTCATGGACATG 61.092 60.000 5.95 5.95 44.63 3.21
76 84 2.662596 GCGGAGGTGTCATGGACA 59.337 61.111 0.00 0.00 40.50 4.02
79 87 2.202797 CTCGCGGAGGTGTCATGG 60.203 66.667 6.13 0.00 0.00 3.66
85 93 0.738975 TATGAGAACTCGCGGAGGTG 59.261 55.000 6.13 0.00 33.35 4.00
87 95 2.802787 ATTATGAGAACTCGCGGAGG 57.197 50.000 6.13 0.00 33.35 4.30
95 103 9.877178 CTTTGGTCTAGTTGTATTATGAGAACT 57.123 33.333 0.00 0.00 33.32 3.01
107 118 6.681729 TCATCTAACCTTTGGTCTAGTTGT 57.318 37.500 0.00 0.00 33.12 3.32
154 168 1.235724 AAGGCTGTAAAGTGGCGTTC 58.764 50.000 0.00 0.00 29.93 3.95
219 233 3.313524 GGGCACAAAAGGGGCAGG 61.314 66.667 0.00 0.00 0.00 4.85
248 262 2.050442 CAAAAGTTGACCGCGGGC 60.050 61.111 31.76 30.24 0.00 6.13
299 313 1.551908 GCATTCCATGGTTTGGGGCA 61.552 55.000 12.58 0.00 46.45 5.36
304 322 3.389925 ACTTGTGCATTCCATGGTTTG 57.610 42.857 12.58 11.63 0.00 2.93
309 327 4.209703 GTGTGAAAACTTGTGCATTCCATG 59.790 41.667 0.00 0.00 0.00 3.66
336 354 1.259609 ATTCATGTGGGGCTGTTGTG 58.740 50.000 0.00 0.00 0.00 3.33
387 433 6.237755 GGTTTCATTGTACTAGATACGTGCAC 60.238 42.308 6.82 6.82 36.47 4.57
400 446 2.702261 TGCTACCGGGTTTCATTGTAC 58.298 47.619 4.31 0.00 0.00 2.90
401 447 3.075884 GTTGCTACCGGGTTTCATTGTA 58.924 45.455 4.31 0.00 0.00 2.41
426 483 2.094700 TGGCTAACTCGCTACTGTCTTG 60.095 50.000 0.00 0.00 0.00 3.02
433 490 0.386113 CTCCCTGGCTAACTCGCTAC 59.614 60.000 0.00 0.00 0.00 3.58
446 517 1.405821 GTACGACATCCTGTCTCCCTG 59.594 57.143 5.79 0.00 44.85 4.45
467 538 3.140141 AACATTGATGGCCGGCCG 61.140 61.111 39.00 26.03 39.42 6.13
469 540 2.495866 CCAACATTGATGGCCGGC 59.504 61.111 21.18 21.18 0.00 6.13
485 562 3.733337 GTATCTGACACCATCATCACCC 58.267 50.000 0.00 0.00 36.48 4.61
510 587 1.065418 CACCACTCATCAGTAACCCCC 60.065 57.143 0.00 0.00 0.00 5.40
512 589 1.279271 AGCACCACTCATCAGTAACCC 59.721 52.381 0.00 0.00 0.00 4.11
514 591 1.734465 GCAGCACCACTCATCAGTAAC 59.266 52.381 0.00 0.00 0.00 2.50
539 616 0.520847 GAGGCAGACTTGAAAGCTGC 59.479 55.000 21.23 21.23 46.16 5.25
550 630 1.112113 TAATGGAGACGGAGGCAGAC 58.888 55.000 0.00 0.00 0.00 3.51
551 631 2.088104 ATAATGGAGACGGAGGCAGA 57.912 50.000 0.00 0.00 0.00 4.26
568 648 4.107029 CGTCTCCCGCCCCATATA 57.893 61.111 0.00 0.00 0.00 0.86
601 707 1.479323 CAAAAGCATGGATGGAGGTGG 59.521 52.381 0.00 0.00 0.00 4.61
602 708 1.134907 GCAAAAGCATGGATGGAGGTG 60.135 52.381 0.00 0.00 0.00 4.00
617 723 3.922364 GGGAGGGTGGGGGCAAAA 61.922 66.667 0.00 0.00 0.00 2.44
627 733 4.974438 TGCAACGAGGGGGAGGGT 62.974 66.667 0.00 0.00 0.00 4.34
628 734 4.410400 GTGCAACGAGGGGGAGGG 62.410 72.222 0.00 0.00 0.00 4.30
630 736 3.322466 AGGTGCAACGAGGGGGAG 61.322 66.667 0.00 0.00 38.12 4.30
662 770 1.242076 CTGGCTTTGTCTGAACTGGG 58.758 55.000 0.00 0.00 0.00 4.45
669 777 0.309922 CACTGCACTGGCTTTGTCTG 59.690 55.000 0.00 0.00 41.91 3.51
712 829 2.332654 CGAAAGCCGGTTTGGGAGG 61.333 63.158 3.57 0.00 38.63 4.30
713 830 3.263941 CGAAAGCCGGTTTGGGAG 58.736 61.111 3.57 0.00 38.63 4.30
835 984 3.257561 CTGGTGCTCGGCGATTCG 61.258 66.667 11.27 0.62 0.00 3.34
1053 1218 3.092780 GCAGAGGAGGAGGAGCAGC 62.093 68.421 0.00 0.00 0.00 5.25
1056 1221 4.219999 GCGCAGAGGAGGAGGAGC 62.220 72.222 0.30 0.00 0.00 4.70
1060 1225 3.764466 AACGGCGCAGAGGAGGAG 61.764 66.667 16.26 0.00 0.00 3.69
1061 1226 4.069232 CAACGGCGCAGAGGAGGA 62.069 66.667 16.26 0.00 0.00 3.71
1184 1373 3.459063 GGAACCTCCCCGACCTCG 61.459 72.222 0.00 0.00 39.44 4.63
1208 1397 1.823976 GAGTTCCATCTCCGGGGAC 59.176 63.158 5.91 0.00 31.59 4.46
1209 1398 1.756950 CGAGTTCCATCTCCGGGGA 60.757 63.158 6.42 6.42 0.00 4.81
1210 1399 2.797278 CCGAGTTCCATCTCCGGGG 61.797 68.421 0.00 0.00 0.00 5.73
1269 1458 4.553678 TCTACCTATTGGAGTCCGGATTT 58.446 43.478 7.81 0.00 37.04 2.17
1310 1499 3.204418 GCAATGGCTGAGAAGGGC 58.796 61.111 0.00 0.00 36.96 5.19
1327 1516 0.810823 GCCTAGCTGAAGCAGAGCAG 60.811 60.000 4.90 0.00 45.16 4.24
1350 1545 9.688592 AAAGATAATTGAAACTTGAAAGCAGAG 57.311 29.630 0.00 0.00 0.00 3.35
1351 1546 9.467258 CAAAGATAATTGAAACTTGAAAGCAGA 57.533 29.630 0.00 0.00 31.84 4.26
1370 1565 3.364167 GCGTACGTTTGTTGCCAAAGATA 60.364 43.478 17.90 0.00 41.09 1.98
1383 1578 3.311966 GTTACAGGAGAAGCGTACGTTT 58.688 45.455 17.58 17.58 0.00 3.60
1384 1579 2.352127 GGTTACAGGAGAAGCGTACGTT 60.352 50.000 17.90 8.23 0.00 3.99
1418 1617 9.499479 GATATGATCAACAGATGTTTATCAGGT 57.501 33.333 20.90 14.50 45.84 4.00
1419 1618 9.722184 AGATATGATCAACAGATGTTTATCAGG 57.278 33.333 20.90 1.76 45.84 3.86
1480 1679 6.860023 CCAAGCAATCTCAAGTGAAAAAGTAG 59.140 38.462 0.00 0.00 0.00 2.57
1520 1733 1.575922 CAATGATACCCGGCGCATG 59.424 57.895 10.83 0.00 0.00 4.06
1521 1734 2.260869 GCAATGATACCCGGCGCAT 61.261 57.895 10.83 0.00 0.00 4.73
1525 1755 0.250295 TAGCAGCAATGATACCCGGC 60.250 55.000 0.00 0.00 0.00 6.13
1528 1758 3.808728 TCAAGTAGCAGCAATGATACCC 58.191 45.455 0.00 0.00 31.66 3.69
1530 1760 5.801350 TGTTCAAGTAGCAGCAATGATAC 57.199 39.130 0.00 0.00 0.00 2.24
1554 1784 2.029828 ACTAACAGCAACGGTCAGAGAG 60.030 50.000 0.00 0.00 0.00 3.20
1559 1789 1.937223 CACAACTAACAGCAACGGTCA 59.063 47.619 0.00 0.00 0.00 4.02
1562 1792 0.660488 TGCACAACTAACAGCAACGG 59.340 50.000 0.00 0.00 33.48 4.44
1564 1794 4.610945 AGAAATGCACAACTAACAGCAAC 58.389 39.130 0.00 0.00 40.76 4.17
1566 1796 3.253188 GGAGAAATGCACAACTAACAGCA 59.747 43.478 0.00 0.00 41.73 4.41
1599 1829 6.308015 AGCAACCAGTCATGTAAATAGGTA 57.692 37.500 0.00 0.00 0.00 3.08
1600 1830 5.179452 AGCAACCAGTCATGTAAATAGGT 57.821 39.130 0.00 0.00 0.00 3.08
1602 1832 8.613060 ATGATAGCAACCAGTCATGTAAATAG 57.387 34.615 0.00 0.00 30.61 1.73
1603 1833 8.432013 AGATGATAGCAACCAGTCATGTAAATA 58.568 33.333 0.00 0.00 31.86 1.40
1604 1834 7.285566 AGATGATAGCAACCAGTCATGTAAAT 58.714 34.615 0.00 0.00 31.86 1.40
1606 1836 6.239217 AGATGATAGCAACCAGTCATGTAA 57.761 37.500 0.00 0.00 31.86 2.41
1641 1871 1.140052 TGACGAACTGGCTGGAGAAAA 59.860 47.619 0.00 0.00 0.00 2.29
1642 1872 0.756294 TGACGAACTGGCTGGAGAAA 59.244 50.000 0.00 0.00 0.00 2.52
1650 1880 4.776743 CATTATTATGCTGACGAACTGGC 58.223 43.478 0.00 0.00 0.00 4.85
1702 1940 2.545106 CTGCCCAAAACAGTTTGATTGC 59.455 45.455 0.00 1.65 45.99 3.56
1706 1944 3.011566 TCTCTGCCCAAAACAGTTTGA 57.988 42.857 0.00 0.00 45.99 2.69
1709 1947 3.565307 TCAATCTCTGCCCAAAACAGTT 58.435 40.909 0.00 0.00 36.50 3.16
1754 1998 2.156446 GTATGGTGCGGTCGTGTCG 61.156 63.158 0.00 0.00 0.00 4.35
1775 2030 6.645003 ACGCAGAATTATTATCAGCATACGAA 59.355 34.615 0.00 0.00 30.53 3.85
1779 2034 7.443879 TCCAAACGCAGAATTATTATCAGCATA 59.556 33.333 0.00 0.00 30.53 3.14
1785 2040 6.371809 TGGTCCAAACGCAGAATTATTATC 57.628 37.500 0.00 0.00 0.00 1.75
1795 2050 1.966451 GTCCCTGGTCCAAACGCAG 60.966 63.158 0.00 0.00 0.00 5.18
1808 2063 4.748798 CTGGAGCCCCCTGTCCCT 62.749 72.222 0.00 0.00 35.38 4.20
1820 2075 3.769369 ATCGCAGCATGGCCTGGAG 62.769 63.158 3.32 0.00 35.86 3.86
1821 2076 3.800833 ATCGCAGCATGGCCTGGA 61.801 61.111 3.32 0.00 35.86 3.86
1853 2108 3.376234 CACATCATTCCATCACACCAGAC 59.624 47.826 0.00 0.00 0.00 3.51
1855 2110 3.349927 ACACATCATTCCATCACACCAG 58.650 45.455 0.00 0.00 0.00 4.00
1856 2111 3.438216 ACACATCATTCCATCACACCA 57.562 42.857 0.00 0.00 0.00 4.17
1899 2161 1.155424 TCGCACGGACCAAACAGAAC 61.155 55.000 0.00 0.00 0.00 3.01
1994 2272 4.295119 GTGCCGTCGGTCAGTGGT 62.295 66.667 13.94 0.00 0.00 4.16
2052 2330 1.845809 GCACTCGAGTTGGTTGCAGG 61.846 60.000 17.26 2.06 0.00 4.85
2070 2348 1.560923 CGTATGTAGTGCAGTGGAGC 58.439 55.000 3.69 0.00 0.00 4.70
2120 2398 4.186926 CACGGAGTACAGTAGTAGCTACA 58.813 47.826 25.28 9.08 41.61 2.74
2122 2400 3.118482 AGCACGGAGTACAGTAGTAGCTA 60.118 47.826 0.00 0.00 41.61 3.32
2125 2403 3.268330 TCAGCACGGAGTACAGTAGTAG 58.732 50.000 0.00 0.00 41.61 2.57
2127 2405 2.195741 TCAGCACGGAGTACAGTAGT 57.804 50.000 0.00 0.00 41.61 2.73
2128 2406 3.119459 ACATTCAGCACGGAGTACAGTAG 60.119 47.826 0.00 0.00 41.61 2.57
2129 2407 2.823747 ACATTCAGCACGGAGTACAGTA 59.176 45.455 0.00 0.00 41.61 2.74
2130 2408 1.618837 ACATTCAGCACGGAGTACAGT 59.381 47.619 0.00 0.00 41.61 3.55
2131 2409 2.094494 AGACATTCAGCACGGAGTACAG 60.094 50.000 0.00 0.00 41.61 2.74
2140 2418 5.808042 ACATTCATACAGACATTCAGCAC 57.192 39.130 0.00 0.00 0.00 4.40
2142 2420 5.520288 ACGTACATTCATACAGACATTCAGC 59.480 40.000 0.00 0.00 0.00 4.26
2175 2453 9.342308 CAAAGCTATCCATTCTCCTTATACAAA 57.658 33.333 0.00 0.00 0.00 2.83
2176 2454 7.939039 CCAAAGCTATCCATTCTCCTTATACAA 59.061 37.037 0.00 0.00 0.00 2.41
2177 2455 7.453393 CCAAAGCTATCCATTCTCCTTATACA 58.547 38.462 0.00 0.00 0.00 2.29
2178 2456 6.881602 CCCAAAGCTATCCATTCTCCTTATAC 59.118 42.308 0.00 0.00 0.00 1.47
2179 2457 6.562608 ACCCAAAGCTATCCATTCTCCTTATA 59.437 38.462 0.00 0.00 0.00 0.98
2180 2458 5.373854 ACCCAAAGCTATCCATTCTCCTTAT 59.626 40.000 0.00 0.00 0.00 1.73
2181 2459 4.726825 ACCCAAAGCTATCCATTCTCCTTA 59.273 41.667 0.00 0.00 0.00 2.69
2182 2460 3.529319 ACCCAAAGCTATCCATTCTCCTT 59.471 43.478 0.00 0.00 0.00 3.36
2183 2461 3.117738 CACCCAAAGCTATCCATTCTCCT 60.118 47.826 0.00 0.00 0.00 3.69
2184 2462 3.117888 TCACCCAAAGCTATCCATTCTCC 60.118 47.826 0.00 0.00 0.00 3.71
2185 2463 4.156455 TCACCCAAAGCTATCCATTCTC 57.844 45.455 0.00 0.00 0.00 2.87
2186 2464 4.803329 ATCACCCAAAGCTATCCATTCT 57.197 40.909 0.00 0.00 0.00 2.40
2187 2465 5.360714 TGAAATCACCCAAAGCTATCCATTC 59.639 40.000 0.00 0.00 0.00 2.67
2188 2466 5.271598 TGAAATCACCCAAAGCTATCCATT 58.728 37.500 0.00 0.00 0.00 3.16
2189 2467 4.870636 TGAAATCACCCAAAGCTATCCAT 58.129 39.130 0.00 0.00 0.00 3.41
2190 2468 4.263905 ACTGAAATCACCCAAAGCTATCCA 60.264 41.667 0.00 0.00 0.00 3.41
2191 2469 4.273318 ACTGAAATCACCCAAAGCTATCC 58.727 43.478 0.00 0.00 0.00 2.59
2192 2470 4.943705 TGACTGAAATCACCCAAAGCTATC 59.056 41.667 0.00 0.00 0.00 2.08
2193 2471 4.922206 TGACTGAAATCACCCAAAGCTAT 58.078 39.130 0.00 0.00 0.00 2.97
2194 2472 4.202461 ACTGACTGAAATCACCCAAAGCTA 60.202 41.667 0.00 0.00 0.00 3.32
2195 2473 3.152341 CTGACTGAAATCACCCAAAGCT 58.848 45.455 0.00 0.00 0.00 3.74
2196 2474 2.887152 ACTGACTGAAATCACCCAAAGC 59.113 45.455 0.00 0.00 0.00 3.51
2197 2475 3.254166 CCACTGACTGAAATCACCCAAAG 59.746 47.826 0.00 0.00 0.00 2.77
2198 2476 3.221771 CCACTGACTGAAATCACCCAAA 58.778 45.455 0.00 0.00 0.00 3.28
2199 2477 2.862541 CCACTGACTGAAATCACCCAA 58.137 47.619 0.00 0.00 0.00 4.12
2200 2478 1.545428 GCCACTGACTGAAATCACCCA 60.545 52.381 0.00 0.00 0.00 4.51
2201 2479 1.168714 GCCACTGACTGAAATCACCC 58.831 55.000 0.00 0.00 0.00 4.61
2202 2480 0.798776 CGCCACTGACTGAAATCACC 59.201 55.000 0.00 0.00 0.00 4.02
2203 2481 1.728971 CTCGCCACTGACTGAAATCAC 59.271 52.381 0.00 0.00 0.00 3.06
2204 2482 1.344438 ACTCGCCACTGACTGAAATCA 59.656 47.619 0.00 0.00 0.00 2.57
2205 2483 1.728971 CACTCGCCACTGACTGAAATC 59.271 52.381 0.00 0.00 0.00 2.17
2206 2484 1.609061 CCACTCGCCACTGACTGAAAT 60.609 52.381 0.00 0.00 0.00 2.17
2207 2485 0.249868 CCACTCGCCACTGACTGAAA 60.250 55.000 0.00 0.00 0.00 2.69
2208 2486 1.367471 CCACTCGCCACTGACTGAA 59.633 57.895 0.00 0.00 0.00 3.02
2209 2487 2.574018 CCCACTCGCCACTGACTGA 61.574 63.158 0.00 0.00 0.00 3.41
2210 2488 2.047844 CCCACTCGCCACTGACTG 60.048 66.667 0.00 0.00 0.00 3.51
2211 2489 2.203640 TCCCACTCGCCACTGACT 60.204 61.111 0.00 0.00 0.00 3.41
2212 2490 2.048127 GTCCCACTCGCCACTGAC 60.048 66.667 0.00 0.00 0.00 3.51
2213 2491 3.311110 GGTCCCACTCGCCACTGA 61.311 66.667 0.00 0.00 0.00 3.41
2214 2492 2.674563 TTTGGTCCCACTCGCCACTG 62.675 60.000 0.00 0.00 31.19 3.66
2215 2493 2.397413 CTTTGGTCCCACTCGCCACT 62.397 60.000 0.00 0.00 31.19 4.00
2216 2494 1.966451 CTTTGGTCCCACTCGCCAC 60.966 63.158 0.00 0.00 31.19 5.01
2217 2495 2.429930 CTTTGGTCCCACTCGCCA 59.570 61.111 0.00 0.00 0.00 5.69
2218 2496 2.359975 CCTTTGGTCCCACTCGCC 60.360 66.667 0.00 0.00 0.00 5.54
2219 2497 2.359975 CCCTTTGGTCCCACTCGC 60.360 66.667 0.00 0.00 0.00 5.03
2220 2498 1.192146 TCTCCCTTTGGTCCCACTCG 61.192 60.000 0.00 0.00 0.00 4.18
2221 2499 0.615850 CTCTCCCTTTGGTCCCACTC 59.384 60.000 0.00 0.00 0.00 3.51
2222 2500 1.492993 GCTCTCCCTTTGGTCCCACT 61.493 60.000 0.00 0.00 0.00 4.00
2223 2501 1.002011 GCTCTCCCTTTGGTCCCAC 60.002 63.158 0.00 0.00 0.00 4.61
2224 2502 0.772124 AAGCTCTCCCTTTGGTCCCA 60.772 55.000 0.00 0.00 0.00 4.37
2225 2503 0.405973 AAAGCTCTCCCTTTGGTCCC 59.594 55.000 0.00 0.00 33.97 4.46
2226 2504 1.539157 CAAAGCTCTCCCTTTGGTCC 58.461 55.000 6.72 0.00 44.90 4.46
2231 2509 3.532641 AATCACCAAAGCTCTCCCTTT 57.467 42.857 0.00 0.00 35.52 3.11
2232 2510 3.532641 AAATCACCAAAGCTCTCCCTT 57.467 42.857 0.00 0.00 0.00 3.95
2233 2511 3.532641 AAAATCACCAAAGCTCTCCCT 57.467 42.857 0.00 0.00 0.00 4.20
2234 2512 5.418840 TGATTAAAATCACCAAAGCTCTCCC 59.581 40.000 1.23 0.00 40.32 4.30
2235 2513 6.515272 TGATTAAAATCACCAAAGCTCTCC 57.485 37.500 1.23 0.00 40.32 3.71
2236 2514 8.992835 ATTTGATTAAAATCACCAAAGCTCTC 57.007 30.769 4.89 0.00 44.54 3.20
2249 2527 9.807649 GGTGTGCAAGATAGATTTGATTAAAAT 57.192 29.630 0.00 0.00 41.33 1.82
2250 2528 8.801299 TGGTGTGCAAGATAGATTTGATTAAAA 58.199 29.630 0.00 0.00 0.00 1.52
2251 2529 8.347004 TGGTGTGCAAGATAGATTTGATTAAA 57.653 30.769 0.00 0.00 0.00 1.52
2252 2530 7.611467 ACTGGTGTGCAAGATAGATTTGATTAA 59.389 33.333 0.00 0.00 0.00 1.40
2253 2531 7.112122 ACTGGTGTGCAAGATAGATTTGATTA 58.888 34.615 0.00 0.00 0.00 1.75
2254 2532 5.948162 ACTGGTGTGCAAGATAGATTTGATT 59.052 36.000 0.00 0.00 0.00 2.57
2255 2533 5.503927 ACTGGTGTGCAAGATAGATTTGAT 58.496 37.500 0.00 0.00 0.00 2.57
2256 2534 4.910195 ACTGGTGTGCAAGATAGATTTGA 58.090 39.130 0.00 0.00 0.00 2.69
2257 2535 6.741992 TTACTGGTGTGCAAGATAGATTTG 57.258 37.500 0.00 0.00 0.00 2.32
2258 2536 7.759489 TTTTACTGGTGTGCAAGATAGATTT 57.241 32.000 0.00 0.00 0.00 2.17
2259 2537 7.759489 TTTTTACTGGTGTGCAAGATAGATT 57.241 32.000 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.