Multiple sequence alignment - TraesCS3A01G418800

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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 TraesCS3A01G418800 chr3A 100.000 5449 0 0 1 5449 660506889 660512337 0.000000e+00 10063
1 TraesCS3A01G418800 chr3A 88.192 1211 140 3 3471 4679 660442808 660444017 0.000000e+00 1441
2 TraesCS3A01G418800 chr3A 83.830 872 132 6 2343 3209 660441418 660442285 0.000000e+00 821
3 TraesCS3A01G418800 chr3A 81.529 314 49 5 1957 2263 660440691 660441002 3.260000e-62 250
4 TraesCS3A01G418800 chr3D 93.773 3533 127 52 1292 4787 526274424 526277900 0.000000e+00 5219
5 TraesCS3A01G418800 chr3D 87.760 1250 145 7 3449 4695 526207494 526208738 0.000000e+00 1454
6 TraesCS3A01G418800 chr3D 87.289 1306 78 29 1 1269 526273177 526274431 0.000000e+00 1411
7 TraesCS3A01G418800 chr3D 98.084 574 6 4 4878 5449 526278447 526279017 0.000000e+00 994
8 TraesCS3A01G418800 chr3D 85.046 876 125 4 2343 3214 526206143 526207016 0.000000e+00 887
9 TraesCS3A01G418800 chr3D 82.484 314 47 4 1957 2263 526194464 526194776 9.000000e-68 268
10 TraesCS3A01G418800 chr3D 98.261 115 2 0 4765 4879 526278250 526278364 9.250000e-48 202
11 TraesCS3A01G418800 chr3B 97.840 1944 35 5 3508 5449 695556454 695558392 0.000000e+00 3350
12 TraesCS3A01G418800 chr3B 95.106 1553 55 6 1964 3509 695554755 695556293 0.000000e+00 2427
13 TraesCS3A01G418800 chr3B 87.400 1254 151 6 3444 4695 695512211 695513459 0.000000e+00 1434
14 TraesCS3A01G418800 chr3B 83.734 873 134 6 2343 3210 695510843 695511712 0.000000e+00 819
15 TraesCS3A01G418800 chr3B 85.942 754 33 27 470 1219 695553118 695553802 0.000000e+00 737
16 TraesCS3A01G418800 chr3B 85.234 535 43 16 1 528 695552568 695553073 8.090000e-143 518
17 TraesCS3A01G418800 chr3B 84.346 428 32 9 1439 1860 695553866 695554264 2.380000e-103 387
18 TraesCS3A01G418800 chr3B 88.298 94 3 3 522 611 694290436 694290347 7.460000e-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 TraesCS3A01G418800 chr3A 660506889 660512337 5448 False 10063.000000 10063 100.00000 1 5449 1 chr3A.!!$F1 5448
1 TraesCS3A01G418800 chr3A 660440691 660444017 3326 False 837.333333 1441 84.51700 1957 4679 3 chr3A.!!$F2 2722
2 TraesCS3A01G418800 chr3D 526273177 526279017 5840 False 1956.500000 5219 94.35175 1 5449 4 chr3D.!!$F3 5448
3 TraesCS3A01G418800 chr3D 526206143 526208738 2595 False 1170.500000 1454 86.40300 2343 4695 2 chr3D.!!$F2 2352
4 TraesCS3A01G418800 chr3B 695552568 695558392 5824 False 1483.800000 3350 89.69360 1 5449 5 chr3B.!!$F2 5448
5 TraesCS3A01G418800 chr3B 695510843 695513459 2616 False 1126.500000 1434 85.56700 2343 4695 2 chr3B.!!$F1 2352

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
789 917 0.037877 CAGCCATCCATCCTGATCCC 59.962 60.000 0.0 0.0 0.00 3.85 F
993 1121 0.248843 CTTGGGGCAGAGACAGAGAC 59.751 60.000 0.0 0.0 0.00 3.36 F
1880 2068 0.108615 CACCCAAGTAGGCGTCAGAG 60.109 60.000 0.0 0.0 35.39 3.35 F
1881 2069 0.542232 ACCCAAGTAGGCGTCAGAGT 60.542 55.000 0.0 0.0 35.39 3.24 F
1927 2115 1.202020 CCATAACACCGTGCAATGTCG 60.202 52.381 0.0 0.0 0.00 4.35 F
3427 4677 0.468226 AAAACGTCCTGCACTCCTCA 59.532 50.000 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1861 2049 0.108615 CTCTGACGCCTACTTGGGTG 60.109 60.000 0.0 0.0 42.11 4.61 R
2600 3566 0.486879 TCCCAGCATCCCCTGTTTTT 59.513 50.000 0.0 0.0 0.00 1.94 R
3296 4464 3.993920 ACACTTTTGCAAGCTAATTGGG 58.006 40.909 0.0 0.0 39.47 4.12 R
3384 4633 5.299028 TGCTCACTTACTTGCAGAAAAATGA 59.701 36.000 0.0 0.0 0.00 2.57 R
4050 5464 2.107204 AGGCCTCAGCAATACCCATTAG 59.893 50.000 0.0 0.0 42.56 1.73 R
5260 7135 2.105134 TGGTCCAGTTATTGTTCCACGT 59.895 45.455 0.0 0.0 0.00 4.49 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 6.267928 ACCTACAACGATAGCCTCAAGATAAT 59.732 38.462 0.00 0.00 42.67 1.28
35 36 7.450634 ACCTACAACGATAGCCTCAAGATAATA 59.549 37.037 0.00 0.00 42.67 0.98
36 37 8.304596 CCTACAACGATAGCCTCAAGATAATAA 58.695 37.037 0.00 0.00 42.67 1.40
39 40 8.085296 ACAACGATAGCCTCAAGATAATAAGAG 58.915 37.037 0.00 0.00 42.67 2.85
69 70 4.415150 AGCCGGGCTGGTGTGATG 62.415 66.667 23.19 0.00 37.57 3.07
89 90 3.911868 TGGGTCAAATTGCTTGATTTCG 58.088 40.909 0.00 0.00 45.74 3.46
94 95 6.401367 GGGTCAAATTGCTTGATTTCGAAATG 60.401 38.462 27.27 14.28 45.74 2.32
108 109 5.499139 TTCGAAATGGAAATCCTGCATAC 57.501 39.130 0.00 0.00 34.48 2.39
111 112 3.979501 AATGGAAATCCTGCATACCCT 57.020 42.857 0.44 0.00 34.48 4.34
112 113 3.979501 ATGGAAATCCTGCATACCCTT 57.020 42.857 0.44 0.00 33.67 3.95
198 199 3.000819 CCCGGCCACAGGACACTA 61.001 66.667 2.24 0.00 0.00 2.74
371 379 2.747855 CCAAAGGCCGGAGAGCAC 60.748 66.667 5.05 0.00 0.00 4.40
407 415 0.041238 TACCTGCCAGCTGTACTCCT 59.959 55.000 13.81 0.00 0.00 3.69
408 416 0.838122 ACCTGCCAGCTGTACTCCTT 60.838 55.000 13.81 0.00 0.00 3.36
427 438 3.756677 CACTCAGCACGCACGTCG 61.757 66.667 0.00 5.97 45.38 5.12
460 471 1.080025 GGTCCACCGAAGACGAAGG 60.080 63.158 0.00 0.00 42.66 3.46
466 477 2.329379 CACCGAAGACGAAGGAGAAAG 58.671 52.381 0.00 0.00 42.66 2.62
470 481 4.056050 CCGAAGACGAAGGAGAAAGAAAA 58.944 43.478 0.00 0.00 42.66 2.29
471 482 4.510340 CCGAAGACGAAGGAGAAAGAAAAA 59.490 41.667 0.00 0.00 42.66 1.94
492 503 0.549469 AAACAAGAACCCCACCGAGT 59.451 50.000 0.00 0.00 0.00 4.18
611 737 4.094887 GCAATTGAAAGCGAGATACTCCAA 59.905 41.667 10.34 0.00 0.00 3.53
612 738 5.563842 CAATTGAAAGCGAGATACTCCAAC 58.436 41.667 0.00 0.00 0.00 3.77
613 739 2.876091 TGAAAGCGAGATACTCCAACG 58.124 47.619 0.00 0.00 0.00 4.10
614 740 2.194271 GAAAGCGAGATACTCCAACGG 58.806 52.381 0.00 0.00 0.00 4.44
615 741 1.471119 AAGCGAGATACTCCAACGGA 58.529 50.000 0.00 0.00 0.00 4.69
649 775 3.177249 GCGAGGCGACACGTTACC 61.177 66.667 10.45 0.00 46.61 2.85
789 917 0.037877 CAGCCATCCATCCTGATCCC 59.962 60.000 0.00 0.00 0.00 3.85
794 922 1.486997 ATCCATCCTGATCCCAGCGG 61.487 60.000 0.00 0.00 39.07 5.52
922 1050 4.040584 GCCCTCCTTAAATTCCGAGATACT 59.959 45.833 0.00 0.00 0.00 2.12
962 1090 2.429069 GCTGGCCGTTTTTCGCTG 60.429 61.111 0.00 0.00 38.35 5.18
989 1117 2.045536 GGCTTGGGGCAGAGACAG 60.046 66.667 0.00 0.00 44.01 3.51
990 1118 2.596851 GGCTTGGGGCAGAGACAGA 61.597 63.158 0.00 0.00 44.01 3.41
991 1119 1.078567 GCTTGGGGCAGAGACAGAG 60.079 63.158 0.00 0.00 41.35 3.35
992 1120 1.548357 GCTTGGGGCAGAGACAGAGA 61.548 60.000 0.00 0.00 41.35 3.10
993 1121 0.248843 CTTGGGGCAGAGACAGAGAC 59.751 60.000 0.00 0.00 0.00 3.36
994 1122 1.536073 TTGGGGCAGAGACAGAGACG 61.536 60.000 0.00 0.00 0.00 4.18
995 1123 2.716017 GGGGCAGAGACAGAGACGG 61.716 68.421 0.00 0.00 0.00 4.79
996 1124 2.716017 GGGCAGAGACAGAGACGGG 61.716 68.421 0.00 0.00 0.00 5.28
997 1125 2.716017 GGCAGAGACAGAGACGGGG 61.716 68.421 0.00 0.00 0.00 5.73
998 1126 1.679305 GCAGAGACAGAGACGGGGA 60.679 63.158 0.00 0.00 0.00 4.81
999 1127 1.939769 GCAGAGACAGAGACGGGGAC 61.940 65.000 0.00 0.00 0.00 4.46
1000 1128 0.609406 CAGAGACAGAGACGGGGACA 60.609 60.000 0.00 0.00 0.00 4.02
1001 1129 0.333312 AGAGACAGAGACGGGGACAT 59.667 55.000 0.00 0.00 0.00 3.06
1002 1130 0.457851 GAGACAGAGACGGGGACATG 59.542 60.000 0.00 0.00 0.00 3.21
1003 1131 0.972983 AGACAGAGACGGGGACATGG 60.973 60.000 0.00 0.00 0.00 3.66
1004 1132 2.187946 CAGAGACGGGGACATGGC 59.812 66.667 0.00 0.00 0.00 4.40
1005 1133 2.039624 AGAGACGGGGACATGGCT 59.960 61.111 0.00 0.00 0.00 4.75
1006 1134 2.187946 GAGACGGGGACATGGCTG 59.812 66.667 0.00 0.00 0.00 4.85
1007 1135 4.101448 AGACGGGGACATGGCTGC 62.101 66.667 0.00 0.00 0.00 5.25
1008 1136 4.101448 GACGGGGACATGGCTGCT 62.101 66.667 0.00 0.00 0.00 4.24
1009 1137 4.101448 ACGGGGACATGGCTGCTC 62.101 66.667 0.00 0.00 0.00 4.26
1010 1138 4.864334 CGGGGACATGGCTGCTCC 62.864 72.222 0.00 0.00 0.00 4.70
1011 1139 3.415087 GGGGACATGGCTGCTCCT 61.415 66.667 0.00 0.00 35.26 3.69
1112 1243 4.344865 GAAGCCGCTGGGGTGGAA 62.345 66.667 12.70 0.00 45.20 3.53
1142 1273 4.021368 GCCCTTCATCATAGGTATGTACGT 60.021 45.833 0.00 0.00 35.26 3.57
1143 1274 5.184479 GCCCTTCATCATAGGTATGTACGTA 59.816 44.000 0.00 0.00 35.26 3.57
1157 1292 6.143438 GGTATGTACGTATGTATGCTTCACAC 59.857 42.308 0.00 0.00 32.11 3.82
1202 1358 2.596346 TGGATCTCTCCATCTCTCAGC 58.404 52.381 0.00 0.00 46.95 4.26
1235 1391 4.873746 TCTTCTTCTTTCCGATCTGTGT 57.126 40.909 0.00 0.00 0.00 3.72
1237 1393 6.340962 TCTTCTTCTTTCCGATCTGTGTTA 57.659 37.500 0.00 0.00 0.00 2.41
1249 1405 4.556135 CGATCTGTGTTATTGCTTTGCTTG 59.444 41.667 0.00 0.00 0.00 4.01
1250 1406 3.641648 TCTGTGTTATTGCTTTGCTTGC 58.358 40.909 0.00 0.00 0.00 4.01
1251 1407 3.318839 TCTGTGTTATTGCTTTGCTTGCT 59.681 39.130 0.00 0.00 0.00 3.91
1254 1410 3.803778 GTGTTATTGCTTTGCTTGCTTGT 59.196 39.130 0.00 0.00 0.00 3.16
1260 1416 1.814211 CTTTGCTTGCTTGTGCGTGC 61.814 55.000 0.00 0.00 43.34 5.34
1264 1420 4.903355 TTGCTTGTGCGTGCGTGC 62.903 61.111 0.00 0.00 43.34 5.34
1273 1429 3.323903 CGTGCGTGCGTGTGTGTA 61.324 61.111 0.00 0.00 0.00 2.90
1274 1430 2.861701 CGTGCGTGCGTGTGTGTAA 61.862 57.895 0.00 0.00 0.00 2.41
1275 1431 1.083657 GTGCGTGCGTGTGTGTAAG 60.084 57.895 0.00 0.00 0.00 2.34
1276 1432 1.227002 TGCGTGCGTGTGTGTAAGA 60.227 52.632 0.00 0.00 0.00 2.10
1277 1433 1.212455 TGCGTGCGTGTGTGTAAGAG 61.212 55.000 0.00 0.00 0.00 2.85
1278 1434 0.937699 GCGTGCGTGTGTGTAAGAGA 60.938 55.000 0.00 0.00 0.00 3.10
1279 1435 1.483316 CGTGCGTGTGTGTAAGAGAA 58.517 50.000 0.00 0.00 0.00 2.87
1280 1436 1.855978 CGTGCGTGTGTGTAAGAGAAA 59.144 47.619 0.00 0.00 0.00 2.52
1281 1437 2.097396 CGTGCGTGTGTGTAAGAGAAAG 60.097 50.000 0.00 0.00 0.00 2.62
1282 1438 3.120792 GTGCGTGTGTGTAAGAGAAAGA 58.879 45.455 0.00 0.00 0.00 2.52
1283 1439 3.182572 GTGCGTGTGTGTAAGAGAAAGAG 59.817 47.826 0.00 0.00 0.00 2.85
1284 1440 3.067601 TGCGTGTGTGTAAGAGAAAGAGA 59.932 43.478 0.00 0.00 0.00 3.10
1285 1441 3.670991 GCGTGTGTGTAAGAGAAAGAGAG 59.329 47.826 0.00 0.00 0.00 3.20
1286 1442 4.556898 GCGTGTGTGTAAGAGAAAGAGAGA 60.557 45.833 0.00 0.00 0.00 3.10
1287 1443 5.150683 CGTGTGTGTAAGAGAAAGAGAGAG 58.849 45.833 0.00 0.00 0.00 3.20
1288 1444 5.049336 CGTGTGTGTAAGAGAAAGAGAGAGA 60.049 44.000 0.00 0.00 0.00 3.10
1289 1445 6.378582 GTGTGTGTAAGAGAAAGAGAGAGAG 58.621 44.000 0.00 0.00 0.00 3.20
1290 1446 6.205853 GTGTGTGTAAGAGAAAGAGAGAGAGA 59.794 42.308 0.00 0.00 0.00 3.10
1291 1447 6.429692 TGTGTGTAAGAGAAAGAGAGAGAGAG 59.570 42.308 0.00 0.00 0.00 3.20
1292 1448 6.430000 GTGTGTAAGAGAAAGAGAGAGAGAGT 59.570 42.308 0.00 0.00 0.00 3.24
1293 1449 6.429692 TGTGTAAGAGAAAGAGAGAGAGAGTG 59.570 42.308 0.00 0.00 0.00 3.51
1294 1450 6.430000 GTGTAAGAGAAAGAGAGAGAGAGTGT 59.570 42.308 0.00 0.00 0.00 3.55
1295 1451 5.964958 AAGAGAAAGAGAGAGAGAGTGTG 57.035 43.478 0.00 0.00 0.00 3.82
1296 1452 4.985538 AGAGAAAGAGAGAGAGAGTGTGT 58.014 43.478 0.00 0.00 0.00 3.72
1297 1453 5.385198 AGAGAAAGAGAGAGAGAGTGTGTT 58.615 41.667 0.00 0.00 0.00 3.32
1298 1454 5.833131 AGAGAAAGAGAGAGAGAGTGTGTTT 59.167 40.000 0.00 0.00 0.00 2.83
1299 1455 6.323739 AGAGAAAGAGAGAGAGAGTGTGTTTT 59.676 38.462 0.00 0.00 0.00 2.43
1300 1456 6.279882 AGAAAGAGAGAGAGAGTGTGTTTTG 58.720 40.000 0.00 0.00 0.00 2.44
1315 1471 9.182933 GAGTGTGTTTTGTTTGTTTTGTTACTA 57.817 29.630 0.00 0.00 0.00 1.82
1319 1475 9.361315 GTGTTTTGTTTGTTTTGTTACTAGGAT 57.639 29.630 0.00 0.00 0.00 3.24
1334 1490 9.649167 TGTTACTAGGATAAAAGTTACAAGAGC 57.351 33.333 0.00 0.00 33.66 4.09
1335 1491 9.649167 GTTACTAGGATAAAAGTTACAAGAGCA 57.351 33.333 0.00 0.00 0.00 4.26
1337 1493 8.950208 ACTAGGATAAAAGTTACAAGAGCATC 57.050 34.615 0.00 0.00 0.00 3.91
1338 1494 8.540388 ACTAGGATAAAAGTTACAAGAGCATCA 58.460 33.333 0.00 0.00 37.82 3.07
1339 1495 9.553064 CTAGGATAAAAGTTACAAGAGCATCAT 57.447 33.333 0.00 0.00 37.82 2.45
1431 1603 1.446272 GGTCGTACAGTGCAGGCTC 60.446 63.158 0.00 0.00 0.00 4.70
1432 1604 1.446272 GTCGTACAGTGCAGGCTCC 60.446 63.158 0.00 0.00 0.00 4.70
1483 1657 1.272212 ACGGCCATGAACAATTTCCAC 59.728 47.619 2.24 0.00 0.00 4.02
1484 1658 1.404047 CGGCCATGAACAATTTCCACC 60.404 52.381 2.24 0.00 0.00 4.61
1485 1659 1.066215 GGCCATGAACAATTTCCACCC 60.066 52.381 0.00 0.00 0.00 4.61
1486 1660 1.066215 GCCATGAACAATTTCCACCCC 60.066 52.381 0.00 0.00 0.00 4.95
1552 1740 8.529476 ACGAGTTGAACAATTAGGTCTAGTAAT 58.471 33.333 0.00 0.00 34.06 1.89
1620 1808 3.546020 CGCGTTGAATGGTTGGTCATATC 60.546 47.826 0.00 0.00 0.00 1.63
1627 1815 5.652014 TGAATGGTTGGTCATATCTTTCCAC 59.348 40.000 0.00 0.00 0.00 4.02
1635 1823 2.027653 TCATATCTTTCCACGGCACACA 60.028 45.455 0.00 0.00 0.00 3.72
1668 1856 2.378038 TGGCATTTAGGGACAGATTGC 58.622 47.619 0.00 0.00 0.00 3.56
1781 1969 4.160439 ACGGTCTTCTGATTAGCTGATTCA 59.840 41.667 0.00 0.00 0.00 2.57
1785 1973 7.439356 CGGTCTTCTGATTAGCTGATTCATTTA 59.561 37.037 0.00 0.00 0.00 1.40
1830 2018 5.476091 TTTTATTTGCACAACCTAAGGGG 57.524 39.130 0.00 0.00 41.89 4.79
1835 2023 1.674322 CACAACCTAAGGGGCCACG 60.674 63.158 4.39 0.00 39.10 4.94
1842 2030 2.830704 CTAAGGGGCCACGACGACAC 62.831 65.000 4.39 0.00 0.00 3.67
1849 2037 0.306533 GCCACGACGACACAATTGTT 59.693 50.000 8.77 0.41 35.47 2.83
1855 2043 5.260140 CACGACGACACAATTGTTAACTTT 58.740 37.500 8.77 0.00 35.47 2.66
1860 2048 7.317269 CGACGACACAATTGTTAACTTTTACTC 59.683 37.037 8.77 0.00 35.47 2.59
1861 2049 7.412063 ACGACACAATTGTTAACTTTTACTCC 58.588 34.615 8.77 0.00 35.47 3.85
1863 2051 7.375017 CGACACAATTGTTAACTTTTACTCCAC 59.625 37.037 8.77 0.00 35.47 4.02
1864 2052 7.485810 ACACAATTGTTAACTTTTACTCCACC 58.514 34.615 8.77 0.00 28.43 4.61
1865 2053 6.921307 CACAATTGTTAACTTTTACTCCACCC 59.079 38.462 8.77 0.00 0.00 4.61
1869 2057 5.757988 TGTTAACTTTTACTCCACCCAAGT 58.242 37.500 7.22 0.00 0.00 3.16
1872 2060 4.635699 ACTTTTACTCCACCCAAGTAGG 57.364 45.455 0.00 0.00 31.22 3.18
1873 2061 3.244805 ACTTTTACTCCACCCAAGTAGGC 60.245 47.826 0.00 0.00 35.39 3.93
1874 2062 0.899720 TTACTCCACCCAAGTAGGCG 59.100 55.000 0.00 0.00 35.39 5.52
1875 2063 0.251922 TACTCCACCCAAGTAGGCGT 60.252 55.000 0.00 0.00 35.39 5.68
1876 2064 1.218316 CTCCACCCAAGTAGGCGTC 59.782 63.158 0.00 0.00 35.39 5.19
1877 2065 1.534476 TCCACCCAAGTAGGCGTCA 60.534 57.895 0.00 0.00 35.39 4.35
1878 2066 1.079127 CCACCCAAGTAGGCGTCAG 60.079 63.158 0.00 0.00 35.39 3.51
1879 2067 1.541310 CCACCCAAGTAGGCGTCAGA 61.541 60.000 0.00 0.00 35.39 3.27
1880 2068 0.108615 CACCCAAGTAGGCGTCAGAG 60.109 60.000 0.00 0.00 35.39 3.35
1881 2069 0.542232 ACCCAAGTAGGCGTCAGAGT 60.542 55.000 0.00 0.00 35.39 3.24
1882 2070 1.272313 ACCCAAGTAGGCGTCAGAGTA 60.272 52.381 0.00 0.00 35.39 2.59
1883 2071 2.032620 CCCAAGTAGGCGTCAGAGTAT 58.967 52.381 0.00 0.00 35.39 2.12
1884 2072 3.220110 CCCAAGTAGGCGTCAGAGTATA 58.780 50.000 0.00 0.00 35.39 1.47
1885 2073 3.635373 CCCAAGTAGGCGTCAGAGTATAA 59.365 47.826 0.00 0.00 35.39 0.98
1886 2074 4.499357 CCCAAGTAGGCGTCAGAGTATAAC 60.499 50.000 0.00 0.00 35.39 1.89
1887 2075 4.097437 CCAAGTAGGCGTCAGAGTATAACA 59.903 45.833 0.00 0.00 0.00 2.41
1888 2076 5.393787 CCAAGTAGGCGTCAGAGTATAACAA 60.394 44.000 0.00 0.00 0.00 2.83
1889 2077 5.909621 AGTAGGCGTCAGAGTATAACAAA 57.090 39.130 0.00 0.00 0.00 2.83
1890 2078 5.892568 AGTAGGCGTCAGAGTATAACAAAG 58.107 41.667 0.00 0.00 0.00 2.77
1891 2079 3.522553 AGGCGTCAGAGTATAACAAAGC 58.477 45.455 0.00 0.00 0.00 3.51
1892 2080 3.056107 AGGCGTCAGAGTATAACAAAGCA 60.056 43.478 0.00 0.00 0.00 3.91
1893 2081 3.062234 GGCGTCAGAGTATAACAAAGCAC 59.938 47.826 0.00 0.00 0.00 4.40
1894 2082 3.241678 GCGTCAGAGTATAACAAAGCACG 60.242 47.826 0.00 0.00 0.00 5.34
1895 2083 4.163552 CGTCAGAGTATAACAAAGCACGA 58.836 43.478 0.00 0.00 0.00 4.35
1896 2084 4.030306 CGTCAGAGTATAACAAAGCACGAC 59.970 45.833 0.00 0.00 0.00 4.34
1897 2085 4.326548 GTCAGAGTATAACAAAGCACGACC 59.673 45.833 0.00 0.00 0.00 4.79
1898 2086 4.021807 TCAGAGTATAACAAAGCACGACCA 60.022 41.667 0.00 0.00 0.00 4.02
1900 2088 5.351465 CAGAGTATAACAAAGCACGACCATT 59.649 40.000 0.00 0.00 0.00 3.16
1903 2091 7.277981 AGAGTATAACAAAGCACGACCATTTAG 59.722 37.037 0.00 0.00 0.00 1.85
1904 2092 7.101054 AGTATAACAAAGCACGACCATTTAGA 58.899 34.615 0.00 0.00 0.00 2.10
1910 2098 4.156455 AGCACGACCATTTAGATTCCAT 57.844 40.909 0.00 0.00 0.00 3.41
1918 2106 5.751586 ACCATTTAGATTCCATAACACCGT 58.248 37.500 0.00 0.00 0.00 4.83
1919 2107 5.588648 ACCATTTAGATTCCATAACACCGTG 59.411 40.000 0.00 0.00 0.00 4.94
1923 2111 3.620488 AGATTCCATAACACCGTGCAAT 58.380 40.909 0.00 0.00 0.00 3.56
1924 2112 3.378112 AGATTCCATAACACCGTGCAATG 59.622 43.478 0.00 2.80 0.00 2.82
1926 2114 2.080693 TCCATAACACCGTGCAATGTC 58.919 47.619 0.00 0.00 0.00 3.06
1927 2115 1.202020 CCATAACACCGTGCAATGTCG 60.202 52.381 0.00 0.00 0.00 4.35
1932 2120 4.490003 AACACCGTGCAATGTCGGAGTA 62.490 50.000 19.17 0.00 46.43 2.59
1933 2121 5.731694 AACACCGTGCAATGTCGGAGTAT 62.732 47.826 19.17 6.68 46.43 2.12
1934 2122 7.803985 TAACACCGTGCAATGTCGGAGTATT 62.804 44.000 19.17 6.91 46.43 1.89
1936 2124 9.865914 TAACACCGTGCAATGTCGGAGTATTTA 62.866 40.741 19.17 5.43 46.43 1.40
1939 2127 4.328983 CGTGCAATGTCGGAGTATTTAGTT 59.671 41.667 0.00 0.00 0.00 2.24
1940 2128 5.517411 CGTGCAATGTCGGAGTATTTAGTTA 59.483 40.000 0.00 0.00 0.00 2.24
1941 2129 6.291637 CGTGCAATGTCGGAGTATTTAGTTAG 60.292 42.308 0.00 0.00 0.00 2.34
1942 2130 5.522460 TGCAATGTCGGAGTATTTAGTTAGC 59.478 40.000 0.00 0.00 0.00 3.09
1943 2131 5.522460 GCAATGTCGGAGTATTTAGTTAGCA 59.478 40.000 0.00 0.00 0.00 3.49
1948 2136 5.862860 GTCGGAGTATTTAGTTAGCATAGGC 59.137 44.000 0.00 0.00 41.61 3.93
1959 2147 4.096984 AGTTAGCATAGGCAAGAAATGTGC 59.903 41.667 0.67 0.00 44.61 4.57
2283 3244 6.094603 AGGAAATGTGAGATAAGTGTCATTGC 59.905 38.462 0.00 0.00 29.57 3.56
2424 3386 7.798516 ACATTTTATCTGCTTATTATCGCAACG 59.201 33.333 0.00 0.00 35.46 4.10
2561 3527 8.186821 GCAGATGTCAGCAACTAATAGATTTTT 58.813 33.333 0.00 0.00 0.00 1.94
2588 3554 3.109619 GCTCACAGTCTAATCTGCGTAC 58.890 50.000 0.00 0.00 38.84 3.67
2600 3566 2.694213 TCTGCGTACTTATTTGCTGCA 58.306 42.857 0.00 0.00 0.00 4.41
2970 3936 5.549742 TTCCCACATTCTTCATGCTTTTT 57.450 34.783 0.00 0.00 36.14 1.94
3002 3968 5.527214 TCATTTTATTCATGGGCACTAGACG 59.473 40.000 0.00 0.00 0.00 4.18
3273 4266 2.612212 CGTCCCATTCCCAAAAGTATCG 59.388 50.000 0.00 0.00 0.00 2.92
3360 4529 5.757886 TGTAACTTGCTAAAACATGCAGAC 58.242 37.500 0.00 0.00 40.46 3.51
3384 4633 6.434028 ACATTCATGTGCTGGTAAATGTAAGT 59.566 34.615 3.96 0.00 40.03 2.24
3427 4677 0.468226 AAAACGTCCTGCACTCCTCA 59.532 50.000 0.00 0.00 0.00 3.86
3472 4723 4.592942 AGAACATGCTAGGCAGATCAAAA 58.407 39.130 0.00 0.00 43.65 2.44
4419 5833 0.543883 AGAGGCAGAAGCAGAGGTCA 60.544 55.000 0.00 0.00 44.61 4.02
4670 6086 5.233083 TGATGAAGTGTGAGTTTCTGGAT 57.767 39.130 0.00 0.00 0.00 3.41
4679 6095 7.571919 AGTGTGAGTTTCTGGATCATAATGAT 58.428 34.615 0.00 0.00 40.34 2.45
5056 6930 2.424956 GGGTCATCCTTCAATGAACTGC 59.575 50.000 0.00 0.00 42.03 4.40
5345 7220 4.536765 CCCCAGCATTACCTGTAGAATTT 58.463 43.478 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 9.801873 GACATCTCTTATTATCTTGAGGCTATC 57.198 37.037 0.00 0.00 0.00 2.08
34 35 0.179137 CTGTGCGGCGACATCTCTTA 60.179 55.000 12.98 0.00 0.00 2.10
35 36 1.446792 CTGTGCGGCGACATCTCTT 60.447 57.895 12.98 0.00 0.00 2.85
36 37 2.182791 CTGTGCGGCGACATCTCT 59.817 61.111 12.98 0.00 0.00 3.10
89 90 4.218312 AGGGTATGCAGGATTTCCATTTC 58.782 43.478 0.00 0.00 38.89 2.17
94 95 5.243954 GGATAAAAGGGTATGCAGGATTTCC 59.756 44.000 0.00 0.00 0.00 3.13
108 109 0.944386 CGCGTCCATGGATAAAAGGG 59.056 55.000 19.62 11.47 0.00 3.95
111 112 2.010670 CGCGCGTCCATGGATAAAA 58.989 52.632 24.19 0.00 0.00 1.52
112 113 2.530497 GCGCGCGTCCATGGATAAA 61.530 57.895 32.35 0.00 0.00 1.40
140 141 2.644555 ATCGGATCCGGTTTCCTGCG 62.645 60.000 32.79 4.29 40.25 5.18
197 198 1.268283 TGTCGTGGCCCATGTGGATA 61.268 55.000 0.00 0.00 37.39 2.59
198 199 2.135903 TTGTCGTGGCCCATGTGGAT 62.136 55.000 0.00 0.00 37.39 3.41
265 267 2.623889 ACAGTGCCTCGGTCTATCATAC 59.376 50.000 0.00 0.00 0.00 2.39
385 393 1.810030 GTACAGCTGGCAGGTACGC 60.810 63.158 20.14 8.24 0.00 4.42
407 415 1.487452 GACGTGCGTGCTGAGTGAAA 61.487 55.000 0.67 0.00 0.00 2.69
408 416 1.949133 GACGTGCGTGCTGAGTGAA 60.949 57.895 0.67 0.00 0.00 3.18
471 482 2.028876 CTCGGTGGGGTTCTTGTTTTT 58.971 47.619 0.00 0.00 0.00 1.94
527 547 3.684628 TCGGCTTCCTCCCTCCCT 61.685 66.667 0.00 0.00 0.00 4.20
528 548 3.471806 GTCGGCTTCCTCCCTCCC 61.472 72.222 0.00 0.00 0.00 4.30
529 549 3.839432 CGTCGGCTTCCTCCCTCC 61.839 72.222 0.00 0.00 0.00 4.30
530 550 3.839432 CCGTCGGCTTCCTCCCTC 61.839 72.222 0.00 0.00 0.00 4.30
611 737 0.179084 ATCGAAACCGCATCATCCGT 60.179 50.000 0.00 0.00 0.00 4.69
612 738 0.508641 GATCGAAACCGCATCATCCG 59.491 55.000 0.00 0.00 0.00 4.18
613 739 0.508641 CGATCGAAACCGCATCATCC 59.491 55.000 10.26 0.00 0.00 3.51
738 864 6.451064 CATGGATATGCAGCATATGTCAAT 57.549 37.500 29.14 14.76 37.20 2.57
814 942 3.490419 GCCAATCTCAGCCATTCATTCAC 60.490 47.826 0.00 0.00 0.00 3.18
922 1050 3.307906 ACAGGGGCAAGCGACGTA 61.308 61.111 0.00 0.00 0.00 3.57
947 1075 2.203224 TCCAGCGAAAAACGGCCA 60.203 55.556 2.24 0.00 42.83 5.36
980 1108 1.679305 TCCCCGTCTCTGTCTCTGC 60.679 63.158 0.00 0.00 0.00 4.26
989 1117 2.187946 CAGCCATGTCCCCGTCTC 59.812 66.667 0.00 0.00 0.00 3.36
990 1118 4.101448 GCAGCCATGTCCCCGTCT 62.101 66.667 0.00 0.00 0.00 4.18
991 1119 4.101448 AGCAGCCATGTCCCCGTC 62.101 66.667 0.00 0.00 0.00 4.79
992 1120 4.101448 GAGCAGCCATGTCCCCGT 62.101 66.667 0.00 0.00 0.00 5.28
993 1121 4.864334 GGAGCAGCCATGTCCCCG 62.864 72.222 0.00 0.00 36.34 5.73
994 1122 3.415087 AGGAGCAGCCATGTCCCC 61.415 66.667 0.00 0.00 40.02 4.81
995 1123 2.124403 CAGGAGCAGCCATGTCCC 60.124 66.667 0.00 0.00 40.02 4.46
996 1124 2.827642 GCAGGAGCAGCCATGTCC 60.828 66.667 0.00 0.00 41.58 4.02
997 1125 2.113433 CAGCAGGAGCAGCCATGTC 61.113 63.158 0.00 0.00 45.49 3.06
998 1126 2.045242 CAGCAGGAGCAGCCATGT 60.045 61.111 0.00 0.00 45.49 3.21
999 1127 3.518998 GCAGCAGGAGCAGCCATG 61.519 66.667 0.00 0.00 46.35 3.66
1004 1132 4.834453 CCTCCGCAGCAGGAGCAG 62.834 72.222 21.38 10.03 38.04 4.24
1007 1135 4.463879 CCACCTCCGCAGCAGGAG 62.464 72.222 20.37 20.37 38.04 3.69
1009 1137 4.463879 CTCCACCTCCGCAGCAGG 62.464 72.222 0.00 0.00 44.65 4.85
1010 1138 2.729479 ATCTCCACCTCCGCAGCAG 61.729 63.158 0.00 0.00 0.00 4.24
1011 1139 2.685017 ATCTCCACCTCCGCAGCA 60.685 61.111 0.00 0.00 0.00 4.41
1112 1243 2.488528 CCTATGATGAAGGGCATGCACT 60.489 50.000 19.14 19.14 37.34 4.40
1142 1273 4.816392 AGTGAACGTGTGAAGCATACATA 58.184 39.130 0.00 0.00 0.00 2.29
1143 1274 3.664107 AGTGAACGTGTGAAGCATACAT 58.336 40.909 0.00 0.00 0.00 2.29
1157 1292 3.522553 GGGAATGGAGTAGAAGTGAACG 58.477 50.000 0.00 0.00 0.00 3.95
1202 1358 4.926140 AAGAAGAAGAAACCAAAGCAGG 57.074 40.909 0.00 0.00 0.00 4.85
1235 1391 2.801679 GCACAAGCAAGCAAAGCAATAA 59.198 40.909 0.00 0.00 41.58 1.40
1237 1393 1.223187 GCACAAGCAAGCAAAGCAAT 58.777 45.000 0.00 0.00 41.58 3.56
1260 1416 1.483316 TTCTCTTACACACACGCACG 58.517 50.000 0.00 0.00 0.00 5.34
1264 1420 5.049336 TCTCTCTCTTTCTCTTACACACACG 60.049 44.000 0.00 0.00 0.00 4.49
1265 1421 6.205853 TCTCTCTCTCTTTCTCTTACACACAC 59.794 42.308 0.00 0.00 0.00 3.82
1266 1422 6.299922 TCTCTCTCTCTTTCTCTTACACACA 58.700 40.000 0.00 0.00 0.00 3.72
1267 1423 6.430000 ACTCTCTCTCTCTTTCTCTTACACAC 59.570 42.308 0.00 0.00 0.00 3.82
1268 1424 6.429692 CACTCTCTCTCTCTTTCTCTTACACA 59.570 42.308 0.00 0.00 0.00 3.72
1269 1425 6.430000 ACACTCTCTCTCTCTTTCTCTTACAC 59.570 42.308 0.00 0.00 0.00 2.90
1270 1426 6.429692 CACACTCTCTCTCTCTTTCTCTTACA 59.570 42.308 0.00 0.00 0.00 2.41
1271 1427 6.430000 ACACACTCTCTCTCTCTTTCTCTTAC 59.570 42.308 0.00 0.00 0.00 2.34
1272 1428 6.539173 ACACACTCTCTCTCTCTTTCTCTTA 58.461 40.000 0.00 0.00 0.00 2.10
1273 1429 5.385198 ACACACTCTCTCTCTCTTTCTCTT 58.615 41.667 0.00 0.00 0.00 2.85
1274 1430 4.985538 ACACACTCTCTCTCTCTTTCTCT 58.014 43.478 0.00 0.00 0.00 3.10
1275 1431 5.705609 AACACACTCTCTCTCTCTTTCTC 57.294 43.478 0.00 0.00 0.00 2.87
1276 1432 6.127196 ACAAAACACACTCTCTCTCTCTTTCT 60.127 38.462 0.00 0.00 0.00 2.52
1277 1433 6.045955 ACAAAACACACTCTCTCTCTCTTTC 58.954 40.000 0.00 0.00 0.00 2.62
1278 1434 5.983540 ACAAAACACACTCTCTCTCTCTTT 58.016 37.500 0.00 0.00 0.00 2.52
1279 1435 5.606348 ACAAAACACACTCTCTCTCTCTT 57.394 39.130 0.00 0.00 0.00 2.85
1280 1436 5.606348 AACAAAACACACTCTCTCTCTCT 57.394 39.130 0.00 0.00 0.00 3.10
1281 1437 5.582665 ACAAACAAAACACACTCTCTCTCTC 59.417 40.000 0.00 0.00 0.00 3.20
1282 1438 5.491982 ACAAACAAAACACACTCTCTCTCT 58.508 37.500 0.00 0.00 0.00 3.10
1283 1439 5.803020 ACAAACAAAACACACTCTCTCTC 57.197 39.130 0.00 0.00 0.00 3.20
1284 1440 6.575162 AAACAAACAAAACACACTCTCTCT 57.425 33.333 0.00 0.00 0.00 3.10
1285 1441 6.640907 ACAAAACAAACAAAACACACTCTCTC 59.359 34.615 0.00 0.00 0.00 3.20
1286 1442 6.512297 ACAAAACAAACAAAACACACTCTCT 58.488 32.000 0.00 0.00 0.00 3.10
1287 1443 6.763303 ACAAAACAAACAAAACACACTCTC 57.237 33.333 0.00 0.00 0.00 3.20
1288 1444 7.923878 AGTAACAAAACAAACAAAACACACTCT 59.076 29.630 0.00 0.00 0.00 3.24
1289 1445 8.067780 AGTAACAAAACAAACAAAACACACTC 57.932 30.769 0.00 0.00 0.00 3.51
1290 1446 9.187455 CTAGTAACAAAACAAACAAAACACACT 57.813 29.630 0.00 0.00 0.00 3.55
1291 1447 8.429299 CCTAGTAACAAAACAAACAAAACACAC 58.571 33.333 0.00 0.00 0.00 3.82
1292 1448 8.358148 TCCTAGTAACAAAACAAACAAAACACA 58.642 29.630 0.00 0.00 0.00 3.72
1293 1449 8.745464 TCCTAGTAACAAAACAAACAAAACAC 57.255 30.769 0.00 0.00 0.00 3.32
1315 1471 8.814038 AATGATGCTCTTGTAACTTTTATCCT 57.186 30.769 0.00 0.00 0.00 3.24
1319 1475 8.461222 CCATGAATGATGCTCTTGTAACTTTTA 58.539 33.333 0.00 0.00 0.00 1.52
1324 1480 4.498682 GGCCATGAATGATGCTCTTGTAAC 60.499 45.833 0.00 0.00 0.00 2.50
1326 1482 3.216800 GGCCATGAATGATGCTCTTGTA 58.783 45.455 0.00 0.00 0.00 2.41
1327 1483 2.029623 GGCCATGAATGATGCTCTTGT 58.970 47.619 0.00 0.00 0.00 3.16
1328 1484 2.028876 TGGCCATGAATGATGCTCTTG 58.971 47.619 0.00 0.00 0.00 3.02
1330 1486 1.214673 ACTGGCCATGAATGATGCTCT 59.785 47.619 5.51 0.00 0.00 4.09
1331 1487 1.337071 CACTGGCCATGAATGATGCTC 59.663 52.381 5.51 0.00 0.00 4.26
1332 1488 1.399714 CACTGGCCATGAATGATGCT 58.600 50.000 5.51 0.00 0.00 3.79
1334 1490 0.387929 GCCACTGGCCATGAATGATG 59.612 55.000 5.51 0.00 44.06 3.07
1335 1491 2.816746 GCCACTGGCCATGAATGAT 58.183 52.632 5.51 0.00 44.06 2.45
1364 1525 0.747283 ACTGTACGAGGTAGAGGCCG 60.747 60.000 0.00 0.00 34.33 6.13
1366 1527 1.023502 GGACTGTACGAGGTAGAGGC 58.976 60.000 5.15 1.57 36.79 4.70
1464 1636 1.404047 GGTGGAAATTGTTCATGGCCG 60.404 52.381 0.00 0.00 35.25 6.13
1493 1667 3.089284 CGGGAAGGCCAGAATTAGTTTT 58.911 45.455 5.01 0.00 35.15 2.43
1527 1715 8.928270 ATTACTAGACCTAATTGTTCAACTCG 57.072 34.615 0.00 0.00 0.00 4.18
1552 1740 9.919416 TTGATCTTCCCTATATCAATCAAACAA 57.081 29.630 0.00 0.00 35.32 2.83
1620 1808 2.285827 TTTTTGTGTGCCGTGGAAAG 57.714 45.000 0.00 0.00 0.00 2.62
1668 1856 6.024049 GCTCGTAAATGTTTGAGAGATTTGG 58.976 40.000 12.81 0.00 33.67 3.28
1676 1864 9.055248 CAATCTTTAAGCTCGTAAATGTTTGAG 57.945 33.333 0.00 0.00 0.00 3.02
1677 1865 8.564574 ACAATCTTTAAGCTCGTAAATGTTTGA 58.435 29.630 0.00 0.00 0.00 2.69
1815 2003 2.438795 GGCCCCTTAGGTTGTGCA 59.561 61.111 0.00 0.00 38.26 4.57
1822 2010 3.072468 TCGTCGTGGCCCCTTAGG 61.072 66.667 0.00 0.00 39.47 2.69
1823 2011 2.183555 GTCGTCGTGGCCCCTTAG 59.816 66.667 0.00 0.00 0.00 2.18
1825 2013 4.309950 GTGTCGTCGTGGCCCCTT 62.310 66.667 0.00 0.00 0.00 3.95
1827 2015 3.894547 ATTGTGTCGTCGTGGCCCC 62.895 63.158 0.00 0.00 0.00 5.80
1830 2018 0.306533 AACAATTGTGTCGTCGTGGC 59.693 50.000 12.82 0.00 36.80 5.01
1835 2023 7.585210 GGAGTAAAAGTTAACAATTGTGTCGTC 59.415 37.037 12.82 2.01 36.80 4.20
1842 2030 7.045126 TGGGTGGAGTAAAAGTTAACAATTG 57.955 36.000 8.61 3.24 0.00 2.32
1849 2037 5.513614 GCCTACTTGGGTGGAGTAAAAGTTA 60.514 44.000 0.00 0.00 33.37 2.24
1855 2043 0.899720 CGCCTACTTGGGTGGAGTAA 59.100 55.000 0.00 0.00 36.00 2.24
1860 2048 1.079127 CTGACGCCTACTTGGGTGG 60.079 63.158 0.00 0.00 40.83 4.61
1861 2049 0.108615 CTCTGACGCCTACTTGGGTG 60.109 60.000 0.00 0.00 42.11 4.61
1863 2051 1.471119 TACTCTGACGCCTACTTGGG 58.529 55.000 0.00 0.00 36.00 4.12
1864 2052 4.097437 TGTTATACTCTGACGCCTACTTGG 59.903 45.833 0.00 0.00 39.35 3.61
1865 2053 5.244785 TGTTATACTCTGACGCCTACTTG 57.755 43.478 0.00 0.00 0.00 3.16
1869 2057 4.158949 TGCTTTGTTATACTCTGACGCCTA 59.841 41.667 0.00 0.00 0.00 3.93
1872 2060 3.241678 CGTGCTTTGTTATACTCTGACGC 60.242 47.826 0.00 0.00 0.00 5.19
1873 2061 4.030306 GTCGTGCTTTGTTATACTCTGACG 59.970 45.833 0.00 0.00 0.00 4.35
1874 2062 4.326548 GGTCGTGCTTTGTTATACTCTGAC 59.673 45.833 0.00 0.00 0.00 3.51
1875 2063 4.021807 TGGTCGTGCTTTGTTATACTCTGA 60.022 41.667 0.00 0.00 0.00 3.27
1876 2064 4.242475 TGGTCGTGCTTTGTTATACTCTG 58.758 43.478 0.00 0.00 0.00 3.35
1877 2065 4.530710 TGGTCGTGCTTTGTTATACTCT 57.469 40.909 0.00 0.00 0.00 3.24
1878 2066 5.796350 AATGGTCGTGCTTTGTTATACTC 57.204 39.130 0.00 0.00 0.00 2.59
1879 2067 7.101054 TCTAAATGGTCGTGCTTTGTTATACT 58.899 34.615 0.00 0.00 0.00 2.12
1880 2068 7.298507 TCTAAATGGTCGTGCTTTGTTATAC 57.701 36.000 0.00 0.00 0.00 1.47
1881 2069 8.500753 AATCTAAATGGTCGTGCTTTGTTATA 57.499 30.769 0.00 0.00 0.00 0.98
1882 2070 7.391148 AATCTAAATGGTCGTGCTTTGTTAT 57.609 32.000 0.00 0.00 0.00 1.89
1883 2071 6.128117 GGAATCTAAATGGTCGTGCTTTGTTA 60.128 38.462 0.00 0.00 0.00 2.41
1884 2072 5.335661 GGAATCTAAATGGTCGTGCTTTGTT 60.336 40.000 0.00 0.00 0.00 2.83
1885 2073 4.156008 GGAATCTAAATGGTCGTGCTTTGT 59.844 41.667 0.00 0.00 0.00 2.83
1886 2074 4.155826 TGGAATCTAAATGGTCGTGCTTTG 59.844 41.667 0.00 0.00 0.00 2.77
1887 2075 4.331968 TGGAATCTAAATGGTCGTGCTTT 58.668 39.130 0.00 0.00 0.00 3.51
1888 2076 3.950397 TGGAATCTAAATGGTCGTGCTT 58.050 40.909 0.00 0.00 0.00 3.91
1889 2077 3.627395 TGGAATCTAAATGGTCGTGCT 57.373 42.857 0.00 0.00 0.00 4.40
1890 2078 5.295787 TGTTATGGAATCTAAATGGTCGTGC 59.704 40.000 0.00 0.00 0.00 5.34
1891 2079 6.238374 GGTGTTATGGAATCTAAATGGTCGTG 60.238 42.308 0.00 0.00 0.00 4.35
1892 2080 5.820947 GGTGTTATGGAATCTAAATGGTCGT 59.179 40.000 0.00 0.00 0.00 4.34
1893 2081 5.050363 CGGTGTTATGGAATCTAAATGGTCG 60.050 44.000 0.00 0.00 0.00 4.79
1894 2082 5.820947 ACGGTGTTATGGAATCTAAATGGTC 59.179 40.000 0.00 0.00 0.00 4.02
1895 2083 5.588648 CACGGTGTTATGGAATCTAAATGGT 59.411 40.000 0.00 0.00 0.00 3.55
1896 2084 5.505654 GCACGGTGTTATGGAATCTAAATGG 60.506 44.000 10.24 0.00 0.00 3.16
1897 2085 5.065859 TGCACGGTGTTATGGAATCTAAATG 59.934 40.000 10.24 0.00 0.00 2.32
1898 2086 5.189928 TGCACGGTGTTATGGAATCTAAAT 58.810 37.500 10.24 0.00 0.00 1.40
1900 2088 4.209307 TGCACGGTGTTATGGAATCTAA 57.791 40.909 10.24 0.00 0.00 2.10
1903 2091 3.128589 ACATTGCACGGTGTTATGGAATC 59.871 43.478 20.64 1.17 34.99 2.52
1904 2092 3.088532 ACATTGCACGGTGTTATGGAAT 58.911 40.909 20.64 3.85 37.35 3.01
1910 2098 2.534452 CCGACATTGCACGGTGTTA 58.466 52.632 10.24 0.00 43.53 2.41
1918 2106 5.522460 GCTAACTAAATACTCCGACATTGCA 59.478 40.000 0.00 0.00 0.00 4.08
1919 2107 5.522460 TGCTAACTAAATACTCCGACATTGC 59.478 40.000 0.00 0.00 0.00 3.56
1923 2111 6.516194 GCCTATGCTAACTAAATACTCCGACA 60.516 42.308 0.00 0.00 33.53 4.35
1924 2112 5.862860 GCCTATGCTAACTAAATACTCCGAC 59.137 44.000 0.00 0.00 33.53 4.79
1926 2114 5.779922 TGCCTATGCTAACTAAATACTCCG 58.220 41.667 0.00 0.00 38.71 4.63
1927 2115 7.442656 TCTTGCCTATGCTAACTAAATACTCC 58.557 38.462 0.00 0.00 38.71 3.85
1928 2116 8.888579 TTCTTGCCTATGCTAACTAAATACTC 57.111 34.615 0.00 0.00 38.71 2.59
1929 2117 9.853177 ATTTCTTGCCTATGCTAACTAAATACT 57.147 29.630 0.00 0.00 38.71 2.12
1930 2118 9.884465 CATTTCTTGCCTATGCTAACTAAATAC 57.116 33.333 0.00 0.00 38.71 1.89
1931 2119 9.627123 ACATTTCTTGCCTATGCTAACTAAATA 57.373 29.630 0.00 0.00 38.71 1.40
1932 2120 8.408601 CACATTTCTTGCCTATGCTAACTAAAT 58.591 33.333 0.00 0.00 38.71 1.40
1933 2121 7.628366 GCACATTTCTTGCCTATGCTAACTAAA 60.628 37.037 0.00 0.00 38.71 1.85
1934 2122 6.183360 GCACATTTCTTGCCTATGCTAACTAA 60.183 38.462 0.00 0.00 38.71 2.24
1935 2123 5.296780 GCACATTTCTTGCCTATGCTAACTA 59.703 40.000 0.00 0.00 38.71 2.24
1936 2124 4.096984 GCACATTTCTTGCCTATGCTAACT 59.903 41.667 0.00 0.00 38.71 2.24
1959 2147 3.937706 CTGCATAGAAAGGAAGTGTGAGG 59.062 47.826 0.00 0.00 0.00 3.86
1962 2150 3.076621 TGCTGCATAGAAAGGAAGTGTG 58.923 45.455 0.00 0.00 0.00 3.82
2424 3386 5.159209 CCATTTGCTGAGACATCAAGTTTC 58.841 41.667 0.00 0.00 34.23 2.78
2561 3527 3.937079 CAGATTAGACTGTGAGCAATGCA 59.063 43.478 8.35 0.00 33.73 3.96
2588 3554 3.747529 CCCCTGTTTTTGCAGCAAATAAG 59.252 43.478 21.25 16.91 33.19 1.73
2600 3566 0.486879 TCCCAGCATCCCCTGTTTTT 59.513 50.000 0.00 0.00 0.00 1.94
2970 3936 7.711772 GTGCCCATGAATAAAATGATGATTGAA 59.288 33.333 0.00 0.00 0.00 2.69
3002 3968 4.442706 CTCTGGTGGTACATGGACATAAC 58.557 47.826 10.99 4.85 44.52 1.89
3296 4464 3.993920 ACACTTTTGCAAGCTAATTGGG 58.006 40.909 0.00 0.00 39.47 4.12
3360 4529 6.855836 ACTTACATTTACCAGCACATGAATG 58.144 36.000 0.00 0.00 30.64 2.67
3384 4633 5.299028 TGCTCACTTACTTGCAGAAAAATGA 59.701 36.000 0.00 0.00 0.00 2.57
4050 5464 2.107204 AGGCCTCAGCAATACCCATTAG 59.893 50.000 0.00 0.00 42.56 1.73
4637 6053 8.048534 ACTCACACTTCATCAAATTGGAATAG 57.951 34.615 0.00 0.00 0.00 1.73
4670 6086 6.822667 AAAATATCGCTGGCATCATTATGA 57.177 33.333 0.00 0.00 34.84 2.15
4679 6095 2.441410 TCCACAAAAATATCGCTGGCA 58.559 42.857 0.00 0.00 0.00 4.92
5011 6884 3.117794 TGTCCGTACTGTTTGAACTTCG 58.882 45.455 0.00 0.00 0.00 3.79
5260 7135 2.105134 TGGTCCAGTTATTGTTCCACGT 59.895 45.455 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.