Multiple sequence alignment - TraesCS7B01G456100

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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 TraesCS7B01G456100 chr7B 100.000 2273 0 0 1 2273 716504285 716506557 0.000000e+00 4198.0
1 TraesCS7B01G456100 chr7B 91.191 613 51 3 1456 2066 528409075 528408464 0.000000e+00 830.0
2 TraesCS7B01G456100 chr7B 100.000 41 0 0 1366 1406 716393873 716393913 2.420000e-10 76.8
3 TraesCS7B01G456100 chr2B 96.951 1312 29 5 1 1306 119207431 119206125 0.000000e+00 2191.0
4 TraesCS7B01G456100 chr2B 92.251 684 48 5 1450 2132 767766161 767765482 0.000000e+00 965.0
5 TraesCS7B01G456100 chr1B 93.888 1309 70 5 1 1305 539834555 539835857 0.000000e+00 1965.0
6 TraesCS7B01G456100 chr1B 89.069 677 49 8 1457 2132 656425750 656426402 0.000000e+00 817.0
7 TraesCS7B01G456100 chr6A 92.237 1314 95 4 1 1310 190747297 190748607 0.000000e+00 1855.0
8 TraesCS7B01G456100 chr7A 90.168 1312 122 4 1 1308 445629711 445628403 0.000000e+00 1701.0
9 TraesCS7B01G456100 chr6B 87.697 1268 130 12 51 1314 591574884 591576129 0.000000e+00 1454.0
10 TraesCS7B01G456100 chr6B 98.582 141 1 1 2133 2273 452456177 452456038 4.850000e-62 248.0
11 TraesCS7B01G456100 chr6B 97.203 143 4 0 2128 2270 538918715 538918857 2.260000e-60 243.0
12 TraesCS7B01G456100 chr6B 95.364 151 4 3 2123 2273 2900367 2900514 1.050000e-58 237.0
13 TraesCS7B01G456100 chr6D 87.448 1211 108 15 51 1249 395692482 395693660 0.000000e+00 1354.0
14 TraesCS7B01G456100 chr5B 87.366 1116 132 6 193 1304 271313322 271312212 0.000000e+00 1271.0
15 TraesCS7B01G456100 chr5B 97.887 142 2 1 2132 2273 652994410 652994270 6.270000e-61 244.0
16 TraesCS7B01G456100 chr5B 94.340 159 4 4 2118 2273 566791034 566791190 2.920000e-59 239.0
17 TraesCS7B01G456100 chr4D 93.098 681 44 3 1453 2132 438107028 438106350 0.000000e+00 994.0
18 TraesCS7B01G456100 chr1A 92.711 686 45 5 1449 2132 22851935 22852617 0.000000e+00 985.0
19 TraesCS7B01G456100 chr3B 88.873 683 42 13 1455 2132 809596283 809595630 0.000000e+00 809.0
20 TraesCS7B01G456100 chr3B 90.000 600 46 10 1540 2132 25128001 25128593 0.000000e+00 763.0
21 TraesCS7B01G456100 chr3B 96.689 151 3 2 2123 2273 809200060 809199912 1.350000e-62 250.0
22 TraesCS7B01G456100 chr3B 97.619 42 1 0 1496 1537 25127979 25128020 3.130000e-09 73.1
23 TraesCS7B01G456100 chr4A 88.840 681 43 14 1457 2132 168112858 168113510 0.000000e+00 806.0
24 TraesCS7B01G456100 chr4A 92.781 471 34 0 838 1308 75219804 75220274 0.000000e+00 682.0
25 TraesCS7B01G456100 chr4A 76.879 1224 261 18 75 1285 634433571 634434785 0.000000e+00 673.0
26 TraesCS7B01G456100 chr3D 88.820 644 45 13 1450 2090 65304066 65304685 0.000000e+00 765.0
27 TraesCS7B01G456100 chr3D 77.728 1127 230 19 190 1304 533687332 533688449 0.000000e+00 671.0
28 TraesCS7B01G456100 chr1D 87.316 678 50 16 1458 2132 60747371 60746727 0.000000e+00 743.0
29 TraesCS7B01G456100 chr3A 94.845 388 19 1 920 1307 716108360 716107974 2.500000e-169 604.0
30 TraesCS7B01G456100 chr3A 96.296 81 3 0 2052 2132 721250750 721250830 1.420000e-27 134.0
31 TraesCS7B01G456100 chr5A 98.582 141 2 0 2133 2273 684275419 684275559 1.350000e-62 250.0
32 TraesCS7B01G456100 chr5A 89.103 156 16 1 1455 1610 362088756 362088910 2.300000e-45 193.0
33 TraesCS7B01G456100 chr4B 98.582 141 1 1 2133 2273 442183395 442183534 4.850000e-62 248.0
34 TraesCS7B01G456100 chr4B 93.168 161 7 3 2114 2270 27094694 27094854 1.360000e-57 233.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G456100 chr7B 716504285 716506557 2272 False 4198.00 4198 100.0000 1 2273 1 chr7B.!!$F2 2272
1 TraesCS7B01G456100 chr7B 528408464 528409075 611 True 830.00 830 91.1910 1456 2066 1 chr7B.!!$R1 610
2 TraesCS7B01G456100 chr2B 119206125 119207431 1306 True 2191.00 2191 96.9510 1 1306 1 chr2B.!!$R1 1305
3 TraesCS7B01G456100 chr2B 767765482 767766161 679 True 965.00 965 92.2510 1450 2132 1 chr2B.!!$R2 682
4 TraesCS7B01G456100 chr1B 539834555 539835857 1302 False 1965.00 1965 93.8880 1 1305 1 chr1B.!!$F1 1304
5 TraesCS7B01G456100 chr1B 656425750 656426402 652 False 817.00 817 89.0690 1457 2132 1 chr1B.!!$F2 675
6 TraesCS7B01G456100 chr6A 190747297 190748607 1310 False 1855.00 1855 92.2370 1 1310 1 chr6A.!!$F1 1309
7 TraesCS7B01G456100 chr7A 445628403 445629711 1308 True 1701.00 1701 90.1680 1 1308 1 chr7A.!!$R1 1307
8 TraesCS7B01G456100 chr6B 591574884 591576129 1245 False 1454.00 1454 87.6970 51 1314 1 chr6B.!!$F3 1263
9 TraesCS7B01G456100 chr6D 395692482 395693660 1178 False 1354.00 1354 87.4480 51 1249 1 chr6D.!!$F1 1198
10 TraesCS7B01G456100 chr5B 271312212 271313322 1110 True 1271.00 1271 87.3660 193 1304 1 chr5B.!!$R1 1111
11 TraesCS7B01G456100 chr4D 438106350 438107028 678 True 994.00 994 93.0980 1453 2132 1 chr4D.!!$R1 679
12 TraesCS7B01G456100 chr1A 22851935 22852617 682 False 985.00 985 92.7110 1449 2132 1 chr1A.!!$F1 683
13 TraesCS7B01G456100 chr3B 809595630 809596283 653 True 809.00 809 88.8730 1455 2132 1 chr3B.!!$R2 677
14 TraesCS7B01G456100 chr3B 25127979 25128593 614 False 418.05 763 93.8095 1496 2132 2 chr3B.!!$F1 636
15 TraesCS7B01G456100 chr4A 168112858 168113510 652 False 806.00 806 88.8400 1457 2132 1 chr4A.!!$F2 675
16 TraesCS7B01G456100 chr4A 634433571 634434785 1214 False 673.00 673 76.8790 75 1285 1 chr4A.!!$F3 1210
17 TraesCS7B01G456100 chr3D 65304066 65304685 619 False 765.00 765 88.8200 1450 2090 1 chr3D.!!$F1 640
18 TraesCS7B01G456100 chr3D 533687332 533688449 1117 False 671.00 671 77.7280 190 1304 1 chr3D.!!$F2 1114
19 TraesCS7B01G456100 chr1D 60746727 60747371 644 True 743.00 743 87.3160 1458 2132 1 chr1D.!!$R1 674

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
836 860 1.078848 ACGGAGCCATCAACTCAGC 60.079 57.895 0.0 0.0 35.79 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2133 2183 0.248296 TTTCTGCAACGTTCGCCAAC 60.248 50.0 16.47 0.0 0.0 3.77 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
25 26 4.212716 TCCTAGGTACAATACGCATGTCT 58.787 43.478 9.08 0.00 32.27 3.41
42 43 4.448720 TGTCTCCTATGATTAGACCGGA 57.551 45.455 9.46 0.00 39.10 5.14
165 166 7.182749 AGAGGCTATCCTAAATATACCATTGCA 59.817 37.037 0.00 0.00 44.46 4.08
361 366 1.967319 TGTGCCAAAGGTGAGAGTTC 58.033 50.000 0.00 0.00 0.00 3.01
387 392 3.640029 GGTGGAGAGTAATCCGTGGAATA 59.360 47.826 0.00 0.00 42.77 1.75
511 527 2.098934 TGCTCACATGCAAGACGTTTTT 59.901 40.909 0.00 0.00 40.29 1.94
512 528 3.313803 TGCTCACATGCAAGACGTTTTTA 59.686 39.130 0.00 0.00 40.29 1.52
836 860 1.078848 ACGGAGCCATCAACTCAGC 60.079 57.895 0.00 0.00 35.79 4.26
878 902 1.214589 GTGTCGCCCGCTCTTCTAA 59.785 57.895 0.00 0.00 0.00 2.10
1027 1062 2.291024 ACGGACAGTCTGGAGATAGTGT 60.291 50.000 14.20 0.00 0.00 3.55
1300 1337 3.551659 GCTCTCAGGTTTCCTTGCAAAAG 60.552 47.826 0.00 0.00 0.00 2.27
1324 1361 4.816786 AAAAATACTTTGGTGCGTACGT 57.183 36.364 17.90 0.00 0.00 3.57
1325 1362 5.921004 AAAAATACTTTGGTGCGTACGTA 57.079 34.783 17.90 10.06 0.00 3.57
1326 1363 5.520022 AAAATACTTTGGTGCGTACGTAG 57.480 39.130 17.90 2.44 0.00 3.51
1327 1364 4.439305 AATACTTTGGTGCGTACGTAGA 57.561 40.909 17.90 0.00 0.00 2.59
1328 1365 4.644103 ATACTTTGGTGCGTACGTAGAT 57.356 40.909 17.90 0.00 0.00 1.98
1329 1366 2.872370 ACTTTGGTGCGTACGTAGATC 58.128 47.619 17.90 5.79 0.00 2.75
1330 1367 2.490903 ACTTTGGTGCGTACGTAGATCT 59.509 45.455 17.90 0.00 0.00 2.75
1331 1368 2.838386 TTGGTGCGTACGTAGATCTC 57.162 50.000 17.90 0.00 0.00 2.75
1332 1369 2.034104 TGGTGCGTACGTAGATCTCT 57.966 50.000 17.90 0.00 0.00 3.10
1333 1370 1.669265 TGGTGCGTACGTAGATCTCTG 59.331 52.381 17.90 0.00 0.00 3.35
1334 1371 1.002684 GGTGCGTACGTAGATCTCTGG 60.003 57.143 17.90 0.00 0.00 3.86
1335 1372 1.938577 GTGCGTACGTAGATCTCTGGA 59.061 52.381 17.90 0.00 0.00 3.86
1336 1373 2.548904 GTGCGTACGTAGATCTCTGGAT 59.451 50.000 17.90 0.00 34.45 3.41
1337 1374 3.003482 GTGCGTACGTAGATCTCTGGATT 59.997 47.826 17.90 0.00 31.46 3.01
1338 1375 3.003378 TGCGTACGTAGATCTCTGGATTG 59.997 47.826 17.90 0.00 31.46 2.67
1339 1376 3.250280 GCGTACGTAGATCTCTGGATTGA 59.750 47.826 17.90 0.00 31.46 2.57
1340 1377 4.774586 CGTACGTAGATCTCTGGATTGAC 58.225 47.826 7.22 0.00 31.46 3.18
1341 1378 3.972950 ACGTAGATCTCTGGATTGACG 57.027 47.619 0.00 3.43 41.65 4.35
1342 1379 2.619177 ACGTAGATCTCTGGATTGACGG 59.381 50.000 13.28 0.00 40.94 4.79
1343 1380 2.030717 CGTAGATCTCTGGATTGACGGG 60.031 54.545 0.00 0.00 37.03 5.28
1344 1381 2.461300 AGATCTCTGGATTGACGGGA 57.539 50.000 0.00 0.00 31.46 5.14
1345 1382 2.752030 AGATCTCTGGATTGACGGGAA 58.248 47.619 0.00 0.00 31.46 3.97
1346 1383 2.432510 AGATCTCTGGATTGACGGGAAC 59.567 50.000 0.00 0.00 31.46 3.62
1347 1384 1.938585 TCTCTGGATTGACGGGAACT 58.061 50.000 0.00 0.00 0.00 3.01
1348 1385 1.550524 TCTCTGGATTGACGGGAACTG 59.449 52.381 0.00 0.00 42.99 3.16
1349 1386 0.613260 TCTGGATTGACGGGAACTGG 59.387 55.000 0.00 0.00 40.47 4.00
1350 1387 0.613260 CTGGATTGACGGGAACTGGA 59.387 55.000 0.00 0.00 40.47 3.86
1351 1388 0.613260 TGGATTGACGGGAACTGGAG 59.387 55.000 0.00 0.00 40.47 3.86
1352 1389 0.107654 GGATTGACGGGAACTGGAGG 60.108 60.000 0.00 0.00 40.47 4.30
1353 1390 0.107654 GATTGACGGGAACTGGAGGG 60.108 60.000 0.00 0.00 40.47 4.30
1354 1391 0.546747 ATTGACGGGAACTGGAGGGA 60.547 55.000 0.00 0.00 40.47 4.20
1355 1392 1.192146 TTGACGGGAACTGGAGGGAG 61.192 60.000 0.00 0.00 40.47 4.30
1356 1393 2.284699 ACGGGAACTGGAGGGAGG 60.285 66.667 0.00 0.00 40.47 4.30
1357 1394 2.284699 CGGGAACTGGAGGGAGGT 60.285 66.667 0.00 0.00 0.00 3.85
1358 1395 1.918800 CGGGAACTGGAGGGAGGTT 60.919 63.158 0.00 0.00 0.00 3.50
1359 1396 1.685820 GGGAACTGGAGGGAGGTTG 59.314 63.158 0.00 0.00 0.00 3.77
1360 1397 1.134438 GGGAACTGGAGGGAGGTTGT 61.134 60.000 0.00 0.00 0.00 3.32
1361 1398 0.771755 GGAACTGGAGGGAGGTTGTT 59.228 55.000 0.00 0.00 0.00 2.83
1362 1399 1.982958 GGAACTGGAGGGAGGTTGTTA 59.017 52.381 0.00 0.00 0.00 2.41
1363 1400 2.576648 GGAACTGGAGGGAGGTTGTTAT 59.423 50.000 0.00 0.00 0.00 1.89
1364 1401 3.010250 GGAACTGGAGGGAGGTTGTTATT 59.990 47.826 0.00 0.00 0.00 1.40
1365 1402 3.721087 ACTGGAGGGAGGTTGTTATTG 57.279 47.619 0.00 0.00 0.00 1.90
1366 1403 2.986728 ACTGGAGGGAGGTTGTTATTGT 59.013 45.455 0.00 0.00 0.00 2.71
1367 1404 3.397955 ACTGGAGGGAGGTTGTTATTGTT 59.602 43.478 0.00 0.00 0.00 2.83
1368 1405 3.758554 CTGGAGGGAGGTTGTTATTGTTG 59.241 47.826 0.00 0.00 0.00 3.33
1369 1406 3.139397 TGGAGGGAGGTTGTTATTGTTGT 59.861 43.478 0.00 0.00 0.00 3.32
1370 1407 4.149598 GGAGGGAGGTTGTTATTGTTGTT 58.850 43.478 0.00 0.00 0.00 2.83
1371 1408 4.022329 GGAGGGAGGTTGTTATTGTTGTTG 60.022 45.833 0.00 0.00 0.00 3.33
1372 1409 3.320826 AGGGAGGTTGTTATTGTTGTTGC 59.679 43.478 0.00 0.00 0.00 4.17
1373 1410 3.320826 GGGAGGTTGTTATTGTTGTTGCT 59.679 43.478 0.00 0.00 0.00 3.91
1374 1411 4.202212 GGGAGGTTGTTATTGTTGTTGCTT 60.202 41.667 0.00 0.00 0.00 3.91
1375 1412 4.982295 GGAGGTTGTTATTGTTGTTGCTTC 59.018 41.667 0.00 0.00 0.00 3.86
1376 1413 4.944048 AGGTTGTTATTGTTGTTGCTTCC 58.056 39.130 0.00 0.00 0.00 3.46
1377 1414 4.055360 GGTTGTTATTGTTGTTGCTTCCC 58.945 43.478 0.00 0.00 0.00 3.97
1378 1415 3.634568 TGTTATTGTTGTTGCTTCCCG 57.365 42.857 0.00 0.00 0.00 5.14
1379 1416 2.287909 TGTTATTGTTGTTGCTTCCCGC 60.288 45.455 0.00 0.00 39.77 6.13
1390 1427 2.793278 GCTTCCCGCAAAAGAAAAGA 57.207 45.000 0.00 0.00 38.92 2.52
1391 1428 3.092334 GCTTCCCGCAAAAGAAAAGAA 57.908 42.857 0.00 0.00 38.92 2.52
1392 1429 3.052745 GCTTCCCGCAAAAGAAAAGAAG 58.947 45.455 0.00 0.00 38.92 2.85
1393 1430 3.642705 CTTCCCGCAAAAGAAAAGAAGG 58.357 45.455 0.00 0.00 0.00 3.46
1394 1431 1.960689 TCCCGCAAAAGAAAAGAAGGG 59.039 47.619 0.00 0.00 38.95 3.95
1395 1432 1.960689 CCCGCAAAAGAAAAGAAGGGA 59.039 47.619 0.00 0.00 39.95 4.20
1396 1433 2.364002 CCCGCAAAAGAAAAGAAGGGAA 59.636 45.455 0.00 0.00 39.95 3.97
1397 1434 3.552890 CCCGCAAAAGAAAAGAAGGGAAG 60.553 47.826 0.00 0.00 39.95 3.46
1398 1435 3.552890 CCGCAAAAGAAAAGAAGGGAAGG 60.553 47.826 0.00 0.00 0.00 3.46
1399 1436 3.068165 CGCAAAAGAAAAGAAGGGAAGGT 59.932 43.478 0.00 0.00 0.00 3.50
1400 1437 4.441495 CGCAAAAGAAAAGAAGGGAAGGTT 60.441 41.667 0.00 0.00 0.00 3.50
1401 1438 4.811024 GCAAAAGAAAAGAAGGGAAGGTTG 59.189 41.667 0.00 0.00 0.00 3.77
1402 1439 5.626809 GCAAAAGAAAAGAAGGGAAGGTTGT 60.627 40.000 0.00 0.00 0.00 3.32
1403 1440 6.406370 CAAAAGAAAAGAAGGGAAGGTTGTT 58.594 36.000 0.00 0.00 0.00 2.83
1404 1441 5.598416 AAGAAAAGAAGGGAAGGTTGTTG 57.402 39.130 0.00 0.00 0.00 3.33
1405 1442 3.384789 AGAAAAGAAGGGAAGGTTGTTGC 59.615 43.478 0.00 0.00 0.00 4.17
1406 1443 1.318576 AAGAAGGGAAGGTTGTTGCG 58.681 50.000 0.00 0.00 0.00 4.85
1407 1444 0.537371 AGAAGGGAAGGTTGTTGCGG 60.537 55.000 0.00 0.00 0.00 5.69
1408 1445 1.524008 GAAGGGAAGGTTGTTGCGGG 61.524 60.000 0.00 0.00 0.00 6.13
1409 1446 2.989253 GGGAAGGTTGTTGCGGGG 60.989 66.667 0.00 0.00 0.00 5.73
1410 1447 3.680786 GGAAGGTTGTTGCGGGGC 61.681 66.667 0.00 0.00 0.00 5.80
1411 1448 3.680786 GAAGGTTGTTGCGGGGCC 61.681 66.667 0.00 0.00 0.00 5.80
1412 1449 4.218686 AAGGTTGTTGCGGGGCCT 62.219 61.111 0.84 0.00 0.00 5.19
1413 1450 4.974721 AGGTTGTTGCGGGGCCTG 62.975 66.667 8.39 8.39 0.00 4.85
1416 1453 4.531426 TTGTTGCGGGGCCTGGTT 62.531 61.111 15.62 0.00 0.00 3.67
1419 1456 4.531426 TTGCGGGGCCTGGTTGTT 62.531 61.111 15.62 0.00 0.00 2.83
1420 1457 4.531426 TGCGGGGCCTGGTTGTTT 62.531 61.111 15.62 0.00 0.00 2.83
1421 1458 3.989787 GCGGGGCCTGGTTGTTTG 61.990 66.667 15.62 0.00 0.00 2.93
1422 1459 2.520741 CGGGGCCTGGTTGTTTGT 60.521 61.111 3.77 0.00 0.00 2.83
1423 1460 2.561037 CGGGGCCTGGTTGTTTGTC 61.561 63.158 3.77 0.00 0.00 3.18
1424 1461 2.207229 GGGGCCTGGTTGTTTGTCC 61.207 63.158 0.84 0.00 0.00 4.02
1425 1462 2.207229 GGGCCTGGTTGTTTGTCCC 61.207 63.158 0.84 0.00 0.00 4.46
1426 1463 1.152546 GGCCTGGTTGTTTGTCCCT 60.153 57.895 0.00 0.00 0.00 4.20
1427 1464 1.463553 GGCCTGGTTGTTTGTCCCTG 61.464 60.000 0.00 0.00 0.00 4.45
1428 1465 0.755327 GCCTGGTTGTTTGTCCCTGT 60.755 55.000 0.00 0.00 0.00 4.00
1429 1466 1.477923 GCCTGGTTGTTTGTCCCTGTA 60.478 52.381 0.00 0.00 0.00 2.74
1430 1467 2.817839 GCCTGGTTGTTTGTCCCTGTAT 60.818 50.000 0.00 0.00 0.00 2.29
1431 1468 2.819608 CCTGGTTGTTTGTCCCTGTATG 59.180 50.000 0.00 0.00 0.00 2.39
1432 1469 3.486383 CTGGTTGTTTGTCCCTGTATGT 58.514 45.455 0.00 0.00 0.00 2.29
1433 1470 4.505918 CCTGGTTGTTTGTCCCTGTATGTA 60.506 45.833 0.00 0.00 0.00 2.29
1434 1471 5.050126 TGGTTGTTTGTCCCTGTATGTAA 57.950 39.130 0.00 0.00 0.00 2.41
1435 1472 5.636123 TGGTTGTTTGTCCCTGTATGTAAT 58.364 37.500 0.00 0.00 0.00 1.89
1436 1473 6.071984 TGGTTGTTTGTCCCTGTATGTAATT 58.928 36.000 0.00 0.00 0.00 1.40
1437 1474 6.207810 TGGTTGTTTGTCCCTGTATGTAATTC 59.792 38.462 0.00 0.00 0.00 2.17
1438 1475 6.433093 GGTTGTTTGTCCCTGTATGTAATTCT 59.567 38.462 0.00 0.00 0.00 2.40
1439 1476 7.039993 GGTTGTTTGTCCCTGTATGTAATTCTT 60.040 37.037 0.00 0.00 0.00 2.52
1440 1477 7.447374 TGTTTGTCCCTGTATGTAATTCTTG 57.553 36.000 0.00 0.00 0.00 3.02
1441 1478 6.072175 TGTTTGTCCCTGTATGTAATTCTTGC 60.072 38.462 0.00 0.00 0.00 4.01
1442 1479 4.188462 TGTCCCTGTATGTAATTCTTGCG 58.812 43.478 0.00 0.00 0.00 4.85
1443 1480 3.560068 GTCCCTGTATGTAATTCTTGCGG 59.440 47.826 0.00 0.00 0.00 5.69
1444 1481 3.452990 TCCCTGTATGTAATTCTTGCGGA 59.547 43.478 0.00 0.00 0.00 5.54
1445 1482 3.560068 CCCTGTATGTAATTCTTGCGGAC 59.440 47.826 0.00 0.00 0.00 4.79
1446 1483 4.188462 CCTGTATGTAATTCTTGCGGACA 58.812 43.478 0.00 0.00 0.00 4.02
1447 1484 4.034048 CCTGTATGTAATTCTTGCGGACAC 59.966 45.833 0.00 0.00 0.00 3.67
1448 1485 3.615056 TGTATGTAATTCTTGCGGACACG 59.385 43.478 0.00 0.00 44.63 4.49
1449 1486 2.157834 TGTAATTCTTGCGGACACGT 57.842 45.000 0.00 0.00 43.45 4.49
1450 1487 2.485903 TGTAATTCTTGCGGACACGTT 58.514 42.857 0.00 0.00 43.45 3.99
1451 1488 2.873472 TGTAATTCTTGCGGACACGTTT 59.127 40.909 0.00 0.00 43.45 3.60
1452 1489 3.312973 TGTAATTCTTGCGGACACGTTTT 59.687 39.130 0.00 0.00 43.45 2.43
1453 1490 3.430333 AATTCTTGCGGACACGTTTTT 57.570 38.095 0.00 0.00 43.45 1.94
1471 1508 0.035534 TTTTAGGGCGCTGATCTGCA 60.036 50.000 22.44 1.70 0.00 4.41
1494 1531 4.090057 GCGCCGGCTCAACTGTTC 62.090 66.667 26.68 0.00 35.83 3.18
1572 1609 1.770110 TGCCATCTAATCCGGGGCT 60.770 57.895 15.38 0.00 44.85 5.19
1599 1636 4.040755 TCTTCCTCCTATCCCCTTCTTTG 58.959 47.826 0.00 0.00 0.00 2.77
1614 1651 4.927782 TTGCTTCCACGGCAGCGT 62.928 61.111 3.26 0.00 40.90 5.07
1640 1677 2.041819 CCCTCGGGCCTAGGAGTT 60.042 66.667 24.99 0.00 36.08 3.01
1901 1948 2.417651 CCGTGAAGCCATTGCATCAATT 60.418 45.455 0.00 0.00 45.78 2.32
1910 1957 2.728690 TTGCATCAATTGTGAGGTGC 57.271 45.000 5.13 9.73 39.32 5.01
2132 2182 8.746052 TTTTTATTTCATAGTGGTCCGATGAT 57.254 30.769 2.66 0.00 30.00 2.45
2133 2183 7.728847 TTTATTTCATAGTGGTCCGATGATG 57.271 36.000 2.66 0.00 30.00 3.07
2134 2184 4.753516 TTTCATAGTGGTCCGATGATGT 57.246 40.909 2.66 0.00 30.00 3.06
2135 2185 4.753516 TTCATAGTGGTCCGATGATGTT 57.246 40.909 2.66 0.00 30.00 2.71
2136 2186 4.058721 TCATAGTGGTCCGATGATGTTG 57.941 45.455 0.00 0.00 0.00 3.33
2137 2187 2.979814 TAGTGGTCCGATGATGTTGG 57.020 50.000 0.00 0.00 0.00 3.77
2138 2188 0.392998 AGTGGTCCGATGATGTTGGC 60.393 55.000 0.00 0.00 0.00 4.52
2139 2189 1.449423 TGGTCCGATGATGTTGGCG 60.449 57.895 0.00 0.00 0.00 5.69
2140 2190 1.153449 GGTCCGATGATGTTGGCGA 60.153 57.895 0.00 0.00 0.00 5.54
2141 2191 0.742990 GGTCCGATGATGTTGGCGAA 60.743 55.000 0.00 0.00 0.00 4.70
2142 2192 0.373716 GTCCGATGATGTTGGCGAAC 59.626 55.000 4.41 4.41 0.00 3.95
2143 2193 1.081556 TCCGATGATGTTGGCGAACG 61.082 55.000 7.12 0.00 34.49 3.95
2144 2194 1.358725 CCGATGATGTTGGCGAACGT 61.359 55.000 5.96 5.96 34.49 3.99
2145 2195 0.442310 CGATGATGTTGGCGAACGTT 59.558 50.000 7.79 0.00 34.49 3.99
2146 2196 1.786575 CGATGATGTTGGCGAACGTTG 60.787 52.381 5.00 0.00 34.49 4.10
2147 2197 0.109781 ATGATGTTGGCGAACGTTGC 60.110 50.000 5.00 9.90 34.49 4.17
2148 2198 1.281353 GATGTTGGCGAACGTTGCA 59.719 52.632 5.00 0.00 34.49 4.08
2149 2199 0.725784 GATGTTGGCGAACGTTGCAG 60.726 55.000 5.00 0.00 34.49 4.41
2150 2200 1.163420 ATGTTGGCGAACGTTGCAGA 61.163 50.000 5.00 0.00 34.49 4.26
2151 2201 1.353804 GTTGGCGAACGTTGCAGAA 59.646 52.632 5.00 4.18 0.00 3.02
2152 2202 0.248296 GTTGGCGAACGTTGCAGAAA 60.248 50.000 5.00 3.48 0.00 2.52
2153 2203 0.452184 TTGGCGAACGTTGCAGAAAA 59.548 45.000 5.00 1.16 0.00 2.29
2154 2204 0.665835 TGGCGAACGTTGCAGAAAAT 59.334 45.000 5.00 0.00 0.00 1.82
2155 2205 1.066303 TGGCGAACGTTGCAGAAAATT 59.934 42.857 5.00 0.00 0.00 1.82
2156 2206 2.290916 TGGCGAACGTTGCAGAAAATTA 59.709 40.909 5.00 0.00 0.00 1.40
2157 2207 3.243101 TGGCGAACGTTGCAGAAAATTAA 60.243 39.130 5.00 0.00 0.00 1.40
2158 2208 3.731717 GGCGAACGTTGCAGAAAATTAAA 59.268 39.130 5.00 0.00 0.00 1.52
2159 2209 4.207429 GGCGAACGTTGCAGAAAATTAAAA 59.793 37.500 5.00 0.00 0.00 1.52
2160 2210 5.107645 GGCGAACGTTGCAGAAAATTAAAAT 60.108 36.000 5.00 0.00 0.00 1.82
2161 2211 6.351749 GCGAACGTTGCAGAAAATTAAAATT 58.648 32.000 5.00 0.00 0.00 1.82
2162 2212 6.843779 GCGAACGTTGCAGAAAATTAAAATTT 59.156 30.769 5.00 0.00 40.15 1.82
2164 2214 9.204792 CGAACGTTGCAGAAAATTAAAATTTTT 57.795 25.926 5.00 0.00 45.70 1.94
2166 2216 9.497030 AACGTTGCAGAAAATTAAAATTTTTCC 57.503 25.926 9.06 3.98 45.70 3.13
2167 2217 8.888716 ACGTTGCAGAAAATTAAAATTTTTCCT 58.111 25.926 9.06 5.83 45.70 3.36
2171 2221 8.983724 TGCAGAAAATTAAAATTTTTCCTACGG 58.016 29.630 9.06 4.45 45.70 4.02
2172 2222 8.984764 GCAGAAAATTAAAATTTTTCCTACGGT 58.015 29.630 9.06 0.00 45.70 4.83
2178 2228 8.821147 ATTAAAATTTTTCCTACGGTTTCACC 57.179 30.769 9.06 0.00 34.05 4.02
2179 2229 5.855740 AAATTTTTCCTACGGTTTCACCA 57.144 34.783 0.00 0.00 38.47 4.17
2180 2230 5.855740 AATTTTTCCTACGGTTTCACCAA 57.144 34.783 0.00 0.00 38.47 3.67
2181 2231 4.904253 TTTTTCCTACGGTTTCACCAAG 57.096 40.909 0.00 0.00 38.47 3.61
2182 2232 3.842007 TTTCCTACGGTTTCACCAAGA 57.158 42.857 0.00 0.00 38.47 3.02
2183 2233 4.360951 TTTCCTACGGTTTCACCAAGAT 57.639 40.909 0.00 0.00 38.47 2.40
2184 2234 3.604875 TCCTACGGTTTCACCAAGATC 57.395 47.619 0.00 0.00 38.47 2.75
2185 2235 2.235402 TCCTACGGTTTCACCAAGATCC 59.765 50.000 0.00 0.00 38.47 3.36
2186 2236 2.027561 CCTACGGTTTCACCAAGATCCA 60.028 50.000 0.00 0.00 38.47 3.41
2187 2237 2.879103 ACGGTTTCACCAAGATCCAT 57.121 45.000 0.00 0.00 38.47 3.41
2188 2238 2.711542 ACGGTTTCACCAAGATCCATC 58.288 47.619 0.00 0.00 38.47 3.51
2189 2239 2.305927 ACGGTTTCACCAAGATCCATCT 59.694 45.455 0.00 0.00 38.47 2.90
2190 2240 3.517901 ACGGTTTCACCAAGATCCATCTA 59.482 43.478 0.00 0.00 38.47 1.98
2191 2241 4.164221 ACGGTTTCACCAAGATCCATCTAT 59.836 41.667 0.00 0.00 38.47 1.98
2192 2242 4.512944 CGGTTTCACCAAGATCCATCTATG 59.487 45.833 0.00 0.00 38.47 2.23
2193 2243 5.684704 GGTTTCACCAAGATCCATCTATGA 58.315 41.667 0.00 0.00 38.42 2.15
2194 2244 5.762218 GGTTTCACCAAGATCCATCTATGAG 59.238 44.000 0.00 0.00 38.42 2.90
2195 2245 6.352516 GTTTCACCAAGATCCATCTATGAGT 58.647 40.000 0.00 0.00 35.76 3.41
2196 2246 6.566079 TTCACCAAGATCCATCTATGAGTT 57.434 37.500 0.00 0.00 35.76 3.01
2197 2247 6.166984 TCACCAAGATCCATCTATGAGTTC 57.833 41.667 0.00 0.00 35.76 3.01
2198 2248 5.662657 TCACCAAGATCCATCTATGAGTTCA 59.337 40.000 0.00 0.00 35.76 3.18
2199 2249 6.328410 TCACCAAGATCCATCTATGAGTTCAT 59.672 38.462 0.00 0.00 35.76 2.57
2200 2250 6.649973 CACCAAGATCCATCTATGAGTTCATC 59.350 42.308 0.00 0.00 35.76 2.92
2201 2251 6.558014 ACCAAGATCCATCTATGAGTTCATCT 59.442 38.462 0.00 0.00 35.76 2.90
2202 2252 7.732140 ACCAAGATCCATCTATGAGTTCATCTA 59.268 37.037 0.00 0.00 35.76 1.98
2203 2253 8.591940 CCAAGATCCATCTATGAGTTCATCTAA 58.408 37.037 0.00 0.00 35.76 2.10
2204 2254 9.642327 CAAGATCCATCTATGAGTTCATCTAAG 57.358 37.037 0.00 0.00 35.76 2.18
2205 2255 7.839907 AGATCCATCTATGAGTTCATCTAAGC 58.160 38.462 0.00 0.00 37.76 3.09
2206 2256 6.983906 TCCATCTATGAGTTCATCTAAGCA 57.016 37.500 0.00 0.00 37.76 3.91
2207 2257 7.365497 TCCATCTATGAGTTCATCTAAGCAA 57.635 36.000 0.00 0.00 37.76 3.91
2208 2258 7.971201 TCCATCTATGAGTTCATCTAAGCAAT 58.029 34.615 0.00 0.00 37.76 3.56
2209 2259 7.876582 TCCATCTATGAGTTCATCTAAGCAATG 59.123 37.037 0.00 0.00 37.76 2.82
2210 2260 7.876582 CCATCTATGAGTTCATCTAAGCAATGA 59.123 37.037 0.00 0.00 37.76 2.57
2211 2261 8.927721 CATCTATGAGTTCATCTAAGCAATGAG 58.072 37.037 0.00 0.00 37.76 2.90
2212 2262 8.016301 TCTATGAGTTCATCTAAGCAATGAGT 57.984 34.615 0.00 0.00 37.76 3.41
2213 2263 8.140628 TCTATGAGTTCATCTAAGCAATGAGTC 58.859 37.037 0.00 0.00 37.76 3.36
2214 2264 6.041423 TGAGTTCATCTAAGCAATGAGTCA 57.959 37.500 0.00 0.00 34.76 3.41
2215 2265 6.647229 TGAGTTCATCTAAGCAATGAGTCAT 58.353 36.000 0.00 0.00 34.76 3.06
2216 2266 6.537660 TGAGTTCATCTAAGCAATGAGTCATG 59.462 38.462 6.34 2.46 34.76 3.07
2217 2267 5.821470 AGTTCATCTAAGCAATGAGTCATGG 59.179 40.000 6.34 4.48 34.76 3.66
2218 2268 4.711399 TCATCTAAGCAATGAGTCATGGG 58.289 43.478 6.34 3.54 0.00 4.00
2219 2269 4.409901 TCATCTAAGCAATGAGTCATGGGA 59.590 41.667 6.34 0.00 0.00 4.37
2220 2270 4.412796 TCTAAGCAATGAGTCATGGGAG 57.587 45.455 6.34 0.90 0.00 4.30
2221 2271 4.033009 TCTAAGCAATGAGTCATGGGAGA 58.967 43.478 6.34 3.24 0.00 3.71
2222 2272 3.278668 AAGCAATGAGTCATGGGAGAG 57.721 47.619 6.34 0.00 0.00 3.20
2223 2273 2.194859 AGCAATGAGTCATGGGAGAGT 58.805 47.619 6.34 0.00 0.00 3.24
2224 2274 2.093075 AGCAATGAGTCATGGGAGAGTG 60.093 50.000 6.34 0.24 0.00 3.51
2225 2275 2.093288 GCAATGAGTCATGGGAGAGTGA 60.093 50.000 6.34 0.00 0.00 3.41
2226 2276 3.433314 GCAATGAGTCATGGGAGAGTGAT 60.433 47.826 6.34 0.00 0.00 3.06
2227 2277 4.778579 CAATGAGTCATGGGAGAGTGATT 58.221 43.478 6.34 0.00 0.00 2.57
2228 2278 3.900966 TGAGTCATGGGAGAGTGATTG 57.099 47.619 0.00 0.00 0.00 2.67
2229 2279 2.093288 TGAGTCATGGGAGAGTGATTGC 60.093 50.000 0.00 0.00 0.00 3.56
2230 2280 1.911357 AGTCATGGGAGAGTGATTGCA 59.089 47.619 0.00 0.00 0.00 4.08
2231 2281 2.508716 AGTCATGGGAGAGTGATTGCAT 59.491 45.455 0.00 0.00 0.00 3.96
2232 2282 2.877168 GTCATGGGAGAGTGATTGCATC 59.123 50.000 0.00 0.00 0.00 3.91
2233 2283 2.775960 TCATGGGAGAGTGATTGCATCT 59.224 45.455 0.00 0.00 0.00 2.90
2234 2284 3.969312 TCATGGGAGAGTGATTGCATCTA 59.031 43.478 0.00 0.00 0.00 1.98
2235 2285 3.827008 TGGGAGAGTGATTGCATCTAC 57.173 47.619 0.00 0.00 0.00 2.59
2236 2286 3.106827 TGGGAGAGTGATTGCATCTACA 58.893 45.455 0.00 0.00 0.00 2.74
2237 2287 3.713248 TGGGAGAGTGATTGCATCTACAT 59.287 43.478 0.00 0.00 0.00 2.29
2238 2288 4.901250 TGGGAGAGTGATTGCATCTACATA 59.099 41.667 0.00 0.00 0.00 2.29
2239 2289 5.221521 TGGGAGAGTGATTGCATCTACATAC 60.222 44.000 0.00 0.00 0.00 2.39
2240 2290 5.233988 GGAGAGTGATTGCATCTACATACC 58.766 45.833 0.00 0.00 0.00 2.73
2241 2291 5.221521 GGAGAGTGATTGCATCTACATACCA 60.222 44.000 0.00 0.00 0.00 3.25
2242 2292 5.605534 AGAGTGATTGCATCTACATACCAC 58.394 41.667 0.00 0.00 0.00 4.16
2243 2293 5.365025 AGAGTGATTGCATCTACATACCACT 59.635 40.000 0.00 0.00 0.00 4.00
2244 2294 5.994250 AGTGATTGCATCTACATACCACTT 58.006 37.500 0.00 0.00 0.00 3.16
2245 2295 5.819379 AGTGATTGCATCTACATACCACTTG 59.181 40.000 0.00 0.00 0.00 3.16
2246 2296 5.586243 GTGATTGCATCTACATACCACTTGT 59.414 40.000 0.00 0.00 0.00 3.16
2247 2297 6.761242 GTGATTGCATCTACATACCACTTGTA 59.239 38.462 0.00 0.00 0.00 2.41
2248 2298 6.986231 TGATTGCATCTACATACCACTTGTAG 59.014 38.462 4.81 4.81 45.12 2.74
2253 2303 5.434352 TCTACATACCACTTGTAGATCGC 57.566 43.478 8.96 0.00 46.52 4.58
2254 2304 3.079960 ACATACCACTTGTAGATCGCG 57.920 47.619 0.00 0.00 31.61 5.87
2255 2305 2.426024 ACATACCACTTGTAGATCGCGT 59.574 45.455 5.77 0.00 31.61 6.01
2256 2306 2.554806 TACCACTTGTAGATCGCGTG 57.445 50.000 5.77 0.00 0.00 5.34
2257 2307 0.736325 ACCACTTGTAGATCGCGTGC 60.736 55.000 5.77 0.00 0.00 5.34
2258 2308 1.625870 CACTTGTAGATCGCGTGCG 59.374 57.895 5.77 8.14 41.35 5.34
2259 2309 1.516386 ACTTGTAGATCGCGTGCGG 60.516 57.895 14.89 0.00 40.25 5.69
2260 2310 1.226575 CTTGTAGATCGCGTGCGGA 60.227 57.895 14.89 1.64 40.25 5.54
2261 2311 0.800683 CTTGTAGATCGCGTGCGGAA 60.801 55.000 14.89 0.00 40.25 4.30
2262 2312 0.800683 TTGTAGATCGCGTGCGGAAG 60.801 55.000 14.89 0.00 40.25 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 4.212716 AGGAGACATGCGTATTGTACCTA 58.787 43.478 0.00 0.00 34.44 3.08
25 26 4.543689 AGTTGTCCGGTCTAATCATAGGA 58.456 43.478 0.00 0.00 0.00 2.94
42 43 3.642141 ACAAACTGAATTGGGGAGTTGT 58.358 40.909 0.00 0.00 34.56 3.32
121 122 0.737715 CTGCGTCTGGTGCTAGGAAC 60.738 60.000 0.00 0.00 0.00 3.62
165 166 1.645710 ATCTTCTCCTCCACCGTTGT 58.354 50.000 0.00 0.00 0.00 3.32
361 366 3.262420 CACGGATTACTCTCCACCAAAG 58.738 50.000 0.00 0.00 34.78 2.77
387 392 2.826488 AGTGTAGCTTCATCAGGGAGT 58.174 47.619 0.00 0.00 0.00 3.85
511 527 3.582998 CCAAGATTGGGCTTCATCCTA 57.417 47.619 3.52 0.00 44.70 2.94
512 528 2.449137 CCAAGATTGGGCTTCATCCT 57.551 50.000 3.52 0.00 44.70 3.24
836 860 2.673523 CCCCTGCCACTCCTGAAG 59.326 66.667 0.00 0.00 0.00 3.02
878 902 0.178998 CCATGCTGCTAGAAGGGCAT 60.179 55.000 0.00 3.39 44.77 4.40
1027 1062 1.337071 GTGGCGATCGTTCCAGAGATA 59.663 52.381 17.81 0.00 32.15 1.98
1307 1344 4.337555 AGATCTACGTACGCACCAAAGTAT 59.662 41.667 16.72 0.00 0.00 2.12
1308 1345 3.691118 AGATCTACGTACGCACCAAAGTA 59.309 43.478 16.72 0.00 0.00 2.24
1309 1346 2.490903 AGATCTACGTACGCACCAAAGT 59.509 45.455 16.72 0.00 0.00 2.66
1310 1347 3.106672 GAGATCTACGTACGCACCAAAG 58.893 50.000 16.72 3.75 0.00 2.77
1312 1349 2.096980 CAGAGATCTACGTACGCACCAA 59.903 50.000 16.72 0.00 0.00 3.67
1313 1350 1.669265 CAGAGATCTACGTACGCACCA 59.331 52.381 16.72 0.00 0.00 4.17
1314 1351 1.002684 CCAGAGATCTACGTACGCACC 60.003 57.143 16.72 0.29 0.00 5.01
1315 1352 1.938577 TCCAGAGATCTACGTACGCAC 59.061 52.381 16.72 2.50 0.00 5.34
1316 1353 2.320745 TCCAGAGATCTACGTACGCA 57.679 50.000 16.72 0.23 0.00 5.24
1317 1354 3.250280 TCAATCCAGAGATCTACGTACGC 59.750 47.826 16.72 0.00 0.00 4.42
1318 1355 4.608667 CGTCAATCCAGAGATCTACGTACG 60.609 50.000 15.01 15.01 36.51 3.67
1319 1356 4.319622 CCGTCAATCCAGAGATCTACGTAC 60.320 50.000 0.00 0.00 38.17 3.67
1320 1357 3.813724 CCGTCAATCCAGAGATCTACGTA 59.186 47.826 0.00 0.00 38.17 3.57
1321 1358 2.619177 CCGTCAATCCAGAGATCTACGT 59.381 50.000 0.00 0.00 38.17 3.57
1322 1359 2.030717 CCCGTCAATCCAGAGATCTACG 60.031 54.545 0.00 0.00 38.93 3.51
1323 1360 3.223435 TCCCGTCAATCCAGAGATCTAC 58.777 50.000 0.00 0.00 0.00 2.59
1324 1361 3.595190 TCCCGTCAATCCAGAGATCTA 57.405 47.619 0.00 0.00 0.00 1.98
1325 1362 2.432510 GTTCCCGTCAATCCAGAGATCT 59.567 50.000 0.00 0.00 0.00 2.75
1326 1363 2.432510 AGTTCCCGTCAATCCAGAGATC 59.567 50.000 0.00 0.00 0.00 2.75
1327 1364 2.169352 CAGTTCCCGTCAATCCAGAGAT 59.831 50.000 0.00 0.00 0.00 2.75
1328 1365 1.550524 CAGTTCCCGTCAATCCAGAGA 59.449 52.381 0.00 0.00 0.00 3.10
1329 1366 1.406069 CCAGTTCCCGTCAATCCAGAG 60.406 57.143 0.00 0.00 0.00 3.35
1330 1367 0.613260 CCAGTTCCCGTCAATCCAGA 59.387 55.000 0.00 0.00 0.00 3.86
1331 1368 0.613260 TCCAGTTCCCGTCAATCCAG 59.387 55.000 0.00 0.00 0.00 3.86
1332 1369 0.613260 CTCCAGTTCCCGTCAATCCA 59.387 55.000 0.00 0.00 0.00 3.41
1333 1370 0.107654 CCTCCAGTTCCCGTCAATCC 60.108 60.000 0.00 0.00 0.00 3.01
1334 1371 0.107654 CCCTCCAGTTCCCGTCAATC 60.108 60.000 0.00 0.00 0.00 2.67
1335 1372 0.546747 TCCCTCCAGTTCCCGTCAAT 60.547 55.000 0.00 0.00 0.00 2.57
1336 1373 1.152204 TCCCTCCAGTTCCCGTCAA 60.152 57.895 0.00 0.00 0.00 3.18
1337 1374 1.609501 CTCCCTCCAGTTCCCGTCA 60.610 63.158 0.00 0.00 0.00 4.35
1338 1375 2.359967 CCTCCCTCCAGTTCCCGTC 61.360 68.421 0.00 0.00 0.00 4.79
1339 1376 2.284699 CCTCCCTCCAGTTCCCGT 60.285 66.667 0.00 0.00 0.00 5.28
1340 1377 1.918800 AACCTCCCTCCAGTTCCCG 60.919 63.158 0.00 0.00 0.00 5.14
1341 1378 1.134438 ACAACCTCCCTCCAGTTCCC 61.134 60.000 0.00 0.00 0.00 3.97
1342 1379 0.771755 AACAACCTCCCTCCAGTTCC 59.228 55.000 0.00 0.00 0.00 3.62
1343 1380 4.010349 CAATAACAACCTCCCTCCAGTTC 58.990 47.826 0.00 0.00 0.00 3.01
1344 1381 3.397955 ACAATAACAACCTCCCTCCAGTT 59.602 43.478 0.00 0.00 0.00 3.16
1345 1382 2.986728 ACAATAACAACCTCCCTCCAGT 59.013 45.455 0.00 0.00 0.00 4.00
1346 1383 3.721087 ACAATAACAACCTCCCTCCAG 57.279 47.619 0.00 0.00 0.00 3.86
1347 1384 3.139397 ACAACAATAACAACCTCCCTCCA 59.861 43.478 0.00 0.00 0.00 3.86
1348 1385 3.763057 ACAACAATAACAACCTCCCTCC 58.237 45.455 0.00 0.00 0.00 4.30
1349 1386 4.558697 GCAACAACAATAACAACCTCCCTC 60.559 45.833 0.00 0.00 0.00 4.30
1350 1387 3.320826 GCAACAACAATAACAACCTCCCT 59.679 43.478 0.00 0.00 0.00 4.20
1351 1388 3.320826 AGCAACAACAATAACAACCTCCC 59.679 43.478 0.00 0.00 0.00 4.30
1352 1389 4.584327 AGCAACAACAATAACAACCTCC 57.416 40.909 0.00 0.00 0.00 4.30
1353 1390 4.982295 GGAAGCAACAACAATAACAACCTC 59.018 41.667 0.00 0.00 0.00 3.85
1354 1391 4.202212 GGGAAGCAACAACAATAACAACCT 60.202 41.667 0.00 0.00 0.00 3.50
1355 1392 4.055360 GGGAAGCAACAACAATAACAACC 58.945 43.478 0.00 0.00 0.00 3.77
1356 1393 3.733727 CGGGAAGCAACAACAATAACAAC 59.266 43.478 0.00 0.00 0.00 3.32
1357 1394 3.971150 CGGGAAGCAACAACAATAACAA 58.029 40.909 0.00 0.00 0.00 2.83
1358 1395 3.634568 CGGGAAGCAACAACAATAACA 57.365 42.857 0.00 0.00 0.00 2.41
1372 1409 3.552890 CCCTTCTTTTCTTTTGCGGGAAG 60.553 47.826 0.00 0.00 32.10 3.46
1373 1410 2.364002 CCCTTCTTTTCTTTTGCGGGAA 59.636 45.455 0.00 0.00 32.10 3.97
1374 1411 1.960689 CCCTTCTTTTCTTTTGCGGGA 59.039 47.619 0.00 0.00 32.10 5.14
1375 1412 1.960689 TCCCTTCTTTTCTTTTGCGGG 59.039 47.619 0.00 0.00 0.00 6.13
1376 1413 3.552890 CCTTCCCTTCTTTTCTTTTGCGG 60.553 47.826 0.00 0.00 0.00 5.69
1377 1414 3.068165 ACCTTCCCTTCTTTTCTTTTGCG 59.932 43.478 0.00 0.00 0.00 4.85
1378 1415 4.672587 ACCTTCCCTTCTTTTCTTTTGC 57.327 40.909 0.00 0.00 0.00 3.68
1379 1416 5.977635 ACAACCTTCCCTTCTTTTCTTTTG 58.022 37.500 0.00 0.00 0.00 2.44
1380 1417 6.406370 CAACAACCTTCCCTTCTTTTCTTTT 58.594 36.000 0.00 0.00 0.00 2.27
1381 1418 5.626809 GCAACAACCTTCCCTTCTTTTCTTT 60.627 40.000 0.00 0.00 0.00 2.52
1382 1419 4.141937 GCAACAACCTTCCCTTCTTTTCTT 60.142 41.667 0.00 0.00 0.00 2.52
1383 1420 3.384789 GCAACAACCTTCCCTTCTTTTCT 59.615 43.478 0.00 0.00 0.00 2.52
1384 1421 3.717707 GCAACAACCTTCCCTTCTTTTC 58.282 45.455 0.00 0.00 0.00 2.29
1385 1422 2.100749 CGCAACAACCTTCCCTTCTTTT 59.899 45.455 0.00 0.00 0.00 2.27
1386 1423 1.681264 CGCAACAACCTTCCCTTCTTT 59.319 47.619 0.00 0.00 0.00 2.52
1387 1424 1.318576 CGCAACAACCTTCCCTTCTT 58.681 50.000 0.00 0.00 0.00 2.52
1388 1425 0.537371 CCGCAACAACCTTCCCTTCT 60.537 55.000 0.00 0.00 0.00 2.85
1389 1426 1.524008 CCCGCAACAACCTTCCCTTC 61.524 60.000 0.00 0.00 0.00 3.46
1390 1427 1.530655 CCCGCAACAACCTTCCCTT 60.531 57.895 0.00 0.00 0.00 3.95
1391 1428 2.115266 CCCGCAACAACCTTCCCT 59.885 61.111 0.00 0.00 0.00 4.20
1392 1429 2.989253 CCCCGCAACAACCTTCCC 60.989 66.667 0.00 0.00 0.00 3.97
1393 1430 3.680786 GCCCCGCAACAACCTTCC 61.681 66.667 0.00 0.00 0.00 3.46
1394 1431 3.680786 GGCCCCGCAACAACCTTC 61.681 66.667 0.00 0.00 0.00 3.46
1395 1432 4.218686 AGGCCCCGCAACAACCTT 62.219 61.111 0.00 0.00 0.00 3.50
1396 1433 4.974721 CAGGCCCCGCAACAACCT 62.975 66.667 0.00 0.00 0.00 3.50
1399 1436 4.531426 AACCAGGCCCCGCAACAA 62.531 61.111 0.00 0.00 0.00 2.83
1402 1439 4.531426 AACAACCAGGCCCCGCAA 62.531 61.111 0.00 0.00 0.00 4.85
1403 1440 4.531426 AAACAACCAGGCCCCGCA 62.531 61.111 0.00 0.00 0.00 5.69
1404 1441 3.989787 CAAACAACCAGGCCCCGC 61.990 66.667 0.00 0.00 0.00 6.13
1405 1442 2.520741 ACAAACAACCAGGCCCCG 60.521 61.111 0.00 0.00 0.00 5.73
1406 1443 2.207229 GGACAAACAACCAGGCCCC 61.207 63.158 0.00 0.00 0.00 5.80
1407 1444 2.207229 GGGACAAACAACCAGGCCC 61.207 63.158 0.00 0.00 0.00 5.80
1408 1445 1.152546 AGGGACAAACAACCAGGCC 60.153 57.895 0.00 0.00 0.00 5.19
1409 1446 0.755327 ACAGGGACAAACAACCAGGC 60.755 55.000 0.00 0.00 0.00 4.85
1410 1447 2.649531 TACAGGGACAAACAACCAGG 57.350 50.000 0.00 0.00 0.00 4.45
1411 1448 3.486383 ACATACAGGGACAAACAACCAG 58.514 45.455 0.00 0.00 0.00 4.00
1412 1449 3.586470 ACATACAGGGACAAACAACCA 57.414 42.857 0.00 0.00 0.00 3.67
1413 1450 6.433093 AGAATTACATACAGGGACAAACAACC 59.567 38.462 0.00 0.00 0.00 3.77
1414 1451 7.448748 AGAATTACATACAGGGACAAACAAC 57.551 36.000 0.00 0.00 0.00 3.32
1415 1452 7.523052 GCAAGAATTACATACAGGGACAAACAA 60.523 37.037 0.00 0.00 0.00 2.83
1416 1453 6.072175 GCAAGAATTACATACAGGGACAAACA 60.072 38.462 0.00 0.00 0.00 2.83
1417 1454 6.322491 GCAAGAATTACATACAGGGACAAAC 58.678 40.000 0.00 0.00 0.00 2.93
1418 1455 5.123186 CGCAAGAATTACATACAGGGACAAA 59.877 40.000 0.00 0.00 43.02 2.83
1419 1456 4.634004 CGCAAGAATTACATACAGGGACAA 59.366 41.667 0.00 0.00 43.02 3.18
1420 1457 4.188462 CGCAAGAATTACATACAGGGACA 58.812 43.478 0.00 0.00 43.02 4.02
1421 1458 3.560068 CCGCAAGAATTACATACAGGGAC 59.440 47.826 0.00 0.00 43.02 4.46
1422 1459 3.452990 TCCGCAAGAATTACATACAGGGA 59.547 43.478 0.00 0.00 43.02 4.20
1423 1460 3.560068 GTCCGCAAGAATTACATACAGGG 59.440 47.826 0.00 0.00 43.02 4.45
1424 1461 4.034048 GTGTCCGCAAGAATTACATACAGG 59.966 45.833 0.00 0.00 43.02 4.00
1425 1462 4.259810 CGTGTCCGCAAGAATTACATACAG 60.260 45.833 0.00 0.00 43.02 2.74
1426 1463 3.615056 CGTGTCCGCAAGAATTACATACA 59.385 43.478 0.00 0.00 43.02 2.29
1427 1464 3.615496 ACGTGTCCGCAAGAATTACATAC 59.385 43.478 0.00 0.00 43.02 2.39
1428 1465 3.852286 ACGTGTCCGCAAGAATTACATA 58.148 40.909 0.00 0.00 43.02 2.29
1429 1466 2.695359 ACGTGTCCGCAAGAATTACAT 58.305 42.857 0.00 0.00 43.02 2.29
1430 1467 2.157834 ACGTGTCCGCAAGAATTACA 57.842 45.000 0.00 0.00 43.02 2.41
1431 1468 3.531262 AAACGTGTCCGCAAGAATTAC 57.469 42.857 0.00 0.00 43.02 1.89
1432 1469 4.555348 AAAAACGTGTCCGCAAGAATTA 57.445 36.364 0.00 0.00 43.02 1.40
1433 1470 3.430333 AAAAACGTGTCCGCAAGAATT 57.570 38.095 0.00 0.00 43.02 2.17
1451 1488 1.094785 GCAGATCAGCGCCCTAAAAA 58.905 50.000 2.29 0.00 0.00 1.94
1452 1489 0.035534 TGCAGATCAGCGCCCTAAAA 60.036 50.000 2.29 0.00 37.31 1.52
1453 1490 0.744414 GTGCAGATCAGCGCCCTAAA 60.744 55.000 12.26 0.00 39.04 1.85
1485 1522 2.029964 GACCGGCCGAACAGTTGA 59.970 61.111 30.73 0.00 0.00 3.18
1572 1609 2.045885 AGGGGATAGGAGGAAGACAACA 59.954 50.000 0.00 0.00 0.00 3.33
1741 1779 2.649831 TCGGAGCTACGACCTTTGT 58.350 52.632 19.35 0.00 38.06 2.83
1822 1860 0.742281 CACTACTGGCAGCTTCGCAT 60.742 55.000 15.89 0.00 0.00 4.73
1823 1861 1.374631 CACTACTGGCAGCTTCGCA 60.375 57.895 15.89 0.00 0.00 5.10
1831 1869 2.125147 GGCGATGCACTACTGGCA 60.125 61.111 0.00 0.00 46.66 4.92
1910 1957 0.593128 CGACAAAAAGCTGGACTGGG 59.407 55.000 0.00 0.00 0.00 4.45
2041 2088 5.525199 TGAAAAGCTTCAACCGGTTTTATC 58.475 37.500 19.55 7.69 40.78 1.75
2132 2182 1.369839 TTCTGCAACGTTCGCCAACA 61.370 50.000 16.47 1.73 32.14 3.33
2133 2183 0.248296 TTTCTGCAACGTTCGCCAAC 60.248 50.000 16.47 0.00 0.00 3.77
2134 2184 0.452184 TTTTCTGCAACGTTCGCCAA 59.548 45.000 16.47 9.07 0.00 4.52
2135 2185 0.665835 ATTTTCTGCAACGTTCGCCA 59.334 45.000 16.47 6.48 0.00 5.69
2136 2186 1.766069 AATTTTCTGCAACGTTCGCC 58.234 45.000 16.47 2.54 0.00 5.54
2137 2187 4.939948 TTTAATTTTCTGCAACGTTCGC 57.060 36.364 13.54 13.54 0.00 4.70
2138 2188 8.746328 AAAATTTTAATTTTCTGCAACGTTCG 57.254 26.923 0.37 0.00 43.12 3.95
2140 2190 9.497030 GGAAAAATTTTAATTTTCTGCAACGTT 57.503 25.926 12.19 0.00 45.16 3.99
2141 2191 8.888716 AGGAAAAATTTTAATTTTCTGCAACGT 58.111 25.926 12.19 0.00 45.16 3.99
2171 2221 6.352516 ACTCATAGATGGATCTTGGTGAAAC 58.647 40.000 0.00 0.00 38.32 2.78
2172 2222 6.566079 ACTCATAGATGGATCTTGGTGAAA 57.434 37.500 0.00 0.00 38.32 2.69
2173 2223 6.156775 TGAACTCATAGATGGATCTTGGTGAA 59.843 38.462 0.00 0.00 38.32 3.18
2174 2224 5.662657 TGAACTCATAGATGGATCTTGGTGA 59.337 40.000 0.00 0.00 38.32 4.02
2175 2225 5.922053 TGAACTCATAGATGGATCTTGGTG 58.078 41.667 0.00 0.00 38.32 4.17
2176 2226 6.558014 AGATGAACTCATAGATGGATCTTGGT 59.442 38.462 0.00 0.00 38.32 3.67
2177 2227 7.006865 AGATGAACTCATAGATGGATCTTGG 57.993 40.000 0.00 0.00 38.32 3.61
2178 2228 9.642327 CTTAGATGAACTCATAGATGGATCTTG 57.358 37.037 0.00 0.00 38.32 3.02
2179 2229 8.313292 GCTTAGATGAACTCATAGATGGATCTT 58.687 37.037 0.00 0.00 38.32 2.40
2180 2230 7.454066 TGCTTAGATGAACTCATAGATGGATCT 59.546 37.037 0.00 0.00 40.86 2.75
2181 2231 7.609960 TGCTTAGATGAACTCATAGATGGATC 58.390 38.462 0.00 0.00 36.57 3.36
2182 2232 7.550597 TGCTTAGATGAACTCATAGATGGAT 57.449 36.000 0.00 0.00 36.57 3.41
2183 2233 6.983906 TGCTTAGATGAACTCATAGATGGA 57.016 37.500 0.00 0.00 36.57 3.41
2184 2234 7.876582 TCATTGCTTAGATGAACTCATAGATGG 59.123 37.037 0.00 0.00 36.57 3.51
2185 2235 8.828688 TCATTGCTTAGATGAACTCATAGATG 57.171 34.615 0.00 0.00 36.57 2.90
2186 2236 8.649591 ACTCATTGCTTAGATGAACTCATAGAT 58.350 33.333 0.00 0.00 36.57 1.98
2187 2237 8.016301 ACTCATTGCTTAGATGAACTCATAGA 57.984 34.615 0.00 0.00 36.57 1.98
2188 2238 7.924947 TGACTCATTGCTTAGATGAACTCATAG 59.075 37.037 0.00 0.00 36.57 2.23
2189 2239 7.785033 TGACTCATTGCTTAGATGAACTCATA 58.215 34.615 0.00 0.00 36.57 2.15
2190 2240 6.647229 TGACTCATTGCTTAGATGAACTCAT 58.353 36.000 0.00 0.00 39.70 2.90
2191 2241 6.041423 TGACTCATTGCTTAGATGAACTCA 57.959 37.500 0.00 0.00 33.45 3.41
2192 2242 6.018098 CCATGACTCATTGCTTAGATGAACTC 60.018 42.308 0.00 0.00 33.45 3.01
2193 2243 5.821470 CCATGACTCATTGCTTAGATGAACT 59.179 40.000 0.00 0.00 33.45 3.01
2194 2244 5.008415 CCCATGACTCATTGCTTAGATGAAC 59.992 44.000 0.00 0.00 33.45 3.18
2195 2245 5.104402 TCCCATGACTCATTGCTTAGATGAA 60.104 40.000 0.00 0.00 33.45 2.57
2196 2246 4.409901 TCCCATGACTCATTGCTTAGATGA 59.590 41.667 0.00 0.00 32.87 2.92
2197 2247 4.711399 TCCCATGACTCATTGCTTAGATG 58.289 43.478 0.00 0.00 0.00 2.90
2198 2248 4.657504 TCTCCCATGACTCATTGCTTAGAT 59.342 41.667 0.00 0.00 0.00 1.98
2199 2249 4.033009 TCTCCCATGACTCATTGCTTAGA 58.967 43.478 0.00 0.00 0.00 2.10
2200 2250 4.141756 ACTCTCCCATGACTCATTGCTTAG 60.142 45.833 0.00 0.00 0.00 2.18
2201 2251 3.776969 ACTCTCCCATGACTCATTGCTTA 59.223 43.478 0.00 0.00 0.00 3.09
2202 2252 2.575279 ACTCTCCCATGACTCATTGCTT 59.425 45.455 0.00 0.00 0.00 3.91
2203 2253 2.093075 CACTCTCCCATGACTCATTGCT 60.093 50.000 0.00 0.00 0.00 3.91
2204 2254 2.093288 TCACTCTCCCATGACTCATTGC 60.093 50.000 0.00 0.00 0.00 3.56
2205 2255 3.900966 TCACTCTCCCATGACTCATTG 57.099 47.619 0.00 0.00 0.00 2.82
2206 2256 4.778579 CAATCACTCTCCCATGACTCATT 58.221 43.478 0.00 0.00 0.00 2.57
2207 2257 3.433314 GCAATCACTCTCCCATGACTCAT 60.433 47.826 0.00 0.00 0.00 2.90
2208 2258 2.093288 GCAATCACTCTCCCATGACTCA 60.093 50.000 0.00 0.00 0.00 3.41
2209 2259 2.093288 TGCAATCACTCTCCCATGACTC 60.093 50.000 0.00 0.00 0.00 3.36
2210 2260 1.911357 TGCAATCACTCTCCCATGACT 59.089 47.619 0.00 0.00 0.00 3.41
2211 2261 2.408271 TGCAATCACTCTCCCATGAC 57.592 50.000 0.00 0.00 0.00 3.06
2212 2262 3.204306 GATGCAATCACTCTCCCATGA 57.796 47.619 0.00 0.00 44.70 3.07
2221 2271 7.364673 TACAAGTGGTATGTAGATGCAATCACT 60.365 37.037 0.00 0.00 37.78 3.41
2222 2272 6.761242 TACAAGTGGTATGTAGATGCAATCAC 59.239 38.462 0.00 0.00 37.78 3.06
2223 2273 6.883744 TACAAGTGGTATGTAGATGCAATCA 58.116 36.000 0.00 0.00 37.78 2.57
2233 2283 3.628942 ACGCGATCTACAAGTGGTATGTA 59.371 43.478 15.93 0.00 32.27 2.29
2234 2284 2.426024 ACGCGATCTACAAGTGGTATGT 59.574 45.455 15.93 0.00 34.81 2.29
2235 2285 2.789339 CACGCGATCTACAAGTGGTATG 59.211 50.000 15.93 0.00 0.00 2.39
2236 2286 2.798499 GCACGCGATCTACAAGTGGTAT 60.798 50.000 15.93 0.00 33.80 2.73
2237 2287 1.468565 GCACGCGATCTACAAGTGGTA 60.469 52.381 15.93 0.00 33.80 3.25
2238 2288 0.736325 GCACGCGATCTACAAGTGGT 60.736 55.000 15.93 0.00 33.80 4.16
2239 2289 1.742900 CGCACGCGATCTACAAGTGG 61.743 60.000 15.93 0.00 42.83 4.00
2240 2290 1.625870 CGCACGCGATCTACAAGTG 59.374 57.895 15.93 0.00 42.83 3.16
2241 2291 1.516386 CCGCACGCGATCTACAAGT 60.516 57.895 15.93 0.00 42.83 3.16
2242 2292 0.800683 TTCCGCACGCGATCTACAAG 60.801 55.000 15.93 0.00 42.83 3.16
2243 2293 0.800683 CTTCCGCACGCGATCTACAA 60.801 55.000 15.93 0.00 42.83 2.41
2244 2294 1.226575 CTTCCGCACGCGATCTACA 60.227 57.895 15.93 0.00 42.83 2.74
2245 2295 2.577785 GCTTCCGCACGCGATCTAC 61.578 63.158 15.93 0.00 42.83 2.59
2246 2296 2.278596 GCTTCCGCACGCGATCTA 60.279 61.111 15.93 0.00 42.83 1.98
2252 2302 3.308878 ATTGAACGCTTCCGCACGC 62.309 57.895 0.00 0.00 38.22 5.34
2253 2303 1.509787 CATTGAACGCTTCCGCACG 60.510 57.895 0.00 0.00 38.22 5.34
2254 2304 1.154225 CCATTGAACGCTTCCGCAC 60.154 57.895 0.00 0.00 38.22 5.34
2255 2305 3.262936 CCATTGAACGCTTCCGCA 58.737 55.556 0.00 0.00 38.22 5.69


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

AutoCloner maintained by Alex Coulton.