Multiple sequence alignment - TraesCS5A01G205400

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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 TraesCS5A01G205400 chr5A 100.000 2273 0 0 1 2273 415261548 415259276 0.000000e+00 4198
1 TraesCS5A01G205400 chr5A 78.447 631 94 29 1659 2273 168134684 168135288 7.670000e-100 374
2 TraesCS5A01G205400 chr5A 80.457 481 83 10 1799 2271 641314677 641314200 7.720000e-95 357
3 TraesCS5A01G205400 chr3D 94.244 1303 73 2 1 1303 570309816 570311116 0.000000e+00 1989
4 TraesCS5A01G205400 chr3D 93.457 1299 85 0 1 1299 406417577 406418875 0.000000e+00 1929
5 TraesCS5A01G205400 chr3D 79.726 730 102 40 1571 2273 537043415 537044125 9.440000e-134 486
6 TraesCS5A01G205400 chr3D 80.300 533 80 21 1757 2273 48538760 48539283 1.650000e-101 379
7 TraesCS5A01G205400 chr5D 93.467 1301 85 0 1 1301 240523347 240522047 0.000000e+00 1932
8 TraesCS5A01G205400 chr2D 93.462 1300 85 0 8 1307 650478404 650477105 0.000000e+00 1930
9 TraesCS5A01G205400 chr2D 80.049 406 70 9 1874 2269 490802934 490803338 7.940000e-75 291
10 TraesCS5A01G205400 chr2D 79.952 414 63 16 1874 2273 377110173 377109766 1.030000e-73 287
11 TraesCS5A01G205400 chr1D 92.945 1304 90 1 1 1304 431515449 431516750 0.000000e+00 1897
12 TraesCS5A01G205400 chr7D 92.863 1303 93 0 1 1303 554425499 554426801 0.000000e+00 1892
13 TraesCS5A01G205400 chr4B 86.371 1306 164 8 8 1303 664171523 664172824 0.000000e+00 1413
14 TraesCS5A01G205400 chr2B 87.208 1243 155 4 62 1303 109881552 109880313 0.000000e+00 1411
15 TraesCS5A01G205400 chr2B 81.055 417 56 19 1870 2273 448580019 448579613 6.100000e-81 311
16 TraesCS5A01G205400 chr2B 75.000 592 112 33 1548 2120 9837212 9836638 8.110000e-60 241
17 TraesCS5A01G205400 chrUn 85.802 1303 183 2 1 1302 336409524 336410825 0.000000e+00 1380
18 TraesCS5A01G205400 chr6D 85.220 318 40 5 1962 2273 111953301 111952985 1.010000e-83 320
19 TraesCS5A01G205400 chr7B 78.801 467 78 19 1822 2273 462247713 462248173 6.140000e-76 294


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 TraesCS5A01G205400 chr5A 415259276 415261548 2272 True 4198 4198 100.000 1 2273 1 chr5A.!!$R1 2272
1 TraesCS5A01G205400 chr5A 168134684 168135288 604 False 374 374 78.447 1659 2273 1 chr5A.!!$F1 614
2 TraesCS5A01G205400 chr3D 570309816 570311116 1300 False 1989 1989 94.244 1 1303 1 chr3D.!!$F4 1302
3 TraesCS5A01G205400 chr3D 406417577 406418875 1298 False 1929 1929 93.457 1 1299 1 chr3D.!!$F2 1298
4 TraesCS5A01G205400 chr3D 537043415 537044125 710 False 486 486 79.726 1571 2273 1 chr3D.!!$F3 702
5 TraesCS5A01G205400 chr3D 48538760 48539283 523 False 379 379 80.300 1757 2273 1 chr3D.!!$F1 516
6 TraesCS5A01G205400 chr5D 240522047 240523347 1300 True 1932 1932 93.467 1 1301 1 chr5D.!!$R1 1300
7 TraesCS5A01G205400 chr2D 650477105 650478404 1299 True 1930 1930 93.462 8 1307 1 chr2D.!!$R2 1299
8 TraesCS5A01G205400 chr1D 431515449 431516750 1301 False 1897 1897 92.945 1 1304 1 chr1D.!!$F1 1303
9 TraesCS5A01G205400 chr7D 554425499 554426801 1302 False 1892 1892 92.863 1 1303 1 chr7D.!!$F1 1302
10 TraesCS5A01G205400 chr4B 664171523 664172824 1301 False 1413 1413 86.371 8 1303 1 chr4B.!!$F1 1295
11 TraesCS5A01G205400 chr2B 109880313 109881552 1239 True 1411 1411 87.208 62 1303 1 chr2B.!!$R2 1241
12 TraesCS5A01G205400 chr2B 9836638 9837212 574 True 241 241 75.000 1548 2120 1 chr2B.!!$R1 572
13 TraesCS5A01G205400 chrUn 336409524 336410825 1301 False 1380 1380 85.802 1 1302 1 chrUn.!!$F1 1301

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
727 730 1.079503 GTGGATTCACGAGACCTTGC 58.92 55.0 0.0 0.0 33.87 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1621 1634 2.490328 ACCAAACAGACAAATGCACG 57.51 45.0 0.0 0.0 0.0 5.34 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
18 19 2.871021 TCCGCATACGACCACACTA 58.129 52.632 0.00 0.00 43.93 2.74
39 40 2.838225 CCCTCGGGGCGTATCAGT 60.838 66.667 0.00 0.00 35.35 3.41
111 114 1.606668 TGGAATGAACAACTTGTCCGC 59.393 47.619 0.00 0.00 0.00 5.54
222 225 4.342359 AGAAGTCGGGTATCTACACTGTT 58.658 43.478 0.00 0.00 0.00 3.16
236 239 6.859017 TCTACACTGTTAAATCAGCGTATCA 58.141 36.000 0.00 0.00 38.84 2.15
474 477 2.007049 GCGATGGACGAGGACATGTTT 61.007 52.381 0.00 0.00 45.77 2.83
477 480 2.163818 TGGACGAGGACATGTTTCAC 57.836 50.000 0.00 0.00 0.00 3.18
524 527 1.228063 CATTCTGGGCTGCCGCTAT 60.228 57.895 13.40 0.48 36.09 2.97
531 534 2.590007 GCTGCCGCTATGGACAGG 60.590 66.667 0.00 0.00 42.00 4.00
630 633 8.985315 ATGAGGAAAGATGCAAGATAATTACA 57.015 30.769 0.00 0.00 0.00 2.41
684 687 1.482182 TGGACTCATGATCGTGAAGGG 59.518 52.381 18.07 9.65 0.00 3.95
688 691 2.099263 ACTCATGATCGTGAAGGGTACG 59.901 50.000 18.07 7.65 42.56 3.67
727 730 1.079503 GTGGATTCACGAGACCTTGC 58.920 55.000 0.00 0.00 33.87 4.01
736 739 1.667154 CGAGACCTTGCCGATCCTGA 61.667 60.000 0.00 0.00 0.00 3.86
770 773 3.310860 GAAGGAAAGCGAGGGCGGA 62.311 63.158 0.00 0.00 46.35 5.54
821 824 3.827876 TGGGTCACTATAAACACTGACGA 59.172 43.478 0.00 0.00 34.94 4.20
837 840 3.124560 TGACGACGCACTTAATGTTGAA 58.875 40.909 0.00 0.00 0.00 2.69
838 841 3.556365 TGACGACGCACTTAATGTTGAAA 59.444 39.130 0.00 0.00 0.00 2.69
847 850 7.273381 ACGCACTTAATGTTGAAAATATGAAGC 59.727 33.333 0.00 0.00 38.94 3.86
848 851 7.273164 CGCACTTAATGTTGAAAATATGAAGCA 59.727 33.333 0.00 0.00 38.94 3.91
890 893 1.960417 TCACACATTGCGTTCCTTGA 58.040 45.000 0.00 0.00 0.00 3.02
898 901 3.056313 GCGTTCCTTGATGCCTGGC 62.056 63.158 12.87 12.87 0.00 4.85
960 963 1.213013 GCTTGCTCTTCGAGACGGA 59.787 57.895 0.00 0.00 0.00 4.69
963 966 2.611518 CTTGCTCTTCGAGACGGAATT 58.388 47.619 0.00 0.00 0.00 2.17
971 974 6.417191 TCTTCGAGACGGAATTATTTTTGG 57.583 37.500 0.00 0.00 0.00 3.28
983 986 4.920640 TTATTTTTGGGCAACTTCGTGA 57.079 36.364 0.00 0.00 0.00 4.35
1020 1023 1.361204 TGGAGATTGACTGCCTGGAA 58.639 50.000 0.00 0.00 36.08 3.53
1143 1153 5.411781 GTTACTCATGTCAGTAGGGAAGTG 58.588 45.833 0.00 0.00 30.40 3.16
1227 1237 5.480642 TTGATGCAAGCCCTGAATTTTTA 57.519 34.783 0.00 0.00 0.00 1.52
1319 1330 3.340789 AAAAACTCTGCGACCGGC 58.659 55.556 0.00 0.00 43.96 6.13
1320 1331 2.258726 AAAAACTCTGCGACCGGCC 61.259 57.895 0.00 0.00 42.61 6.13
1321 1332 2.676163 AAAAACTCTGCGACCGGCCT 62.676 55.000 0.00 0.00 42.61 5.19
1322 1333 3.883744 AAACTCTGCGACCGGCCTG 62.884 63.158 0.00 0.00 42.61 4.85
1324 1335 4.379243 CTCTGCGACCGGCCTGTT 62.379 66.667 0.00 0.00 42.61 3.16
1325 1336 2.992689 TCTGCGACCGGCCTGTTA 60.993 61.111 0.00 0.00 42.61 2.41
1326 1337 2.813908 CTGCGACCGGCCTGTTAC 60.814 66.667 0.00 0.00 42.61 2.50
1327 1338 4.382320 TGCGACCGGCCTGTTACC 62.382 66.667 0.00 0.00 42.61 2.85
1333 1344 2.358247 CGGCCTGTTACCGCACTT 60.358 61.111 0.00 0.00 44.90 3.16
1334 1345 1.964373 CGGCCTGTTACCGCACTTT 60.964 57.895 0.00 0.00 44.90 2.66
1335 1346 1.512156 CGGCCTGTTACCGCACTTTT 61.512 55.000 0.00 0.00 44.90 2.27
1336 1347 0.671796 GGCCTGTTACCGCACTTTTT 59.328 50.000 0.00 0.00 0.00 1.94
1337 1348 1.881324 GGCCTGTTACCGCACTTTTTA 59.119 47.619 0.00 0.00 0.00 1.52
1338 1349 2.293955 GGCCTGTTACCGCACTTTTTAA 59.706 45.455 0.00 0.00 0.00 1.52
1339 1350 3.243468 GGCCTGTTACCGCACTTTTTAAA 60.243 43.478 0.00 0.00 0.00 1.52
1340 1351 3.978855 GCCTGTTACCGCACTTTTTAAAG 59.021 43.478 0.80 0.80 41.73 1.85
1341 1352 4.542735 CCTGTTACCGCACTTTTTAAAGG 58.457 43.478 7.12 0.00 40.31 3.11
1342 1353 4.276431 CCTGTTACCGCACTTTTTAAAGGA 59.724 41.667 7.12 0.00 40.31 3.36
1343 1354 5.221087 CCTGTTACCGCACTTTTTAAAGGAA 60.221 40.000 7.12 0.00 40.31 3.36
1344 1355 6.205101 TGTTACCGCACTTTTTAAAGGAAA 57.795 33.333 7.12 0.00 40.31 3.13
1345 1356 6.628185 TGTTACCGCACTTTTTAAAGGAAAA 58.372 32.000 7.12 0.00 40.31 2.29
1346 1357 7.095270 TGTTACCGCACTTTTTAAAGGAAAAA 58.905 30.769 7.12 0.00 43.26 1.94
1380 1391 3.634397 AAAAGAGATGCCTGGATTCGA 57.366 42.857 0.00 0.00 0.00 3.71
1381 1392 3.634397 AAAGAGATGCCTGGATTCGAA 57.366 42.857 0.00 0.00 0.00 3.71
1382 1393 2.611225 AGAGATGCCTGGATTCGAAC 57.389 50.000 0.00 0.00 0.00 3.95
1383 1394 1.833630 AGAGATGCCTGGATTCGAACA 59.166 47.619 0.00 0.00 0.00 3.18
1384 1395 2.437281 AGAGATGCCTGGATTCGAACAT 59.563 45.455 0.00 0.00 0.00 2.71
1385 1396 2.547211 GAGATGCCTGGATTCGAACATG 59.453 50.000 0.00 0.00 0.00 3.21
1386 1397 1.605710 GATGCCTGGATTCGAACATGG 59.394 52.381 0.00 1.85 0.00 3.66
1387 1398 0.394216 TGCCTGGATTCGAACATGGG 60.394 55.000 0.00 2.26 0.00 4.00
1388 1399 0.394352 GCCTGGATTCGAACATGGGT 60.394 55.000 0.00 0.00 0.00 4.51
1389 1400 1.668419 CCTGGATTCGAACATGGGTC 58.332 55.000 0.00 0.00 0.00 4.46
1390 1401 1.210478 CCTGGATTCGAACATGGGTCT 59.790 52.381 0.00 0.00 0.00 3.85
1391 1402 2.555199 CTGGATTCGAACATGGGTCTC 58.445 52.381 0.00 0.00 0.00 3.36
1392 1403 1.209504 TGGATTCGAACATGGGTCTCC 59.790 52.381 0.00 1.11 0.00 3.71
1393 1404 1.486726 GGATTCGAACATGGGTCTCCT 59.513 52.381 0.00 0.00 0.00 3.69
1394 1405 2.092914 GGATTCGAACATGGGTCTCCTT 60.093 50.000 0.00 0.00 0.00 3.36
1395 1406 2.472695 TTCGAACATGGGTCTCCTTG 57.527 50.000 0.00 0.00 42.15 3.61
1396 1407 1.639722 TCGAACATGGGTCTCCTTGA 58.360 50.000 0.00 0.00 39.73 3.02
1397 1408 2.187958 TCGAACATGGGTCTCCTTGAT 58.812 47.619 0.00 0.00 39.73 2.57
1398 1409 2.093500 TCGAACATGGGTCTCCTTGATG 60.093 50.000 0.00 0.00 39.73 3.07
1399 1410 2.648059 GAACATGGGTCTCCTTGATGG 58.352 52.381 0.00 0.00 39.73 3.51
1400 1411 1.673767 ACATGGGTCTCCTTGATGGT 58.326 50.000 0.00 0.00 39.73 3.55
1401 1412 1.283029 ACATGGGTCTCCTTGATGGTG 59.717 52.381 0.00 0.00 39.73 4.17
1402 1413 1.283029 CATGGGTCTCCTTGATGGTGT 59.717 52.381 0.00 0.00 39.73 4.16
1403 1414 0.692476 TGGGTCTCCTTGATGGTGTG 59.308 55.000 0.00 0.00 37.07 3.82
1404 1415 0.693049 GGGTCTCCTTGATGGTGTGT 59.307 55.000 0.00 0.00 37.07 3.72
1405 1416 1.906574 GGGTCTCCTTGATGGTGTGTA 59.093 52.381 0.00 0.00 37.07 2.90
1406 1417 2.304761 GGGTCTCCTTGATGGTGTGTAA 59.695 50.000 0.00 0.00 37.07 2.41
1407 1418 3.335579 GGTCTCCTTGATGGTGTGTAAC 58.664 50.000 0.00 0.00 37.07 2.50
1408 1419 2.993899 GTCTCCTTGATGGTGTGTAACG 59.006 50.000 0.00 0.00 34.81 3.18
1417 1428 4.590487 TGTGTAACGCAGCTAGCC 57.410 55.556 12.13 0.00 42.39 3.93
1418 1429 1.445410 TGTGTAACGCAGCTAGCCG 60.445 57.895 12.13 11.60 42.39 5.52
1419 1430 1.445582 GTGTAACGCAGCTAGCCGT 60.446 57.895 12.13 12.33 41.38 5.68
1420 1431 1.012486 GTGTAACGCAGCTAGCCGTT 61.012 55.000 27.04 27.04 41.38 4.44
1421 1432 1.011968 TGTAACGCAGCTAGCCGTTG 61.012 55.000 29.93 17.22 41.38 4.10
1422 1433 1.447140 TAACGCAGCTAGCCGTTGG 60.447 57.895 29.93 12.77 41.38 3.77
1423 1434 2.845752 TAACGCAGCTAGCCGTTGGG 62.846 60.000 29.93 23.14 41.52 4.12
1424 1435 4.760047 CGCAGCTAGCCGTTGGGT 62.760 66.667 12.13 0.00 41.38 4.51
1425 1436 2.582436 GCAGCTAGCCGTTGGGTA 59.418 61.111 12.13 0.00 37.23 3.69
1426 1437 1.078708 GCAGCTAGCCGTTGGGTAA 60.079 57.895 12.13 0.00 35.13 2.85
1427 1438 1.366854 GCAGCTAGCCGTTGGGTAAC 61.367 60.000 12.13 0.00 35.13 2.50
1439 1450 2.047939 GGTAACCACCACGACCCG 60.048 66.667 0.00 0.00 45.04 5.28
1440 1451 2.047939 GTAACCACCACGACCCGG 60.048 66.667 0.00 0.00 0.00 5.73
1441 1452 4.006357 TAACCACCACGACCCGGC 62.006 66.667 0.00 0.00 0.00 6.13
1445 1456 4.308458 CACCACGACCCGGCTCAA 62.308 66.667 0.00 0.00 0.00 3.02
1446 1457 3.319198 ACCACGACCCGGCTCAAT 61.319 61.111 0.00 0.00 0.00 2.57
1447 1458 1.985662 ACCACGACCCGGCTCAATA 60.986 57.895 0.00 0.00 0.00 1.90
1448 1459 1.227263 CCACGACCCGGCTCAATAG 60.227 63.158 0.00 0.00 0.00 1.73
1458 1469 3.728474 CTCAATAGCAGGGCGCAG 58.272 61.111 10.83 0.00 46.13 5.18
1473 1484 1.076332 CGCAGCCTATTTATACCGGC 58.924 55.000 0.00 0.00 42.79 6.13
1474 1485 1.076332 GCAGCCTATTTATACCGGCG 58.924 55.000 0.00 0.00 46.85 6.46
1475 1486 1.076332 CAGCCTATTTATACCGGCGC 58.924 55.000 0.00 0.00 46.85 6.53
1476 1487 0.389426 AGCCTATTTATACCGGCGCG 60.389 55.000 0.00 0.00 46.85 6.86
1477 1488 0.668401 GCCTATTTATACCGGCGCGT 60.668 55.000 8.43 3.50 32.22 6.01
1478 1489 1.402720 GCCTATTTATACCGGCGCGTA 60.403 52.381 8.43 6.00 32.22 4.42
1479 1490 2.736400 GCCTATTTATACCGGCGCGTAT 60.736 50.000 19.67 19.67 32.22 3.06
1480 1491 3.111098 CCTATTTATACCGGCGCGTATC 58.889 50.000 19.45 0.00 31.42 2.24
1481 1492 2.000429 ATTTATACCGGCGCGTATCC 58.000 50.000 19.45 0.00 31.42 2.59
1482 1493 0.672889 TTTATACCGGCGCGTATCCA 59.327 50.000 19.45 9.15 31.42 3.41
1483 1494 0.039256 TTATACCGGCGCGTATCCAC 60.039 55.000 19.45 0.00 31.42 4.02
1484 1495 0.890542 TATACCGGCGCGTATCCACT 60.891 55.000 19.45 4.71 31.42 4.00
1485 1496 2.416244 ATACCGGCGCGTATCCACTG 62.416 60.000 8.43 0.00 0.00 3.66
1486 1497 4.201679 CCGGCGCGTATCCACTGA 62.202 66.667 8.43 0.00 0.00 3.41
1487 1498 2.655364 CGGCGCGTATCCACTGAG 60.655 66.667 8.43 0.00 0.00 3.35
1488 1499 2.962253 GGCGCGTATCCACTGAGC 60.962 66.667 8.43 0.00 0.00 4.26
1489 1500 2.202743 GCGCGTATCCACTGAGCA 60.203 61.111 8.43 0.00 0.00 4.26
1490 1501 1.809619 GCGCGTATCCACTGAGCAA 60.810 57.895 8.43 0.00 0.00 3.91
1491 1502 1.358725 GCGCGTATCCACTGAGCAAA 61.359 55.000 8.43 0.00 0.00 3.68
1492 1503 0.370273 CGCGTATCCACTGAGCAAAC 59.630 55.000 0.00 0.00 0.00 2.93
1493 1504 1.438651 GCGTATCCACTGAGCAAACA 58.561 50.000 0.00 0.00 0.00 2.83
1494 1505 1.804151 GCGTATCCACTGAGCAAACAA 59.196 47.619 0.00 0.00 0.00 2.83
1495 1506 2.412847 GCGTATCCACTGAGCAAACAAC 60.413 50.000 0.00 0.00 0.00 3.32
1496 1507 3.067106 CGTATCCACTGAGCAAACAACT 58.933 45.455 0.00 0.00 0.00 3.16
1497 1508 3.120546 CGTATCCACTGAGCAAACAACTG 60.121 47.826 0.00 0.00 0.00 3.16
1498 1509 2.418368 TCCACTGAGCAAACAACTGT 57.582 45.000 0.00 0.00 0.00 3.55
1499 1510 2.722094 TCCACTGAGCAAACAACTGTT 58.278 42.857 0.00 0.00 40.50 3.16
1501 1512 3.509575 TCCACTGAGCAAACAACTGTTTT 59.490 39.130 5.09 0.00 45.07 2.43
1502 1513 4.021544 TCCACTGAGCAAACAACTGTTTTT 60.022 37.500 5.09 0.00 45.07 1.94
1525 1536 6.994868 TTGTTTTCCATCGGTTTTTATTCG 57.005 33.333 0.00 0.00 0.00 3.34
1526 1537 6.074544 TGTTTTCCATCGGTTTTTATTCGT 57.925 33.333 0.00 0.00 0.00 3.85
1527 1538 6.505272 TGTTTTCCATCGGTTTTTATTCGTT 58.495 32.000 0.00 0.00 0.00 3.85
1528 1539 6.979238 TGTTTTCCATCGGTTTTTATTCGTTT 59.021 30.769 0.00 0.00 0.00 3.60
1529 1540 8.133627 TGTTTTCCATCGGTTTTTATTCGTTTA 58.866 29.630 0.00 0.00 0.00 2.01
1530 1541 9.131416 GTTTTCCATCGGTTTTTATTCGTTTAT 57.869 29.630 0.00 0.00 0.00 1.40
1531 1542 8.676454 TTTCCATCGGTTTTTATTCGTTTATG 57.324 30.769 0.00 0.00 0.00 1.90
1532 1543 7.380431 TCCATCGGTTTTTATTCGTTTATGT 57.620 32.000 0.00 0.00 0.00 2.29
1533 1544 7.818642 TCCATCGGTTTTTATTCGTTTATGTT 58.181 30.769 0.00 0.00 0.00 2.71
1534 1545 8.298140 TCCATCGGTTTTTATTCGTTTATGTTT 58.702 29.630 0.00 0.00 0.00 2.83
1535 1546 8.580431 CCATCGGTTTTTATTCGTTTATGTTTC 58.420 33.333 0.00 0.00 0.00 2.78
1536 1547 8.580431 CATCGGTTTTTATTCGTTTATGTTTCC 58.420 33.333 0.00 0.00 0.00 3.13
1537 1548 7.646314 TCGGTTTTTATTCGTTTATGTTTCCA 58.354 30.769 0.00 0.00 0.00 3.53
1538 1549 8.298140 TCGGTTTTTATTCGTTTATGTTTCCAT 58.702 29.630 0.00 0.00 34.97 3.41
1539 1550 8.580431 CGGTTTTTATTCGTTTATGTTTCCATC 58.420 33.333 0.00 0.00 32.29 3.51
1540 1551 9.634163 GGTTTTTATTCGTTTATGTTTCCATCT 57.366 29.630 0.00 0.00 32.29 2.90
1544 1555 9.834628 TTTATTCGTTTATGTTTCCATCTTCAC 57.165 29.630 0.00 0.00 32.29 3.18
1545 1556 7.687941 ATTCGTTTATGTTTCCATCTTCACT 57.312 32.000 0.00 0.00 32.29 3.41
1546 1557 6.721571 TCGTTTATGTTTCCATCTTCACTC 57.278 37.500 0.00 0.00 32.29 3.51
1551 1562 8.787852 GTTTATGTTTCCATCTTCACTCTCTTT 58.212 33.333 0.00 0.00 32.29 2.52
1554 1565 7.264373 TGTTTCCATCTTCACTCTCTTTTTC 57.736 36.000 0.00 0.00 0.00 2.29
1558 1569 8.525290 TTCCATCTTCACTCTCTTTTTCTTTT 57.475 30.769 0.00 0.00 0.00 2.27
1565 1576 9.631452 CTTCACTCTCTTTTTCTTTTGTTTTCT 57.369 29.630 0.00 0.00 0.00 2.52
1566 1577 9.981114 TTCACTCTCTTTTTCTTTTGTTTTCTT 57.019 25.926 0.00 0.00 0.00 2.52
1569 1580 9.208022 ACTCTCTTTTTCTTTTGTTTTCTTTGG 57.792 29.630 0.00 0.00 0.00 3.28
1622 1635 9.663904 TCTTCTCTGTTTTATTTTCAATGTTCG 57.336 29.630 0.00 0.00 0.00 3.95
1634 1647 3.887741 TCAATGTTCGTGCATTTGTCTG 58.112 40.909 0.00 0.00 37.00 3.51
1638 1651 3.433709 TGTTCGTGCATTTGTCTGTTTG 58.566 40.909 0.00 0.00 0.00 2.93
1639 1662 2.772568 TCGTGCATTTGTCTGTTTGG 57.227 45.000 0.00 0.00 0.00 3.28
1642 1665 3.119316 TCGTGCATTTGTCTGTTTGGTTT 60.119 39.130 0.00 0.00 0.00 3.27
1644 1667 4.492247 CGTGCATTTGTCTGTTTGGTTTTG 60.492 41.667 0.00 0.00 0.00 2.44
1645 1668 4.629200 GTGCATTTGTCTGTTTGGTTTTGA 59.371 37.500 0.00 0.00 0.00 2.69
1650 1686 7.437862 GCATTTGTCTGTTTGGTTTTGATCTTA 59.562 33.333 0.00 0.00 0.00 2.10
1653 1689 9.883142 TTTGTCTGTTTGGTTTTGATCTTATTT 57.117 25.926 0.00 0.00 0.00 1.40
1681 1717 8.871686 TCTTTCTTTGGCTTATTTTGTTTCTC 57.128 30.769 0.00 0.00 0.00 2.87
1682 1718 7.926018 TCTTTCTTTGGCTTATTTTGTTTCTCC 59.074 33.333 0.00 0.00 0.00 3.71
1687 1723 6.723298 TGGCTTATTTTGTTTCTCCTTTGA 57.277 33.333 0.00 0.00 0.00 2.69
1691 1727 8.712363 GGCTTATTTTGTTTCTCCTTTGATTTC 58.288 33.333 0.00 0.00 0.00 2.17
1696 1732 8.716646 TTTTGTTTCTCCTTTGATTTCCTTTC 57.283 30.769 0.00 0.00 0.00 2.62
1700 1736 7.981225 TGTTTCTCCTTTGATTTCCTTTCTTTG 59.019 33.333 0.00 0.00 0.00 2.77
1704 1740 9.196139 TCTCCTTTGATTTCCTTTCTTTGTTTA 57.804 29.630 0.00 0.00 0.00 2.01
1705 1741 9.987272 CTCCTTTGATTTCCTTTCTTTGTTTAT 57.013 29.630 0.00 0.00 0.00 1.40
1755 1793 9.003658 AGGTCAACAACATTTTTCTATACAGAG 57.996 33.333 0.00 0.00 30.73 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.930848 GAGGGTTTTAGTGTGGTCGTATG 59.069 47.826 0.00 0.00 0.00 2.39
18 19 1.222661 GATACGCCCCGAGGGTTTT 59.777 57.895 7.48 0.00 46.51 2.43
111 114 0.527565 CCGGGTGCAAGAAATTCTGG 59.472 55.000 0.00 0.00 0.00 3.86
222 225 9.411801 GTCATAAGAGAATGATACGCTGATTTA 57.588 33.333 0.00 0.00 38.13 1.40
236 239 4.371855 TCGTTGCGAGTCATAAGAGAAT 57.628 40.909 0.00 0.00 0.00 2.40
320 323 2.094390 ACTCGTAGTCGCCATAAAGCAA 60.094 45.455 0.00 0.00 36.96 3.91
507 510 1.228063 CATAGCGGCAGCCCAGAAT 60.228 57.895 5.63 0.00 46.67 2.40
531 534 1.814793 GTGGGAGAAAGAGCTGGAAC 58.185 55.000 0.00 0.00 0.00 3.62
542 545 2.281484 GGTGCAAGCGTGGGAGAA 60.281 61.111 0.79 0.00 0.00 2.87
585 588 6.996879 CCTCATCAATGAACATAGGATCAAGT 59.003 38.462 0.00 0.00 36.18 3.16
630 633 5.132897 ACGACCAAATGTTGTGCATAATT 57.867 34.783 0.00 0.00 40.23 1.40
684 687 2.573941 ACGCTTGAATAGGGTCGTAC 57.426 50.000 0.00 0.00 46.10 3.67
727 730 3.618690 AGAAGGAAGTTTCAGGATCGG 57.381 47.619 0.00 0.00 0.00 4.18
770 773 1.136329 AGGTGGCCTCCAACACTGAT 61.136 55.000 25.36 0.00 45.07 2.90
821 824 7.273381 GCTTCATATTTTCAACATTAAGTGCGT 59.727 33.333 0.00 0.00 0.00 5.24
837 840 2.092429 TCCCGCTCCTTGCTTCATATTT 60.092 45.455 0.00 0.00 40.11 1.40
838 841 1.490490 TCCCGCTCCTTGCTTCATATT 59.510 47.619 0.00 0.00 40.11 1.28
907 910 1.249407 GGGTCCGTAATGCCAAACAA 58.751 50.000 0.00 0.00 0.00 2.83
960 963 5.848406 TCACGAAGTTGCCCAAAAATAATT 58.152 33.333 0.00 0.00 41.61 1.40
963 966 5.461032 AATCACGAAGTTGCCCAAAAATA 57.539 34.783 0.00 0.00 41.61 1.40
971 974 2.548057 TGTGAGAAATCACGAAGTTGCC 59.452 45.455 4.12 0.00 41.61 4.52
1020 1023 5.223382 CGCGATTTCCATAGATCAACTAGT 58.777 41.667 0.00 0.00 34.35 2.57
1066 1069 6.267699 TCCTCTAATTCATTCAAGATAGGCGA 59.732 38.462 0.00 0.00 0.00 5.54
1221 1231 3.913089 CCGCAGGCAAGAAACTAAAAAT 58.087 40.909 0.00 0.00 46.14 1.82
1307 1318 3.001902 TAACAGGCCGGTCGCAGAG 62.002 63.158 9.62 0.00 40.31 3.35
1308 1319 2.992689 TAACAGGCCGGTCGCAGA 60.993 61.111 9.62 0.00 40.31 4.26
1309 1320 2.813908 GTAACAGGCCGGTCGCAG 60.814 66.667 9.62 0.00 40.31 5.18
1310 1321 4.382320 GGTAACAGGCCGGTCGCA 62.382 66.667 9.62 0.00 40.31 5.10
1317 1328 0.671796 AAAAAGTGCGGTAACAGGCC 59.328 50.000 0.00 0.00 0.00 5.19
1318 1329 3.629438 TTAAAAAGTGCGGTAACAGGC 57.371 42.857 0.00 0.00 0.00 4.85
1319 1330 4.276431 TCCTTTAAAAAGTGCGGTAACAGG 59.724 41.667 2.03 0.00 34.20 4.00
1320 1331 5.427036 TCCTTTAAAAAGTGCGGTAACAG 57.573 39.130 2.03 0.00 34.20 3.16
1321 1332 5.831702 TTCCTTTAAAAAGTGCGGTAACA 57.168 34.783 2.03 0.00 34.20 2.41
1322 1333 7.522901 TTTTTCCTTTAAAAAGTGCGGTAAC 57.477 32.000 2.03 0.00 41.13 2.50
1359 1370 3.955471 TCGAATCCAGGCATCTCTTTTT 58.045 40.909 0.00 0.00 0.00 1.94
1360 1371 3.634397 TCGAATCCAGGCATCTCTTTT 57.366 42.857 0.00 0.00 0.00 2.27
1361 1372 3.274288 GTTCGAATCCAGGCATCTCTTT 58.726 45.455 0.00 0.00 0.00 2.52
1362 1373 2.237143 TGTTCGAATCCAGGCATCTCTT 59.763 45.455 0.00 0.00 0.00 2.85
1363 1374 1.833630 TGTTCGAATCCAGGCATCTCT 59.166 47.619 0.00 0.00 0.00 3.10
1364 1375 2.315925 TGTTCGAATCCAGGCATCTC 57.684 50.000 0.00 0.00 0.00 2.75
1365 1376 2.569059 CATGTTCGAATCCAGGCATCT 58.431 47.619 0.00 0.00 0.00 2.90
1366 1377 1.605710 CCATGTTCGAATCCAGGCATC 59.394 52.381 0.00 0.00 0.00 3.91
1367 1378 1.683943 CCATGTTCGAATCCAGGCAT 58.316 50.000 0.00 0.00 0.00 4.40
1368 1379 0.394216 CCCATGTTCGAATCCAGGCA 60.394 55.000 0.00 0.00 0.00 4.75
1369 1380 0.394352 ACCCATGTTCGAATCCAGGC 60.394 55.000 0.00 0.00 0.00 4.85
1370 1381 1.210478 AGACCCATGTTCGAATCCAGG 59.790 52.381 0.00 3.37 0.00 4.45
1371 1382 2.555199 GAGACCCATGTTCGAATCCAG 58.445 52.381 0.00 0.00 0.00 3.86
1372 1383 1.209504 GGAGACCCATGTTCGAATCCA 59.790 52.381 0.00 0.00 0.00 3.41
1373 1384 1.486726 AGGAGACCCATGTTCGAATCC 59.513 52.381 0.00 1.14 33.88 3.01
1374 1385 2.939103 CAAGGAGACCCATGTTCGAATC 59.061 50.000 0.00 0.00 33.88 2.52
1375 1386 2.571653 TCAAGGAGACCCATGTTCGAAT 59.428 45.455 0.00 0.00 33.14 3.34
1376 1387 1.974957 TCAAGGAGACCCATGTTCGAA 59.025 47.619 0.00 0.00 33.14 3.71
1377 1388 1.639722 TCAAGGAGACCCATGTTCGA 58.360 50.000 0.00 0.00 33.14 3.71
1378 1389 2.283298 CATCAAGGAGACCCATGTTCG 58.717 52.381 0.00 0.00 33.14 3.95
1379 1390 2.025887 ACCATCAAGGAGACCCATGTTC 60.026 50.000 0.00 0.00 41.22 3.18
1380 1391 1.995542 ACCATCAAGGAGACCCATGTT 59.004 47.619 0.00 0.00 41.22 2.71
1381 1392 1.283029 CACCATCAAGGAGACCCATGT 59.717 52.381 0.00 0.00 41.22 3.21
1382 1393 1.283029 ACACCATCAAGGAGACCCATG 59.717 52.381 0.00 0.00 41.22 3.66
1383 1394 1.283029 CACACCATCAAGGAGACCCAT 59.717 52.381 0.00 0.00 41.22 4.00
1384 1395 0.692476 CACACCATCAAGGAGACCCA 59.308 55.000 0.00 0.00 41.22 4.51
1385 1396 0.693049 ACACACCATCAAGGAGACCC 59.307 55.000 0.00 0.00 41.22 4.46
1386 1397 3.335579 GTTACACACCATCAAGGAGACC 58.664 50.000 0.00 0.00 41.22 3.85
1387 1398 2.993899 CGTTACACACCATCAAGGAGAC 59.006 50.000 0.00 0.00 41.22 3.36
1388 1399 2.611971 GCGTTACACACCATCAAGGAGA 60.612 50.000 0.00 0.00 41.22 3.71
1389 1400 1.732259 GCGTTACACACCATCAAGGAG 59.268 52.381 0.00 0.00 41.22 3.69
1390 1401 1.070914 TGCGTTACACACCATCAAGGA 59.929 47.619 0.00 0.00 41.22 3.36
1391 1402 1.464608 CTGCGTTACACACCATCAAGG 59.535 52.381 0.00 0.00 45.67 3.61
1392 1403 1.135972 GCTGCGTTACACACCATCAAG 60.136 52.381 0.00 0.00 0.00 3.02
1393 1404 0.871722 GCTGCGTTACACACCATCAA 59.128 50.000 0.00 0.00 0.00 2.57
1394 1405 0.034756 AGCTGCGTTACACACCATCA 59.965 50.000 0.00 0.00 0.00 3.07
1395 1406 1.927174 CTAGCTGCGTTACACACCATC 59.073 52.381 0.00 0.00 0.00 3.51
1396 1407 2.007049 GCTAGCTGCGTTACACACCAT 61.007 52.381 7.70 0.00 0.00 3.55
1397 1408 0.669318 GCTAGCTGCGTTACACACCA 60.669 55.000 7.70 0.00 0.00 4.17
1398 1409 1.359459 GGCTAGCTGCGTTACACACC 61.359 60.000 15.72 0.00 44.05 4.16
1399 1410 1.683790 CGGCTAGCTGCGTTACACAC 61.684 60.000 15.72 0.00 44.05 3.82
1400 1411 1.445410 CGGCTAGCTGCGTTACACA 60.445 57.895 15.72 0.00 44.05 3.72
1401 1412 1.012486 AACGGCTAGCTGCGTTACAC 61.012 55.000 24.24 1.41 44.05 2.90
1402 1413 1.011968 CAACGGCTAGCTGCGTTACA 61.012 55.000 24.76 0.00 44.05 2.41
1403 1414 1.693083 CCAACGGCTAGCTGCGTTAC 61.693 60.000 24.76 3.51 44.05 2.50
1404 1415 1.447140 CCAACGGCTAGCTGCGTTA 60.447 57.895 24.76 0.00 44.05 3.18
1405 1416 2.742372 CCAACGGCTAGCTGCGTT 60.742 61.111 23.72 22.32 44.05 4.84
1406 1417 4.760047 CCCAACGGCTAGCTGCGT 62.760 66.667 23.72 17.73 44.05 5.24
1407 1418 2.845752 TTACCCAACGGCTAGCTGCG 62.846 60.000 23.72 17.04 44.05 5.18
1408 1419 1.078708 TTACCCAACGGCTAGCTGC 60.079 57.895 23.72 1.79 41.94 5.25
1409 1420 0.743345 GGTTACCCAACGGCTAGCTG 60.743 60.000 22.26 22.26 35.34 4.24
1410 1421 1.196104 TGGTTACCCAACGGCTAGCT 61.196 55.000 15.72 0.00 37.98 3.32
1411 1422 1.022982 GTGGTTACCCAACGGCTAGC 61.023 60.000 6.04 6.04 44.15 3.42
1412 1423 0.392060 GGTGGTTACCCAACGGCTAG 60.392 60.000 0.00 0.00 44.15 3.42
1413 1424 1.678724 GGTGGTTACCCAACGGCTA 59.321 57.895 0.00 0.00 44.15 3.93
1414 1425 2.433004 GGTGGTTACCCAACGGCT 59.567 61.111 0.00 0.00 44.15 5.52
1419 1430 1.451072 GGTCGTGGTGGTTACCCAA 59.549 57.895 0.00 0.00 46.96 4.12
1420 1431 3.149992 GGTCGTGGTGGTTACCCA 58.850 61.111 0.00 0.00 46.96 4.51
1421 1432 2.348620 GGGTCGTGGTGGTTACCC 59.651 66.667 0.00 0.00 46.96 3.69
1423 1434 2.047939 CCGGGTCGTGGTGGTTAC 60.048 66.667 0.00 0.00 0.00 2.50
1424 1435 4.006357 GCCGGGTCGTGGTGGTTA 62.006 66.667 2.18 0.00 0.00 2.85
1428 1439 2.233605 TATTGAGCCGGGTCGTGGTG 62.234 60.000 27.33 0.00 0.00 4.17
1429 1440 1.956629 CTATTGAGCCGGGTCGTGGT 61.957 60.000 27.33 15.46 0.00 4.16
1430 1441 1.227263 CTATTGAGCCGGGTCGTGG 60.227 63.158 27.33 16.87 0.00 4.94
1431 1442 1.883084 GCTATTGAGCCGGGTCGTG 60.883 63.158 27.33 17.45 43.49 4.35
1432 1443 2.499685 GCTATTGAGCCGGGTCGT 59.500 61.111 27.33 20.52 43.49 4.34
1441 1452 2.541120 GCTGCGCCCTGCTATTGAG 61.541 63.158 4.18 0.00 46.63 3.02
1442 1453 2.514592 GCTGCGCCCTGCTATTGA 60.515 61.111 4.18 0.00 46.63 2.57
1443 1454 3.589881 GGCTGCGCCCTGCTATTG 61.590 66.667 4.18 0.00 44.06 1.90
1453 1464 1.076332 CCGGTATAAATAGGCTGCGC 58.924 55.000 0.00 0.00 0.00 6.09
1454 1465 1.076332 GCCGGTATAAATAGGCTGCG 58.924 55.000 1.90 0.00 45.67 5.18
1455 1466 1.076332 CGCCGGTATAAATAGGCTGC 58.924 55.000 1.90 0.00 46.85 5.25
1456 1467 1.076332 GCGCCGGTATAAATAGGCTG 58.924 55.000 1.90 0.00 46.85 4.85
1457 1468 0.389426 CGCGCCGGTATAAATAGGCT 60.389 55.000 1.90 0.00 46.85 4.58
1458 1469 0.668401 ACGCGCCGGTATAAATAGGC 60.668 55.000 5.73 0.00 45.67 3.93
1459 1470 2.634982 TACGCGCCGGTATAAATAGG 57.365 50.000 5.73 0.00 0.00 2.57
1460 1471 3.111098 GGATACGCGCCGGTATAAATAG 58.889 50.000 5.73 0.00 33.39 1.73
1461 1472 2.491298 TGGATACGCGCCGGTATAAATA 59.509 45.455 5.73 0.00 42.51 1.40
1462 1473 1.273048 TGGATACGCGCCGGTATAAAT 59.727 47.619 5.73 0.00 42.51 1.40
1463 1474 0.672889 TGGATACGCGCCGGTATAAA 59.327 50.000 5.73 0.00 42.51 1.40
1464 1475 0.039256 GTGGATACGCGCCGGTATAA 60.039 55.000 5.73 0.00 42.51 0.98
1465 1476 1.580942 GTGGATACGCGCCGGTATA 59.419 57.895 5.73 0.00 42.51 1.47
1466 1477 2.337532 GTGGATACGCGCCGGTAT 59.662 61.111 5.73 4.51 42.51 2.73
1475 1486 3.067106 AGTTGTTTGCTCAGTGGATACG 58.933 45.455 0.00 0.00 42.51 3.06
1476 1487 3.815401 ACAGTTGTTTGCTCAGTGGATAC 59.185 43.478 0.00 0.00 0.00 2.24
1477 1488 4.085357 ACAGTTGTTTGCTCAGTGGATA 57.915 40.909 0.00 0.00 0.00 2.59
1478 1489 2.936202 ACAGTTGTTTGCTCAGTGGAT 58.064 42.857 0.00 0.00 0.00 3.41
1479 1490 2.418368 ACAGTTGTTTGCTCAGTGGA 57.582 45.000 0.00 0.00 0.00 4.02
1480 1491 3.508744 AAACAGTTGTTTGCTCAGTGG 57.491 42.857 9.29 0.00 45.55 4.00
1499 1510 8.328864 CGAATAAAAACCGATGGAAAACAAAAA 58.671 29.630 0.00 0.00 0.00 1.94
1500 1511 7.491696 ACGAATAAAAACCGATGGAAAACAAAA 59.508 29.630 0.00 0.00 0.00 2.44
1501 1512 6.979238 ACGAATAAAAACCGATGGAAAACAAA 59.021 30.769 0.00 0.00 0.00 2.83
1502 1513 6.505272 ACGAATAAAAACCGATGGAAAACAA 58.495 32.000 0.00 0.00 0.00 2.83
1503 1514 6.074544 ACGAATAAAAACCGATGGAAAACA 57.925 33.333 0.00 0.00 0.00 2.83
1504 1515 6.996562 AACGAATAAAAACCGATGGAAAAC 57.003 33.333 0.00 0.00 0.00 2.43
1505 1516 9.130312 CATAAACGAATAAAAACCGATGGAAAA 57.870 29.630 0.00 0.00 0.00 2.29
1506 1517 8.298140 ACATAAACGAATAAAAACCGATGGAAA 58.702 29.630 0.00 0.00 0.00 3.13
1507 1518 7.818642 ACATAAACGAATAAAAACCGATGGAA 58.181 30.769 0.00 0.00 0.00 3.53
1508 1519 7.380431 ACATAAACGAATAAAAACCGATGGA 57.620 32.000 0.00 0.00 0.00 3.41
1509 1520 8.455598 AAACATAAACGAATAAAAACCGATGG 57.544 30.769 0.00 0.00 0.00 3.51
1510 1521 8.580431 GGAAACATAAACGAATAAAAACCGATG 58.420 33.333 0.00 0.00 0.00 3.84
1511 1522 8.298140 TGGAAACATAAACGAATAAAAACCGAT 58.702 29.630 0.00 0.00 33.40 4.18
1512 1523 7.646314 TGGAAACATAAACGAATAAAAACCGA 58.354 30.769 0.00 0.00 33.40 4.69
1513 1524 7.854934 TGGAAACATAAACGAATAAAAACCG 57.145 32.000 0.00 0.00 33.40 4.44
1531 1542 7.503521 AGAAAAAGAGAGTGAAGATGGAAAC 57.496 36.000 0.00 0.00 0.00 2.78
1532 1543 8.525290 AAAGAAAAAGAGAGTGAAGATGGAAA 57.475 30.769 0.00 0.00 0.00 3.13
1533 1544 8.408601 CAAAAGAAAAAGAGAGTGAAGATGGAA 58.591 33.333 0.00 0.00 0.00 3.53
1534 1545 7.557719 ACAAAAGAAAAAGAGAGTGAAGATGGA 59.442 33.333 0.00 0.00 0.00 3.41
1535 1546 7.710896 ACAAAAGAAAAAGAGAGTGAAGATGG 58.289 34.615 0.00 0.00 0.00 3.51
1536 1547 9.578439 AAACAAAAGAAAAAGAGAGTGAAGATG 57.422 29.630 0.00 0.00 0.00 2.90
1538 1549 9.626045 GAAAACAAAAGAAAAAGAGAGTGAAGA 57.374 29.630 0.00 0.00 0.00 2.87
1539 1550 9.631452 AGAAAACAAAAGAAAAAGAGAGTGAAG 57.369 29.630 0.00 0.00 0.00 3.02
1540 1551 9.981114 AAGAAAACAAAAGAAAAAGAGAGTGAA 57.019 25.926 0.00 0.00 0.00 3.18
1541 1552 9.981114 AAAGAAAACAAAAGAAAAAGAGAGTGA 57.019 25.926 0.00 0.00 0.00 3.41
1543 1554 9.208022 CCAAAGAAAACAAAAGAAAAAGAGAGT 57.792 29.630 0.00 0.00 0.00 3.24
1544 1555 9.208022 ACCAAAGAAAACAAAAGAAAAAGAGAG 57.792 29.630 0.00 0.00 0.00 3.20
1545 1556 9.554395 AACCAAAGAAAACAAAAGAAAAAGAGA 57.446 25.926 0.00 0.00 0.00 3.10
1551 1562 7.716768 ACGAAACCAAAGAAAACAAAAGAAA 57.283 28.000 0.00 0.00 0.00 2.52
1554 1565 8.279800 AGAAAACGAAACCAAAGAAAACAAAAG 58.720 29.630 0.00 0.00 0.00 2.27
1558 1569 7.716768 AAAGAAAACGAAACCAAAGAAAACA 57.283 28.000 0.00 0.00 0.00 2.83
1565 1576 7.716768 AGAAACAAAAGAAAACGAAACCAAA 57.283 28.000 0.00 0.00 0.00 3.28
1566 1577 7.716768 AAGAAACAAAAGAAAACGAAACCAA 57.283 28.000 0.00 0.00 0.00 3.67
1597 1610 9.450807 ACGAACATTGAAAATAAAACAGAGAAG 57.549 29.630 0.00 0.00 0.00 2.85
1602 1615 7.159437 TGCACGAACATTGAAAATAAAACAG 57.841 32.000 0.00 0.00 0.00 3.16
1603 1616 7.706281 ATGCACGAACATTGAAAATAAAACA 57.294 28.000 0.00 0.00 0.00 2.83
1604 1617 8.881231 CAAATGCACGAACATTGAAAATAAAAC 58.119 29.630 8.11 0.00 40.12 2.43
1607 1620 7.651304 AGACAAATGCACGAACATTGAAAATAA 59.349 29.630 8.11 0.00 40.12 1.40
1609 1622 5.984926 AGACAAATGCACGAACATTGAAAAT 59.015 32.000 8.11 0.00 40.12 1.82
1616 1629 3.988379 AACAGACAAATGCACGAACAT 57.012 38.095 0.00 0.00 0.00 2.71
1618 1631 2.788786 CCAAACAGACAAATGCACGAAC 59.211 45.455 0.00 0.00 0.00 3.95
1621 1634 2.490328 ACCAAACAGACAAATGCACG 57.510 45.000 0.00 0.00 0.00 5.34
1622 1635 4.629200 TCAAAACCAAACAGACAAATGCAC 59.371 37.500 0.00 0.00 0.00 4.57
1655 1691 9.481340 GAGAAACAAAATAAGCCAAAGAAAGAT 57.519 29.630 0.00 0.00 0.00 2.40
1661 1697 7.710475 TCAAAGGAGAAACAAAATAAGCCAAAG 59.290 33.333 0.00 0.00 0.00 2.77
1663 1699 7.118496 TCAAAGGAGAAACAAAATAAGCCAA 57.882 32.000 0.00 0.00 0.00 4.52
1667 1703 9.987272 AGGAAATCAAAGGAGAAACAAAATAAG 57.013 29.630 0.00 0.00 0.00 1.73
1711 1747 9.562408 TGTTGACCTATACAAAAATGTAGAACA 57.438 29.630 0.00 0.00 0.00 3.18
1730 1767 8.784043 ACTCTGTATAGAAAAATGTTGTTGACC 58.216 33.333 0.00 0.00 31.21 4.02
2072 2212 9.584839 GCATCTGAAAAATGTAAAATGTGTTTC 57.415 29.630 0.00 0.00 0.00 2.78
2121 2262 7.973388 TCAAACATTTGAAAAGAATGTCGAGTT 59.027 29.630 4.56 0.00 44.55 3.01
2122 2263 7.479980 TCAAACATTTGAAAAGAATGTCGAGT 58.520 30.769 4.56 0.00 44.55 4.18
2123 2264 7.912949 TCAAACATTTGAAAAGAATGTCGAG 57.087 32.000 4.56 0.00 44.55 4.04


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

AutoCloner maintained by Alex Coulton.