Multiple sequence alignment - TraesCS3B01G584400

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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 TraesCS3B01G584400 chr3B 100.000 2276 0 0 1 2276 811417276 811415001 0.000000e+00 4204.0
1 TraesCS3B01G584400 chr3B 100.000 617 0 0 1660 2276 811219845 811220461 0.000000e+00 1140.0
2 TraesCS3B01G584400 chr3B 100.000 30 0 0 1615 1644 811219764 811219793 3.160000e-04 56.5
3 TraesCS3B01G584400 chr3A 93.415 1306 81 2 1 1301 193916859 193915554 0.000000e+00 1930.0
4 TraesCS3B01G584400 chr3A 93.180 1305 82 4 1 1300 194072250 194070948 0.000000e+00 1910.0
5 TraesCS3B01G584400 chr3A 84.639 1315 186 11 1 1301 606270454 606269142 0.000000e+00 1295.0
6 TraesCS3B01G584400 chr3A 79.630 648 42 21 1676 2276 734122271 734122875 1.280000e-102 383.0
7 TraesCS3B01G584400 chr7B 93.185 1306 83 5 1 1301 686802815 686804119 0.000000e+00 1914.0
8 TraesCS3B01G584400 chr4A 92.802 1306 88 4 1 1301 48931083 48932387 0.000000e+00 1886.0
9 TraesCS3B01G584400 chr1B 92.802 1306 87 5 1 1300 343998114 343999418 0.000000e+00 1884.0
10 TraesCS3B01G584400 chr1B 84.398 1205 187 1 32 1235 28311051 28312255 0.000000e+00 1182.0
11 TraesCS3B01G584400 chr5B 92.266 1306 96 3 1 1301 402575372 402576677 0.000000e+00 1847.0
12 TraesCS3B01G584400 chr2B 92.184 1305 97 3 1 1300 382727888 382729192 0.000000e+00 1840.0
13 TraesCS3B01G584400 chrUn 100.000 617 0 0 1660 2276 42139429 42138813 0.000000e+00 1140.0
14 TraesCS3B01G584400 chrUn 100.000 617 0 0 1660 2276 314464120 314463504 0.000000e+00 1140.0
15 TraesCS3B01G584400 chrUn 100.000 507 0 0 1660 2166 395189036 395188530 0.000000e+00 937.0
16 TraesCS3B01G584400 chrUn 100.000 30 0 0 1615 1644 42139510 42139481 3.160000e-04 56.5
17 TraesCS3B01G584400 chrUn 100.000 30 0 0 1615 1644 395189117 395189088 3.160000e-04 56.5
18 TraesCS3B01G584400 chr3D 83.806 599 48 27 1694 2257 604387487 604388071 7.200000e-145 523.0
19 TraesCS3B01G584400 chr3D 97.143 35 1 0 1610 1644 604387339 604387373 2.440000e-05 60.2


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 TraesCS3B01G584400 chr3B 811415001 811417276 2275 True 4204.00 4204 100.0000 1 2276 1 chr3B.!!$R1 2275
1 TraesCS3B01G584400 chr3B 811219764 811220461 697 False 598.25 1140 100.0000 1615 2276 2 chr3B.!!$F1 661
2 TraesCS3B01G584400 chr3A 193915554 193916859 1305 True 1930.00 1930 93.4150 1 1301 1 chr3A.!!$R1 1300
3 TraesCS3B01G584400 chr3A 194070948 194072250 1302 True 1910.00 1910 93.1800 1 1300 1 chr3A.!!$R2 1299
4 TraesCS3B01G584400 chr3A 606269142 606270454 1312 True 1295.00 1295 84.6390 1 1301 1 chr3A.!!$R3 1300
5 TraesCS3B01G584400 chr3A 734122271 734122875 604 False 383.00 383 79.6300 1676 2276 1 chr3A.!!$F1 600
6 TraesCS3B01G584400 chr7B 686802815 686804119 1304 False 1914.00 1914 93.1850 1 1301 1 chr7B.!!$F1 1300
7 TraesCS3B01G584400 chr4A 48931083 48932387 1304 False 1886.00 1886 92.8020 1 1301 1 chr4A.!!$F1 1300
8 TraesCS3B01G584400 chr1B 343998114 343999418 1304 False 1884.00 1884 92.8020 1 1300 1 chr1B.!!$F2 1299
9 TraesCS3B01G584400 chr1B 28311051 28312255 1204 False 1182.00 1182 84.3980 32 1235 1 chr1B.!!$F1 1203
10 TraesCS3B01G584400 chr5B 402575372 402576677 1305 False 1847.00 1847 92.2660 1 1301 1 chr5B.!!$F1 1300
11 TraesCS3B01G584400 chr2B 382727888 382729192 1304 False 1840.00 1840 92.1840 1 1300 1 chr2B.!!$F1 1299
12 TraesCS3B01G584400 chrUn 314463504 314464120 616 True 1140.00 1140 100.0000 1660 2276 1 chrUn.!!$R1 616
13 TraesCS3B01G584400 chrUn 42138813 42139510 697 True 598.25 1140 100.0000 1615 2276 2 chrUn.!!$R2 661
14 TraesCS3B01G584400 chrUn 395188530 395189117 587 True 496.75 937 100.0000 1615 2166 2 chrUn.!!$R3 551
15 TraesCS3B01G584400 chr3D 604387339 604388071 732 False 291.60 523 90.4745 1610 2257 2 chr3D.!!$F1 647

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
571 577 1.017701 GCTACACCCTTGTACGTGGC 61.018 60.0 0.0 0.0 37.15 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1418 1433 0.310543 GATGACCGCAACAGCAACAA 59.689 50.0 0.0 0.0 0.0 2.83 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
30 31 3.639094 AGGGAGATTATCACTTCGACCTG 59.361 47.826 0.00 0.00 39.23 4.00
230 235 4.563993 CGGGTTCCTACACTGTAAAATCCA 60.564 45.833 11.32 0.00 0.00 3.41
287 292 2.035321 GCTCTAGAGGAAGGGACGATTG 59.965 54.545 21.23 0.00 0.00 2.67
571 577 1.017701 GCTACACCCTTGTACGTGGC 61.018 60.000 0.00 0.00 37.15 5.01
675 682 3.309682 CCCGTAACAGCATAACACATGAG 59.690 47.826 0.00 0.00 0.00 2.90
872 879 7.190501 AGTGGAGTAGGAGGTTTAACTAGATT 58.809 38.462 0.00 0.00 0.00 2.40
932 940 3.243569 CCCGATGTCACAGATCCTCTTAC 60.244 52.174 0.00 0.00 0.00 2.34
933 941 3.243569 CCGATGTCACAGATCCTCTTACC 60.244 52.174 0.00 0.00 0.00 2.85
939 947 2.028130 ACAGATCCTCTTACCGCAGAG 58.972 52.381 0.00 0.00 40.23 3.35
978 986 3.172339 TGGGGTGATATTTGCAAAGCTT 58.828 40.909 18.19 3.42 0.00 3.74
1047 1055 2.102357 CTATGGCACTCGCGACGT 59.898 61.111 3.71 4.87 39.92 4.34
1091 1099 5.227184 CGCCGTTACTTTTAGAAATTGATGC 59.773 40.000 0.00 0.00 0.00 3.91
1112 1120 4.141801 TGCGCTAGCCTTATCCTTTCTTTA 60.142 41.667 9.73 0.00 44.33 1.85
1183 1197 0.101939 TGCGAAACATGCAAGCACAA 59.898 45.000 0.00 0.00 39.87 3.33
1265 1279 2.780149 GATCGTGTTGGTGCCGTTGC 62.780 60.000 0.00 0.00 38.26 4.17
1317 1332 3.855689 AAAATTGATCGCAGTTGAGGG 57.144 42.857 0.00 0.00 0.00 4.30
1318 1333 1.098050 AATTGATCGCAGTTGAGGGC 58.902 50.000 0.00 0.00 0.00 5.19
1319 1334 0.254178 ATTGATCGCAGTTGAGGGCT 59.746 50.000 0.00 0.00 0.00 5.19
1320 1335 0.036732 TTGATCGCAGTTGAGGGCTT 59.963 50.000 0.00 0.00 0.00 4.35
1321 1336 0.391661 TGATCGCAGTTGAGGGCTTC 60.392 55.000 0.00 0.00 0.00 3.86
1322 1337 0.391661 GATCGCAGTTGAGGGCTTCA 60.392 55.000 0.00 0.00 0.00 3.02
1323 1338 0.392193 ATCGCAGTTGAGGGCTTCAG 60.392 55.000 0.00 0.00 37.07 3.02
1324 1339 2.037136 CGCAGTTGAGGGCTTCAGG 61.037 63.158 0.00 0.00 37.07 3.86
1325 1340 2.338785 GCAGTTGAGGGCTTCAGGC 61.339 63.158 0.00 2.03 37.07 4.85
1326 1341 2.037136 CAGTTGAGGGCTTCAGGCG 61.037 63.158 0.00 0.00 42.94 5.52
1327 1342 2.747855 GTTGAGGGCTTCAGGCGG 60.748 66.667 0.00 0.00 42.94 6.13
1328 1343 4.722700 TTGAGGGCTTCAGGCGGC 62.723 66.667 0.00 0.00 42.94 6.53
1334 1349 3.512516 GCTTCAGGCGGCCACATC 61.513 66.667 23.09 2.10 0.00 3.06
1335 1350 3.197790 CTTCAGGCGGCCACATCG 61.198 66.667 23.09 3.94 0.00 3.84
1336 1351 4.776322 TTCAGGCGGCCACATCGG 62.776 66.667 23.09 3.23 38.11 4.18
1359 1374 3.747976 GGTGGTGATGGGCGCAAC 61.748 66.667 10.83 5.68 0.00 4.17
1360 1375 2.672996 GTGGTGATGGGCGCAACT 60.673 61.111 10.83 0.00 0.00 3.16
1361 1376 2.672651 TGGTGATGGGCGCAACTG 60.673 61.111 10.83 0.00 0.00 3.16
1362 1377 4.120331 GGTGATGGGCGCAACTGC 62.120 66.667 10.83 2.71 37.78 4.40
1363 1378 3.058160 GTGATGGGCGCAACTGCT 61.058 61.111 10.83 0.00 39.32 4.24
1364 1379 2.747460 TGATGGGCGCAACTGCTC 60.747 61.111 10.83 0.35 39.32 4.26
1365 1380 3.869272 GATGGGCGCAACTGCTCG 61.869 66.667 10.83 0.00 38.54 5.03
1369 1384 4.752879 GGCGCAACTGCTCGGGTA 62.753 66.667 10.83 0.00 39.32 3.69
1370 1385 2.740826 GCGCAACTGCTCGGGTAA 60.741 61.111 0.30 0.00 39.32 2.85
1371 1386 2.322081 GCGCAACTGCTCGGGTAAA 61.322 57.895 0.30 0.00 39.32 2.01
1372 1387 1.847890 GCGCAACTGCTCGGGTAAAA 61.848 55.000 0.30 0.00 39.32 1.52
1373 1388 0.110373 CGCAACTGCTCGGGTAAAAC 60.110 55.000 0.00 0.00 39.32 2.43
1374 1389 0.948678 GCAACTGCTCGGGTAAAACA 59.051 50.000 0.00 0.00 38.21 2.83
1375 1390 1.069227 GCAACTGCTCGGGTAAAACAG 60.069 52.381 0.00 0.00 38.21 3.16
1376 1391 2.218603 CAACTGCTCGGGTAAAACAGT 58.781 47.619 0.00 0.00 43.14 3.55
1377 1392 2.165319 ACTGCTCGGGTAAAACAGTC 57.835 50.000 0.00 0.00 36.95 3.51
1378 1393 1.692519 ACTGCTCGGGTAAAACAGTCT 59.307 47.619 0.00 0.00 36.95 3.24
1379 1394 2.104281 ACTGCTCGGGTAAAACAGTCTT 59.896 45.455 0.00 0.00 36.95 3.01
1380 1395 2.480419 CTGCTCGGGTAAAACAGTCTTG 59.520 50.000 0.00 0.00 0.00 3.02
1381 1396 1.804748 GCTCGGGTAAAACAGTCTTGG 59.195 52.381 0.00 0.00 0.00 3.61
1382 1397 1.804748 CTCGGGTAAAACAGTCTTGGC 59.195 52.381 0.00 0.00 0.00 4.52
1383 1398 0.879090 CGGGTAAAACAGTCTTGGCC 59.121 55.000 0.00 0.00 0.00 5.36
1384 1399 0.879090 GGGTAAAACAGTCTTGGCCG 59.121 55.000 0.00 0.00 0.00 6.13
1385 1400 0.240145 GGTAAAACAGTCTTGGCCGC 59.760 55.000 0.00 0.00 0.00 6.53
1386 1401 0.948678 GTAAAACAGTCTTGGCCGCA 59.051 50.000 0.00 0.00 0.00 5.69
1387 1402 0.948678 TAAAACAGTCTTGGCCGCAC 59.051 50.000 0.00 0.00 0.00 5.34
1388 1403 1.734388 AAAACAGTCTTGGCCGCACC 61.734 55.000 0.00 0.00 39.84 5.01
1389 1404 2.624674 AAACAGTCTTGGCCGCACCT 62.625 55.000 0.00 0.00 40.22 4.00
1390 1405 3.052082 CAGTCTTGGCCGCACCTG 61.052 66.667 0.00 0.00 40.22 4.00
1391 1406 4.335647 AGTCTTGGCCGCACCTGG 62.336 66.667 0.00 0.00 40.22 4.45
1409 1424 4.386413 CACTGGGAGTGTGAAGGC 57.614 61.111 0.00 0.00 41.19 4.35
1410 1425 1.302832 CACTGGGAGTGTGAAGGCC 60.303 63.158 0.00 0.00 41.19 5.19
1411 1426 2.046892 CTGGGAGTGTGAAGGCCG 60.047 66.667 0.00 0.00 0.00 6.13
1412 1427 4.329545 TGGGAGTGTGAAGGCCGC 62.330 66.667 0.00 0.00 0.00 6.53
1428 1443 4.629115 GCGGCGCTTGTTGCTGTT 62.629 61.111 26.86 0.00 40.87 3.16
1429 1444 2.726912 CGGCGCTTGTTGCTGTTG 60.727 61.111 7.64 0.00 40.11 3.33
1430 1445 3.032033 GGCGCTTGTTGCTGTTGC 61.032 61.111 7.64 0.00 40.11 4.17
1432 1447 2.726912 CGCTTGTTGCTGTTGCGG 60.727 61.111 0.00 0.00 42.46 5.69
1433 1448 2.412937 GCTTGTTGCTGTTGCGGT 59.587 55.556 0.00 0.00 43.34 5.68
1434 1449 1.658409 GCTTGTTGCTGTTGCGGTC 60.658 57.895 0.00 0.00 43.34 4.79
1435 1450 1.726865 CTTGTTGCTGTTGCGGTCA 59.273 52.632 0.00 0.00 43.34 4.02
1436 1451 0.311790 CTTGTTGCTGTTGCGGTCAT 59.688 50.000 0.00 0.00 43.34 3.06
1437 1452 0.310543 TTGTTGCTGTTGCGGTCATC 59.689 50.000 0.00 0.00 43.34 2.92
1438 1453 0.817229 TGTTGCTGTTGCGGTCATCA 60.817 50.000 0.00 0.00 43.34 3.07
1439 1454 0.385974 GTTGCTGTTGCGGTCATCAC 60.386 55.000 0.00 0.00 43.34 3.06
1440 1455 1.514678 TTGCTGTTGCGGTCATCACC 61.515 55.000 0.00 0.00 43.34 4.02
1441 1456 2.690778 GCTGTTGCGGTCATCACCC 61.691 63.158 0.00 0.00 40.01 4.61
1442 1457 1.003355 CTGTTGCGGTCATCACCCT 60.003 57.895 0.00 0.00 40.01 4.34
1443 1458 1.300971 CTGTTGCGGTCATCACCCTG 61.301 60.000 0.00 0.00 40.01 4.45
1444 1459 2.359850 TTGCGGTCATCACCCTGC 60.360 61.111 0.00 0.00 40.01 4.85
1445 1460 2.894257 TTGCGGTCATCACCCTGCT 61.894 57.895 0.00 0.00 40.01 4.24
1446 1461 2.512515 GCGGTCATCACCCTGCTC 60.513 66.667 0.00 0.00 40.01 4.26
1447 1462 2.202797 CGGTCATCACCCTGCTCG 60.203 66.667 0.00 0.00 40.01 5.03
1448 1463 2.187946 GGTCATCACCCTGCTCGG 59.812 66.667 0.00 0.00 36.54 4.63
1449 1464 2.512515 GTCATCACCCTGCTCGGC 60.513 66.667 0.00 0.00 0.00 5.54
1450 1465 3.002583 TCATCACCCTGCTCGGCA 61.003 61.111 0.00 0.00 36.92 5.69
1503 1518 4.436998 CGGCTGGTCCTCCGTGAC 62.437 72.222 13.02 0.00 40.72 3.67
1504 1519 4.436998 GGCTGGTCCTCCGTGACG 62.437 72.222 0.00 0.00 36.07 4.35
1530 1545 4.849329 GTCGGCGCGATCGGACTT 62.849 66.667 18.30 0.00 38.42 3.01
1531 1546 4.547905 TCGGCGCGATCGGACTTC 62.548 66.667 18.30 0.00 35.95 3.01
1579 1594 3.536394 CGCTAGCGTCGCAGTGTG 61.536 66.667 28.66 11.21 34.35 3.82
1580 1595 2.126463 GCTAGCGTCGCAGTGTGA 60.126 61.111 21.09 1.22 0.00 3.58
1581 1596 1.733041 GCTAGCGTCGCAGTGTGAA 60.733 57.895 21.09 0.00 0.00 3.18
1582 1597 1.078759 GCTAGCGTCGCAGTGTGAAT 61.079 55.000 21.09 0.31 0.00 2.57
1583 1598 0.642291 CTAGCGTCGCAGTGTGAATG 59.358 55.000 21.09 5.41 0.00 2.67
1584 1599 0.735978 TAGCGTCGCAGTGTGAATGG 60.736 55.000 21.09 2.25 0.00 3.16
1585 1600 2.317609 GCGTCGCAGTGTGAATGGT 61.318 57.895 13.44 0.00 0.00 3.55
1586 1601 1.781555 CGTCGCAGTGTGAATGGTC 59.218 57.895 8.21 0.00 0.00 4.02
1587 1602 1.626654 CGTCGCAGTGTGAATGGTCC 61.627 60.000 8.21 0.00 0.00 4.46
1588 1603 1.374125 TCGCAGTGTGAATGGTCCG 60.374 57.895 3.29 0.00 0.00 4.79
1589 1604 2.390599 CGCAGTGTGAATGGTCCGG 61.391 63.158 0.00 0.00 0.00 5.14
1590 1605 2.040544 GCAGTGTGAATGGTCCGGG 61.041 63.158 0.00 0.00 0.00 5.73
1591 1606 1.374947 CAGTGTGAATGGTCCGGGT 59.625 57.895 0.00 0.00 0.00 5.28
1592 1607 0.611200 CAGTGTGAATGGTCCGGGTA 59.389 55.000 0.00 0.00 0.00 3.69
1593 1608 0.902531 AGTGTGAATGGTCCGGGTAG 59.097 55.000 0.00 0.00 0.00 3.18
1594 1609 0.743345 GTGTGAATGGTCCGGGTAGC 60.743 60.000 0.00 0.00 0.00 3.58
1595 1610 1.520787 GTGAATGGTCCGGGTAGCG 60.521 63.158 0.00 0.00 0.00 4.26
1596 1611 2.108362 GAATGGTCCGGGTAGCGG 59.892 66.667 0.00 0.00 0.00 5.52
1597 1612 3.456105 GAATGGTCCGGGTAGCGGG 62.456 68.421 12.06 12.06 0.00 6.13
1598 1613 3.988050 AATGGTCCGGGTAGCGGGA 62.988 63.158 16.48 16.48 0.00 5.14
1644 1659 1.228245 GAGGGGCTTTGCTGTGACA 60.228 57.895 0.00 0.00 0.00 3.58
1645 1660 0.610232 GAGGGGCTTTGCTGTGACAT 60.610 55.000 0.00 0.00 0.00 3.06
1648 1663 0.955428 GGGCTTTGCTGTGACATCGA 60.955 55.000 0.00 0.00 0.00 3.59
1649 1664 0.445436 GGCTTTGCTGTGACATCGAG 59.555 55.000 0.00 0.00 0.00 4.04
1650 1665 0.445436 GCTTTGCTGTGACATCGAGG 59.555 55.000 0.00 0.00 0.00 4.63
1651 1666 1.081892 CTTTGCTGTGACATCGAGGG 58.918 55.000 0.69 0.00 0.00 4.30
1652 1667 0.955428 TTTGCTGTGACATCGAGGGC 60.955 55.000 0.69 0.00 0.00 5.19
1653 1668 2.110757 TTGCTGTGACATCGAGGGCA 62.111 55.000 0.00 0.00 0.00 5.36
1654 1669 1.812922 GCTGTGACATCGAGGGCAG 60.813 63.158 5.51 9.92 0.00 4.85
1656 1671 0.247460 CTGTGACATCGAGGGCAGAA 59.753 55.000 5.51 0.00 0.00 3.02
1658 1673 1.078759 GTGACATCGAGGGCAGAACG 61.079 60.000 5.51 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.385111 GTCGAAGTGATAATCTCCCTGGT 59.615 47.826 0.00 0.00 0.00 4.00
119 124 2.123018 TCAGCATCTGGGGGTATGAT 57.877 50.000 0.00 0.00 31.51 2.45
196 201 0.978146 AGGAACCCGACCTCTCATGG 60.978 60.000 0.00 0.00 31.43 3.66
230 235 4.276183 ACGAGTCATTAGAGCACGATACAT 59.724 41.667 0.00 0.00 0.00 2.29
675 682 2.036089 GACCGGGTCCATATTCACTCTC 59.964 54.545 16.55 0.00 0.00 3.20
702 709 7.426410 CCAGAGTTTCTCTTATACGCTTCATA 58.574 38.462 0.00 0.00 38.99 2.15
816 823 4.039124 TCAGTCACTGAAACACTAGCATCA 59.961 41.667 4.55 0.00 37.57 3.07
872 879 4.099881 AGGCAGCAACAAATGAAGAAAGAA 59.900 37.500 0.00 0.00 0.00 2.52
1047 1055 3.449322 GCTACAATCGAGCGTGAAAAA 57.551 42.857 0.00 0.00 0.00 1.94
1059 1067 3.734776 AAAAGTAACGGCGCTACAATC 57.265 42.857 21.00 0.00 0.00 2.67
1091 1099 7.497925 AAATAAAGAAAGGATAAGGCTAGCG 57.502 36.000 9.00 0.00 0.00 4.26
1119 1131 7.761409 TGGCACTTCTTATTACATGTTGAATC 58.239 34.615 2.30 0.00 0.00 2.52
1183 1197 0.321830 CAACGGTCGGTAACCCCAAT 60.322 55.000 0.00 0.00 46.27 3.16
1265 1279 9.450807 CGGGAAATTATGAGCTTTATTTAACAG 57.549 33.333 0.00 0.00 0.00 3.16
1301 1316 0.036732 AAGCCCTCAACTGCGATCAA 59.963 50.000 0.00 0.00 0.00 2.57
1302 1317 0.391661 GAAGCCCTCAACTGCGATCA 60.392 55.000 0.00 0.00 0.00 2.92
1303 1318 0.391661 TGAAGCCCTCAACTGCGATC 60.392 55.000 0.00 0.00 0.00 3.69
1304 1319 0.392193 CTGAAGCCCTCAACTGCGAT 60.392 55.000 0.00 0.00 32.17 4.58
1305 1320 1.004560 CTGAAGCCCTCAACTGCGA 60.005 57.895 0.00 0.00 32.17 5.10
1306 1321 2.037136 CCTGAAGCCCTCAACTGCG 61.037 63.158 0.00 0.00 32.17 5.18
1307 1322 2.338785 GCCTGAAGCCCTCAACTGC 61.339 63.158 0.00 0.00 32.17 4.40
1308 1323 2.037136 CGCCTGAAGCCCTCAACTG 61.037 63.158 0.00 0.00 38.78 3.16
1309 1324 2.348998 CGCCTGAAGCCCTCAACT 59.651 61.111 0.00 0.00 38.78 3.16
1310 1325 2.747855 CCGCCTGAAGCCCTCAAC 60.748 66.667 0.00 0.00 38.78 3.18
1311 1326 4.722700 GCCGCCTGAAGCCCTCAA 62.723 66.667 0.00 0.00 38.78 3.02
1317 1332 3.512516 GATGTGGCCGCCTGAAGC 61.513 66.667 15.15 0.00 38.52 3.86
1318 1333 3.197790 CGATGTGGCCGCCTGAAG 61.198 66.667 15.15 0.00 0.00 3.02
1319 1334 4.776322 CCGATGTGGCCGCCTGAA 62.776 66.667 15.15 0.00 0.00 3.02
1342 1357 3.747976 GTTGCGCCCATCACCACC 61.748 66.667 4.18 0.00 0.00 4.61
1343 1358 2.672996 AGTTGCGCCCATCACCAC 60.673 61.111 4.18 0.00 0.00 4.16
1344 1359 2.672651 CAGTTGCGCCCATCACCA 60.673 61.111 4.18 0.00 0.00 4.17
1345 1360 4.120331 GCAGTTGCGCCCATCACC 62.120 66.667 4.18 0.00 0.00 4.02
1355 1370 0.948678 TGTTTTACCCGAGCAGTTGC 59.051 50.000 0.00 0.00 42.49 4.17
1356 1371 2.218603 ACTGTTTTACCCGAGCAGTTG 58.781 47.619 0.00 0.00 37.12 3.16
1357 1372 2.104281 AGACTGTTTTACCCGAGCAGTT 59.896 45.455 0.00 0.00 40.06 3.16
1358 1373 1.692519 AGACTGTTTTACCCGAGCAGT 59.307 47.619 0.00 0.00 42.29 4.40
1359 1374 2.457366 AGACTGTTTTACCCGAGCAG 57.543 50.000 0.00 0.00 0.00 4.24
1360 1375 2.489971 CAAGACTGTTTTACCCGAGCA 58.510 47.619 0.00 0.00 0.00 4.26
1361 1376 1.804748 CCAAGACTGTTTTACCCGAGC 59.195 52.381 0.00 0.00 0.00 5.03
1362 1377 1.804748 GCCAAGACTGTTTTACCCGAG 59.195 52.381 0.00 0.00 0.00 4.63
1363 1378 1.543871 GGCCAAGACTGTTTTACCCGA 60.544 52.381 0.00 0.00 0.00 5.14
1364 1379 0.879090 GGCCAAGACTGTTTTACCCG 59.121 55.000 0.00 0.00 0.00 5.28
1365 1380 0.879090 CGGCCAAGACTGTTTTACCC 59.121 55.000 2.24 0.00 0.00 3.69
1366 1381 0.240145 GCGGCCAAGACTGTTTTACC 59.760 55.000 2.24 0.00 0.00 2.85
1367 1382 0.948678 TGCGGCCAAGACTGTTTTAC 59.051 50.000 2.24 0.00 0.00 2.01
1368 1383 0.948678 GTGCGGCCAAGACTGTTTTA 59.051 50.000 2.24 0.00 0.00 1.52
1369 1384 1.733526 GTGCGGCCAAGACTGTTTT 59.266 52.632 2.24 0.00 0.00 2.43
1370 1385 2.193536 GGTGCGGCCAAGACTGTTT 61.194 57.895 2.24 0.00 37.17 2.83
1371 1386 2.594592 GGTGCGGCCAAGACTGTT 60.595 61.111 2.24 0.00 37.17 3.16
1372 1387 3.560251 AGGTGCGGCCAAGACTGT 61.560 61.111 2.24 0.00 40.61 3.55
1373 1388 3.052082 CAGGTGCGGCCAAGACTG 61.052 66.667 2.24 1.36 40.61 3.51
1374 1389 4.335647 CCAGGTGCGGCCAAGACT 62.336 66.667 2.24 0.00 40.61 3.24
1384 1399 3.958860 ACTCCCAGTGCCAGGTGC 61.959 66.667 0.00 0.00 41.77 5.01
1385 1400 2.033141 CACTCCCAGTGCCAGGTG 59.967 66.667 0.00 0.00 39.62 4.00
1393 1408 2.883828 CGGCCTTCACACTCCCAGT 61.884 63.158 0.00 0.00 0.00 4.00
1394 1409 2.046892 CGGCCTTCACACTCCCAG 60.047 66.667 0.00 0.00 0.00 4.45
1395 1410 4.329545 GCGGCCTTCACACTCCCA 62.330 66.667 0.00 0.00 0.00 4.37
1416 1431 1.658409 GACCGCAACAGCAACAAGC 60.658 57.895 0.00 0.00 46.19 4.01
1417 1432 0.311790 ATGACCGCAACAGCAACAAG 59.688 50.000 0.00 0.00 0.00 3.16
1418 1433 0.310543 GATGACCGCAACAGCAACAA 59.689 50.000 0.00 0.00 0.00 2.83
1419 1434 0.817229 TGATGACCGCAACAGCAACA 60.817 50.000 0.00 0.00 30.79 3.33
1420 1435 0.385974 GTGATGACCGCAACAGCAAC 60.386 55.000 0.00 0.00 35.50 4.17
1421 1436 1.514678 GGTGATGACCGCAACAGCAA 61.515 55.000 0.00 0.00 42.62 3.91
1422 1437 1.965930 GGTGATGACCGCAACAGCA 60.966 57.895 0.00 0.00 42.62 4.41
1423 1438 2.690778 GGGTGATGACCGCAACAGC 61.691 63.158 0.00 0.00 44.23 4.40
1424 1439 1.003355 AGGGTGATGACCGCAACAG 60.003 57.895 0.00 0.00 44.23 3.16
1425 1440 1.302431 CAGGGTGATGACCGCAACA 60.302 57.895 0.00 0.00 44.23 3.33
1426 1441 2.690778 GCAGGGTGATGACCGCAAC 61.691 63.158 0.00 0.00 44.23 4.17
1427 1442 2.359850 GCAGGGTGATGACCGCAA 60.360 61.111 0.00 0.00 44.23 4.85
1428 1443 3.315142 GAGCAGGGTGATGACCGCA 62.315 63.158 4.24 0.00 44.23 5.69
1429 1444 2.512515 GAGCAGGGTGATGACCGC 60.513 66.667 0.00 0.00 44.23 5.68
1430 1445 2.202797 CGAGCAGGGTGATGACCG 60.203 66.667 0.00 0.00 44.23 4.79
1431 1446 2.187946 CCGAGCAGGGTGATGACC 59.812 66.667 0.00 0.00 42.27 4.02
1432 1447 2.512515 GCCGAGCAGGGTGATGAC 60.513 66.667 0.34 0.00 41.48 3.06
1433 1448 3.002583 TGCCGAGCAGGGTGATGA 61.003 61.111 0.34 0.00 41.48 2.92
1449 1464 4.742201 CTCCCGTCGGGTGCACTG 62.742 72.222 29.31 10.04 44.74 3.66
1454 1469 2.511600 GAATGCTCCCGTCGGGTG 60.512 66.667 29.31 27.02 44.74 4.61
1455 1470 3.782443 GGAATGCTCCCGTCGGGT 61.782 66.667 29.31 10.39 44.74 5.28
1456 1471 4.891727 CGGAATGCTCCCGTCGGG 62.892 72.222 25.31 25.31 46.11 5.14
1464 1479 4.166011 GTGCACCGCGGAATGCTC 62.166 66.667 32.57 27.27 42.55 4.26
1487 1502 4.436998 CGTCACGGAGGACCAGCC 62.437 72.222 0.00 0.00 34.24 4.85
1513 1528 4.849329 AAGTCCGATCGCGCCGAC 62.849 66.667 19.39 11.69 39.18 4.79
1514 1529 4.547905 GAAGTCCGATCGCGCCGA 62.548 66.667 19.39 2.55 41.13 5.54
1562 1577 3.536394 CACACTGCGACGCTAGCG 61.536 66.667 34.27 34.27 46.03 4.26
1563 1578 1.078759 ATTCACACTGCGACGCTAGC 61.079 55.000 22.08 4.06 0.00 3.42
1564 1579 0.642291 CATTCACACTGCGACGCTAG 59.358 55.000 22.08 17.86 0.00 3.42
1565 1580 0.735978 CCATTCACACTGCGACGCTA 60.736 55.000 22.08 6.60 0.00 4.26
1566 1581 2.029288 CCATTCACACTGCGACGCT 61.029 57.895 22.08 0.00 0.00 5.07
1567 1582 2.227968 GACCATTCACACTGCGACGC 62.228 60.000 14.19 14.19 0.00 5.19
1568 1583 1.626654 GGACCATTCACACTGCGACG 61.627 60.000 0.00 0.00 0.00 5.12
1569 1584 1.626654 CGGACCATTCACACTGCGAC 61.627 60.000 0.00 0.00 0.00 5.19
1570 1585 1.374125 CGGACCATTCACACTGCGA 60.374 57.895 0.00 0.00 0.00 5.10
1571 1586 2.390599 CCGGACCATTCACACTGCG 61.391 63.158 0.00 0.00 0.00 5.18
1572 1587 2.040544 CCCGGACCATTCACACTGC 61.041 63.158 0.73 0.00 0.00 4.40
1573 1588 0.611200 TACCCGGACCATTCACACTG 59.389 55.000 0.73 0.00 0.00 3.66
1574 1589 0.902531 CTACCCGGACCATTCACACT 59.097 55.000 0.73 0.00 0.00 3.55
1575 1590 0.743345 GCTACCCGGACCATTCACAC 60.743 60.000 0.73 0.00 0.00 3.82
1576 1591 1.600107 GCTACCCGGACCATTCACA 59.400 57.895 0.73 0.00 0.00 3.58
1577 1592 1.520787 CGCTACCCGGACCATTCAC 60.521 63.158 0.73 0.00 0.00 3.18
1578 1593 2.897207 CGCTACCCGGACCATTCA 59.103 61.111 0.73 0.00 0.00 2.57
1591 1606 2.812591 CGTTCTATCTTAGCTCCCGCTA 59.187 50.000 0.00 0.00 46.79 4.26
1593 1608 1.607628 TCGTTCTATCTTAGCTCCCGC 59.392 52.381 0.00 0.00 0.00 6.13
1594 1609 2.226912 CCTCGTTCTATCTTAGCTCCCG 59.773 54.545 0.00 0.00 0.00 5.14
1595 1610 2.559231 CCCTCGTTCTATCTTAGCTCCC 59.441 54.545 0.00 0.00 0.00 4.30
1596 1611 2.029739 GCCCTCGTTCTATCTTAGCTCC 60.030 54.545 0.00 0.00 0.00 4.70
1597 1612 2.623889 TGCCCTCGTTCTATCTTAGCTC 59.376 50.000 0.00 0.00 0.00 4.09
1598 1613 2.625790 CTGCCCTCGTTCTATCTTAGCT 59.374 50.000 0.00 0.00 0.00 3.32
1599 1614 2.623889 TCTGCCCTCGTTCTATCTTAGC 59.376 50.000 0.00 0.00 0.00 3.09
1600 1615 4.580995 TCTTCTGCCCTCGTTCTATCTTAG 59.419 45.833 0.00 0.00 0.00 2.18
1601 1616 4.533815 TCTTCTGCCCTCGTTCTATCTTA 58.466 43.478 0.00 0.00 0.00 2.10
1602 1617 3.366396 TCTTCTGCCCTCGTTCTATCTT 58.634 45.455 0.00 0.00 0.00 2.40
1603 1618 3.019799 TCTTCTGCCCTCGTTCTATCT 57.980 47.619 0.00 0.00 0.00 1.98
1604 1619 4.762765 TCTATCTTCTGCCCTCGTTCTATC 59.237 45.833 0.00 0.00 0.00 2.08
1605 1620 4.730966 TCTATCTTCTGCCCTCGTTCTAT 58.269 43.478 0.00 0.00 0.00 1.98
1606 1621 4.138290 CTCTATCTTCTGCCCTCGTTCTA 58.862 47.826 0.00 0.00 0.00 2.10
1607 1622 2.955660 CTCTATCTTCTGCCCTCGTTCT 59.044 50.000 0.00 0.00 0.00 3.01
1608 1623 2.035321 CCTCTATCTTCTGCCCTCGTTC 59.965 54.545 0.00 0.00 0.00 3.95
1609 1624 2.035632 CCTCTATCTTCTGCCCTCGTT 58.964 52.381 0.00 0.00 0.00 3.85
1610 1625 1.698506 CCTCTATCTTCTGCCCTCGT 58.301 55.000 0.00 0.00 0.00 4.18
1611 1626 0.965439 CCCTCTATCTTCTGCCCTCG 59.035 60.000 0.00 0.00 0.00 4.63
1644 1659 2.427245 CCCTCGTTCTGCCCTCGAT 61.427 63.158 0.00 0.00 33.26 3.59
1645 1660 3.068691 CCCTCGTTCTGCCCTCGA 61.069 66.667 0.00 0.00 0.00 4.04
1652 1667 4.003788 ACGTGGGCCCTCGTTCTG 62.004 66.667 39.06 18.35 42.31 3.02
1653 1668 4.003788 CACGTGGGCCCTCGTTCT 62.004 66.667 41.31 23.27 42.93 3.01


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

AutoCloner maintained by Alex Coulton.