Multiple sequence alignment - TraesCS3A01G253100

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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 TraesCS3A01G253100 chr3A 100.000 2713 0 0 1 2713 474437112 474434400 0.000000e+00 5011
1 TraesCS3A01G253100 chr3A 97.674 129 3 0 1308 1436 365363076 365363204 3.520000e-54 222
2 TraesCS3A01G253100 chr3D 98.478 1314 19 1 1 1313 355632107 355630794 0.000000e+00 2314
3 TraesCS3A01G253100 chr3D 97.665 1285 25 4 1434 2713 355630799 355629515 0.000000e+00 2202
4 TraesCS3A01G253100 chr3D 96.850 127 4 0 1309 1435 123898963 123898837 2.120000e-51 213
5 TraesCS3A01G253100 chr3D 96.850 127 4 0 1309 1435 339862161 339862287 2.120000e-51 213
6 TraesCS3A01G253100 chr3D 94.776 134 7 0 1302 1435 5563964 5563831 2.740000e-50 209
7 TraesCS3A01G253100 chr3B 95.016 1284 43 7 1434 2713 456554178 456552912 0.000000e+00 1997
8 TraesCS3A01G253100 chr3B 92.945 1304 69 12 1 1285 456555747 456554448 0.000000e+00 1877
9 TraesCS3A01G253100 chr7D 96.947 131 4 0 1309 1439 403812163 403812033 1.260000e-53 220
10 TraesCS3A01G253100 chr7D 96.212 132 5 0 1307 1438 168423241 168423372 1.640000e-52 217
11 TraesCS3A01G253100 chr5D 95.556 135 6 0 1301 1435 403066255 403066121 1.640000e-52 217
12 TraesCS3A01G253100 chr5D 96.850 127 4 0 1309 1435 395734311 395734437 2.120000e-51 213
13 TraesCS3A01G253100 chr6D 96.875 128 4 0 1308 1435 62116262 62116135 5.880000e-52 215


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 TraesCS3A01G253100 chr3A 474434400 474437112 2712 True 5011 5011 100.0000 1 2713 1 chr3A.!!$R1 2712
1 TraesCS3A01G253100 chr3D 355629515 355632107 2592 True 2258 2314 98.0715 1 2713 2 chr3D.!!$R3 2712
2 TraesCS3A01G253100 chr3B 456552912 456555747 2835 True 1937 1997 93.9805 1 2713 2 chr3B.!!$R1 2712

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
218 219 3.558674 GTGATCCCCACAAGACAGG 57.441 57.895 0.0 0.0 45.03 4.00 F
1337 1602 3.264706 TCCATTCCAAATTACTCGACCCA 59.735 43.478 0.0 0.0 0.00 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1418 1683 0.252103 AGCTACTCCCTCCGTTCCAA 60.252 55.0 0.00 0.0 0.00 3.53 R
2323 2591 2.602257 TACTGCATGTGCTTAGCGAT 57.398 45.0 6.55 0.0 42.66 4.58 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
218 219 3.558674 GTGATCCCCACAAGACAGG 57.441 57.895 0.00 0.00 45.03 4.00
630 634 4.885907 CAGAGTAAAGCCATCATTCCATGT 59.114 41.667 0.00 0.00 0.00 3.21
645 649 4.672587 TCCATGTATAGCTGACCAAGAC 57.327 45.455 0.00 0.00 0.00 3.01
692 696 7.999545 AGTCTAGTTAGTGCTATCTACCATTCA 59.000 37.037 0.00 0.00 0.00 2.57
928 941 5.574188 ACCCATCATCCATCTATAAAAGGC 58.426 41.667 0.00 0.00 0.00 4.35
1024 1039 3.370527 GCCTAAGCCCACTTTCATACTCA 60.371 47.826 0.00 0.00 37.33 3.41
1176 1195 8.725148 CCATAGTGGTAGAAATTGATAATGCTC 58.275 37.037 0.00 0.00 31.35 4.26
1308 1573 6.531503 TGTGAGTGCTAGCTAATACTTTCT 57.468 37.500 17.23 0.69 0.00 2.52
1309 1574 7.640597 TGTGAGTGCTAGCTAATACTTTCTA 57.359 36.000 17.23 0.00 0.00 2.10
1310 1575 7.481642 TGTGAGTGCTAGCTAATACTTTCTAC 58.518 38.462 17.23 9.17 0.00 2.59
1311 1576 7.339721 TGTGAGTGCTAGCTAATACTTTCTACT 59.660 37.037 17.23 5.95 0.00 2.57
1312 1577 7.858879 GTGAGTGCTAGCTAATACTTTCTACTC 59.141 40.741 17.23 14.98 0.00 2.59
1313 1578 7.013464 TGAGTGCTAGCTAATACTTTCTACTCC 59.987 40.741 17.23 2.10 31.27 3.85
1314 1579 6.265876 AGTGCTAGCTAATACTTTCTACTCCC 59.734 42.308 17.23 0.00 0.00 4.30
1315 1580 6.265876 GTGCTAGCTAATACTTTCTACTCCCT 59.734 42.308 17.23 0.00 0.00 4.20
1316 1581 6.490721 TGCTAGCTAATACTTTCTACTCCCTC 59.509 42.308 17.23 0.00 0.00 4.30
1317 1582 6.071784 GCTAGCTAATACTTTCTACTCCCTCC 60.072 46.154 7.70 0.00 0.00 4.30
1318 1583 5.778542 AGCTAATACTTTCTACTCCCTCCA 58.221 41.667 0.00 0.00 0.00 3.86
1319 1584 6.386284 AGCTAATACTTTCTACTCCCTCCAT 58.614 40.000 0.00 0.00 0.00 3.41
1320 1585 6.847036 AGCTAATACTTTCTACTCCCTCCATT 59.153 38.462 0.00 0.00 0.00 3.16
1321 1586 7.015779 AGCTAATACTTTCTACTCCCTCCATTC 59.984 40.741 0.00 0.00 0.00 2.67
1322 1587 6.502074 AATACTTTCTACTCCCTCCATTCC 57.498 41.667 0.00 0.00 0.00 3.01
1323 1588 3.803340 ACTTTCTACTCCCTCCATTCCA 58.197 45.455 0.00 0.00 0.00 3.53
1324 1589 4.175962 ACTTTCTACTCCCTCCATTCCAA 58.824 43.478 0.00 0.00 0.00 3.53
1325 1590 4.601857 ACTTTCTACTCCCTCCATTCCAAA 59.398 41.667 0.00 0.00 0.00 3.28
1326 1591 5.254032 ACTTTCTACTCCCTCCATTCCAAAT 59.746 40.000 0.00 0.00 0.00 2.32
1327 1592 5.796502 TTCTACTCCCTCCATTCCAAATT 57.203 39.130 0.00 0.00 0.00 1.82
1328 1593 6.901615 TTCTACTCCCTCCATTCCAAATTA 57.098 37.500 0.00 0.00 0.00 1.40
1329 1594 6.248569 TCTACTCCCTCCATTCCAAATTAC 57.751 41.667 0.00 0.00 0.00 1.89
1330 1595 5.970640 TCTACTCCCTCCATTCCAAATTACT 59.029 40.000 0.00 0.00 0.00 2.24
1331 1596 5.117406 ACTCCCTCCATTCCAAATTACTC 57.883 43.478 0.00 0.00 0.00 2.59
1332 1597 4.130118 CTCCCTCCATTCCAAATTACTCG 58.870 47.826 0.00 0.00 0.00 4.18
1333 1598 3.778075 TCCCTCCATTCCAAATTACTCGA 59.222 43.478 0.00 0.00 0.00 4.04
1334 1599 3.877508 CCCTCCATTCCAAATTACTCGAC 59.122 47.826 0.00 0.00 0.00 4.20
1335 1600 3.877508 CCTCCATTCCAAATTACTCGACC 59.122 47.826 0.00 0.00 0.00 4.79
1336 1601 3.877508 CTCCATTCCAAATTACTCGACCC 59.122 47.826 0.00 0.00 0.00 4.46
1337 1602 3.264706 TCCATTCCAAATTACTCGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
1338 1603 4.080015 TCCATTCCAAATTACTCGACCCAT 60.080 41.667 0.00 0.00 0.00 4.00
1339 1604 5.131308 TCCATTCCAAATTACTCGACCCATA 59.869 40.000 0.00 0.00 0.00 2.74
1340 1605 6.003950 CCATTCCAAATTACTCGACCCATAT 58.996 40.000 0.00 0.00 0.00 1.78
1341 1606 6.490040 CCATTCCAAATTACTCGACCCATATT 59.510 38.462 0.00 0.00 0.00 1.28
1342 1607 7.014230 CCATTCCAAATTACTCGACCCATATTT 59.986 37.037 0.00 0.00 0.00 1.40
1343 1608 9.062524 CATTCCAAATTACTCGACCCATATTTA 57.937 33.333 0.00 0.00 0.00 1.40
1344 1609 9.807921 ATTCCAAATTACTCGACCCATATTTAT 57.192 29.630 0.00 0.00 0.00 1.40
1345 1610 8.842358 TCCAAATTACTCGACCCATATTTATC 57.158 34.615 0.00 0.00 0.00 1.75
1346 1611 8.656806 TCCAAATTACTCGACCCATATTTATCT 58.343 33.333 0.00 0.00 0.00 1.98
1347 1612 9.938280 CCAAATTACTCGACCCATATTTATCTA 57.062 33.333 0.00 0.00 0.00 1.98
1351 1616 8.929260 TTACTCGACCCATATTTATCTAGACA 57.071 34.615 0.00 0.00 0.00 3.41
1352 1617 7.216973 ACTCGACCCATATTTATCTAGACAC 57.783 40.000 0.00 0.00 0.00 3.67
1353 1618 6.072618 ACTCGACCCATATTTATCTAGACACG 60.073 42.308 0.00 0.00 0.00 4.49
1354 1619 5.182570 TCGACCCATATTTATCTAGACACGG 59.817 44.000 0.00 0.00 0.00 4.94
1355 1620 5.182570 CGACCCATATTTATCTAGACACGGA 59.817 44.000 0.00 0.00 0.00 4.69
1356 1621 6.127703 CGACCCATATTTATCTAGACACGGAT 60.128 42.308 0.00 0.00 0.00 4.18
1357 1622 6.936279 ACCCATATTTATCTAGACACGGATG 58.064 40.000 0.00 0.00 0.00 3.51
1358 1623 6.497259 ACCCATATTTATCTAGACACGGATGT 59.503 38.462 0.00 0.00 43.71 3.06
1359 1624 7.672660 ACCCATATTTATCTAGACACGGATGTA 59.327 37.037 0.00 0.00 39.95 2.29
1360 1625 8.696374 CCCATATTTATCTAGACACGGATGTAT 58.304 37.037 0.00 0.00 39.95 2.29
1361 1626 9.737427 CCATATTTATCTAGACACGGATGTATC 57.263 37.037 0.00 0.00 39.95 2.24
1365 1630 9.961264 ATTTATCTAGACACGGATGTATCTAGA 57.039 33.333 13.87 13.87 42.25 2.43
1366 1631 8.774890 TTATCTAGACACGGATGTATCTAGAC 57.225 38.462 13.81 0.00 41.50 2.59
1367 1632 6.170846 TCTAGACACGGATGTATCTAGACA 57.829 41.667 8.86 0.00 37.36 3.41
1368 1633 5.990386 TCTAGACACGGATGTATCTAGACAC 59.010 44.000 8.86 0.00 37.36 3.67
1369 1634 4.783055 AGACACGGATGTATCTAGACACT 58.217 43.478 2.29 0.00 39.95 3.55
1370 1635 5.926663 AGACACGGATGTATCTAGACACTA 58.073 41.667 2.29 0.00 39.95 2.74
1371 1636 6.354938 AGACACGGATGTATCTAGACACTAA 58.645 40.000 2.29 0.00 39.95 2.24
1372 1637 6.827251 AGACACGGATGTATCTAGACACTAAA 59.173 38.462 2.29 0.00 39.95 1.85
1373 1638 6.793349 ACACGGATGTATCTAGACACTAAAC 58.207 40.000 2.29 0.00 37.26 2.01
1374 1639 6.376299 ACACGGATGTATCTAGACACTAAACA 59.624 38.462 2.29 0.00 37.26 2.83
1375 1640 7.094075 ACACGGATGTATCTAGACACTAAACAA 60.094 37.037 2.29 0.00 37.26 2.83
1376 1641 7.432545 CACGGATGTATCTAGACACTAAACAAG 59.567 40.741 2.29 0.00 30.52 3.16
1377 1642 7.122353 ACGGATGTATCTAGACACTAAACAAGT 59.878 37.037 2.29 0.00 39.81 3.16
1378 1643 8.618677 CGGATGTATCTAGACACTAAACAAGTA 58.381 37.037 2.29 0.00 35.76 2.24
1390 1655 9.395707 GACACTAAACAAGTATAGATACATCCG 57.604 37.037 2.66 0.00 35.76 4.18
1391 1656 8.910944 ACACTAAACAAGTATAGATACATCCGT 58.089 33.333 2.66 0.00 35.76 4.69
1409 1674 8.561738 ACATCCGTATTTAGACAAATTCAAGT 57.438 30.769 0.00 0.00 35.88 3.16
1410 1675 8.665685 ACATCCGTATTTAGACAAATTCAAGTC 58.334 33.333 0.00 0.00 35.88 3.01
1411 1676 8.664798 CATCCGTATTTAGACAAATTCAAGTCA 58.335 33.333 7.95 0.00 37.23 3.41
1412 1677 8.610248 TCCGTATTTAGACAAATTCAAGTCAA 57.390 30.769 7.95 0.00 37.23 3.18
1413 1678 8.500773 TCCGTATTTAGACAAATTCAAGTCAAC 58.499 33.333 7.95 0.00 37.23 3.18
1414 1679 8.504005 CCGTATTTAGACAAATTCAAGTCAACT 58.496 33.333 7.95 0.00 37.23 3.16
1422 1687 8.912988 AGACAAATTCAAGTCAACTAATTTGGA 58.087 29.630 22.68 1.26 46.31 3.53
1423 1688 9.528018 GACAAATTCAAGTCAACTAATTTGGAA 57.472 29.630 22.68 7.42 46.31 3.53
1424 1689 9.313118 ACAAATTCAAGTCAACTAATTTGGAAC 57.687 29.630 22.68 0.00 46.31 3.62
1425 1690 8.479280 CAAATTCAAGTCAACTAATTTGGAACG 58.521 33.333 16.45 0.00 41.93 3.95
1426 1691 5.682943 TCAAGTCAACTAATTTGGAACGG 57.317 39.130 0.00 0.00 35.69 4.44
1427 1692 5.369833 TCAAGTCAACTAATTTGGAACGGA 58.630 37.500 0.00 0.00 35.69 4.69
1428 1693 5.468746 TCAAGTCAACTAATTTGGAACGGAG 59.531 40.000 0.00 0.00 35.69 4.63
1429 1694 4.324267 AGTCAACTAATTTGGAACGGAGG 58.676 43.478 0.00 0.00 35.69 4.30
1430 1695 3.439129 GTCAACTAATTTGGAACGGAGGG 59.561 47.826 0.00 0.00 35.69 4.30
1431 1696 3.328343 TCAACTAATTTGGAACGGAGGGA 59.672 43.478 0.00 0.00 35.69 4.20
1432 1697 3.629142 ACTAATTTGGAACGGAGGGAG 57.371 47.619 0.00 0.00 0.00 4.30
1494 1759 9.884636 TTTGCTAGATAACTTATGCTTCACTAA 57.115 29.630 0.00 0.00 0.00 2.24
1527 1792 9.035607 CGTATCTACAGTTTATGCTTCAAATCT 57.964 33.333 0.00 0.00 0.00 2.40
1616 1882 4.724399 TCTTTGTGTTCTAAATGCAGGGA 58.276 39.130 0.00 0.00 0.00 4.20
1716 1982 1.414158 CGGGAGGAATGGCTAGAGAA 58.586 55.000 0.00 0.00 0.00 2.87
1895 2161 6.778559 GCGGGATAGATATTACTCTTATCCCT 59.221 42.308 20.00 0.00 39.87 4.20
1909 2177 6.137104 TCTTATCCCTAATAGTCTAGCCGT 57.863 41.667 0.00 0.00 0.00 5.68
2045 2313 3.399440 AGCTGTTCTGTTCTCTTCTGG 57.601 47.619 0.00 0.00 0.00 3.86
2323 2591 6.115446 AGAAAATCCAGCTTCATTCATACGA 58.885 36.000 0.00 0.00 0.00 3.43
2326 2594 3.642705 TCCAGCTTCATTCATACGATCG 58.357 45.455 14.88 14.88 0.00 3.69
2329 2597 4.229876 CAGCTTCATTCATACGATCGCTA 58.770 43.478 16.60 7.44 0.00 4.26
2611 2879 0.319040 ATGCCACTATGACGCTAGCG 60.319 55.000 34.27 34.27 46.03 4.26
2633 2901 7.480810 AGCGAATAACATGGAAATAAGGAAAC 58.519 34.615 0.00 0.00 0.00 2.78
2709 2979 8.905660 TGATTTTATCCCATGGCAATTTTATG 57.094 30.769 6.09 0.00 0.00 1.90
2710 2980 8.492782 TGATTTTATCCCATGGCAATTTTATGT 58.507 29.630 6.09 0.00 0.00 2.29
2711 2981 8.907222 ATTTTATCCCATGGCAATTTTATGTC 57.093 30.769 6.09 0.00 0.00 3.06
2712 2982 7.673641 TTTATCCCATGGCAATTTTATGTCT 57.326 32.000 6.09 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
352 353 0.328258 AAGTGGGGTGAGTGCATACC 59.672 55.000 8.71 8.71 36.21 2.73
630 634 4.270834 AGTCTTCGTCTTGGTCAGCTATA 58.729 43.478 0.00 0.00 0.00 1.31
645 649 6.144080 AGACTTCAAATTGTTCGTAGTCTTCG 59.856 38.462 0.00 0.00 38.06 3.79
692 696 8.559536 CCGTAATGAAATGTCACATATAGCTTT 58.440 33.333 0.00 0.00 36.31 3.51
928 941 2.280183 GCGAGAAACTATTGTCTCTGCG 59.720 50.000 0.00 0.00 38.52 5.18
1024 1039 5.369110 AGAGAGCAATTAGAAGGATGATGGT 59.631 40.000 0.00 0.00 0.00 3.55
1066 1081 4.982295 GGAAGAACAAATAGCAAACACCAC 59.018 41.667 0.00 0.00 0.00 4.16
1176 1195 3.279434 CCTTTATGAACTTCGGGGGAAG 58.721 50.000 2.47 2.47 38.11 3.46
1249 1268 9.748708 ATGGAATGGAAATAACGAAATACAATG 57.251 29.630 0.00 0.00 0.00 2.82
1308 1573 5.163343 CGAGTAATTTGGAATGGAGGGAGTA 60.163 44.000 0.00 0.00 0.00 2.59
1309 1574 4.384208 CGAGTAATTTGGAATGGAGGGAGT 60.384 45.833 0.00 0.00 0.00 3.85
1310 1575 4.130118 CGAGTAATTTGGAATGGAGGGAG 58.870 47.826 0.00 0.00 0.00 4.30
1311 1576 3.778075 TCGAGTAATTTGGAATGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
1312 1577 3.877508 GTCGAGTAATTTGGAATGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1313 1578 3.877508 GGTCGAGTAATTTGGAATGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
1314 1579 3.877508 GGGTCGAGTAATTTGGAATGGAG 59.122 47.826 0.00 0.00 0.00 3.86
1315 1580 3.264706 TGGGTCGAGTAATTTGGAATGGA 59.735 43.478 0.00 0.00 0.00 3.41
1316 1581 3.616219 TGGGTCGAGTAATTTGGAATGG 58.384 45.455 0.00 0.00 0.00 3.16
1317 1582 7.510549 AATATGGGTCGAGTAATTTGGAATG 57.489 36.000 0.00 0.00 0.00 2.67
1318 1583 9.807921 ATAAATATGGGTCGAGTAATTTGGAAT 57.192 29.630 0.00 0.00 0.00 3.01
1319 1584 9.280174 GATAAATATGGGTCGAGTAATTTGGAA 57.720 33.333 0.00 0.00 0.00 3.53
1320 1585 8.656806 AGATAAATATGGGTCGAGTAATTTGGA 58.343 33.333 0.00 0.00 0.00 3.53
1321 1586 8.848474 AGATAAATATGGGTCGAGTAATTTGG 57.152 34.615 0.00 0.00 0.00 3.28
1325 1590 9.529823 TGTCTAGATAAATATGGGTCGAGTAAT 57.470 33.333 0.00 0.00 0.00 1.89
1326 1591 8.790718 GTGTCTAGATAAATATGGGTCGAGTAA 58.209 37.037 0.00 0.00 0.00 2.24
1327 1592 7.118825 CGTGTCTAGATAAATATGGGTCGAGTA 59.881 40.741 0.00 0.00 0.00 2.59
1328 1593 6.072618 CGTGTCTAGATAAATATGGGTCGAGT 60.073 42.308 0.00 0.00 0.00 4.18
1329 1594 6.315551 CGTGTCTAGATAAATATGGGTCGAG 58.684 44.000 0.00 0.00 0.00 4.04
1330 1595 5.182570 CCGTGTCTAGATAAATATGGGTCGA 59.817 44.000 0.00 0.00 0.00 4.20
1331 1596 5.182570 TCCGTGTCTAGATAAATATGGGTCG 59.817 44.000 0.00 0.00 0.00 4.79
1332 1597 6.585695 TCCGTGTCTAGATAAATATGGGTC 57.414 41.667 0.00 0.00 0.00 4.46
1333 1598 6.497259 ACATCCGTGTCTAGATAAATATGGGT 59.503 38.462 0.00 0.00 31.41 4.51
1334 1599 6.936279 ACATCCGTGTCTAGATAAATATGGG 58.064 40.000 0.00 0.00 31.41 4.00
1335 1600 9.737427 GATACATCCGTGTCTAGATAAATATGG 57.263 37.037 0.00 0.00 39.77 2.74
1346 1611 5.926663 AGTGTCTAGATACATCCGTGTCTA 58.073 41.667 20.24 0.00 41.37 2.59
1347 1612 4.783055 AGTGTCTAGATACATCCGTGTCT 58.217 43.478 20.24 0.00 44.80 3.41
1348 1613 6.615264 TTAGTGTCTAGATACATCCGTGTC 57.385 41.667 20.24 0.00 39.77 3.67
1349 1614 6.376299 TGTTTAGTGTCTAGATACATCCGTGT 59.624 38.462 20.24 2.04 42.39 4.49
1350 1615 6.792326 TGTTTAGTGTCTAGATACATCCGTG 58.208 40.000 20.24 0.00 0.00 4.94
1351 1616 7.122353 ACTTGTTTAGTGTCTAGATACATCCGT 59.878 37.037 20.24 3.37 35.19 4.69
1352 1617 7.481642 ACTTGTTTAGTGTCTAGATACATCCG 58.518 38.462 20.24 5.79 35.19 4.18
1364 1629 9.395707 CGGATGTATCTATACTTGTTTAGTGTC 57.604 37.037 2.07 0.00 37.73 3.67
1365 1630 8.910944 ACGGATGTATCTATACTTGTTTAGTGT 58.089 33.333 2.07 0.00 37.73 3.55
1383 1648 9.661563 ACTTGAATTTGTCTAAATACGGATGTA 57.338 29.630 0.00 0.00 35.50 2.29
1384 1649 8.561738 ACTTGAATTTGTCTAAATACGGATGT 57.438 30.769 0.00 0.00 35.50 3.06
1385 1650 8.664798 TGACTTGAATTTGTCTAAATACGGATG 58.335 33.333 8.09 0.00 35.50 3.51
1386 1651 8.786826 TGACTTGAATTTGTCTAAATACGGAT 57.213 30.769 8.09 0.00 35.50 4.18
1387 1652 8.500773 GTTGACTTGAATTTGTCTAAATACGGA 58.499 33.333 8.09 0.00 35.50 4.69
1388 1653 8.504005 AGTTGACTTGAATTTGTCTAAATACGG 58.496 33.333 8.09 0.00 35.50 4.02
1396 1661 8.912988 TCCAAATTAGTTGACTTGAATTTGTCT 58.087 29.630 20.10 0.00 43.18 3.41
1397 1662 9.528018 TTCCAAATTAGTTGACTTGAATTTGTC 57.472 29.630 20.10 0.00 43.18 3.18
1398 1663 9.313118 GTTCCAAATTAGTTGACTTGAATTTGT 57.687 29.630 20.10 0.00 43.18 2.83
1399 1664 8.479280 CGTTCCAAATTAGTTGACTTGAATTTG 58.521 33.333 17.35 17.35 43.82 2.32
1400 1665 7.651704 CCGTTCCAAATTAGTTGACTTGAATTT 59.348 33.333 0.00 0.00 39.87 1.82
1401 1666 7.013846 TCCGTTCCAAATTAGTTGACTTGAATT 59.986 33.333 0.00 0.00 39.87 2.17
1402 1667 6.488683 TCCGTTCCAAATTAGTTGACTTGAAT 59.511 34.615 0.00 0.00 39.87 2.57
1403 1668 5.823570 TCCGTTCCAAATTAGTTGACTTGAA 59.176 36.000 0.00 0.00 39.87 2.69
1404 1669 5.369833 TCCGTTCCAAATTAGTTGACTTGA 58.630 37.500 0.00 0.00 39.87 3.02
1405 1670 5.334879 CCTCCGTTCCAAATTAGTTGACTTG 60.335 44.000 0.00 0.00 39.87 3.16
1406 1671 4.760204 CCTCCGTTCCAAATTAGTTGACTT 59.240 41.667 0.00 0.00 39.87 3.01
1407 1672 4.324267 CCTCCGTTCCAAATTAGTTGACT 58.676 43.478 0.00 0.00 39.87 3.41
1408 1673 3.439129 CCCTCCGTTCCAAATTAGTTGAC 59.561 47.826 0.00 0.00 39.87 3.18
1409 1674 3.328343 TCCCTCCGTTCCAAATTAGTTGA 59.672 43.478 0.00 0.00 39.87 3.18
1410 1675 3.681593 TCCCTCCGTTCCAAATTAGTTG 58.318 45.455 0.00 0.00 36.94 3.16
1411 1676 3.329814 ACTCCCTCCGTTCCAAATTAGTT 59.670 43.478 0.00 0.00 0.00 2.24
1412 1677 2.910977 ACTCCCTCCGTTCCAAATTAGT 59.089 45.455 0.00 0.00 0.00 2.24
1413 1678 3.629142 ACTCCCTCCGTTCCAAATTAG 57.371 47.619 0.00 0.00 0.00 1.73
1414 1679 3.118519 GCTACTCCCTCCGTTCCAAATTA 60.119 47.826 0.00 0.00 0.00 1.40
1415 1680 2.355818 GCTACTCCCTCCGTTCCAAATT 60.356 50.000 0.00 0.00 0.00 1.82
1416 1681 1.209747 GCTACTCCCTCCGTTCCAAAT 59.790 52.381 0.00 0.00 0.00 2.32
1417 1682 0.611714 GCTACTCCCTCCGTTCCAAA 59.388 55.000 0.00 0.00 0.00 3.28
1418 1683 0.252103 AGCTACTCCCTCCGTTCCAA 60.252 55.000 0.00 0.00 0.00 3.53
1419 1684 0.683504 GAGCTACTCCCTCCGTTCCA 60.684 60.000 0.00 0.00 0.00 3.53
1420 1685 0.396001 AGAGCTACTCCCTCCGTTCC 60.396 60.000 0.00 0.00 0.00 3.62
1421 1686 1.476477 AAGAGCTACTCCCTCCGTTC 58.524 55.000 0.00 0.00 0.00 3.95
1422 1687 1.939980 AAAGAGCTACTCCCTCCGTT 58.060 50.000 0.00 0.00 0.00 4.44
1423 1688 2.822707 TAAAGAGCTACTCCCTCCGT 57.177 50.000 0.00 0.00 0.00 4.69
1424 1689 2.959707 ACATAAAGAGCTACTCCCTCCG 59.040 50.000 0.00 0.00 0.00 4.63
1425 1690 5.360649 AAACATAAAGAGCTACTCCCTCC 57.639 43.478 0.00 0.00 0.00 4.30
1426 1691 5.818336 GGAAAACATAAAGAGCTACTCCCTC 59.182 44.000 0.00 0.00 0.00 4.30
1427 1692 5.489278 AGGAAAACATAAAGAGCTACTCCCT 59.511 40.000 0.00 0.00 0.00 4.20
1428 1693 5.746284 AGGAAAACATAAAGAGCTACTCCC 58.254 41.667 0.00 0.00 0.00 4.30
1429 1694 6.645306 AGAGGAAAACATAAAGAGCTACTCC 58.355 40.000 0.00 0.00 0.00 3.85
1430 1695 9.089601 GTTAGAGGAAAACATAAAGAGCTACTC 57.910 37.037 0.00 0.00 0.00 2.59
1431 1696 8.594550 TGTTAGAGGAAAACATAAAGAGCTACT 58.405 33.333 0.00 0.00 32.07 2.57
1432 1697 8.773404 TGTTAGAGGAAAACATAAAGAGCTAC 57.227 34.615 0.00 0.00 32.07 3.58
1494 1759 8.773404 AGCATAAACTGTAGATACGTTTCTTT 57.227 30.769 13.83 4.73 35.85 2.52
1527 1792 7.013750 TGTTATTCTGTTTGTCTGGCATTTGTA 59.986 33.333 0.00 0.00 0.00 2.41
1616 1882 2.369860 TGTGAGAATCTTCCTGCTGTGT 59.630 45.455 0.00 0.00 34.92 3.72
1716 1982 4.831710 GGGATATGTACGAAGGGTCTTAGT 59.168 45.833 0.00 0.00 0.00 2.24
1895 2161 4.034858 CGACTTCACACGGCTAGACTATTA 59.965 45.833 0.00 0.00 0.00 0.98
1980 2248 3.302161 ACTGCACCAAATGGCATCATAT 58.698 40.909 0.00 0.00 39.65 1.78
2045 2313 7.226720 TGGTTCTAGTCAGAATTGAGAACAAAC 59.773 37.037 13.12 0.92 42.66 2.93
2323 2591 2.602257 TACTGCATGTGCTTAGCGAT 57.398 45.000 6.55 0.00 42.66 4.58
2326 2594 3.733337 ACCTATACTGCATGTGCTTAGC 58.267 45.455 6.55 0.00 42.66 3.09
2329 2597 5.982890 AAAAACCTATACTGCATGTGCTT 57.017 34.783 6.55 0.00 42.66 3.91
2633 2901 8.523523 TGACATGCTTTAGAAATTTCACATTG 57.476 30.769 19.99 9.97 0.00 2.82


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

AutoCloner maintained by Alex Coulton.