Multiple sequence alignment - TraesCS1D01G234900

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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 TraesCS1D01G234900 chr1D 100.000 2303 0 0 1 2303 323946983 323944681 0.000000e+00 4253.0
1 TraesCS1D01G234900 chr1D 97.074 1333 33 3 1 1327 453098594 453099926 0.000000e+00 2241.0
2 TraesCS1D01G234900 chr5D 91.849 1325 92 6 1 1323 53920150 53921460 0.000000e+00 1834.0
3 TraesCS1D01G234900 chr1A 98.422 824 13 0 1480 2303 423922926 423922103 0.000000e+00 1450.0
4 TraesCS1D01G234900 chr1A 97.778 45 0 1 1427 1470 423923050 423923006 2.450000e-10 76.8
5 TraesCS1D01G234900 chr1B 97.307 817 22 0 1487 2303 436299497 436298681 0.000000e+00 1387.0
6 TraesCS1D01G234900 chr1B 86.777 121 5 4 1382 1501 436299625 436299515 8.640000e-25 124.0
7 TraesCS1D01G234900 chr5A 92.356 641 47 2 624 1263 523565003 523564364 0.000000e+00 911.0
8 TraesCS1D01G234900 chr7A 96.094 256 9 1 1069 1323 602017426 602017681 1.270000e-112 416.0
9 TraesCS1D01G234900 chr3B 95.918 245 10 0 4 248 473233102 473232858 4.610000e-107 398.0
10 TraesCS1D01G234900 chr6B 86.250 240 14 6 1089 1327 82753632 82753853 2.290000e-60 243.0
11 TraesCS1D01G234900 chr2D 87.850 107 9 4 758 864 75007525 75007627 3.110000e-24 122.0
12 TraesCS1D01G234900 chr4D 95.918 49 2 0 1 49 459652832 459652784 1.900000e-11 80.5


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 TraesCS1D01G234900 chr1D 323944681 323946983 2302 True 4253.0 4253 100.000 1 2303 1 chr1D.!!$R1 2302
1 TraesCS1D01G234900 chr1D 453098594 453099926 1332 False 2241.0 2241 97.074 1 1327 1 chr1D.!!$F1 1326
2 TraesCS1D01G234900 chr5D 53920150 53921460 1310 False 1834.0 1834 91.849 1 1323 1 chr5D.!!$F1 1322
3 TraesCS1D01G234900 chr1A 423922103 423923050 947 True 763.4 1450 98.100 1427 2303 2 chr1A.!!$R1 876
4 TraesCS1D01G234900 chr1B 436298681 436299625 944 True 755.5 1387 92.042 1382 2303 2 chr1B.!!$R1 921
5 TraesCS1D01G234900 chr5A 523564364 523565003 639 True 911.0 911 92.356 624 1263 1 chr5A.!!$R1 639

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
404 410 1.065126 GCTGGCCACAAATAGTCTCCT 60.065 52.381 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1897 2007 0.107263 TCACAAGTGCCTTGACAGCA 60.107 50.0 18.22 0.0 43.42 4.41 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
279 285 1.417145 GCAGCCAGAGAATCATCCTCT 59.583 52.381 0.00 0.00 41.35 3.69
404 410 1.065126 GCTGGCCACAAATAGTCTCCT 60.065 52.381 0.00 0.00 0.00 3.69
405 411 2.170607 GCTGGCCACAAATAGTCTCCTA 59.829 50.000 0.00 0.00 0.00 2.94
467 473 4.270008 ACTAGATGCCCCATGTGTTTTAC 58.730 43.478 0.00 0.00 0.00 2.01
539 545 8.734386 CAAGGCATTATGGAGAATATCTTTACC 58.266 37.037 0.00 0.00 0.00 2.85
633 639 3.845860 ACTGGAGGAGTGTCTGAAAGTA 58.154 45.455 0.00 0.00 31.75 2.24
1028 1034 5.007921 GCTGCCAAAAAGTGATGTTTGAAAT 59.992 36.000 0.00 0.00 36.96 2.17
1036 1042 7.516198 AAAGTGATGTTTGAAATAGACTGCT 57.484 32.000 0.00 0.00 0.00 4.24
1051 1057 1.755959 ACTGCTTGGTGTTGATGCAAA 59.244 42.857 0.00 0.00 33.07 3.68
1113 1119 8.708742 GGCACATTGTTTAAAGAGGTTAAATTC 58.291 33.333 0.00 0.00 42.29 2.17
1173 1179 6.616947 ACATTGTAAACGGGAATGTAATGTG 58.383 36.000 0.00 0.00 38.29 3.21
1218 1224 1.202348 GGTGTTTGTATGGAAGCTGGC 59.798 52.381 0.00 0.00 0.00 4.85
1265 1271 5.643379 TTTCCCAAGTTTGTATCAGATGC 57.357 39.130 0.00 0.00 0.00 3.91
1323 1329 2.852449 TGGAATGCGTTGTGTTCCTTA 58.148 42.857 0.00 0.00 41.52 2.69
1327 1333 5.221342 TGGAATGCGTTGTGTTCCTTAAAAT 60.221 36.000 0.00 0.00 41.52 1.82
1328 1334 5.118510 GGAATGCGTTGTGTTCCTTAAAATG 59.881 40.000 0.00 0.00 38.65 2.32
1329 1335 3.971150 TGCGTTGTGTTCCTTAAAATGG 58.029 40.909 0.00 0.00 0.00 3.16
1330 1336 3.632604 TGCGTTGTGTTCCTTAAAATGGA 59.367 39.130 0.00 0.00 0.00 3.41
1331 1337 4.098044 TGCGTTGTGTTCCTTAAAATGGAA 59.902 37.500 0.00 0.00 40.85 3.53
1332 1338 5.044558 GCGTTGTGTTCCTTAAAATGGAAA 58.955 37.500 0.00 0.00 44.14 3.13
1333 1339 5.520649 GCGTTGTGTTCCTTAAAATGGAAAA 59.479 36.000 0.00 0.00 44.14 2.29
1334 1340 6.292114 GCGTTGTGTTCCTTAAAATGGAAAAG 60.292 38.462 0.00 0.00 44.14 2.27
1335 1341 6.975772 CGTTGTGTTCCTTAAAATGGAAAAGA 59.024 34.615 0.00 0.00 44.14 2.52
1336 1342 7.489757 CGTTGTGTTCCTTAAAATGGAAAAGAA 59.510 33.333 0.00 0.00 44.14 2.52
1337 1343 9.157104 GTTGTGTTCCTTAAAATGGAAAAGAAA 57.843 29.630 0.00 0.00 44.14 2.52
1338 1344 9.726438 TTGTGTTCCTTAAAATGGAAAAGAAAA 57.274 25.926 0.00 0.00 44.14 2.29
1339 1345 9.726438 TGTGTTCCTTAAAATGGAAAAGAAAAA 57.274 25.926 0.00 0.00 44.14 1.94
1341 1347 9.389755 TGTTCCTTAAAATGGAAAAGAAAAAGG 57.610 29.630 0.00 0.00 44.14 3.11
1342 1348 8.836413 GTTCCTTAAAATGGAAAAGAAAAAGGG 58.164 33.333 0.00 0.00 44.14 3.95
1343 1349 8.325477 TCCTTAAAATGGAAAAGAAAAAGGGA 57.675 30.769 0.00 0.00 33.38 4.20
1344 1350 8.944138 TCCTTAAAATGGAAAAGAAAAAGGGAT 58.056 29.630 0.00 0.00 33.38 3.85
1345 1351 9.573166 CCTTAAAATGGAAAAGAAAAAGGGATT 57.427 29.630 0.00 0.00 0.00 3.01
1347 1353 6.882610 AAATGGAAAAGAAAAAGGGATTGC 57.117 33.333 0.00 0.00 0.00 3.56
1348 1354 5.830799 ATGGAAAAGAAAAAGGGATTGCT 57.169 34.783 0.00 0.00 0.00 3.91
1349 1355 5.628797 TGGAAAAGAAAAAGGGATTGCTT 57.371 34.783 0.00 0.00 0.00 3.91
1350 1356 6.739331 TGGAAAAGAAAAAGGGATTGCTTA 57.261 33.333 0.00 0.00 0.00 3.09
1351 1357 6.521162 TGGAAAAGAAAAAGGGATTGCTTAC 58.479 36.000 0.00 0.00 0.00 2.34
1352 1358 6.326323 TGGAAAAGAAAAAGGGATTGCTTACT 59.674 34.615 0.00 0.00 0.00 2.24
1353 1359 6.868864 GGAAAAGAAAAAGGGATTGCTTACTC 59.131 38.462 0.00 0.00 0.00 2.59
1354 1360 7.255977 GGAAAAGAAAAAGGGATTGCTTACTCT 60.256 37.037 0.00 0.00 0.00 3.24
1355 1361 6.825944 AAGAAAAAGGGATTGCTTACTCTC 57.174 37.500 0.00 0.00 0.00 3.20
1356 1362 4.938226 AGAAAAAGGGATTGCTTACTCTCG 59.062 41.667 0.00 0.00 0.00 4.04
1357 1363 2.990066 AAGGGATTGCTTACTCTCGG 57.010 50.000 0.00 0.00 0.00 4.63
1358 1364 2.160721 AGGGATTGCTTACTCTCGGA 57.839 50.000 0.00 0.00 0.00 4.55
1359 1365 1.757699 AGGGATTGCTTACTCTCGGAC 59.242 52.381 0.00 0.00 0.00 4.79
1360 1366 1.480954 GGGATTGCTTACTCTCGGACA 59.519 52.381 0.00 0.00 0.00 4.02
1361 1367 2.541556 GGATTGCTTACTCTCGGACAC 58.458 52.381 0.00 0.00 0.00 3.67
1362 1368 2.186076 GATTGCTTACTCTCGGACACG 58.814 52.381 0.00 0.00 42.74 4.49
1363 1369 0.956633 TTGCTTACTCTCGGACACGT 59.043 50.000 0.00 0.00 41.85 4.49
1364 1370 0.520404 TGCTTACTCTCGGACACGTC 59.480 55.000 0.00 0.00 41.85 4.34
1365 1371 0.803740 GCTTACTCTCGGACACGTCT 59.196 55.000 0.00 0.00 41.85 4.18
1366 1372 1.199558 GCTTACTCTCGGACACGTCTT 59.800 52.381 0.00 0.00 41.85 3.01
1367 1373 2.728535 GCTTACTCTCGGACACGTCTTC 60.729 54.545 0.00 0.00 41.85 2.87
1368 1374 2.174363 TACTCTCGGACACGTCTTCA 57.826 50.000 0.00 0.00 41.85 3.02
1369 1375 0.592148 ACTCTCGGACACGTCTTCAC 59.408 55.000 0.00 0.00 41.85 3.18
1370 1376 0.875728 CTCTCGGACACGTCTTCACT 59.124 55.000 0.00 0.00 41.85 3.41
1371 1377 1.267261 CTCTCGGACACGTCTTCACTT 59.733 52.381 0.00 0.00 41.85 3.16
1372 1378 2.483106 CTCTCGGACACGTCTTCACTTA 59.517 50.000 0.00 0.00 41.85 2.24
1373 1379 3.079578 TCTCGGACACGTCTTCACTTAT 58.920 45.455 0.00 0.00 41.85 1.73
1374 1380 3.119955 TCTCGGACACGTCTTCACTTATG 60.120 47.826 0.00 0.00 41.85 1.90
1375 1381 1.654105 CGGACACGTCTTCACTTATGC 59.346 52.381 0.00 0.00 34.81 3.14
1376 1382 2.671351 CGGACACGTCTTCACTTATGCT 60.671 50.000 0.00 0.00 34.81 3.79
1377 1383 3.326747 GGACACGTCTTCACTTATGCTT 58.673 45.455 0.00 0.00 0.00 3.91
1378 1384 4.491676 GGACACGTCTTCACTTATGCTTA 58.508 43.478 0.00 0.00 0.00 3.09
1379 1385 4.927425 GGACACGTCTTCACTTATGCTTAA 59.073 41.667 0.00 0.00 0.00 1.85
1380 1386 5.581085 GGACACGTCTTCACTTATGCTTAAT 59.419 40.000 0.00 0.00 0.00 1.40
1381 1387 6.237861 GGACACGTCTTCACTTATGCTTAATC 60.238 42.308 0.00 0.00 0.00 1.75
1382 1388 6.163476 ACACGTCTTCACTTATGCTTAATCA 58.837 36.000 0.00 0.00 0.00 2.57
1383 1389 6.649141 ACACGTCTTCACTTATGCTTAATCAA 59.351 34.615 0.00 0.00 0.00 2.57
1384 1390 7.148573 ACACGTCTTCACTTATGCTTAATCAAG 60.149 37.037 0.00 0.00 34.66 3.02
1385 1391 6.874134 ACGTCTTCACTTATGCTTAATCAAGT 59.126 34.615 0.00 0.00 34.00 3.16
1386 1392 7.148573 ACGTCTTCACTTATGCTTAATCAAGTG 60.149 37.037 6.92 6.92 45.89 3.16
1405 1412 5.520748 AGTGAGGGTTCCATTCAAGTAAT 57.479 39.130 0.00 0.00 0.00 1.89
1406 1413 6.636454 AGTGAGGGTTCCATTCAAGTAATA 57.364 37.500 0.00 0.00 0.00 0.98
1407 1414 7.027874 AGTGAGGGTTCCATTCAAGTAATAA 57.972 36.000 0.00 0.00 0.00 1.40
1415 1422 9.705290 GGTTCCATTCAAGTAATAAAACAACAT 57.295 29.630 0.00 0.00 0.00 2.71
1469 1476 1.404391 GATCAATCAGCTGGCACCAAG 59.596 52.381 15.13 0.00 0.00 3.61
1470 1477 0.111061 TCAATCAGCTGGCACCAAGT 59.889 50.000 15.13 0.00 0.00 3.16
1748 1858 2.932234 AAGAGTGTCGTCGGCTGGG 61.932 63.158 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
279 285 6.888105 TGCATTAGAAGATGATGTTAGTCCA 58.112 36.000 0.00 0.00 0.00 4.02
404 410 4.300803 TCTTTTAAGCTTCGTTCGCACTA 58.699 39.130 0.00 0.00 0.00 2.74
405 411 3.128349 TCTTTTAAGCTTCGTTCGCACT 58.872 40.909 0.00 0.00 0.00 4.40
467 473 4.362470 TGCCCTCCATCTTCATCTAATG 57.638 45.455 0.00 0.00 0.00 1.90
539 545 7.148623 GGAGAAGTTTTAGTCTAACATGTTCCG 60.149 40.741 15.85 7.89 0.00 4.30
599 605 8.762481 ACACTCCTCCAGTTTTAGTTTAAAAT 57.238 30.769 0.00 0.00 39.56 1.82
633 639 5.363580 CCACCATAACCATAAAAGAAGGCAT 59.636 40.000 0.00 0.00 0.00 4.40
1028 1034 2.224499 TGCATCAACACCAAGCAGTCTA 60.224 45.455 0.00 0.00 0.00 2.59
1051 1057 7.341805 AGGTCATATTCATCACTAAGCAAAGT 58.658 34.615 0.00 0.00 0.00 2.66
1113 1119 2.505819 ACTTAAGCCCACATGTAGGAGG 59.494 50.000 15.10 3.59 0.00 4.30
1173 1179 1.639298 CTGCTAAAGTGTGAGCCGCC 61.639 60.000 0.00 0.00 37.94 6.13
1218 1224 4.102035 GCCTAGCCAATTTTCAGAACAG 57.898 45.455 0.00 0.00 0.00 3.16
1265 1271 1.341209 TGGACATATCGCCAGCTACAG 59.659 52.381 0.00 0.00 0.00 2.74
1323 1329 7.062322 AGCAATCCCTTTTTCTTTTCCATTTT 58.938 30.769 0.00 0.00 0.00 1.82
1327 1333 5.628797 AAGCAATCCCTTTTTCTTTTCCA 57.371 34.783 0.00 0.00 0.00 3.53
1328 1334 6.759272 AGTAAGCAATCCCTTTTTCTTTTCC 58.241 36.000 0.00 0.00 0.00 3.13
1329 1335 7.661968 AGAGTAAGCAATCCCTTTTTCTTTTC 58.338 34.615 0.00 0.00 0.00 2.29
1330 1336 7.522236 CGAGAGTAAGCAATCCCTTTTTCTTTT 60.522 37.037 0.00 0.00 0.00 2.27
1331 1337 6.072452 CGAGAGTAAGCAATCCCTTTTTCTTT 60.072 38.462 0.00 0.00 0.00 2.52
1332 1338 5.412904 CGAGAGTAAGCAATCCCTTTTTCTT 59.587 40.000 0.00 0.00 0.00 2.52
1333 1339 4.938226 CGAGAGTAAGCAATCCCTTTTTCT 59.062 41.667 0.00 0.00 0.00 2.52
1334 1340 4.095036 CCGAGAGTAAGCAATCCCTTTTTC 59.905 45.833 0.00 0.00 0.00 2.29
1335 1341 4.010349 CCGAGAGTAAGCAATCCCTTTTT 58.990 43.478 0.00 0.00 0.00 1.94
1336 1342 3.263425 TCCGAGAGTAAGCAATCCCTTTT 59.737 43.478 0.00 0.00 0.00 2.27
1337 1343 2.838202 TCCGAGAGTAAGCAATCCCTTT 59.162 45.455 0.00 0.00 0.00 3.11
1338 1344 2.168728 GTCCGAGAGTAAGCAATCCCTT 59.831 50.000 0.00 0.00 0.00 3.95
1339 1345 1.757699 GTCCGAGAGTAAGCAATCCCT 59.242 52.381 0.00 0.00 0.00 4.20
1340 1346 1.480954 TGTCCGAGAGTAAGCAATCCC 59.519 52.381 0.00 0.00 0.00 3.85
1341 1347 2.541556 GTGTCCGAGAGTAAGCAATCC 58.458 52.381 0.00 0.00 0.00 3.01
1342 1348 2.186076 CGTGTCCGAGAGTAAGCAATC 58.814 52.381 0.00 0.00 35.63 2.67
1343 1349 1.544691 ACGTGTCCGAGAGTAAGCAAT 59.455 47.619 0.00 0.00 37.88 3.56
1344 1350 0.956633 ACGTGTCCGAGAGTAAGCAA 59.043 50.000 0.00 0.00 37.88 3.91
1345 1351 0.520404 GACGTGTCCGAGAGTAAGCA 59.480 55.000 0.00 0.00 37.88 3.91
1346 1352 0.803740 AGACGTGTCCGAGAGTAAGC 59.196 55.000 0.00 0.00 37.88 3.09
1347 1353 2.483106 TGAAGACGTGTCCGAGAGTAAG 59.517 50.000 0.00 0.00 37.88 2.34
1348 1354 2.225019 GTGAAGACGTGTCCGAGAGTAA 59.775 50.000 0.00 0.00 37.88 2.24
1349 1355 1.802960 GTGAAGACGTGTCCGAGAGTA 59.197 52.381 0.00 0.00 37.88 2.59
1350 1356 0.592148 GTGAAGACGTGTCCGAGAGT 59.408 55.000 0.00 0.00 37.88 3.24
1351 1357 0.875728 AGTGAAGACGTGTCCGAGAG 59.124 55.000 0.00 0.00 37.88 3.20
1352 1358 1.315690 AAGTGAAGACGTGTCCGAGA 58.684 50.000 0.00 0.00 37.88 4.04
1353 1359 2.983402 TAAGTGAAGACGTGTCCGAG 57.017 50.000 0.00 0.00 37.88 4.63
1354 1360 2.670229 GCATAAGTGAAGACGTGTCCGA 60.670 50.000 0.00 0.00 37.88 4.55
1355 1361 1.654105 GCATAAGTGAAGACGTGTCCG 59.346 52.381 0.00 0.00 40.83 4.79
1356 1362 2.960819 AGCATAAGTGAAGACGTGTCC 58.039 47.619 0.00 0.00 0.00 4.02
1357 1363 6.310467 TGATTAAGCATAAGTGAAGACGTGTC 59.690 38.462 0.00 0.00 0.00 3.67
1358 1364 6.163476 TGATTAAGCATAAGTGAAGACGTGT 58.837 36.000 0.00 0.00 0.00 4.49
1359 1365 6.647212 TGATTAAGCATAAGTGAAGACGTG 57.353 37.500 0.00 0.00 0.00 4.49
1360 1366 6.874134 ACTTGATTAAGCATAAGTGAAGACGT 59.126 34.615 0.00 0.00 37.43 4.34
1361 1367 7.295952 ACTTGATTAAGCATAAGTGAAGACG 57.704 36.000 0.00 0.00 37.43 4.18
1367 1373 5.882557 ACCCTCACTTGATTAAGCATAAGTG 59.117 40.000 16.06 16.06 46.94 3.16
1368 1374 6.067217 ACCCTCACTTGATTAAGCATAAGT 57.933 37.500 0.00 0.00 37.43 2.24
1369 1375 6.038714 GGAACCCTCACTTGATTAAGCATAAG 59.961 42.308 0.00 0.00 37.43 1.73
1370 1376 5.885912 GGAACCCTCACTTGATTAAGCATAA 59.114 40.000 0.00 0.00 37.43 1.90
1371 1377 5.045213 TGGAACCCTCACTTGATTAAGCATA 60.045 40.000 0.00 0.00 37.43 3.14
1372 1378 4.263905 TGGAACCCTCACTTGATTAAGCAT 60.264 41.667 0.00 0.00 37.43 3.79
1373 1379 3.073798 TGGAACCCTCACTTGATTAAGCA 59.926 43.478 0.00 0.00 37.43 3.91
1374 1380 3.686016 TGGAACCCTCACTTGATTAAGC 58.314 45.455 0.00 0.00 37.43 3.09
1375 1381 5.945784 TGAATGGAACCCTCACTTGATTAAG 59.054 40.000 0.00 0.00 39.86 1.85
1376 1382 5.886609 TGAATGGAACCCTCACTTGATTAA 58.113 37.500 0.00 0.00 0.00 1.40
1377 1383 5.512942 TGAATGGAACCCTCACTTGATTA 57.487 39.130 0.00 0.00 0.00 1.75
1378 1384 4.387026 TGAATGGAACCCTCACTTGATT 57.613 40.909 0.00 0.00 0.00 2.57
1379 1385 4.202609 ACTTGAATGGAACCCTCACTTGAT 60.203 41.667 0.00 0.00 0.00 2.57
1380 1386 3.138283 ACTTGAATGGAACCCTCACTTGA 59.862 43.478 0.00 0.00 0.00 3.02
1381 1387 3.490348 ACTTGAATGGAACCCTCACTTG 58.510 45.455 0.00 0.00 0.00 3.16
1382 1388 3.884037 ACTTGAATGGAACCCTCACTT 57.116 42.857 0.00 0.00 0.00 3.16
1383 1389 4.993705 TTACTTGAATGGAACCCTCACT 57.006 40.909 0.00 0.00 0.00 3.41
1384 1390 7.696992 TTTATTACTTGAATGGAACCCTCAC 57.303 36.000 0.00 0.00 0.00 3.51
1385 1391 7.726291 TGTTTTATTACTTGAATGGAACCCTCA 59.274 33.333 0.00 0.00 0.00 3.86
1386 1392 8.117813 TGTTTTATTACTTGAATGGAACCCTC 57.882 34.615 0.00 0.00 0.00 4.30
1387 1393 8.364894 GTTGTTTTATTACTTGAATGGAACCCT 58.635 33.333 0.00 0.00 0.00 4.34
1388 1394 8.145122 TGTTGTTTTATTACTTGAATGGAACCC 58.855 33.333 0.00 0.00 0.00 4.11
1389 1395 9.705290 ATGTTGTTTTATTACTTGAATGGAACC 57.295 29.630 0.00 0.00 0.00 3.62
1405 1412 3.502979 GGTGCTCCCGTAATGTTGTTTTA 59.497 43.478 0.00 0.00 0.00 1.52
1406 1413 2.295070 GGTGCTCCCGTAATGTTGTTTT 59.705 45.455 0.00 0.00 0.00 2.43
1407 1414 1.883926 GGTGCTCCCGTAATGTTGTTT 59.116 47.619 0.00 0.00 0.00 2.83
1415 1422 1.271856 TGAAGATGGTGCTCCCGTAA 58.728 50.000 1.59 0.00 35.15 3.18
1416 1423 1.271856 TTGAAGATGGTGCTCCCGTA 58.728 50.000 1.59 0.00 35.15 4.02
1417 1424 0.400213 TTTGAAGATGGTGCTCCCGT 59.600 50.000 1.59 0.00 35.15 5.28
1418 1425 1.200020 GTTTTGAAGATGGTGCTCCCG 59.800 52.381 1.59 0.00 35.15 5.14
1419 1426 2.519013 AGTTTTGAAGATGGTGCTCCC 58.481 47.619 1.59 0.00 0.00 4.30
1469 1476 3.190535 CACATTGGCTTGGTTGGTACTAC 59.809 47.826 0.00 0.00 0.00 2.73
1470 1477 3.417101 CACATTGGCTTGGTTGGTACTA 58.583 45.455 0.00 0.00 0.00 1.82
1829 1939 2.024655 AGGTGATCACATTTGGCTCCAT 60.025 45.455 26.47 0.00 0.00 3.41
1895 2005 1.338973 CACAAGTGCCTTGACAGCATT 59.661 47.619 18.22 0.00 43.42 3.56
1897 2007 0.107263 TCACAAGTGCCTTGACAGCA 60.107 50.000 18.22 0.00 43.42 4.41


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

AutoCloner maintained by Alex Coulton.