Multiple sequence alignment - TraesCS4B01G167300

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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 TraesCS4B01G167300 chr4B 100.000 2339 0 0 1 2339 364053862 364051524 0.000000e+00 4320
1 TraesCS4B01G167300 chr4B 97.403 154 2 1 1365 1518 68787723 68787572 6.410000e-66 261
2 TraesCS4B01G167300 chr4B 96.774 155 4 1 1362 1516 364081448 364081295 8.290000e-65 257
3 TraesCS4B01G167300 chr2B 96.473 1361 41 2 1 1361 325636812 325638165 0.000000e+00 2241
4 TraesCS4B01G167300 chr2B 90.832 829 64 6 1513 2337 461913346 461912526 0.000000e+00 1099
5 TraesCS4B01G167300 chr2A 95.915 1371 49 2 1 1371 382856640 382855277 0.000000e+00 2215
6 TraesCS4B01G167300 chr2A 95.521 1362 54 3 1 1361 77801826 77803181 0.000000e+00 2170
7 TraesCS4B01G167300 chr6D 95.113 1371 59 3 1 1369 462399743 462398379 0.000000e+00 2154
8 TraesCS4B01G167300 chr6D 94.864 1363 59 7 1 1361 452072042 452070689 0.000000e+00 2119
9 TraesCS4B01G167300 chr6D 94.512 164 7 1 1362 1525 462167189 462167350 3.860000e-63 252
10 TraesCS4B01G167300 chr1D 95.047 1373 60 4 1 1371 176360153 176361519 0.000000e+00 2152
11 TraesCS4B01G167300 chr1D 94.351 1363 68 4 1 1361 356880599 356881954 0.000000e+00 2082
12 TraesCS4B01G167300 chr5A 95.154 1362 59 3 1 1361 472509202 472510557 0.000000e+00 2143
13 TraesCS4B01G167300 chr5A 94.152 171 8 2 1362 1531 36309195 36309364 2.310000e-65 259
14 TraesCS4B01G167300 chr7D 93.741 1374 77 4 1 1372 219850267 219848901 0.000000e+00 2052
15 TraesCS4B01G167300 chr6B 91.957 833 52 9 1512 2339 191510944 191511766 0.000000e+00 1153
16 TraesCS4B01G167300 chr6B 91.446 830 57 10 1513 2339 581066317 581065499 0.000000e+00 1127
17 TraesCS4B01G167300 chr5B 91.226 832 56 12 1513 2339 96045903 96045084 0.000000e+00 1116
18 TraesCS4B01G167300 chr5B 90.843 830 62 5 1513 2339 230814357 230815175 0.000000e+00 1099
19 TraesCS4B01G167300 chr5B 90.459 828 60 10 1513 2338 418228636 418227826 0.000000e+00 1074
20 TraesCS4B01G167300 chr1B 90.723 830 62 7 1513 2339 188270221 188269404 0.000000e+00 1092
21 TraesCS4B01G167300 chr3B 90.419 835 60 12 1513 2339 252320547 252321369 0.000000e+00 1081
22 TraesCS4B01G167300 chr3B 90.408 834 60 17 1513 2339 252276192 252277012 0.000000e+00 1079
23 TraesCS4B01G167300 chr3B 97.368 152 3 1 1362 1513 203230459 203230609 8.290000e-65 257
24 TraesCS4B01G167300 chr3B 97.368 152 2 1 1365 1516 622844798 622844649 8.290000e-65 257
25 TraesCS4B01G167300 chr7B 96.226 159 5 1 1362 1520 468707308 468707465 2.310000e-65 259
26 TraesCS4B01G167300 chr4D 97.368 152 3 1 1362 1513 128661235 128661385 8.290000e-65 257
27 TraesCS4B01G167300 chr3D 94.545 165 3 3 1365 1529 360032163 360032321 1.390000e-62 250


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 TraesCS4B01G167300 chr4B 364051524 364053862 2338 True 4320 4320 100.000 1 2339 1 chr4B.!!$R2 2338
1 TraesCS4B01G167300 chr2B 325636812 325638165 1353 False 2241 2241 96.473 1 1361 1 chr2B.!!$F1 1360
2 TraesCS4B01G167300 chr2B 461912526 461913346 820 True 1099 1099 90.832 1513 2337 1 chr2B.!!$R1 824
3 TraesCS4B01G167300 chr2A 382855277 382856640 1363 True 2215 2215 95.915 1 1371 1 chr2A.!!$R1 1370
4 TraesCS4B01G167300 chr2A 77801826 77803181 1355 False 2170 2170 95.521 1 1361 1 chr2A.!!$F1 1360
5 TraesCS4B01G167300 chr6D 462398379 462399743 1364 True 2154 2154 95.113 1 1369 1 chr6D.!!$R2 1368
6 TraesCS4B01G167300 chr6D 452070689 452072042 1353 True 2119 2119 94.864 1 1361 1 chr6D.!!$R1 1360
7 TraesCS4B01G167300 chr1D 176360153 176361519 1366 False 2152 2152 95.047 1 1371 1 chr1D.!!$F1 1370
8 TraesCS4B01G167300 chr1D 356880599 356881954 1355 False 2082 2082 94.351 1 1361 1 chr1D.!!$F2 1360
9 TraesCS4B01G167300 chr5A 472509202 472510557 1355 False 2143 2143 95.154 1 1361 1 chr5A.!!$F2 1360
10 TraesCS4B01G167300 chr7D 219848901 219850267 1366 True 2052 2052 93.741 1 1372 1 chr7D.!!$R1 1371
11 TraesCS4B01G167300 chr6B 191510944 191511766 822 False 1153 1153 91.957 1512 2339 1 chr6B.!!$F1 827
12 TraesCS4B01G167300 chr6B 581065499 581066317 818 True 1127 1127 91.446 1513 2339 1 chr6B.!!$R1 826
13 TraesCS4B01G167300 chr5B 96045084 96045903 819 True 1116 1116 91.226 1513 2339 1 chr5B.!!$R1 826
14 TraesCS4B01G167300 chr5B 230814357 230815175 818 False 1099 1099 90.843 1513 2339 1 chr5B.!!$F1 826
15 TraesCS4B01G167300 chr5B 418227826 418228636 810 True 1074 1074 90.459 1513 2338 1 chr5B.!!$R2 825
16 TraesCS4B01G167300 chr1B 188269404 188270221 817 True 1092 1092 90.723 1513 2339 1 chr1B.!!$R1 826
17 TraesCS4B01G167300 chr3B 252320547 252321369 822 False 1081 1081 90.419 1513 2339 1 chr3B.!!$F3 826
18 TraesCS4B01G167300 chr3B 252276192 252277012 820 False 1079 1079 90.408 1513 2339 1 chr3B.!!$F2 826

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
788 792 0.178888 GGGATTCTAGCCCTAGCCCT 60.179 60.0 8.44 0.0 42.56 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1782 1788 0.388907 GTTAAGCGTGCGGACCTACA 60.389 55.0 0.0 0.0 0.0 2.74 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
77 78 1.002502 GTTGTGACACCTAGGGGGC 60.003 63.158 17.43 14.56 39.10 5.80
85 87 1.151899 ACCTAGGGGGCACAACTGA 60.152 57.895 14.81 0.00 39.10 3.41
212 214 3.501062 CCAATCTCGCAACATGATATGCT 59.499 43.478 16.55 0.94 40.39 3.79
237 239 9.330063 CTAGATTTCATTGCTTGGAGTTATACA 57.670 33.333 0.00 0.00 0.00 2.29
261 263 3.880047 AATGGTATGTTCTCGGTTCGA 57.120 42.857 0.00 0.00 0.00 3.71
266 268 3.066342 GGTATGTTCTCGGTTCGATCTGA 59.934 47.826 4.96 4.96 34.61 3.27
329 332 0.537371 CATTCTAACGGGATGGGGCC 60.537 60.000 0.00 0.00 0.00 5.80
424 428 4.593597 CGTACATTACATGGAACGCTTT 57.406 40.909 0.00 0.00 37.11 3.51
546 550 3.744660 CAGTAGAGCAAAGGAGGTTTGT 58.255 45.455 0.00 0.00 46.44 2.83
565 569 2.054799 GTACAAGGCTGGGGATGGATA 58.945 52.381 0.00 0.00 0.00 2.59
622 626 1.883084 GAGGCGGTGCTGGAATACG 60.883 63.158 0.00 0.00 0.00 3.06
699 703 6.421501 GTGAAATGATTGCTGTTTCAACATGA 59.578 34.615 0.00 0.00 41.77 3.07
713 717 5.503634 TCAACATGATATCTATGGTGGGG 57.496 43.478 22.25 7.49 42.19 4.96
748 752 1.486310 TGCACAAGGAGACAACTCAGT 59.514 47.619 0.00 0.00 44.22 3.41
757 761 4.040952 AGGAGACAACTCAGTATGCACTTT 59.959 41.667 0.00 0.00 44.22 2.66
783 787 3.360740 TCAATGGGGATTCTAGCCCTA 57.639 47.619 0.00 0.00 45.30 3.53
784 788 3.251484 TCAATGGGGATTCTAGCCCTAG 58.749 50.000 0.00 0.00 45.30 3.02
785 789 1.662686 ATGGGGATTCTAGCCCTAGC 58.337 55.000 0.00 0.00 45.30 3.42
786 790 0.473886 TGGGGATTCTAGCCCTAGCC 60.474 60.000 0.00 0.00 45.30 3.93
787 791 1.202099 GGGGATTCTAGCCCTAGCCC 61.202 65.000 0.00 7.57 45.30 5.19
788 792 0.178888 GGGATTCTAGCCCTAGCCCT 60.179 60.000 8.44 0.00 42.56 5.19
952 956 6.382608 GTTTTGAGAGATGAAAAAGGTAGGC 58.617 40.000 0.00 0.00 0.00 3.93
960 964 7.069578 AGAGATGAAAAAGGTAGGCTTATCGTA 59.930 37.037 0.00 0.00 0.00 3.43
1249 1253 6.313905 TCATAAGCTTGCAAGTTTAGCTAGAC 59.686 38.462 30.82 12.14 44.05 2.59
1383 1388 8.752005 AAATAGTGTTGTTGCATCATATAGGT 57.248 30.769 0.00 0.00 0.00 3.08
1384 1389 8.752005 AATAGTGTTGTTGCATCATATAGGTT 57.248 30.769 0.00 0.00 0.00 3.50
1385 1390 6.441093 AGTGTTGTTGCATCATATAGGTTG 57.559 37.500 0.00 0.00 0.00 3.77
1386 1391 5.036737 GTGTTGTTGCATCATATAGGTTGC 58.963 41.667 12.38 12.38 35.67 4.17
1387 1392 4.949238 TGTTGTTGCATCATATAGGTTGCT 59.051 37.500 18.26 0.00 36.10 3.91
1388 1393 5.066375 TGTTGTTGCATCATATAGGTTGCTC 59.934 40.000 18.26 12.75 36.10 4.26
1389 1394 4.779696 TGTTGCATCATATAGGTTGCTCA 58.220 39.130 18.26 14.57 36.10 4.26
1390 1395 4.576053 TGTTGCATCATATAGGTTGCTCAC 59.424 41.667 18.26 15.10 36.10 3.51
1399 1404 3.322514 GGTTGCTCACCTAGTTGCA 57.677 52.632 0.00 0.00 43.29 4.08
1400 1405 1.826385 GGTTGCTCACCTAGTTGCAT 58.174 50.000 0.00 0.00 43.29 3.96
1401 1406 2.985896 GGTTGCTCACCTAGTTGCATA 58.014 47.619 0.00 0.00 43.29 3.14
1402 1407 3.545703 GGTTGCTCACCTAGTTGCATAT 58.454 45.455 0.00 0.00 43.29 1.78
1403 1408 3.561725 GGTTGCTCACCTAGTTGCATATC 59.438 47.826 0.00 0.00 43.29 1.63
1404 1409 4.446371 GTTGCTCACCTAGTTGCATATCT 58.554 43.478 0.00 0.00 35.27 1.98
1405 1410 5.453339 GGTTGCTCACCTAGTTGCATATCTA 60.453 44.000 0.00 0.00 43.29 1.98
1406 1411 5.459536 TGCTCACCTAGTTGCATATCTAG 57.540 43.478 11.63 11.63 34.98 2.43
1407 1412 5.140454 TGCTCACCTAGTTGCATATCTAGA 58.860 41.667 17.11 0.00 36.66 2.43
1408 1413 5.010112 TGCTCACCTAGTTGCATATCTAGAC 59.990 44.000 17.11 0.00 36.66 2.59
1409 1414 5.010112 GCTCACCTAGTTGCATATCTAGACA 59.990 44.000 17.11 0.00 36.66 3.41
1410 1415 6.461648 GCTCACCTAGTTGCATATCTAGACAA 60.462 42.308 17.11 0.00 36.66 3.18
1411 1416 6.806751 TCACCTAGTTGCATATCTAGACAAC 58.193 40.000 13.43 13.43 42.08 3.32
1412 1417 5.986135 CACCTAGTTGCATATCTAGACAACC 59.014 44.000 16.29 3.97 42.61 3.77
1413 1418 5.900123 ACCTAGTTGCATATCTAGACAACCT 59.100 40.000 16.29 9.28 42.61 3.50
1414 1419 7.014326 CACCTAGTTGCATATCTAGACAACCTA 59.986 40.741 16.29 9.74 42.61 3.08
1415 1420 7.014422 ACCTAGTTGCATATCTAGACAACCTAC 59.986 40.741 16.29 5.11 42.61 3.18
1416 1421 7.231722 CCTAGTTGCATATCTAGACAACCTACT 59.768 40.741 16.29 10.57 42.61 2.57
1417 1422 7.425224 AGTTGCATATCTAGACAACCTACTT 57.575 36.000 16.29 0.58 42.61 2.24
1418 1423 7.852263 AGTTGCATATCTAGACAACCTACTTT 58.148 34.615 16.29 0.03 42.61 2.66
1419 1424 7.982354 AGTTGCATATCTAGACAACCTACTTTC 59.018 37.037 16.29 0.00 42.61 2.62
1420 1425 7.418337 TGCATATCTAGACAACCTACTTTCA 57.582 36.000 0.00 0.00 0.00 2.69
1421 1426 8.023021 TGCATATCTAGACAACCTACTTTCAT 57.977 34.615 0.00 0.00 0.00 2.57
1422 1427 7.928167 TGCATATCTAGACAACCTACTTTCATG 59.072 37.037 0.00 0.00 0.00 3.07
1423 1428 7.095439 GCATATCTAGACAACCTACTTTCATGC 60.095 40.741 0.00 0.00 0.00 4.06
1424 1429 5.738619 TCTAGACAACCTACTTTCATGCA 57.261 39.130 0.00 0.00 0.00 3.96
1425 1430 6.109156 TCTAGACAACCTACTTTCATGCAA 57.891 37.500 0.00 0.00 0.00 4.08
1426 1431 6.530120 TCTAGACAACCTACTTTCATGCAAA 58.470 36.000 0.00 0.00 0.00 3.68
1427 1432 5.695851 AGACAACCTACTTTCATGCAAAG 57.304 39.130 13.00 13.00 46.36 2.77
1443 1448 9.823647 TTCATGCAAAGTTTAATTTGGTAAAGA 57.176 25.926 0.00 0.00 39.94 2.52
1444 1449 9.823647 TCATGCAAAGTTTAATTTGGTAAAGAA 57.176 25.926 0.00 0.00 39.94 2.52
1448 1453 9.433317 GCAAAGTTTAATTTGGTAAAGAAAAGC 57.567 29.630 5.02 0.00 39.94 3.51
1466 1471 8.365399 AGAAAAGCTAAAAATTGTTAGTTGCC 57.635 30.769 15.37 4.63 34.20 4.52
1467 1472 8.204160 AGAAAAGCTAAAAATTGTTAGTTGCCT 58.796 29.630 15.37 6.43 34.20 4.75
1468 1473 9.471084 GAAAAGCTAAAAATTGTTAGTTGCCTA 57.529 29.630 15.37 0.00 34.20 3.93
1469 1474 9.996554 AAAAGCTAAAAATTGTTAGTTGCCTAT 57.003 25.926 15.37 0.00 34.20 2.57
1470 1475 9.996554 AAAGCTAAAAATTGTTAGTTGCCTATT 57.003 25.926 15.37 0.13 34.20 1.73
1471 1476 9.639601 AAGCTAAAAATTGTTAGTTGCCTATTC 57.360 29.630 15.37 0.00 34.20 1.75
1472 1477 8.802267 AGCTAAAAATTGTTAGTTGCCTATTCA 58.198 29.630 15.37 0.00 34.20 2.57
1473 1478 8.860128 GCTAAAAATTGTTAGTTGCCTATTCAC 58.140 33.333 15.37 0.00 34.20 3.18
1474 1479 9.353999 CTAAAAATTGTTAGTTGCCTATTCACC 57.646 33.333 7.18 0.00 0.00 4.02
1475 1480 5.914898 AATTGTTAGTTGCCTATTCACCC 57.085 39.130 0.00 0.00 0.00 4.61
1476 1481 3.359695 TGTTAGTTGCCTATTCACCCC 57.640 47.619 0.00 0.00 0.00 4.95
1477 1482 2.025699 TGTTAGTTGCCTATTCACCCCC 60.026 50.000 0.00 0.00 0.00 5.40
1503 1508 4.919793 CCCCCTCTAGTCAACTATATCGA 58.080 47.826 0.00 0.00 0.00 3.59
1504 1509 5.511363 CCCCCTCTAGTCAACTATATCGAT 58.489 45.833 2.16 2.16 0.00 3.59
1505 1510 5.591067 CCCCCTCTAGTCAACTATATCGATC 59.409 48.000 0.00 0.00 0.00 3.69
1506 1511 5.591067 CCCCTCTAGTCAACTATATCGATCC 59.409 48.000 0.00 0.00 0.00 3.36
1507 1512 6.419791 CCCTCTAGTCAACTATATCGATCCT 58.580 44.000 0.00 0.00 0.00 3.24
1508 1513 6.887545 CCCTCTAGTCAACTATATCGATCCTT 59.112 42.308 0.00 0.00 0.00 3.36
1509 1514 7.394923 CCCTCTAGTCAACTATATCGATCCTTT 59.605 40.741 0.00 0.00 0.00 3.11
1510 1515 8.455682 CCTCTAGTCAACTATATCGATCCTTTC 58.544 40.741 0.00 0.00 0.00 2.62
1551 1556 8.308931 AGTTAGTTGTTGGATGAAGTATTACGA 58.691 33.333 0.00 0.00 0.00 3.43
1737 1743 2.169769 TCCAGGTTCCGCTATTGGTTAG 59.830 50.000 0.00 0.00 0.00 2.34
1782 1788 5.886474 TCATGTCTACATAGTTCTCGAACCT 59.114 40.000 6.20 0.00 36.90 3.50
1856 1863 8.242053 TGTGTTTTTAATGACCGAAGTTTGTTA 58.758 29.630 0.00 0.00 0.00 2.41
1863 1870 3.640029 TGACCGAAGTTTGTTAGGAGTCT 59.360 43.478 0.00 0.00 0.00 3.24
2098 2114 1.076777 ATGGCTGGTCCGAATTGGG 60.077 57.895 0.00 0.00 38.76 4.12
2147 2170 0.614979 TTCCTTCTCCCTCTCCACCG 60.615 60.000 0.00 0.00 0.00 4.94
2249 2274 2.522193 CCCTCCTAGGACGGCCTC 60.522 72.222 16.98 0.00 45.54 4.70
2250 2275 2.522193 CCTCCTAGGACGGCCTCC 60.522 72.222 16.98 12.03 45.54 4.30
2287 2315 3.170717 CTCCTTTATATACGGGGGCAGA 58.829 50.000 0.00 0.00 0.00 4.26
2291 2319 0.042131 TATATACGGGGGCAGAGGGG 59.958 60.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 4.695455 CACCCACCTTAGTTATCAGTTGTG 59.305 45.833 0.00 0.00 0.00 3.33
85 87 7.410174 TCAATCAAATCACCCACCTTAGTTAT 58.590 34.615 0.00 0.00 0.00 1.89
212 214 9.679661 TTGTATAACTCCAAGCAATGAAATCTA 57.320 29.630 0.00 0.00 0.00 1.98
261 263 6.378280 GGTTCCACTCCACAAAATAATCAGAT 59.622 38.462 0.00 0.00 0.00 2.90
329 332 6.757897 TCCAAATAGGATTAACTGTGCTTG 57.242 37.500 0.00 0.00 43.07 4.01
424 428 1.138036 CGAGCGTAACCCGACATGA 59.862 57.895 0.00 0.00 39.56 3.07
546 550 2.505672 TATCCATCCCCAGCCTTGTA 57.494 50.000 0.00 0.00 0.00 2.41
622 626 3.510360 TCTTGGTCTGGCAGAAGTAGTAC 59.490 47.826 20.62 5.16 0.00 2.73
699 703 3.173965 CCGTCTTCCCCACCATAGATAT 58.826 50.000 0.00 0.00 0.00 1.63
713 717 2.750948 TGTGCACTAACTTCCGTCTTC 58.249 47.619 19.41 0.00 0.00 2.87
748 752 6.430864 TCCCCATTGAAATCTAAAGTGCATA 58.569 36.000 0.00 0.00 0.00 3.14
757 761 5.222130 GGGCTAGAATCCCCATTGAAATCTA 60.222 44.000 0.00 0.00 41.13 1.98
783 787 1.069668 ACGAAGTTTGACGTAAGGGCT 59.930 47.619 0.00 0.00 37.78 5.19
784 788 1.505425 ACGAAGTTTGACGTAAGGGC 58.495 50.000 0.00 0.00 37.78 5.19
952 956 2.954318 TCCCGTTTCCTCCTACGATAAG 59.046 50.000 0.00 0.00 40.03 1.73
960 964 2.027100 GTCAATCTTCCCGTTTCCTCCT 60.027 50.000 0.00 0.00 0.00 3.69
1249 1253 8.741101 TCAAACCAATCATAAATCAACGAAAG 57.259 30.769 0.00 0.00 0.00 2.62
1302 1306 3.990092 AGCAAGTACATCGTTTGTGAGA 58.010 40.909 0.00 0.00 39.48 3.27
1361 1366 6.038161 GCAACCTATATGATGCAACAACACTA 59.962 38.462 0.00 0.00 38.63 2.74
1382 1387 4.446371 AGATATGCAACTAGGTGAGCAAC 58.554 43.478 13.29 0.00 40.76 4.17
1383 1388 4.760530 AGATATGCAACTAGGTGAGCAA 57.239 40.909 13.29 0.00 40.76 3.91
1384 1389 5.010112 GTCTAGATATGCAACTAGGTGAGCA 59.990 44.000 13.29 3.07 41.73 4.26
1385 1390 5.010112 TGTCTAGATATGCAACTAGGTGAGC 59.990 44.000 13.29 0.00 37.34 4.26
1386 1391 6.641169 TGTCTAGATATGCAACTAGGTGAG 57.359 41.667 13.29 0.00 37.34 3.51
1387 1392 6.183360 GGTTGTCTAGATATGCAACTAGGTGA 60.183 42.308 13.29 0.00 40.49 4.02
1388 1393 5.986135 GGTTGTCTAGATATGCAACTAGGTG 59.014 44.000 18.23 2.45 40.49 4.00
1389 1394 5.900123 AGGTTGTCTAGATATGCAACTAGGT 59.100 40.000 18.23 0.00 40.49 3.08
1390 1395 6.412362 AGGTTGTCTAGATATGCAACTAGG 57.588 41.667 18.23 7.22 40.49 3.02
1391 1396 8.172352 AGTAGGTTGTCTAGATATGCAACTAG 57.828 38.462 18.23 15.26 40.49 2.57
1392 1397 8.534954 AAGTAGGTTGTCTAGATATGCAACTA 57.465 34.615 18.23 9.66 40.49 2.24
1393 1398 7.425224 AAGTAGGTTGTCTAGATATGCAACT 57.575 36.000 18.23 7.55 40.49 3.16
1394 1399 7.764443 TGAAAGTAGGTTGTCTAGATATGCAAC 59.236 37.037 13.07 13.07 40.08 4.17
1395 1400 7.847096 TGAAAGTAGGTTGTCTAGATATGCAA 58.153 34.615 0.00 0.00 0.00 4.08
1396 1401 7.418337 TGAAAGTAGGTTGTCTAGATATGCA 57.582 36.000 0.00 0.00 0.00 3.96
1397 1402 7.095439 GCATGAAAGTAGGTTGTCTAGATATGC 60.095 40.741 0.00 0.00 0.00 3.14
1398 1403 7.928167 TGCATGAAAGTAGGTTGTCTAGATATG 59.072 37.037 0.00 0.00 0.00 1.78
1399 1404 8.023021 TGCATGAAAGTAGGTTGTCTAGATAT 57.977 34.615 0.00 0.00 0.00 1.63
1400 1405 7.418337 TGCATGAAAGTAGGTTGTCTAGATA 57.582 36.000 0.00 0.00 0.00 1.98
1401 1406 6.299805 TGCATGAAAGTAGGTTGTCTAGAT 57.700 37.500 0.00 0.00 0.00 1.98
1402 1407 5.738619 TGCATGAAAGTAGGTTGTCTAGA 57.261 39.130 0.00 0.00 0.00 2.43
1403 1408 6.801539 TTTGCATGAAAGTAGGTTGTCTAG 57.198 37.500 0.00 0.00 0.00 2.43
1404 1409 6.801539 CTTTGCATGAAAGTAGGTTGTCTA 57.198 37.500 0.00 0.00 36.96 2.59
1405 1410 5.695851 CTTTGCATGAAAGTAGGTTGTCT 57.304 39.130 0.00 0.00 36.96 3.41
1417 1422 9.823647 TCTTTACCAAATTAAACTTTGCATGAA 57.176 25.926 0.00 0.00 35.28 2.57
1418 1423 9.823647 TTCTTTACCAAATTAAACTTTGCATGA 57.176 25.926 0.00 0.00 35.28 3.07
1422 1427 9.433317 GCTTTTCTTTACCAAATTAAACTTTGC 57.567 29.630 0.00 0.00 35.28 3.68
1440 1445 8.826710 GGCAACTAACAATTTTTAGCTTTTCTT 58.173 29.630 10.61 0.00 33.02 2.52
1441 1446 8.365399 GGCAACTAACAATTTTTAGCTTTTCT 57.635 30.769 10.61 0.00 33.02 2.52
1481 1486 4.919793 TCGATATAGTTGACTAGAGGGGG 58.080 47.826 0.00 0.00 0.00 5.40
1482 1487 5.591067 GGATCGATATAGTTGACTAGAGGGG 59.409 48.000 0.00 0.00 0.00 4.79
1483 1488 6.419791 AGGATCGATATAGTTGACTAGAGGG 58.580 44.000 0.00 0.00 0.00 4.30
1484 1489 7.931578 AAGGATCGATATAGTTGACTAGAGG 57.068 40.000 0.00 0.00 0.00 3.69
1485 1490 9.004717 TGAAAGGATCGATATAGTTGACTAGAG 57.995 37.037 0.00 0.00 0.00 2.43
1486 1491 8.919777 TGAAAGGATCGATATAGTTGACTAGA 57.080 34.615 0.00 0.00 0.00 2.43
1487 1492 9.967346 TTTGAAAGGATCGATATAGTTGACTAG 57.033 33.333 0.00 0.00 0.00 2.57
1489 1494 9.265901 CATTTGAAAGGATCGATATAGTTGACT 57.734 33.333 0.00 0.00 0.00 3.41
1490 1495 9.046296 ACATTTGAAAGGATCGATATAGTTGAC 57.954 33.333 0.00 0.00 0.00 3.18
1491 1496 9.045223 CACATTTGAAAGGATCGATATAGTTGA 57.955 33.333 0.00 0.00 0.00 3.18
1492 1497 9.045223 TCACATTTGAAAGGATCGATATAGTTG 57.955 33.333 0.00 0.00 0.00 3.16
1493 1498 9.046296 GTCACATTTGAAAGGATCGATATAGTT 57.954 33.333 0.00 0.00 31.90 2.24
1494 1499 8.424918 AGTCACATTTGAAAGGATCGATATAGT 58.575 33.333 0.00 0.00 31.90 2.12
1495 1500 8.824159 AGTCACATTTGAAAGGATCGATATAG 57.176 34.615 0.00 0.00 31.90 1.31
1497 1502 9.784531 ATTAGTCACATTTGAAAGGATCGATAT 57.215 29.630 0.00 0.00 31.90 1.63
1498 1503 9.045223 CATTAGTCACATTTGAAAGGATCGATA 57.955 33.333 0.00 0.00 31.90 2.92
1499 1504 7.770433 TCATTAGTCACATTTGAAAGGATCGAT 59.230 33.333 0.00 0.00 31.90 3.59
1500 1505 7.102993 TCATTAGTCACATTTGAAAGGATCGA 58.897 34.615 0.00 0.00 31.90 3.59
1501 1506 7.065085 ACTCATTAGTCACATTTGAAAGGATCG 59.935 37.037 0.00 0.00 31.90 3.69
1502 1507 8.273780 ACTCATTAGTCACATTTGAAAGGATC 57.726 34.615 0.00 0.00 31.90 3.36
1503 1508 8.641498 AACTCATTAGTCACATTTGAAAGGAT 57.359 30.769 0.00 0.00 33.75 3.24
1504 1509 9.219603 CTAACTCATTAGTCACATTTGAAAGGA 57.780 33.333 0.00 0.00 33.75 3.36
1505 1510 9.003658 ACTAACTCATTAGTCACATTTGAAAGG 57.996 33.333 0.00 0.00 46.73 3.11
1535 1540 5.957798 ACTCGTTTCGTAATACTTCATCCA 58.042 37.500 0.00 0.00 0.00 3.41
1551 1556 3.057734 CGGCAAGTCTCTTTACTCGTTT 58.942 45.455 0.00 0.00 0.00 3.60
1686 1692 4.866508 TTGGCTCCTACATATTCTACGG 57.133 45.455 0.00 0.00 0.00 4.02
1737 1743 5.105063 TGATCGAGACACATCTTTGATCAC 58.895 41.667 14.30 0.00 44.22 3.06
1782 1788 0.388907 GTTAAGCGTGCGGACCTACA 60.389 55.000 0.00 0.00 0.00 2.74
1839 1846 4.969484 ACTCCTAACAAACTTCGGTCATT 58.031 39.130 0.00 0.00 0.00 2.57
1863 1870 4.099881 TGTCATGTTCATGATCTCATCCGA 59.900 41.667 16.75 0.00 33.61 4.55
1898 1906 8.768957 ATATCAATCTTTATGTCTCGACCATG 57.231 34.615 3.62 0.00 0.00 3.66
2125 2148 1.557371 GTGGAGAGGGAGAAGGAAAGG 59.443 57.143 0.00 0.00 0.00 3.11
2147 2170 1.119684 GAGAGGGAGAGAGGGAAAGC 58.880 60.000 0.00 0.00 0.00 3.51
2242 2267 4.467107 GGAGGAGGAGGAGGCCGT 62.467 72.222 0.00 0.00 0.00 5.68
2246 2271 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
2247 2272 1.541672 GGAGGAGGAGGAGGAGGAG 59.458 68.421 0.00 0.00 0.00 3.69
2248 2273 2.015726 GGGAGGAGGAGGAGGAGGA 61.016 68.421 0.00 0.00 0.00 3.71
2249 2274 2.018086 AGGGAGGAGGAGGAGGAGG 61.018 68.421 0.00 0.00 0.00 4.30
2250 2275 1.541672 GAGGGAGGAGGAGGAGGAG 59.458 68.421 0.00 0.00 0.00 3.69
2251 2276 2.015726 GGAGGGAGGAGGAGGAGGA 61.016 68.421 0.00 0.00 0.00 3.71
2291 2319 6.602009 AGAATAACTGTTATACTTTGGGGTGC 59.398 38.462 13.07 0.00 0.00 5.01
2302 2330 7.919091 CACACGGCTAAGAGAATAACTGTTATA 59.081 37.037 13.07 0.00 34.61 0.98
2304 2332 6.097356 CACACGGCTAAGAGAATAACTGTTA 58.903 40.000 2.26 2.26 34.03 2.41


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

AutoCloner maintained by Alex Coulton.