Multiple sequence alignment - TraesCS6B01G072800

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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 TraesCS6B01G072800 chr6B 100.000 2509 0 0 1 2509 49413021 49410513 0.000000e+00 4634
1 TraesCS6B01G072800 chr6B 92.314 1210 63 9 942 2147 49766065 49767248 0.000000e+00 1692
2 TraesCS6B01G072800 chr6A 90.864 1215 89 12 942 2147 28431983 28433184 0.000000e+00 1609
3 TraesCS6B01G072800 chr6A 78.137 526 67 20 894 1384 31122059 31121547 8.780000e-75 291
4 TraesCS6B01G072800 chr6A 76.043 647 99 34 1506 2135 31124231 31123624 4.080000e-73 285
5 TraesCS6B01G072800 chr6A 94.017 117 7 0 942 1058 31124481 31124365 7.130000e-41 178
6 TraesCS6B01G072800 chr7B 96.059 888 33 2 1 887 402828697 402827811 0.000000e+00 1445
7 TraesCS6B01G072800 chr7B 96.036 883 30 3 1 879 609008718 609009599 0.000000e+00 1432
8 TraesCS6B01G072800 chr3B 96.036 883 34 1 1 883 254843064 254842183 0.000000e+00 1435
9 TraesCS6B01G072800 chr3B 95.260 886 41 1 1 886 458307880 458306996 0.000000e+00 1402
10 TraesCS6B01G072800 chr3B 95.838 865 35 1 1 865 171088947 171088084 0.000000e+00 1397
11 TraesCS6B01G072800 chr1B 95.829 887 36 1 1 887 682337165 682338050 0.000000e+00 1432
12 TraesCS6B01G072800 chr3A 95.346 881 39 2 4 883 11753051 11752172 0.000000e+00 1399
13 TraesCS6B01G072800 chr7A 94.910 884 42 3 1 883 30260268 30259387 0.000000e+00 1380
14 TraesCS6B01G072800 chr4A 95.260 865 39 2 1 864 621408537 621407674 0.000000e+00 1369
15 TraesCS6B01G072800 chr6D 90.429 700 52 8 1451 2147 27121080 27121767 0.000000e+00 907
16 TraesCS6B01G072800 chr6D 80.186 429 47 11 889 1282 27299959 27300384 1.140000e-73 287
17 TraesCS6B01G072800 chr6D 77.800 491 65 17 894 1361 27302971 27303440 1.910000e-66 263
18 TraesCS6B01G072800 chr6D 75.714 560 90 22 1374 1912 27178173 27178707 3.230000e-59 239
19 TraesCS6B01G072800 chrUn 75.691 543 68 29 894 1384 241644320 241643790 1.950000e-51 213
20 TraesCS6B01G072800 chrUn 77.295 414 60 10 894 1282 297911869 297912273 1.950000e-51 213


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 TraesCS6B01G072800 chr6B 49410513 49413021 2508 True 4634.000000 4634 100.000000 1 2509 1 chr6B.!!$R1 2508
1 TraesCS6B01G072800 chr6B 49766065 49767248 1183 False 1692.000000 1692 92.314000 942 2147 1 chr6B.!!$F1 1205
2 TraesCS6B01G072800 chr6A 28431983 28433184 1201 False 1609.000000 1609 90.864000 942 2147 1 chr6A.!!$F1 1205
3 TraesCS6B01G072800 chr6A 31121547 31124481 2934 True 251.333333 291 82.732333 894 2135 3 chr6A.!!$R1 1241
4 TraesCS6B01G072800 chr7B 402827811 402828697 886 True 1445.000000 1445 96.059000 1 887 1 chr7B.!!$R1 886
5 TraesCS6B01G072800 chr7B 609008718 609009599 881 False 1432.000000 1432 96.036000 1 879 1 chr7B.!!$F1 878
6 TraesCS6B01G072800 chr3B 254842183 254843064 881 True 1435.000000 1435 96.036000 1 883 1 chr3B.!!$R2 882
7 TraesCS6B01G072800 chr3B 458306996 458307880 884 True 1402.000000 1402 95.260000 1 886 1 chr3B.!!$R3 885
8 TraesCS6B01G072800 chr3B 171088084 171088947 863 True 1397.000000 1397 95.838000 1 865 1 chr3B.!!$R1 864
9 TraesCS6B01G072800 chr1B 682337165 682338050 885 False 1432.000000 1432 95.829000 1 887 1 chr1B.!!$F1 886
10 TraesCS6B01G072800 chr3A 11752172 11753051 879 True 1399.000000 1399 95.346000 4 883 1 chr3A.!!$R1 879
11 TraesCS6B01G072800 chr7A 30259387 30260268 881 True 1380.000000 1380 94.910000 1 883 1 chr7A.!!$R1 882
12 TraesCS6B01G072800 chr4A 621407674 621408537 863 True 1369.000000 1369 95.260000 1 864 1 chr4A.!!$R1 863
13 TraesCS6B01G072800 chr6D 27121080 27121767 687 False 907.000000 907 90.429000 1451 2147 1 chr6D.!!$F1 696
14 TraesCS6B01G072800 chr6D 27299959 27303440 3481 False 275.000000 287 78.993000 889 1361 2 chr6D.!!$F3 472
15 TraesCS6B01G072800 chr6D 27178173 27178707 534 False 239.000000 239 75.714000 1374 1912 1 chr6D.!!$F2 538
16 TraesCS6B01G072800 chrUn 241643790 241644320 530 True 213.000000 213 75.691000 894 1384 1 chrUn.!!$R1 490

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
919 922 0.76551 ATATTGCCCTCGGAACTCCC 59.234 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2208 2516 0.253044 TACTGGAACCAGATGCTGCC 59.747 55.0 25.03 0.0 46.3 4.85 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
58 59 1.132643 GGAAGATCTGTCGTGCGTAGT 59.867 52.381 0.00 0.00 0.00 2.73
158 159 2.038975 AAGCCGCTCCACCTCCTA 59.961 61.111 0.00 0.00 0.00 2.94
299 300 5.307196 AGTGGGTTGACAGTAGTTACAGAAT 59.693 40.000 0.00 0.00 0.00 2.40
431 432 1.882623 CGAGATCCGATCATCCAGTCA 59.117 52.381 11.01 0.00 41.76 3.41
911 914 3.003689 GGTCAATGTCAATATTGCCCTCG 59.996 47.826 10.76 0.00 34.21 4.63
919 922 0.765510 ATATTGCCCTCGGAACTCCC 59.234 55.000 0.00 0.00 0.00 4.30
940 943 4.104086 CCATATATAAGGGCCCTCACTCA 58.896 47.826 28.84 11.57 0.00 3.41
1053 1081 1.376942 CCTGTGCTTGCTCCTCCTG 60.377 63.158 0.00 0.00 0.00 3.86
1059 1087 1.078567 CTTGCTCCTCCTGCTCACC 60.079 63.158 0.00 0.00 0.00 4.02
1092 1123 1.521010 CCATCAGCAGCTGTCCGAG 60.521 63.158 22.10 8.49 32.61 4.63
1221 1274 3.637273 GACCCCCTTCGCACCTGT 61.637 66.667 0.00 0.00 0.00 4.00
1224 1277 1.971695 CCCCCTTCGCACCTGTTTC 60.972 63.158 0.00 0.00 0.00 2.78
1264 1317 2.587247 ATCTGTGACCTGCCAGCGT 61.587 57.895 0.00 0.00 0.00 5.07
1514 1599 3.190118 CAGACAAGGAACATTGAAGAGCC 59.810 47.826 6.22 0.00 34.20 4.70
1666 1762 4.199310 TCGATGAATGTGGAAAATCCCTC 58.801 43.478 0.00 0.00 35.03 4.30
1801 1925 2.159653 CGAACTAATCCAAGCACTGCAC 60.160 50.000 3.30 0.00 0.00 4.57
1867 1993 7.596248 CAGAACCAGATAAACATTCACCAAAAG 59.404 37.037 0.00 0.00 0.00 2.27
1914 2040 1.659098 GAAACCTGACGCGGAATACTG 59.341 52.381 12.47 0.56 0.00 2.74
1967 2097 4.974368 AACGGTGAAAAGATGAACACAA 57.026 36.364 0.00 0.00 35.33 3.33
1976 2106 7.809331 GTGAAAAGATGAACACAAGCATAATGA 59.191 33.333 0.00 0.00 34.05 2.57
1977 2107 8.525316 TGAAAAGATGAACACAAGCATAATGAT 58.475 29.630 0.00 0.00 0.00 2.45
1978 2108 8.697846 AAAAGATGAACACAAGCATAATGATG 57.302 30.769 0.00 0.00 36.02 3.07
2002 2134 6.809689 TGCAGTCAAGCAAGATTAATTGAATG 59.190 34.615 9.19 9.19 45.53 2.67
2003 2135 6.810182 GCAGTCAAGCAAGATTAATTGAATGT 59.190 34.615 13.53 0.00 44.93 2.71
2051 2187 1.003928 ACAAGCCACATCTGCATCTCA 59.996 47.619 0.00 0.00 0.00 3.27
2062 2199 0.035152 TGCATCTCAGCAACCGGAAT 60.035 50.000 9.46 0.00 42.46 3.01
2093 2230 2.489938 TACCTGCAGGGAAATCACAC 57.510 50.000 35.42 0.00 40.27 3.82
2094 2231 0.251341 ACCTGCAGGGAAATCACACC 60.251 55.000 35.42 0.00 40.27 4.16
2114 2251 2.224549 CCGCGTCAGTCAAACCAATTTA 59.775 45.455 4.92 0.00 0.00 1.40
2139 2276 3.034569 GCATTCATGGCAAACCGTC 57.965 52.632 0.00 0.00 39.70 4.79
2147 2284 1.149987 TGGCAAACCGTCGACATTAC 58.850 50.000 17.16 5.34 39.70 1.89
2148 2285 0.445043 GGCAAACCGTCGACATTACC 59.555 55.000 17.16 10.37 0.00 2.85
2150 2287 1.127951 GCAAACCGTCGACATTACCTG 59.872 52.381 17.16 5.95 0.00 4.00
2155 2463 1.550065 CGTCGACATTACCTGCAGAG 58.450 55.000 17.39 8.04 0.00 3.35
2163 2471 4.655963 ACATTACCTGCAGAGAACAACAT 58.344 39.130 17.39 0.00 0.00 2.71
2175 2483 6.294176 GCAGAGAACAACATGTAATTTGAGGT 60.294 38.462 0.00 0.00 0.00 3.85
2178 2486 7.117812 AGAGAACAACATGTAATTTGAGGTACG 59.882 37.037 0.00 0.00 0.00 3.67
2195 2503 3.864003 GGTACGCCTTCAACTTCTATCAC 59.136 47.826 0.00 0.00 0.00 3.06
2201 2509 4.141824 GCCTTCAACTTCTATCACTAGGCT 60.142 45.833 0.00 0.00 41.76 4.58
2208 2516 7.173218 TCAACTTCTATCACTAGGCTGTTTTTG 59.827 37.037 0.00 0.00 0.00 2.44
2212 2520 2.229792 TCACTAGGCTGTTTTTGGCAG 58.770 47.619 0.00 0.00 37.06 4.85
2225 2540 0.609957 TTGGCAGCATCTGGTTCCAG 60.610 55.000 12.20 12.20 39.74 3.86
2226 2541 1.001641 GGCAGCATCTGGTTCCAGT 60.002 57.895 17.00 3.94 35.70 4.00
2230 2545 2.355108 GCAGCATCTGGTTCCAGTAGAA 60.355 50.000 17.00 0.15 35.70 2.10
2246 2561 7.851228 TCCAGTAGAAGCTAAAAGATCAATGA 58.149 34.615 0.00 0.00 0.00 2.57
2249 2564 7.279536 CAGTAGAAGCTAAAAGATCAATGAGCA 59.720 37.037 0.07 0.00 32.28 4.26
2250 2565 7.992033 AGTAGAAGCTAAAAGATCAATGAGCAT 59.008 33.333 0.07 0.00 32.28 3.79
2251 2566 9.265901 GTAGAAGCTAAAAGATCAATGAGCATA 57.734 33.333 0.07 0.00 32.28 3.14
2252 2567 8.921353 AGAAGCTAAAAGATCAATGAGCATAT 57.079 30.769 0.07 0.00 32.28 1.78
2253 2568 8.784994 AGAAGCTAAAAGATCAATGAGCATATG 58.215 33.333 0.07 0.00 32.28 1.78
2254 2569 8.687292 AAGCTAAAAGATCAATGAGCATATGA 57.313 30.769 6.97 0.00 32.28 2.15
2257 2572 8.512956 GCTAAAAGATCAATGAGCATATGATGT 58.487 33.333 6.97 6.33 34.10 3.06
2261 2576 7.436430 AGATCAATGAGCATATGATGTGTTC 57.564 36.000 6.97 0.00 34.10 3.18
2267 2582 5.627135 TGAGCATATGATGTGTTCATGGAT 58.373 37.500 6.97 0.00 44.90 3.41
2274 2589 9.070179 CATATGATGTGTTCATGGATTAGGAAA 57.930 33.333 0.00 0.00 44.90 3.13
2285 2600 6.664816 TCATGGATTAGGAAAGCAGAAACATT 59.335 34.615 0.00 0.00 0.00 2.71
2286 2601 6.916360 TGGATTAGGAAAGCAGAAACATTT 57.084 33.333 0.00 0.00 0.00 2.32
2303 2618 6.490566 AACATTTGGTTTGTAGACGGATAC 57.509 37.500 0.00 0.00 35.82 2.24
2304 2619 5.801380 ACATTTGGTTTGTAGACGGATACT 58.199 37.500 0.00 0.00 0.00 2.12
2305 2620 6.938507 ACATTTGGTTTGTAGACGGATACTA 58.061 36.000 0.00 0.00 0.00 1.82
2306 2621 7.562135 ACATTTGGTTTGTAGACGGATACTAT 58.438 34.615 0.00 0.00 0.00 2.12
2307 2622 8.698210 ACATTTGGTTTGTAGACGGATACTATA 58.302 33.333 0.00 0.00 0.00 1.31
2308 2623 9.193133 CATTTGGTTTGTAGACGGATACTATAG 57.807 37.037 0.00 0.00 0.00 1.31
2309 2624 8.523915 TTTGGTTTGTAGACGGATACTATAGA 57.476 34.615 6.78 0.00 0.00 1.98
2310 2625 8.523915 TTGGTTTGTAGACGGATACTATAGAA 57.476 34.615 6.78 0.00 0.00 2.10
2312 2627 8.970020 TGGTTTGTAGACGGATACTATAGAAAA 58.030 33.333 6.78 0.00 0.00 2.29
2334 2649 6.633500 AAAACACAGCTAGCAACTTATTGA 57.367 33.333 18.83 0.00 38.15 2.57
2335 2650 6.633500 AAACACAGCTAGCAACTTATTGAA 57.367 33.333 18.83 0.00 38.15 2.69
2336 2651 6.633500 AACACAGCTAGCAACTTATTGAAA 57.367 33.333 18.83 0.00 38.15 2.69
2374 2691 3.701205 TTCATGCAAGTAGAAGCCTCA 57.299 42.857 0.00 0.00 0.00 3.86
2376 2693 4.019792 TCATGCAAGTAGAAGCCTCAAA 57.980 40.909 0.00 0.00 0.00 2.69
2377 2694 3.753272 TCATGCAAGTAGAAGCCTCAAAC 59.247 43.478 0.00 0.00 0.00 2.93
2380 2697 2.096218 GCAAGTAGAAGCCTCAAACACG 60.096 50.000 0.00 0.00 0.00 4.49
2383 2700 1.001633 GTAGAAGCCTCAAACACGGGA 59.998 52.381 0.00 0.00 0.00 5.14
2385 2702 1.087501 GAAGCCTCAAACACGGGATC 58.912 55.000 0.00 0.00 0.00 3.36
2400 2717 2.926200 CGGGATCGTGCATCATCTTATC 59.074 50.000 7.55 0.00 32.33 1.75
2403 2720 4.940046 GGGATCGTGCATCATCTTATCAAT 59.060 41.667 7.55 0.00 32.33 2.57
2404 2721 5.163784 GGGATCGTGCATCATCTTATCAATG 60.164 44.000 7.55 0.00 32.33 2.82
2411 2728 7.494952 CGTGCATCATCTTATCAATGGATAGAT 59.505 37.037 0.00 0.00 37.31 1.98
2426 2743 8.624776 CAATGGATAGATTTCCTTTAGTCCAAC 58.375 37.037 0.00 0.00 37.96 3.77
2427 2744 7.265599 TGGATAGATTTCCTTTAGTCCAACA 57.734 36.000 0.00 0.00 36.68 3.33
2429 2746 7.110155 GGATAGATTTCCTTTAGTCCAACACA 58.890 38.462 0.00 0.00 32.68 3.72
2430 2747 7.610305 GGATAGATTTCCTTTAGTCCAACACAA 59.390 37.037 0.00 0.00 32.68 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
158 159 1.910772 AGCGCTGGAAGTCAGAGGT 60.911 57.895 10.39 0.00 46.39 3.85
224 225 2.761767 TGGTTTTCCTGATCGGACGATA 59.238 45.455 7.25 0.00 42.97 2.92
449 450 0.179108 GTGGTGGTCATCTCCTACGC 60.179 60.000 0.00 0.00 0.00 4.42
493 494 1.605058 GCTGAAGCACTCCGGGTCTA 61.605 60.000 0.00 0.00 41.59 2.59
656 657 3.147595 CTCCCGACGAGGATGGCA 61.148 66.667 0.00 0.00 45.00 4.92
883 886 0.462937 TATTGACATTGACCCCGCCG 60.463 55.000 0.00 0.00 0.00 6.46
887 890 3.733443 GGCAATATTGACATTGACCCC 57.267 47.619 19.73 3.61 37.88 4.95
890 893 3.003689 CCGAGGGCAATATTGACATTGAC 59.996 47.826 22.24 5.66 42.29 3.18
891 894 3.118075 TCCGAGGGCAATATTGACATTGA 60.118 43.478 22.24 13.46 38.18 2.57
892 895 3.213506 TCCGAGGGCAATATTGACATTG 58.786 45.455 22.67 18.78 38.18 2.82
911 914 3.202373 GGGCCCTTATATATGGGAGTTCC 59.798 52.174 29.50 21.64 46.15 3.62
919 922 5.491982 GTTGAGTGAGGGCCCTTATATATG 58.508 45.833 29.39 0.00 0.00 1.78
940 943 2.515901 GTGAGTGGTGGGCTGGTT 59.484 61.111 0.00 0.00 0.00 3.67
977 999 1.338674 CCTTGGCCTCACAATCGTACA 60.339 52.381 3.32 0.00 0.00 2.90
1042 1070 2.596851 GGGTGAGCAGGAGGAGCAA 61.597 63.158 0.00 0.00 0.00 3.91
1053 1081 3.376918 GGCTTTGGCAGGGTGAGC 61.377 66.667 0.00 0.00 40.87 4.26
1059 1087 1.382146 ATGGGATGGCTTTGGCAGG 60.382 57.895 0.00 0.00 42.43 4.85
1092 1123 1.014564 GGTAGCACTCGCACTTGACC 61.015 60.000 0.00 0.00 42.27 4.02
1221 1274 1.063327 CGTGTTGCAGGCGTTGAAA 59.937 52.632 0.00 0.00 0.00 2.69
1224 1277 3.276091 TCCGTGTTGCAGGCGTTG 61.276 61.111 6.04 0.00 0.00 4.10
1362 1442 5.516339 GTGAAAAGAACACACATTCAACCAG 59.484 40.000 0.00 0.00 38.05 4.00
1514 1599 0.319900 CATGATCGACCGGCCCTTAG 60.320 60.000 0.00 0.00 0.00 2.18
1666 1762 9.025041 ACAGAGGAAGGTAAAATCAAAATTAGG 57.975 33.333 0.00 0.00 0.00 2.69
1781 1904 2.159653 CGTGCAGTGCTTGGATTAGTTC 60.160 50.000 17.60 0.00 0.00 3.01
1801 1925 9.731519 GAATTATTTTGCTTTTGTTGAGATTCG 57.268 29.630 0.00 0.00 0.00 3.34
1867 1993 2.898705 TGTCCCATTTTGTGTGTTTGC 58.101 42.857 0.00 0.00 0.00 3.68
1914 2040 1.386525 CCATGCTGTACCATGTGGGC 61.387 60.000 3.77 0.00 40.72 5.36
1976 2106 6.519679 TCAATTAATCTTGCTTGACTGCAT 57.480 33.333 0.00 0.00 42.96 3.96
1977 2107 5.963176 TCAATTAATCTTGCTTGACTGCA 57.037 34.783 0.00 0.00 41.65 4.41
1978 2108 6.810182 ACATTCAATTAATCTTGCTTGACTGC 59.190 34.615 5.13 0.00 33.86 4.40
1979 2109 9.844790 TTACATTCAATTAATCTTGCTTGACTG 57.155 29.630 0.00 0.00 35.57 3.51
1981 2111 9.294030 CCTTACATTCAATTAATCTTGCTTGAC 57.706 33.333 0.00 0.00 0.00 3.18
1982 2112 9.023962 ACCTTACATTCAATTAATCTTGCTTGA 57.976 29.630 0.00 0.00 0.00 3.02
2002 2134 5.954335 TGCTTCGGTTAGTTAGTACCTTAC 58.046 41.667 0.00 0.00 32.08 2.34
2003 2135 6.588719 TTGCTTCGGTTAGTTAGTACCTTA 57.411 37.500 0.00 0.00 32.08 2.69
2051 2187 2.561478 ACAGTTACATTCCGGTTGCT 57.439 45.000 0.00 0.00 0.00 3.91
2062 2199 3.704566 CCCTGCAGGTATCTACAGTTACA 59.295 47.826 30.63 0.00 33.55 2.41
2093 2230 0.591170 AATTGGTTTGACTGACGCGG 59.409 50.000 12.47 0.00 0.00 6.46
2094 2231 2.399396 AAATTGGTTTGACTGACGCG 57.601 45.000 3.53 3.53 0.00 6.01
2114 2251 3.118665 GGTTTGCCATGAATGCCTTGTAT 60.119 43.478 0.00 0.00 34.09 2.29
2131 2268 1.127951 GCAGGTAATGTCGACGGTTTG 59.872 52.381 11.62 5.74 0.00 2.93
2139 2276 2.959516 TGTTCTCTGCAGGTAATGTCG 58.040 47.619 15.13 0.00 0.00 4.35
2147 2284 5.633830 AATTACATGTTGTTCTCTGCAGG 57.366 39.130 15.13 4.77 0.00 4.85
2148 2285 6.671190 TCAAATTACATGTTGTTCTCTGCAG 58.329 36.000 7.63 7.63 0.00 4.41
2150 2287 6.088824 CCTCAAATTACATGTTGTTCTCTGC 58.911 40.000 2.30 0.00 0.00 4.26
2155 2463 5.793457 GCGTACCTCAAATTACATGTTGTTC 59.207 40.000 2.30 0.00 0.00 3.18
2175 2483 5.067413 CCTAGTGATAGAAGTTGAAGGCGTA 59.933 44.000 0.00 0.00 0.00 4.42
2178 2486 4.123506 GCCTAGTGATAGAAGTTGAAGGC 58.876 47.826 0.00 0.00 40.11 4.35
2184 2492 6.431234 CCAAAAACAGCCTAGTGATAGAAGTT 59.569 38.462 0.00 0.00 0.00 2.66
2201 2509 1.412079 ACCAGATGCTGCCAAAAACA 58.588 45.000 0.00 0.00 0.00 2.83
2208 2516 0.253044 TACTGGAACCAGATGCTGCC 59.747 55.000 25.03 0.00 46.30 4.85
2212 2520 2.093235 AGCTTCTACTGGAACCAGATGC 60.093 50.000 25.03 18.55 46.30 3.91
2218 2526 6.407202 TGATCTTTTAGCTTCTACTGGAACC 58.593 40.000 0.00 0.00 0.00 3.62
2225 2540 7.545362 TGCTCATTGATCTTTTAGCTTCTAC 57.455 36.000 0.00 0.00 0.00 2.59
2230 2545 8.731605 CATCATATGCTCATTGATCTTTTAGCT 58.268 33.333 0.00 0.00 0.00 3.32
2237 2552 6.996282 TGAACACATCATATGCTCATTGATCT 59.004 34.615 0.00 0.00 31.50 2.75
2238 2553 7.198306 TGAACACATCATATGCTCATTGATC 57.802 36.000 0.00 0.00 31.50 2.92
2252 2567 5.357878 GCTTTCCTAATCCATGAACACATCA 59.642 40.000 0.00 0.00 43.67 3.07
2253 2568 5.357878 TGCTTTCCTAATCCATGAACACATC 59.642 40.000 0.00 0.00 0.00 3.06
2254 2569 5.263599 TGCTTTCCTAATCCATGAACACAT 58.736 37.500 0.00 0.00 0.00 3.21
2257 2572 5.178096 TCTGCTTTCCTAATCCATGAACA 57.822 39.130 0.00 0.00 0.00 3.18
2261 2576 5.902613 TGTTTCTGCTTTCCTAATCCATG 57.097 39.130 0.00 0.00 0.00 3.66
2267 2582 6.478512 AACCAAATGTTTCTGCTTTCCTAA 57.521 33.333 0.00 0.00 31.47 2.69
2274 2589 5.505654 CGTCTACAAACCAAATGTTTCTGCT 60.506 40.000 0.00 0.00 45.35 4.24
2285 2600 8.523915 TTCTATAGTATCCGTCTACAAACCAA 57.476 34.615 0.00 0.00 0.00 3.67
2286 2601 8.523915 TTTCTATAGTATCCGTCTACAAACCA 57.476 34.615 0.00 0.00 0.00 3.67
2310 2625 7.038154 TCAATAAGTTGCTAGCTGTGTTTTT 57.962 32.000 17.23 3.42 35.26 1.94
2312 2627 6.633500 TTCAATAAGTTGCTAGCTGTGTTT 57.367 33.333 17.23 6.08 35.26 2.83
2315 2630 7.809331 TGATTTTTCAATAAGTTGCTAGCTGTG 59.191 33.333 17.23 3.71 35.26 3.66
2316 2631 7.885297 TGATTTTTCAATAAGTTGCTAGCTGT 58.115 30.769 17.23 0.80 35.26 4.40
2317 2632 8.922058 ATGATTTTTCAATAAGTTGCTAGCTG 57.078 30.769 17.23 3.79 35.26 4.24
2346 2663 6.815142 GGCTTCTACTTGCATGAATTGAATTT 59.185 34.615 6.60 0.00 0.00 1.82
2347 2664 6.154021 AGGCTTCTACTTGCATGAATTGAATT 59.846 34.615 6.60 0.00 0.00 2.17
2356 2673 3.503363 TGTTTGAGGCTTCTACTTGCATG 59.497 43.478 0.00 0.00 0.00 4.06
2366 2683 1.087501 GATCCCGTGTTTGAGGCTTC 58.912 55.000 0.00 0.00 0.00 3.86
2380 2697 3.930336 TGATAAGATGATGCACGATCCC 58.070 45.455 0.00 0.00 0.00 3.85
2383 2700 5.554070 TCCATTGATAAGATGATGCACGAT 58.446 37.500 0.00 0.00 0.00 3.73
2385 2702 5.874895 ATCCATTGATAAGATGATGCACG 57.125 39.130 0.00 0.00 0.00 5.34
2400 2717 8.624776 GTTGGACTAAAGGAAATCTATCCATTG 58.375 37.037 0.00 0.00 42.27 2.82
2403 2720 7.110155 GTGTTGGACTAAAGGAAATCTATCCA 58.890 38.462 0.00 0.00 42.27 3.41
2404 2721 7.110155 TGTGTTGGACTAAAGGAAATCTATCC 58.890 38.462 0.00 0.00 39.96 2.59
2411 2728 6.605594 ACATCTTTGTGTTGGACTAAAGGAAA 59.394 34.615 0.00 0.00 33.85 3.13


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

AutoCloner maintained by Alex Coulton.