Multiple sequence alignment - TraesCS7B01G171200

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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 TraesCS7B01G171200 chr7B 100.000 2570 0 0 1 2570 244248232 244245663 0.000000e+00 4747.0
1 TraesCS7B01G171200 chr7B 92.073 656 40 10 1911 2559 455844033 455843383 0.000000e+00 913.0
2 TraesCS7B01G171200 chr7B 89.058 658 56 13 1911 2560 427599778 427600427 0.000000e+00 802.0
3 TraesCS7B01G171200 chr7B 93.617 47 3 0 201 247 244246503 244246457 1.280000e-08 71.3
4 TraesCS7B01G171200 chr7B 93.617 47 3 0 1730 1776 244248032 244247986 1.280000e-08 71.3
5 TraesCS7B01G171200 chr7D 92.750 1931 92 22 2 1919 263957073 263955178 0.000000e+00 2747.0
6 TraesCS7B01G171200 chr7D 87.500 80 4 3 546 625 263956472 263956545 1.270000e-13 87.9
7 TraesCS7B01G171200 chr7D 100.000 41 0 0 201 241 263955365 263955325 2.740000e-10 76.8
8 TraesCS7B01G171200 chr7A 91.525 1947 99 32 5 1919 287213605 287211693 0.000000e+00 2621.0
9 TraesCS7B01G171200 chr7A 90.000 80 2 2 546 625 287213007 287213080 5.850000e-17 99.0
10 TraesCS7B01G171200 chr7A 100.000 41 0 0 201 241 287211882 287211842 2.740000e-10 76.8
11 TraesCS7B01G171200 chr3B 92.523 642 35 10 1911 2544 722762704 722762068 0.000000e+00 907.0
12 TraesCS7B01G171200 chr3B 90.259 657 43 14 1919 2558 722803886 722803234 0.000000e+00 839.0
13 TraesCS7B01G171200 chr2B 91.796 646 41 10 1920 2555 128488938 128488295 0.000000e+00 889.0
14 TraesCS7B01G171200 chr2B 89.846 650 47 18 1920 2555 394536307 394536951 0.000000e+00 817.0
15 TraesCS7B01G171200 chr5B 92.799 611 38 5 1917 2522 301950784 301950175 0.000000e+00 880.0
16 TraesCS7B01G171200 chr6B 90.634 662 46 15 1920 2568 173409036 173408378 0.000000e+00 865.0
17 TraesCS7B01G171200 chr1B 89.291 663 53 15 1911 2562 430877182 430877837 0.000000e+00 815.0


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 TraesCS7B01G171200 chr7B 244245663 244248232 2569 True 1629.866667 4747 95.744667 1 2570 3 chr7B.!!$R2 2569
1 TraesCS7B01G171200 chr7B 455843383 455844033 650 True 913.000000 913 92.073000 1911 2559 1 chr7B.!!$R1 648
2 TraesCS7B01G171200 chr7B 427599778 427600427 649 False 802.000000 802 89.058000 1911 2560 1 chr7B.!!$F1 649
3 TraesCS7B01G171200 chr7D 263955178 263957073 1895 True 1411.900000 2747 96.375000 2 1919 2 chr7D.!!$R1 1917
4 TraesCS7B01G171200 chr7A 287211693 287213605 1912 True 1348.900000 2621 95.762500 5 1919 2 chr7A.!!$R1 1914
5 TraesCS7B01G171200 chr3B 722762068 722762704 636 True 907.000000 907 92.523000 1911 2544 1 chr3B.!!$R1 633
6 TraesCS7B01G171200 chr3B 722803234 722803886 652 True 839.000000 839 90.259000 1919 2558 1 chr3B.!!$R2 639
7 TraesCS7B01G171200 chr2B 128488295 128488938 643 True 889.000000 889 91.796000 1920 2555 1 chr2B.!!$R1 635
8 TraesCS7B01G171200 chr2B 394536307 394536951 644 False 817.000000 817 89.846000 1920 2555 1 chr2B.!!$F1 635
9 TraesCS7B01G171200 chr5B 301950175 301950784 609 True 880.000000 880 92.799000 1917 2522 1 chr5B.!!$R1 605
10 TraesCS7B01G171200 chr6B 173408378 173409036 658 True 865.000000 865 90.634000 1920 2568 1 chr6B.!!$R1 648
11 TraesCS7B01G171200 chr1B 430877182 430877837 655 False 815.000000 815 89.291000 1911 2562 1 chr1B.!!$F1 651

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
618 629 0.175302 TGCAGTTTTTGTGTGCCTGG 59.825 50.0 0.0 0.0 36.31 4.45 F
619 630 0.175531 GCAGTTTTTGTGTGCCTGGT 59.824 50.0 0.0 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1521 1533 0.684805 ACGGCACCCTTGGAAAAACA 60.685 50.0 0.00 0.0 0.00 2.83 R
1761 1790 1.804396 CGGCCATTTGCACCTTGTGA 61.804 55.0 2.24 0.0 43.89 3.58 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
98 99 8.260818 TGACAAAATCCTGTGGAATTTAAACAA 58.739 29.630 0.03 0.00 33.11 2.83
203 204 4.278513 CTTGGCCAACCCCCGTGA 62.279 66.667 16.05 0.00 33.59 4.35
207 208 2.438434 GCCAACCCCCGTGAGATG 60.438 66.667 0.00 0.00 0.00 2.90
211 212 2.971598 AACCCCCGTGAGATGCTGG 61.972 63.158 0.00 0.00 0.00 4.85
212 213 3.083349 CCCCCGTGAGATGCTGGA 61.083 66.667 0.00 0.00 0.00 3.86
213 214 2.669133 CCCCCGTGAGATGCTGGAA 61.669 63.158 0.00 0.00 0.00 3.53
214 215 1.299648 CCCCGTGAGATGCTGGAAA 59.700 57.895 0.00 0.00 0.00 3.13
215 216 0.322456 CCCCGTGAGATGCTGGAAAA 60.322 55.000 0.00 0.00 0.00 2.29
216 217 1.683011 CCCCGTGAGATGCTGGAAAAT 60.683 52.381 0.00 0.00 0.00 1.82
218 219 3.480470 CCCGTGAGATGCTGGAAAATAT 58.520 45.455 0.00 0.00 0.00 1.28
220 221 4.129380 CCGTGAGATGCTGGAAAATATCA 58.871 43.478 0.00 0.00 0.00 2.15
221 222 4.576053 CCGTGAGATGCTGGAAAATATCAA 59.424 41.667 0.00 0.00 0.00 2.57
222 223 5.066375 CCGTGAGATGCTGGAAAATATCAAA 59.934 40.000 0.00 0.00 0.00 2.69
223 224 6.404623 CCGTGAGATGCTGGAAAATATCAAAA 60.405 38.462 0.00 0.00 0.00 2.44
224 225 7.198390 CGTGAGATGCTGGAAAATATCAAAAT 58.802 34.615 0.00 0.00 0.00 1.82
225 226 8.344831 CGTGAGATGCTGGAAAATATCAAAATA 58.655 33.333 0.00 0.00 0.00 1.40
233 234 9.468532 GCTGGAAAATATCAAAATAATCAGACC 57.531 33.333 0.00 0.00 0.00 3.85
404 415 7.386299 AGTTAAGTCATCTTGAGTCAATCACAC 59.614 37.037 5.91 1.93 37.77 3.82
555 566 6.939551 GCGCAATGCAATAAGATAATGAAT 57.060 33.333 5.91 0.00 45.45 2.57
557 568 8.624701 GCGCAATGCAATAAGATAATGAATAT 57.375 30.769 5.91 0.00 45.45 1.28
558 569 9.720667 GCGCAATGCAATAAGATAATGAATATA 57.279 29.630 5.91 0.00 45.45 0.86
577 588 9.461312 TGAATATATTTACTGACATATTGGCCC 57.539 33.333 0.00 0.00 0.00 5.80
578 589 9.686683 GAATATATTTACTGACATATTGGCCCT 57.313 33.333 0.00 0.00 0.00 5.19
581 592 8.782137 ATATTTACTGACATATTGGCCCTTTT 57.218 30.769 0.00 0.00 0.00 2.27
583 594 8.782137 ATTTACTGACATATTGGCCCTTTTAT 57.218 30.769 0.00 0.00 0.00 1.40
584 595 9.875708 ATTTACTGACATATTGGCCCTTTTATA 57.124 29.630 0.00 0.00 0.00 0.98
585 596 9.875708 TTTACTGACATATTGGCCCTTTTATAT 57.124 29.630 0.00 0.00 0.00 0.86
588 599 6.314120 TGACATATTGGCCCTTTTATATGCT 58.686 36.000 0.00 0.00 35.41 3.79
590 601 8.115384 TGACATATTGGCCCTTTTATATGCTAT 58.885 33.333 0.00 0.00 35.41 2.97
591 602 8.525290 ACATATTGGCCCTTTTATATGCTATC 57.475 34.615 0.00 0.00 35.41 2.08
593 604 8.970020 CATATTGGCCCTTTTATATGCTATCAA 58.030 33.333 0.00 0.00 0.00 2.57
594 605 7.854166 ATTGGCCCTTTTATATGCTATCAAA 57.146 32.000 0.00 0.00 0.00 2.69
595 606 7.667575 TTGGCCCTTTTATATGCTATCAAAA 57.332 32.000 0.00 0.00 0.00 2.44
596 607 7.854166 TGGCCCTTTTATATGCTATCAAAAT 57.146 32.000 0.00 0.00 0.00 1.82
597 608 7.669427 TGGCCCTTTTATATGCTATCAAAATG 58.331 34.615 0.00 0.00 0.00 2.32
598 609 7.508636 TGGCCCTTTTATATGCTATCAAAATGA 59.491 33.333 0.00 0.00 0.00 2.57
600 611 9.362539 GCCCTTTTATATGCTATCAAAATGATG 57.637 33.333 3.17 0.00 37.70 3.07
601 612 9.362539 CCCTTTTATATGCTATCAAAATGATGC 57.637 33.333 3.17 5.70 37.70 3.91
609 620 7.354025 TGCTATCAAAATGATGCAGTTTTTG 57.646 32.000 18.36 18.36 37.70 2.44
610 621 6.930164 TGCTATCAAAATGATGCAGTTTTTGT 59.070 30.769 21.27 14.96 39.90 2.83
611 622 7.095565 TGCTATCAAAATGATGCAGTTTTTGTG 60.096 33.333 21.27 16.17 39.90 3.33
613 624 6.347270 TCAAAATGATGCAGTTTTTGTGTG 57.653 33.333 21.27 7.42 39.90 3.82
614 625 4.799419 AAATGATGCAGTTTTTGTGTGC 57.201 36.364 0.00 0.00 37.73 4.57
617 628 2.129607 GATGCAGTTTTTGTGTGCCTG 58.870 47.619 0.00 0.00 36.31 4.85
618 629 0.175302 TGCAGTTTTTGTGTGCCTGG 59.825 50.000 0.00 0.00 36.31 4.45
619 630 0.175531 GCAGTTTTTGTGTGCCTGGT 59.824 50.000 0.00 0.00 0.00 4.00
620 631 1.405391 GCAGTTTTTGTGTGCCTGGTT 60.405 47.619 0.00 0.00 0.00 3.67
621 632 2.159170 GCAGTTTTTGTGTGCCTGGTTA 60.159 45.455 0.00 0.00 0.00 2.85
622 633 3.677424 GCAGTTTTTGTGTGCCTGGTTAA 60.677 43.478 0.00 0.00 0.00 2.01
623 634 4.692228 CAGTTTTTGTGTGCCTGGTTAAT 58.308 39.130 0.00 0.00 0.00 1.40
624 635 5.115480 CAGTTTTTGTGTGCCTGGTTAATT 58.885 37.500 0.00 0.00 0.00 1.40
632 643 4.157656 GTGTGCCTGGTTAATTATCAAGCA 59.842 41.667 7.92 7.92 32.81 3.91
710 721 9.662947 CTCAACCAGCTATGATGATGAATTATA 57.337 33.333 0.00 0.00 0.00 0.98
745 756 4.231140 TGGCTCCACCATGTGAGA 57.769 55.556 7.98 0.00 46.36 3.27
819 831 1.073763 CACACCAAGGGAGTTCATGGA 59.926 52.381 0.00 0.00 36.75 3.41
820 832 1.073923 ACACCAAGGGAGTTCATGGAC 59.926 52.381 0.00 0.00 36.75 4.02
837 849 2.365617 TGGACTTGTCTCTGGAACACTC 59.634 50.000 0.61 0.00 0.00 3.51
863 875 7.411912 CGGTCTTTGTGATAGTTGTACAAGATG 60.412 40.741 8.98 0.00 35.91 2.90
878 890 1.135094 AGATGCAGACCCTACCATGG 58.865 55.000 11.19 11.19 0.00 3.66
899 911 2.220133 GCACACACGCCCTATAAATACG 59.780 50.000 0.00 0.00 0.00 3.06
1122 1134 2.831043 TGCAGCTCAGTTGCAGGA 59.169 55.556 12.86 0.00 44.16 3.86
1278 1290 3.988976 ACACTGCCTTGTGATATGACT 57.011 42.857 8.29 0.00 40.12 3.41
1359 1371 4.371786 CGCTTCTCAGCTCCATAATAACA 58.628 43.478 0.00 0.00 44.85 2.41
1444 1456 1.458827 GCAGCTCTTCAAGAGTGAACG 59.541 52.381 16.04 1.96 44.12 3.95
1625 1637 5.452078 TCAAGTTTAGCCCATTGAAACAG 57.548 39.130 0.00 0.00 35.88 3.16
1647 1659 7.281098 ACAGTATCTAGTGCTACTACTGCTAA 58.719 38.462 16.32 0.00 41.79 3.09
1681 1693 3.389329 CACTGTATTAGAGAGGCCACCAT 59.611 47.826 5.01 0.00 0.00 3.55
1774 1803 6.839124 AATAATCAGATCACAAGGTGCAAA 57.161 33.333 0.00 0.00 32.98 3.68
1775 1804 7.414222 AATAATCAGATCACAAGGTGCAAAT 57.586 32.000 0.00 0.00 32.98 2.32
1777 1806 2.821378 TCAGATCACAAGGTGCAAATGG 59.179 45.455 0.00 0.00 32.98 3.16
1779 1808 0.609662 ATCACAAGGTGCAAATGGCC 59.390 50.000 0.00 0.00 43.89 5.36
1780 1809 1.373246 CACAAGGTGCAAATGGCCG 60.373 57.895 0.00 0.00 43.89 6.13
1781 1810 1.832167 ACAAGGTGCAAATGGCCGT 60.832 52.632 0.00 0.00 43.89 5.68
1782 1811 0.538516 ACAAGGTGCAAATGGCCGTA 60.539 50.000 0.00 0.00 43.89 4.02
2058 2089 6.488344 GGAGAGAGTTGGGGATTTCATTATTC 59.512 42.308 0.00 0.00 0.00 1.75
2522 2592 3.253838 AAACCCTAGCCACCGCCA 61.254 61.111 0.00 0.00 34.57 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 99 6.546772 GCTATGTTTCTACCACTAGTCTAGGT 59.453 42.308 11.61 8.33 39.41 3.08
207 208 9.468532 GGTCTGATTATTTTGATATTTTCCAGC 57.531 33.333 0.00 0.00 0.00 4.85
214 215 9.479549 ACCTTGTGGTCTGATTATTTTGATATT 57.520 29.630 0.00 0.00 44.78 1.28
236 237 9.543783 CCGCTTAGATTCTACTATTTAAACCTT 57.456 33.333 0.00 0.00 0.00 3.50
237 238 8.921205 TCCGCTTAGATTCTACTATTTAAACCT 58.079 33.333 0.00 0.00 0.00 3.50
238 239 9.538508 TTCCGCTTAGATTCTACTATTTAAACC 57.461 33.333 0.00 0.00 0.00 3.27
243 244 9.408069 CGTATTTCCGCTTAGATTCTACTATTT 57.592 33.333 0.00 0.00 0.00 1.40
244 245 8.790718 TCGTATTTCCGCTTAGATTCTACTATT 58.209 33.333 0.00 0.00 0.00 1.73
353 364 4.838423 TCACCACATCTTCTAGAAAGGTGA 59.162 41.667 24.50 24.50 44.09 4.02
404 415 1.205064 CCTTTCGCTGCAAGTGTCG 59.795 57.895 0.00 0.00 46.69 4.35
479 490 1.537202 GCATCATTCCGCCATCTTACC 59.463 52.381 0.00 0.00 0.00 2.85
551 562 9.461312 GGGCCAATATGTCAGTAAATATATTCA 57.539 33.333 4.39 0.00 0.00 2.57
555 566 9.875708 AAAAGGGCCAATATGTCAGTAAATATA 57.124 29.630 6.18 0.00 0.00 0.86
556 567 8.782137 AAAAGGGCCAATATGTCAGTAAATAT 57.218 30.769 6.18 0.00 0.00 1.28
557 568 9.875708 ATAAAAGGGCCAATATGTCAGTAAATA 57.124 29.630 6.18 0.00 0.00 1.40
558 569 8.782137 ATAAAAGGGCCAATATGTCAGTAAAT 57.218 30.769 6.18 0.00 0.00 1.40
559 570 9.875708 ATATAAAAGGGCCAATATGTCAGTAAA 57.124 29.630 6.18 0.00 0.00 2.01
560 571 9.295825 CATATAAAAGGGCCAATATGTCAGTAA 57.704 33.333 6.18 0.00 30.89 2.24
561 572 7.393234 GCATATAAAAGGGCCAATATGTCAGTA 59.607 37.037 20.07 0.00 35.61 2.74
563 574 6.435277 AGCATATAAAAGGGCCAATATGTCAG 59.565 38.462 20.07 2.70 35.61 3.51
564 575 6.314120 AGCATATAAAAGGGCCAATATGTCA 58.686 36.000 20.07 0.83 35.61 3.58
565 576 6.840780 AGCATATAAAAGGGCCAATATGTC 57.159 37.500 20.07 15.17 35.61 3.06
571 582 7.667575 TTTTGATAGCATATAAAAGGGCCAA 57.332 32.000 6.18 0.00 0.00 4.52
573 584 7.895759 TCATTTTGATAGCATATAAAAGGGCC 58.104 34.615 0.00 0.00 0.00 5.80
576 587 9.917129 TGCATCATTTTGATAGCATATAAAAGG 57.083 29.630 9.17 0.00 36.62 3.11
583 594 9.089601 CAAAAACTGCATCATTTTGATAGCATA 57.910 29.630 19.16 0.00 43.36 3.14
584 595 7.604927 ACAAAAACTGCATCATTTTGATAGCAT 59.395 29.630 25.72 9.76 43.36 3.79
585 596 6.930164 ACAAAAACTGCATCATTTTGATAGCA 59.070 30.769 25.72 8.77 43.36 3.49
588 599 7.307278 GCACACAAAAACTGCATCATTTTGATA 60.307 33.333 25.72 0.00 43.36 2.15
590 601 5.220624 GCACACAAAAACTGCATCATTTTGA 60.221 36.000 25.72 0.00 43.36 2.69
591 602 4.965158 GCACACAAAAACTGCATCATTTTG 59.035 37.500 20.91 20.91 45.14 2.44
593 604 3.560896 GGCACACAAAAACTGCATCATTT 59.439 39.130 0.00 0.00 32.20 2.32
594 605 3.132925 GGCACACAAAAACTGCATCATT 58.867 40.909 0.00 0.00 32.20 2.57
595 606 2.366266 AGGCACACAAAAACTGCATCAT 59.634 40.909 0.00 0.00 32.20 2.45
596 607 1.755959 AGGCACACAAAAACTGCATCA 59.244 42.857 0.00 0.00 32.20 3.07
597 608 2.129607 CAGGCACACAAAAACTGCATC 58.870 47.619 0.00 0.00 32.20 3.91
598 609 1.202557 CCAGGCACACAAAAACTGCAT 60.203 47.619 0.00 0.00 32.20 3.96
600 611 0.175531 ACCAGGCACACAAAAACTGC 59.824 50.000 0.00 0.00 0.00 4.40
601 612 2.671130 AACCAGGCACACAAAAACTG 57.329 45.000 0.00 0.00 0.00 3.16
603 614 6.926272 TGATAATTAACCAGGCACACAAAAAC 59.074 34.615 0.00 0.00 0.00 2.43
604 615 7.055667 TGATAATTAACCAGGCACACAAAAA 57.944 32.000 0.00 0.00 0.00 1.94
606 617 6.656632 TTGATAATTAACCAGGCACACAAA 57.343 33.333 0.00 0.00 0.00 2.83
609 620 4.157656 TGCTTGATAATTAACCAGGCACAC 59.842 41.667 17.81 0.00 37.86 3.82
610 621 4.339748 TGCTTGATAATTAACCAGGCACA 58.660 39.130 17.81 3.86 37.86 4.57
611 622 4.981806 TGCTTGATAATTAACCAGGCAC 57.018 40.909 17.81 0.40 37.86 5.01
613 624 5.582689 ACTTGCTTGATAATTAACCAGGC 57.417 39.130 14.34 14.34 34.13 4.85
614 625 9.573133 CTTTAACTTGCTTGATAATTAACCAGG 57.427 33.333 0.00 0.00 0.00 4.45
617 628 7.491372 GCCCTTTAACTTGCTTGATAATTAACC 59.509 37.037 0.00 0.00 0.00 2.85
618 629 8.251026 AGCCCTTTAACTTGCTTGATAATTAAC 58.749 33.333 0.00 0.00 0.00 2.01
619 630 8.250332 CAGCCCTTTAACTTGCTTGATAATTAA 58.750 33.333 0.00 0.00 30.08 1.40
620 631 7.396055 ACAGCCCTTTAACTTGCTTGATAATTA 59.604 33.333 0.00 0.00 30.08 1.40
621 632 6.211384 ACAGCCCTTTAACTTGCTTGATAATT 59.789 34.615 0.00 0.00 30.08 1.40
622 633 5.716703 ACAGCCCTTTAACTTGCTTGATAAT 59.283 36.000 0.00 0.00 30.08 1.28
623 634 5.076873 ACAGCCCTTTAACTTGCTTGATAA 58.923 37.500 0.00 0.00 30.08 1.75
624 635 4.662278 ACAGCCCTTTAACTTGCTTGATA 58.338 39.130 0.00 0.00 30.08 2.15
653 664 2.109387 ACACGGCGGTACAAAGCA 59.891 55.556 13.24 0.00 34.54 3.91
654 665 2.554272 CACACGGCGGTACAAAGC 59.446 61.111 13.24 0.00 0.00 3.51
695 706 9.445878 CTGGCTAAGTGTATAATTCATCATCAT 57.554 33.333 0.00 0.00 0.00 2.45
710 721 2.440409 CCATCTTTGCTGGCTAAGTGT 58.560 47.619 14.15 4.82 32.25 3.55
819 831 1.341531 CCGAGTGTTCCAGAGACAAGT 59.658 52.381 0.00 0.00 0.00 3.16
820 832 1.341531 ACCGAGTGTTCCAGAGACAAG 59.658 52.381 0.00 0.00 0.00 3.16
837 849 5.924254 TCTTGTACAACTATCACAAAGACCG 59.076 40.000 3.59 0.00 32.16 4.79
863 875 1.452108 GTGCCATGGTAGGGTCTGC 60.452 63.158 14.67 0.00 0.00 4.26
878 890 2.220133 CGTATTTATAGGGCGTGTGTGC 59.780 50.000 0.00 0.00 0.00 4.57
884 896 4.859304 TCATCACGTATTTATAGGGCGT 57.141 40.909 0.00 0.00 36.13 5.68
1122 1134 0.182775 AGACAACGAAGTGGCCCTTT 59.817 50.000 0.00 0.00 45.00 3.11
1274 1286 8.250143 ACACATTACATACTCCATCATAGTCA 57.750 34.615 0.00 0.00 0.00 3.41
1278 1290 7.992608 AGCAAACACATTACATACTCCATCATA 59.007 33.333 0.00 0.00 0.00 2.15
1359 1371 0.469705 TGCTTGGATGGTGGCAAGTT 60.470 50.000 0.00 0.00 0.00 2.66
1431 1443 2.956333 TCTGGAGACGTTCACTCTTGAA 59.044 45.455 3.12 0.00 39.55 2.69
1433 1445 3.584406 ATCTGGAGACGTTCACTCTTG 57.416 47.619 3.12 0.00 35.10 3.02
1444 1456 8.932945 AAAAACAGAAAGAAAAATCTGGAGAC 57.067 30.769 7.59 0.00 45.80 3.36
1521 1533 0.684805 ACGGCACCCTTGGAAAAACA 60.685 50.000 0.00 0.00 0.00 2.83
1590 1602 7.087007 GGGCTAAACTTGATTCTTTCTTCTTG 58.913 38.462 0.00 0.00 0.00 3.02
1625 1637 8.101654 ACATTAGCAGTAGTAGCACTAGATAC 57.898 38.462 0.00 0.00 36.89 2.24
1647 1659 8.067751 TCTCTAATACAGTGCAGAAACTACAT 57.932 34.615 0.00 0.00 0.00 2.29
1681 1693 5.425217 TCATGTGATTCCTAGTTGGCTTCTA 59.575 40.000 0.00 0.00 35.26 2.10
1761 1790 1.804396 CGGCCATTTGCACCTTGTGA 61.804 55.000 2.24 0.00 43.89 3.58
1774 1803 4.677779 GCTCAACAATTTCATTACGGCCAT 60.678 41.667 2.24 0.00 0.00 4.40
1775 1804 3.366883 GCTCAACAATTTCATTACGGCCA 60.367 43.478 2.24 0.00 0.00 5.36
1777 1806 3.832276 TGCTCAACAATTTCATTACGGC 58.168 40.909 0.00 0.00 0.00 5.68
1779 1808 6.614162 GCAACTTGCTCAACAATTTCATTACG 60.614 38.462 6.50 0.00 40.96 3.18
1780 1809 6.346838 GGCAACTTGCTCAACAATTTCATTAC 60.347 38.462 13.43 0.00 44.28 1.89
1781 1810 5.695816 GGCAACTTGCTCAACAATTTCATTA 59.304 36.000 13.43 0.00 44.28 1.90
1782 1811 4.512571 GGCAACTTGCTCAACAATTTCATT 59.487 37.500 13.43 0.00 44.28 2.57
1857 1888 2.337359 TTGGGTCTGCTAGTAGGGTT 57.663 50.000 8.07 0.00 0.00 4.11
1862 1893 3.689872 AGAGGATTGGGTCTGCTAGTA 57.310 47.619 0.00 0.00 0.00 1.82
2278 2319 8.644374 AGTGAACATTTATTTGGGCTACTAAA 57.356 30.769 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.