Multiple sequence alignment - TraesCS7B01G098300

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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 TraesCS7B01G098300 chr7B 100.000 4231 0 0 1 4231 113101141 113096911 0.000000e+00 7814.0
1 TraesCS7B01G098300 chr7B 79.389 524 88 14 48 562 34997044 34997556 6.730000e-93 351.0
2 TraesCS7B01G098300 chr4B 98.776 3512 34 6 720 4231 402988761 402985259 0.000000e+00 6239.0
3 TraesCS7B01G098300 chr4B 97.612 670 9 2 1 664 403000939 403000271 0.000000e+00 1142.0
4 TraesCS7B01G098300 chr4B 100.000 70 0 0 655 724 402999921 402999852 3.430000e-26 130.0
5 TraesCS7B01G098300 chr7D 90.018 3366 228 55 914 4229 150938798 150935491 0.000000e+00 4255.0
6 TraesCS7B01G098300 chr7D 83.187 571 74 13 8 562 481691827 481691263 1.760000e-138 503.0
7 TraesCS7B01G098300 chr7A 93.980 1113 57 5 2469 3580 150883545 150882442 0.000000e+00 1676.0
8 TraesCS7B01G098300 chr7A 87.870 981 85 17 1498 2469 150890816 150889861 0.000000e+00 1122.0
9 TraesCS7B01G098300 chr7A 92.334 587 39 2 899 1479 150891390 150890804 0.000000e+00 830.0
10 TraesCS7B01G098300 chr7A 88.368 619 44 14 3619 4229 150882442 150881844 0.000000e+00 719.0
11 TraesCS7B01G098300 chrUn 100.000 425 0 0 2470 2894 476593914 476593490 0.000000e+00 785.0
12 TraesCS7B01G098300 chr2D 84.507 568 73 11 7 562 508353283 508353847 8.000000e-152 547.0
13 TraesCS7B01G098300 chr2D 79.580 524 92 15 42 554 149674866 149674347 1.120000e-95 361.0
14 TraesCS7B01G098300 chr6B 90.716 377 32 3 2601 2976 516562843 516563217 2.270000e-137 499.0
15 TraesCS7B01G098300 chr6B 93.578 109 6 1 2961 3069 516563771 516563878 1.220000e-35 161.0
16 TraesCS7B01G098300 chr1B 81.156 467 73 12 107 562 277508149 277507687 1.120000e-95 361.0
17 TraesCS7B01G098300 chr1B 79.430 491 87 12 42 526 186824286 186823804 6.780000e-88 335.0
18 TraesCS7B01G098300 chr3B 80.870 460 72 12 42 488 438442758 438442302 8.710000e-92 348.0
19 TraesCS7B01G098300 chr3D 77.990 577 93 28 9 563 65587703 65588267 8.770000e-87 331.0
20 TraesCS7B01G098300 chr2B 85.714 77 11 0 487 563 464019184 464019108 9.750000e-12 82.4


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 TraesCS7B01G098300 chr7B 113096911 113101141 4230 True 7814.0 7814 100.000 1 4231 1 chr7B.!!$R1 4230
1 TraesCS7B01G098300 chr7B 34997044 34997556 512 False 351.0 351 79.389 48 562 1 chr7B.!!$F1 514
2 TraesCS7B01G098300 chr4B 402985259 402988761 3502 True 6239.0 6239 98.776 720 4231 1 chr4B.!!$R1 3511
3 TraesCS7B01G098300 chr4B 402999852 403000939 1087 True 636.0 1142 98.806 1 724 2 chr4B.!!$R2 723
4 TraesCS7B01G098300 chr7D 150935491 150938798 3307 True 4255.0 4255 90.018 914 4229 1 chr7D.!!$R1 3315
5 TraesCS7B01G098300 chr7D 481691263 481691827 564 True 503.0 503 83.187 8 562 1 chr7D.!!$R2 554
6 TraesCS7B01G098300 chr7A 150881844 150883545 1701 True 1197.5 1676 91.174 2469 4229 2 chr7A.!!$R1 1760
7 TraesCS7B01G098300 chr7A 150889861 150891390 1529 True 976.0 1122 90.102 899 2469 2 chr7A.!!$R2 1570
8 TraesCS7B01G098300 chr2D 508353283 508353847 564 False 547.0 547 84.507 7 562 1 chr2D.!!$F1 555
9 TraesCS7B01G098300 chr2D 149674347 149674866 519 True 361.0 361 79.580 42 554 1 chr2D.!!$R1 512
10 TraesCS7B01G098300 chr6B 516562843 516563878 1035 False 330.0 499 92.147 2601 3069 2 chr6B.!!$F1 468
11 TraesCS7B01G098300 chr3D 65587703 65588267 564 False 331.0 331 77.990 9 563 1 chr3D.!!$F1 554

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
711 744 0.108804 CGTGACCCAAGATGTACGCT 60.109 55.0 0.0 0.0 0.0 5.07 F
859 892 0.181587 TCGGTTTGGCTTTCTGTCCA 59.818 50.0 0.0 0.0 0.0 4.02 F
1773 1838 2.015227 GCAGTGTGTTTGGTGGTGGG 62.015 60.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 1838 0.788391 CCTAGCGTCAACGAAACCAC 59.212 55.000 6.75 0.0 43.02 4.16 R
2138 2205 3.514645 GATTTTGGACAAGCATCGCAAT 58.485 40.909 0.00 0.0 0.00 3.56 R
3477 4434 3.072915 TGTCCATGAGAACAACCACAGAT 59.927 43.478 0.00 0.0 0.00 2.90 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
422 450 4.821260 CCGATGAATTGTGGGTTCATGATA 59.179 41.667 6.12 0.00 44.10 2.15
584 617 2.815308 GGATGGCGTCCGAGTGAT 59.185 61.111 10.56 0.00 37.23 3.06
585 618 2.038690 GGATGGCGTCCGAGTGATA 58.961 57.895 10.56 0.00 37.23 2.15
586 619 0.387929 GGATGGCGTCCGAGTGATAA 59.612 55.000 10.56 0.00 37.23 1.75
587 620 1.202486 GGATGGCGTCCGAGTGATAAA 60.202 52.381 10.56 0.00 37.23 1.40
588 621 2.548067 GGATGGCGTCCGAGTGATAAAT 60.548 50.000 10.56 0.00 37.23 1.40
589 622 1.934589 TGGCGTCCGAGTGATAAATG 58.065 50.000 0.00 0.00 0.00 2.32
590 623 1.478916 TGGCGTCCGAGTGATAAATGA 59.521 47.619 0.00 0.00 0.00 2.57
591 624 1.859080 GGCGTCCGAGTGATAAATGAC 59.141 52.381 0.00 0.00 0.00 3.06
592 625 1.517276 GCGTCCGAGTGATAAATGACG 59.483 52.381 5.57 5.57 45.95 4.35
593 626 2.793933 CGTCCGAGTGATAAATGACGT 58.206 47.619 0.00 0.00 40.32 4.34
594 627 2.782192 CGTCCGAGTGATAAATGACGTC 59.218 50.000 9.11 9.11 40.32 4.34
595 628 3.114065 GTCCGAGTGATAAATGACGTCC 58.886 50.000 14.12 0.00 0.00 4.79
596 629 2.756207 TCCGAGTGATAAATGACGTCCA 59.244 45.455 14.12 1.26 0.00 4.02
597 630 3.193903 TCCGAGTGATAAATGACGTCCAA 59.806 43.478 14.12 0.00 0.00 3.53
598 631 3.930229 CCGAGTGATAAATGACGTCCAAA 59.070 43.478 14.12 0.00 0.00 3.28
599 632 4.570772 CCGAGTGATAAATGACGTCCAAAT 59.429 41.667 14.12 1.14 0.00 2.32
600 633 5.492854 CGAGTGATAAATGACGTCCAAATG 58.507 41.667 14.12 0.00 0.00 2.32
601 634 5.290885 CGAGTGATAAATGACGTCCAAATGA 59.709 40.000 14.12 0.00 0.00 2.57
602 635 6.183360 CGAGTGATAAATGACGTCCAAATGAA 60.183 38.462 14.12 0.00 0.00 2.57
603 636 7.465916 CGAGTGATAAATGACGTCCAAATGAAT 60.466 37.037 14.12 0.00 0.00 2.57
604 637 7.475015 AGTGATAAATGACGTCCAAATGAATG 58.525 34.615 14.12 0.00 0.00 2.67
605 638 7.121168 AGTGATAAATGACGTCCAAATGAATGT 59.879 33.333 14.12 0.00 0.00 2.71
606 639 7.218773 GTGATAAATGACGTCCAAATGAATGTG 59.781 37.037 14.12 0.00 0.00 3.21
607 640 2.987413 TGACGTCCAAATGAATGTGC 57.013 45.000 14.12 0.00 0.00 4.57
608 641 2.503331 TGACGTCCAAATGAATGTGCT 58.497 42.857 14.12 0.00 0.00 4.40
609 642 2.884012 TGACGTCCAAATGAATGTGCTT 59.116 40.909 14.12 0.00 0.00 3.91
610 643 3.058293 TGACGTCCAAATGAATGTGCTTC 60.058 43.478 14.12 0.00 0.00 3.86
611 644 3.149196 ACGTCCAAATGAATGTGCTTCT 58.851 40.909 0.00 0.00 34.75 2.85
612 645 3.569701 ACGTCCAAATGAATGTGCTTCTT 59.430 39.130 0.00 0.00 34.75 2.52
613 646 4.161333 CGTCCAAATGAATGTGCTTCTTC 58.839 43.478 0.00 0.00 34.75 2.87
614 647 4.488879 GTCCAAATGAATGTGCTTCTTCC 58.511 43.478 0.00 0.00 34.75 3.46
615 648 3.191162 TCCAAATGAATGTGCTTCTTCCG 59.809 43.478 0.00 0.00 34.75 4.30
616 649 3.191162 CCAAATGAATGTGCTTCTTCCGA 59.809 43.478 0.00 0.00 34.75 4.55
617 650 4.409570 CAAATGAATGTGCTTCTTCCGAG 58.590 43.478 0.00 0.00 34.75 4.63
618 651 2.839486 TGAATGTGCTTCTTCCGAGT 57.161 45.000 0.00 0.00 34.75 4.18
619 652 2.416747 TGAATGTGCTTCTTCCGAGTG 58.583 47.619 0.00 0.00 34.75 3.51
620 653 2.037121 TGAATGTGCTTCTTCCGAGTGA 59.963 45.455 0.00 0.00 34.75 3.41
621 654 2.839486 ATGTGCTTCTTCCGAGTGAA 57.161 45.000 0.00 0.00 0.00 3.18
634 667 7.061752 CTTCCGAGTGAAGTAAACCTTAATG 57.938 40.000 0.00 0.00 44.59 1.90
635 668 6.349243 TCCGAGTGAAGTAAACCTTAATGA 57.651 37.500 0.00 0.00 32.03 2.57
636 669 6.161381 TCCGAGTGAAGTAAACCTTAATGAC 58.839 40.000 0.00 0.00 32.03 3.06
637 670 6.014840 TCCGAGTGAAGTAAACCTTAATGACT 60.015 38.462 0.00 0.00 32.03 3.41
638 671 6.310711 CCGAGTGAAGTAAACCTTAATGACTC 59.689 42.308 0.00 0.00 32.03 3.36
639 672 6.310711 CGAGTGAAGTAAACCTTAATGACTCC 59.689 42.308 0.00 0.00 32.03 3.85
640 673 7.317722 AGTGAAGTAAACCTTAATGACTCCT 57.682 36.000 0.00 0.00 32.03 3.69
641 674 7.162082 AGTGAAGTAAACCTTAATGACTCCTG 58.838 38.462 0.00 0.00 32.03 3.86
642 675 7.016268 AGTGAAGTAAACCTTAATGACTCCTGA 59.984 37.037 0.00 0.00 32.03 3.86
643 676 7.660208 GTGAAGTAAACCTTAATGACTCCTGAA 59.340 37.037 0.00 0.00 32.03 3.02
644 677 8.383175 TGAAGTAAACCTTAATGACTCCTGAAT 58.617 33.333 0.00 0.00 32.03 2.57
645 678 8.567285 AAGTAAACCTTAATGACTCCTGAATG 57.433 34.615 0.00 0.00 0.00 2.67
646 679 7.690256 AGTAAACCTTAATGACTCCTGAATGT 58.310 34.615 0.00 0.00 0.00 2.71
647 680 8.822805 AGTAAACCTTAATGACTCCTGAATGTA 58.177 33.333 0.00 0.00 0.00 2.29
648 681 9.614792 GTAAACCTTAATGACTCCTGAATGTAT 57.385 33.333 0.00 0.00 0.00 2.29
650 683 9.533831 AAACCTTAATGACTCCTGAATGTATTT 57.466 29.630 0.00 0.00 0.00 1.40
651 684 8.511604 ACCTTAATGACTCCTGAATGTATTTG 57.488 34.615 0.00 0.00 0.00 2.32
652 685 8.109634 ACCTTAATGACTCCTGAATGTATTTGT 58.890 33.333 0.00 0.00 0.00 2.83
653 686 8.400947 CCTTAATGACTCCTGAATGTATTTGTG 58.599 37.037 0.00 0.00 0.00 3.33
654 687 9.166173 CTTAATGACTCCTGAATGTATTTGTGA 57.834 33.333 0.00 0.00 0.00 3.58
655 688 6.992063 ATGACTCCTGAATGTATTTGTGAC 57.008 37.500 0.00 0.00 0.00 3.67
656 689 5.245531 TGACTCCTGAATGTATTTGTGACC 58.754 41.667 0.00 0.00 0.00 4.02
657 690 4.589908 ACTCCTGAATGTATTTGTGACCC 58.410 43.478 0.00 0.00 0.00 4.46
658 691 4.289672 ACTCCTGAATGTATTTGTGACCCT 59.710 41.667 0.00 0.00 0.00 4.34
659 692 4.588899 TCCTGAATGTATTTGTGACCCTG 58.411 43.478 0.00 0.00 0.00 4.45
660 693 3.696051 CCTGAATGTATTTGTGACCCTGG 59.304 47.826 0.00 0.00 0.00 4.45
661 694 3.696045 TGAATGTATTTGTGACCCTGGG 58.304 45.455 12.28 12.28 0.00 4.45
662 695 2.826674 ATGTATTTGTGACCCTGGGG 57.173 50.000 18.88 7.87 42.03 4.96
672 705 4.910613 CCCTGGGGTCTTGGAGTA 57.089 61.111 4.27 0.00 0.00 2.59
673 706 3.341833 CCCTGGGGTCTTGGAGTAT 57.658 57.895 4.27 0.00 0.00 2.12
674 707 0.839946 CCCTGGGGTCTTGGAGTATG 59.160 60.000 4.27 0.00 0.00 2.39
675 708 1.625228 CCCTGGGGTCTTGGAGTATGA 60.625 57.143 4.27 0.00 0.00 2.15
676 709 2.412591 CCTGGGGTCTTGGAGTATGAT 58.587 52.381 0.00 0.00 0.00 2.45
677 710 2.105477 CCTGGGGTCTTGGAGTATGATG 59.895 54.545 0.00 0.00 0.00 3.07
678 711 2.774234 CTGGGGTCTTGGAGTATGATGT 59.226 50.000 0.00 0.00 0.00 3.06
679 712 3.189606 TGGGGTCTTGGAGTATGATGTT 58.810 45.455 0.00 0.00 0.00 2.71
680 713 4.367166 TGGGGTCTTGGAGTATGATGTTA 58.633 43.478 0.00 0.00 0.00 2.41
681 714 4.975147 TGGGGTCTTGGAGTATGATGTTAT 59.025 41.667 0.00 0.00 0.00 1.89
682 715 6.147473 TGGGGTCTTGGAGTATGATGTTATA 58.853 40.000 0.00 0.00 0.00 0.98
683 716 6.617784 TGGGGTCTTGGAGTATGATGTTATAA 59.382 38.462 0.00 0.00 0.00 0.98
684 717 7.162082 GGGGTCTTGGAGTATGATGTTATAAG 58.838 42.308 0.00 0.00 0.00 1.73
685 718 6.651225 GGGTCTTGGAGTATGATGTTATAAGC 59.349 42.308 0.00 0.00 0.00 3.09
686 719 6.651225 GGTCTTGGAGTATGATGTTATAAGCC 59.349 42.308 0.00 0.00 0.00 4.35
687 720 6.651225 GTCTTGGAGTATGATGTTATAAGCCC 59.349 42.308 0.00 0.00 0.00 5.19
688 721 5.499004 TGGAGTATGATGTTATAAGCCCC 57.501 43.478 0.00 0.00 0.00 5.80
689 722 4.020573 TGGAGTATGATGTTATAAGCCCCG 60.021 45.833 0.00 0.00 0.00 5.73
690 723 4.020485 GGAGTATGATGTTATAAGCCCCGT 60.020 45.833 0.00 0.00 0.00 5.28
691 724 4.894784 AGTATGATGTTATAAGCCCCGTG 58.105 43.478 0.00 0.00 0.00 4.94
692 725 1.961793 TGATGTTATAAGCCCCGTGC 58.038 50.000 0.00 0.00 41.71 5.34
703 736 4.308458 CCCGTGCGTGACCCAAGA 62.308 66.667 0.00 0.00 0.00 3.02
704 737 2.047274 CCGTGCGTGACCCAAGAT 60.047 61.111 0.00 0.00 0.00 2.40
705 738 2.390599 CCGTGCGTGACCCAAGATG 61.391 63.158 0.00 0.00 0.00 2.90
706 739 1.667830 CGTGCGTGACCCAAGATGT 60.668 57.895 0.00 0.00 0.00 3.06
707 740 0.389296 CGTGCGTGACCCAAGATGTA 60.389 55.000 0.00 0.00 0.00 2.29
708 741 1.076332 GTGCGTGACCCAAGATGTAC 58.924 55.000 0.00 0.00 0.00 2.90
709 742 0.389296 TGCGTGACCCAAGATGTACG 60.389 55.000 0.00 0.00 34.93 3.67
710 743 2.369870 CGTGACCCAAGATGTACGC 58.630 57.895 0.00 0.00 0.00 4.42
711 744 0.108804 CGTGACCCAAGATGTACGCT 60.109 55.000 0.00 0.00 0.00 5.07
712 745 1.671850 CGTGACCCAAGATGTACGCTT 60.672 52.381 0.00 0.00 0.00 4.68
713 746 1.732259 GTGACCCAAGATGTACGCTTG 59.268 52.381 16.97 16.97 41.77 4.01
775 808 2.058057 ACATGCGCAAATTTTTCGGTC 58.942 42.857 17.11 0.00 0.00 4.79
799 832 7.390718 GTCTACATGTAGTTTGAAAATGGGTCT 59.609 37.037 27.83 0.00 34.84 3.85
801 834 7.448748 ACATGTAGTTTGAAAATGGGTCTAC 57.551 36.000 0.00 0.00 0.00 2.59
847 880 5.509771 TCATTTGCATCGATATTCGGTTTG 58.490 37.500 0.00 0.00 40.88 2.93
859 892 0.181587 TCGGTTTGGCTTTCTGTCCA 59.818 50.000 0.00 0.00 0.00 4.02
866 899 4.320608 TTGGCTTTCTGTCCATTTTGAC 57.679 40.909 0.00 0.00 35.77 3.18
885 918 2.154462 ACTCAAACGGATTTCTGCAGG 58.846 47.619 15.13 0.00 0.00 4.85
1773 1838 2.015227 GCAGTGTGTTTGGTGGTGGG 62.015 60.000 0.00 0.00 0.00 4.61
2138 2205 4.765813 AAGTAGGCTCCCGCTTTATTTA 57.234 40.909 0.00 0.00 36.09 1.40
2306 2373 4.536295 TCCTCATGTCACAGATAGGGTA 57.464 45.455 3.63 0.00 0.00 3.69
2307 2374 4.878968 TCCTCATGTCACAGATAGGGTAA 58.121 43.478 3.63 0.00 0.00 2.85
2894 2963 4.766373 TCTCATGCCATTGTATGTTGTGTT 59.234 37.500 0.00 0.00 36.16 3.32
2912 2981 6.424176 TGTGTTACAAAATTTCGACAGTCA 57.576 33.333 0.41 0.00 0.00 3.41
3477 4434 5.584251 GCAACTTGGAACTTGGAAAATTTGA 59.416 36.000 0.00 0.00 0.00 2.69
3513 4470 4.023291 TCATGGACATGCTGTGTAGTCTA 58.977 43.478 7.41 0.00 42.36 2.59
3549 4506 1.352352 GGATAGGCAGTGGGCATACAT 59.648 52.381 0.00 0.00 42.24 2.29
4192 5182 5.435291 CTTATTCCTCTTGCAAGGAGATGT 58.565 41.667 25.73 15.27 46.02 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 43 6.007703 AGGATTGAAATTAGGTCAAACGGAA 58.992 36.000 0.00 0.00 38.44 4.30
364 390 2.977169 CACCGCAAAAAGTTTACATCGG 59.023 45.455 13.46 13.46 41.18 4.18
581 614 7.249858 CACATTCATTTGGACGTCATTTATCA 58.750 34.615 18.91 1.46 0.00 2.15
582 615 6.197096 GCACATTCATTTGGACGTCATTTATC 59.803 38.462 18.91 0.00 0.00 1.75
583 616 6.035843 GCACATTCATTTGGACGTCATTTAT 58.964 36.000 18.91 1.92 0.00 1.40
584 617 5.182950 AGCACATTCATTTGGACGTCATTTA 59.817 36.000 18.91 0.00 0.00 1.40
585 618 4.022068 AGCACATTCATTTGGACGTCATTT 60.022 37.500 18.91 0.00 0.00 2.32
586 619 3.507233 AGCACATTCATTTGGACGTCATT 59.493 39.130 18.91 0.00 0.00 2.57
587 620 3.084039 AGCACATTCATTTGGACGTCAT 58.916 40.909 18.91 0.00 0.00 3.06
588 621 2.503331 AGCACATTCATTTGGACGTCA 58.497 42.857 18.91 0.27 0.00 4.35
589 622 3.189287 AGAAGCACATTCATTTGGACGTC 59.811 43.478 7.13 7.13 40.67 4.34
590 623 3.149196 AGAAGCACATTCATTTGGACGT 58.851 40.909 0.00 0.00 40.67 4.34
591 624 3.837213 AGAAGCACATTCATTTGGACG 57.163 42.857 0.00 0.00 40.67 4.79
592 625 4.488879 GGAAGAAGCACATTCATTTGGAC 58.511 43.478 0.00 0.00 40.67 4.02
593 626 3.191162 CGGAAGAAGCACATTCATTTGGA 59.809 43.478 0.00 0.00 40.67 3.53
594 627 3.191162 TCGGAAGAAGCACATTCATTTGG 59.809 43.478 0.00 0.00 40.67 3.28
595 628 4.083110 ACTCGGAAGAAGCACATTCATTTG 60.083 41.667 0.00 0.00 40.67 2.32
596 629 4.074970 ACTCGGAAGAAGCACATTCATTT 58.925 39.130 0.00 0.00 40.67 2.32
597 630 3.438087 CACTCGGAAGAAGCACATTCATT 59.562 43.478 0.00 0.00 40.67 2.57
598 631 3.005554 CACTCGGAAGAAGCACATTCAT 58.994 45.455 0.00 0.00 40.67 2.57
599 632 2.037121 TCACTCGGAAGAAGCACATTCA 59.963 45.455 0.00 0.00 40.67 2.57
600 633 2.688507 TCACTCGGAAGAAGCACATTC 58.311 47.619 0.00 0.00 41.32 2.67
601 634 2.839486 TCACTCGGAAGAAGCACATT 57.161 45.000 0.00 0.00 41.32 2.71
602 635 2.839486 TTCACTCGGAAGAAGCACAT 57.161 45.000 0.00 0.00 41.32 3.21
611 644 6.647895 GTCATTAAGGTTTACTTCACTCGGAA 59.352 38.462 0.00 0.00 40.64 4.30
612 645 6.014840 AGTCATTAAGGTTTACTTCACTCGGA 60.015 38.462 0.00 0.00 40.64 4.55
613 646 6.164176 AGTCATTAAGGTTTACTTCACTCGG 58.836 40.000 0.00 0.00 40.64 4.63
614 647 6.310711 GGAGTCATTAAGGTTTACTTCACTCG 59.689 42.308 0.00 0.00 40.64 4.18
615 648 7.332182 CAGGAGTCATTAAGGTTTACTTCACTC 59.668 40.741 0.00 0.00 40.64 3.51
616 649 7.016268 TCAGGAGTCATTAAGGTTTACTTCACT 59.984 37.037 0.00 0.00 40.64 3.41
617 650 7.159372 TCAGGAGTCATTAAGGTTTACTTCAC 58.841 38.462 0.00 0.00 40.64 3.18
618 651 7.311092 TCAGGAGTCATTAAGGTTTACTTCA 57.689 36.000 0.00 0.00 40.64 3.02
619 652 8.669243 CATTCAGGAGTCATTAAGGTTTACTTC 58.331 37.037 0.00 0.00 40.64 3.01
620 653 8.164070 ACATTCAGGAGTCATTAAGGTTTACTT 58.836 33.333 0.00 0.00 43.28 2.24
621 654 7.690256 ACATTCAGGAGTCATTAAGGTTTACT 58.310 34.615 0.00 0.00 0.00 2.24
622 655 7.923414 ACATTCAGGAGTCATTAAGGTTTAC 57.077 36.000 0.00 0.00 0.00 2.01
624 657 9.533831 AAATACATTCAGGAGTCATTAAGGTTT 57.466 29.630 0.00 0.00 0.00 3.27
625 658 8.960591 CAAATACATTCAGGAGTCATTAAGGTT 58.039 33.333 0.00 0.00 0.00 3.50
626 659 8.109634 ACAAATACATTCAGGAGTCATTAAGGT 58.890 33.333 0.00 0.00 0.00 3.50
627 660 8.400947 CACAAATACATTCAGGAGTCATTAAGG 58.599 37.037 0.00 0.00 0.00 2.69
628 661 9.166173 TCACAAATACATTCAGGAGTCATTAAG 57.834 33.333 0.00 0.00 0.00 1.85
629 662 8.946085 GTCACAAATACATTCAGGAGTCATTAA 58.054 33.333 0.00 0.00 0.00 1.40
630 663 7.552687 GGTCACAAATACATTCAGGAGTCATTA 59.447 37.037 0.00 0.00 0.00 1.90
631 664 6.375455 GGTCACAAATACATTCAGGAGTCATT 59.625 38.462 0.00 0.00 0.00 2.57
632 665 5.882557 GGTCACAAATACATTCAGGAGTCAT 59.117 40.000 0.00 0.00 0.00 3.06
633 666 5.245531 GGTCACAAATACATTCAGGAGTCA 58.754 41.667 0.00 0.00 0.00 3.41
634 667 4.636206 GGGTCACAAATACATTCAGGAGTC 59.364 45.833 0.00 0.00 0.00 3.36
635 668 4.289672 AGGGTCACAAATACATTCAGGAGT 59.710 41.667 0.00 0.00 0.00 3.85
636 669 4.637534 CAGGGTCACAAATACATTCAGGAG 59.362 45.833 0.00 0.00 0.00 3.69
637 670 4.567537 CCAGGGTCACAAATACATTCAGGA 60.568 45.833 0.00 0.00 0.00 3.86
638 671 3.696051 CCAGGGTCACAAATACATTCAGG 59.304 47.826 0.00 0.00 0.00 3.86
639 672 3.696051 CCCAGGGTCACAAATACATTCAG 59.304 47.826 0.00 0.00 0.00 3.02
640 673 3.563261 CCCCAGGGTCACAAATACATTCA 60.563 47.826 4.22 0.00 0.00 2.57
641 674 3.023832 CCCCAGGGTCACAAATACATTC 58.976 50.000 4.22 0.00 0.00 2.67
642 675 3.100207 CCCCAGGGTCACAAATACATT 57.900 47.619 4.22 0.00 0.00 2.71
643 676 2.826674 CCCCAGGGTCACAAATACAT 57.173 50.000 4.22 0.00 0.00 2.29
655 688 0.839946 CATACTCCAAGACCCCAGGG 59.160 60.000 0.00 0.00 42.03 4.45
656 689 1.879575 TCATACTCCAAGACCCCAGG 58.120 55.000 0.00 0.00 0.00 4.45
657 690 2.774234 ACATCATACTCCAAGACCCCAG 59.226 50.000 0.00 0.00 0.00 4.45
658 691 2.845659 ACATCATACTCCAAGACCCCA 58.154 47.619 0.00 0.00 0.00 4.96
659 692 3.933861 AACATCATACTCCAAGACCCC 57.066 47.619 0.00 0.00 0.00 4.95
660 693 6.651225 GCTTATAACATCATACTCCAAGACCC 59.349 42.308 0.00 0.00 0.00 4.46
661 694 6.651225 GGCTTATAACATCATACTCCAAGACC 59.349 42.308 0.00 0.00 0.00 3.85
662 695 6.651225 GGGCTTATAACATCATACTCCAAGAC 59.349 42.308 0.00 0.00 0.00 3.01
663 696 6.239887 GGGGCTTATAACATCATACTCCAAGA 60.240 42.308 0.00 0.00 0.00 3.02
664 697 5.940470 GGGGCTTATAACATCATACTCCAAG 59.060 44.000 0.00 0.00 0.00 3.61
665 698 5.512404 CGGGGCTTATAACATCATACTCCAA 60.512 44.000 0.00 0.00 0.00 3.53
666 699 4.020573 CGGGGCTTATAACATCATACTCCA 60.021 45.833 0.00 0.00 0.00 3.86
667 700 4.020485 ACGGGGCTTATAACATCATACTCC 60.020 45.833 0.00 0.00 0.00 3.85
668 701 4.929808 CACGGGGCTTATAACATCATACTC 59.070 45.833 0.00 0.00 0.00 2.59
669 702 4.802918 GCACGGGGCTTATAACATCATACT 60.803 45.833 0.00 0.00 40.25 2.12
670 703 3.435671 GCACGGGGCTTATAACATCATAC 59.564 47.826 0.00 0.00 40.25 2.39
671 704 3.670625 GCACGGGGCTTATAACATCATA 58.329 45.455 0.00 0.00 40.25 2.15
672 705 2.504367 GCACGGGGCTTATAACATCAT 58.496 47.619 0.00 0.00 40.25 2.45
673 706 1.808512 CGCACGGGGCTTATAACATCA 60.809 52.381 0.00 0.00 41.67 3.07
674 707 0.865769 CGCACGGGGCTTATAACATC 59.134 55.000 0.00 0.00 41.67 3.06
675 708 0.179468 ACGCACGGGGCTTATAACAT 59.821 50.000 0.00 0.00 41.67 2.71
676 709 0.741574 CACGCACGGGGCTTATAACA 60.742 55.000 0.00 0.00 41.67 2.41
677 710 0.460635 TCACGCACGGGGCTTATAAC 60.461 55.000 0.00 0.00 41.67 1.89
678 711 0.460635 GTCACGCACGGGGCTTATAA 60.461 55.000 0.00 0.00 41.67 0.98
679 712 1.142314 GTCACGCACGGGGCTTATA 59.858 57.895 0.00 0.00 41.67 0.98
680 713 2.125269 GTCACGCACGGGGCTTAT 60.125 61.111 0.00 0.00 41.67 1.73
681 714 4.382320 GGTCACGCACGGGGCTTA 62.382 66.667 0.00 0.00 41.67 3.09
686 719 3.605749 ATCTTGGGTCACGCACGGG 62.606 63.158 0.00 0.00 0.00 5.28
687 720 2.047274 ATCTTGGGTCACGCACGG 60.047 61.111 0.00 0.00 0.00 4.94
688 721 0.389296 TACATCTTGGGTCACGCACG 60.389 55.000 0.00 0.00 0.00 5.34
689 722 1.076332 GTACATCTTGGGTCACGCAC 58.924 55.000 0.00 0.00 0.00 5.34
690 723 0.389296 CGTACATCTTGGGTCACGCA 60.389 55.000 0.00 0.00 0.00 5.24
691 724 1.693083 GCGTACATCTTGGGTCACGC 61.693 60.000 0.92 0.92 46.31 5.34
692 725 0.108804 AGCGTACATCTTGGGTCACG 60.109 55.000 0.00 0.00 0.00 4.35
693 726 1.732259 CAAGCGTACATCTTGGGTCAC 59.268 52.381 14.00 0.00 37.77 3.67
694 727 2.093306 CAAGCGTACATCTTGGGTCA 57.907 50.000 14.00 0.00 37.77 4.02
699 732 2.676342 GGGTTACCAAGCGTACATCTTG 59.324 50.000 14.59 14.59 40.31 3.02
700 733 2.570302 AGGGTTACCAAGCGTACATCTT 59.430 45.455 2.98 0.00 40.13 2.40
701 734 2.185387 AGGGTTACCAAGCGTACATCT 58.815 47.619 2.98 0.00 40.13 2.90
702 735 2.685850 AGGGTTACCAAGCGTACATC 57.314 50.000 2.98 0.00 40.13 3.06
703 736 3.531934 GTAGGGTTACCAAGCGTACAT 57.468 47.619 2.98 0.00 44.86 2.29
775 808 7.687941 AGACCCATTTTCAAACTACATGTAG 57.312 36.000 27.66 27.66 39.04 2.74
799 832 3.250521 GGTTGTTCGTTTTTCATCCCGTA 59.749 43.478 0.00 0.00 0.00 4.02
801 834 2.033550 TGGTTGTTCGTTTTTCATCCCG 59.966 45.455 0.00 0.00 0.00 5.14
847 880 3.569701 TGAGTCAAAATGGACAGAAAGCC 59.430 43.478 0.00 0.00 40.29 4.35
859 892 5.221224 TGCAGAAATCCGTTTGAGTCAAAAT 60.221 36.000 19.63 7.59 35.03 1.82
866 899 1.135575 GCCTGCAGAAATCCGTTTGAG 60.136 52.381 17.39 0.00 0.00 3.02
885 918 0.323087 AACCCGTCTACCCATTTGGC 60.323 55.000 0.00 0.00 37.83 4.52
1773 1838 0.788391 CCTAGCGTCAACGAAACCAC 59.212 55.000 6.75 0.00 43.02 4.16
2138 2205 3.514645 GATTTTGGACAAGCATCGCAAT 58.485 40.909 0.00 0.00 0.00 3.56
2344 2413 6.192970 AGTATCTTCCACTTCATTATGGGG 57.807 41.667 0.00 0.00 36.56 4.96
2894 2963 5.818336 TCAAGGTGACTGTCGAAATTTTGTA 59.182 36.000 5.33 0.00 42.68 2.41
2912 2981 6.600822 CAGTGGATATGAACATTTCTCAAGGT 59.399 38.462 0.00 0.00 0.00 3.50
3477 4434 3.072915 TGTCCATGAGAACAACCACAGAT 59.927 43.478 0.00 0.00 0.00 2.90
3549 4506 4.202141 CCCTGTTCAAGCAGTTTGATTTCA 60.202 41.667 0.00 1.29 44.90 2.69


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

AutoCloner maintained by Alex Coulton.