Multiple sequence alignment - TraesCS2B01G458300

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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 TraesCS2B01G458300 chr2B 100.000 3622 0 0 1 3622 652850454 652846833 0 6689
1 TraesCS2B01G458300 chr4A 99.431 2986 17 0 637 3622 683252011 683249026 0 5421
2 TraesCS2B01G458300 chr1A 99.263 2987 22 0 636 3622 320479734 320476748 0 5395
3 TraesCS2B01G458300 chr1A 97.926 2556 22 11 636 3160 63763701 63761146 0 4397
4 TraesCS2B01G458300 chr1A 98.877 1069 11 1 2554 3622 63761105 63760038 0 1906
5 TraesCS2B01G458300 chr5B 98.829 2989 20 2 637 3610 56906309 56909297 0 5312
6 TraesCS2B01G458300 chr5B 98.594 2987 31 2 637 3622 514841171 514844147 0 5273
7 TraesCS2B01G458300 chr1B 98.178 3018 23 12 637 3622 167930126 167927109 0 5240
8 TraesCS2B01G458300 chr4B 98.043 2555 19 6 637 3160 139742624 139745178 0 4412
9 TraesCS2B01G458300 chr4B 98.323 656 10 1 2967 3622 139745083 139745737 0 1149
10 TraesCS2B01G458300 chr5A 97.965 2555 21 11 637 3160 346306297 346308851 0 4401
11 TraesCS2B01G458300 chr5A 98.628 656 8 1 2967 3622 346308756 346309410 0 1160
12 TraesCS2B01G458300 chr7B 97.116 2566 29 13 637 3160 554160476 554163038 0 4287
13 TraesCS2B01G458300 chr2A 97.498 2398 26 13 626 2992 672536844 672539238 0 4065
14 TraesCS2B01G458300 chr2A 89.576 566 23 16 9 570 687037225 687036692 0 686
15 TraesCS2B01G458300 chr6D 88.253 1328 106 28 1840 3152 400559117 400560409 0 1543
16 TraesCS2B01G458300 chr7D 88.049 1297 104 29 1840 3120 1881420 1880159 0 1489
17 TraesCS2B01G458300 chr3A 98.018 656 12 1 2967 3622 199414517 199415171 0 1138
18 TraesCS2B01G458300 chrUn 99.176 607 5 0 2554 3160 352841261 352841867 0 1094
19 TraesCS2B01G458300 chrUn 99.176 607 5 0 2554 3160 406745888 406746494 0 1094
20 TraesCS2B01G458300 chr2D 90.047 643 24 16 2 612 545952771 545952137 0 797


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 TraesCS2B01G458300 chr2B 652846833 652850454 3621 True 6689.0 6689 100.0000 1 3622 1 chr2B.!!$R1 3621
1 TraesCS2B01G458300 chr4A 683249026 683252011 2985 True 5421.0 5421 99.4310 637 3622 1 chr4A.!!$R1 2985
2 TraesCS2B01G458300 chr1A 320476748 320479734 2986 True 5395.0 5395 99.2630 636 3622 1 chr1A.!!$R1 2986
3 TraesCS2B01G458300 chr1A 63760038 63763701 3663 True 3151.5 4397 98.4015 636 3622 2 chr1A.!!$R2 2986
4 TraesCS2B01G458300 chr5B 56906309 56909297 2988 False 5312.0 5312 98.8290 637 3610 1 chr5B.!!$F1 2973
5 TraesCS2B01G458300 chr5B 514841171 514844147 2976 False 5273.0 5273 98.5940 637 3622 1 chr5B.!!$F2 2985
6 TraesCS2B01G458300 chr1B 167927109 167930126 3017 True 5240.0 5240 98.1780 637 3622 1 chr1B.!!$R1 2985
7 TraesCS2B01G458300 chr4B 139742624 139745737 3113 False 2780.5 4412 98.1830 637 3622 2 chr4B.!!$F1 2985
8 TraesCS2B01G458300 chr5A 346306297 346309410 3113 False 2780.5 4401 98.2965 637 3622 2 chr5A.!!$F1 2985
9 TraesCS2B01G458300 chr7B 554160476 554163038 2562 False 4287.0 4287 97.1160 637 3160 1 chr7B.!!$F1 2523
10 TraesCS2B01G458300 chr2A 672536844 672539238 2394 False 4065.0 4065 97.4980 626 2992 1 chr2A.!!$F1 2366
11 TraesCS2B01G458300 chr2A 687036692 687037225 533 True 686.0 686 89.5760 9 570 1 chr2A.!!$R1 561
12 TraesCS2B01G458300 chr6D 400559117 400560409 1292 False 1543.0 1543 88.2530 1840 3152 1 chr6D.!!$F1 1312
13 TraesCS2B01G458300 chr7D 1880159 1881420 1261 True 1489.0 1489 88.0490 1840 3120 1 chr7D.!!$R1 1280
14 TraesCS2B01G458300 chr3A 199414517 199415171 654 False 1138.0 1138 98.0180 2967 3622 1 chr3A.!!$F1 655
15 TraesCS2B01G458300 chrUn 352841261 352841867 606 False 1094.0 1094 99.1760 2554 3160 1 chrUn.!!$F1 606
16 TraesCS2B01G458300 chrUn 406745888 406746494 606 False 1094.0 1094 99.1760 2554 3160 1 chrUn.!!$F2 606
17 TraesCS2B01G458300 chr2D 545952137 545952771 634 True 797.0 797 90.0470 2 612 1 chr2D.!!$R1 610

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
577 601 0.038166 ACGCCATCCCAAACATGTCT 59.962 50.000 0.0 0.0 0.0 3.41 F
603 627 0.449786 CAAGTCGTTGGTTGCACACA 59.550 50.000 0.0 0.0 0.0 3.72 F
604 628 1.135546 CAAGTCGTTGGTTGCACACAA 60.136 47.619 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2371 2411 1.963515 ACTTGAGGTTTTGGATGGCAC 59.036 47.619 0.0 0.0 0.00 5.01 R
2566 2636 4.017958 TCTTCTCCTTCAGCTTCTCCTCTA 60.018 45.833 0.0 0.0 0.00 2.43 R
2751 2821 8.904834 AGGATGAATAGCATATTAGTAGGTACG 58.095 37.037 0.0 0.0 37.34 3.67 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
26 27 4.755507 TGCAATGCATGGGGGCGA 62.756 61.111 2.72 0.00 36.28 5.54
54 55 5.106673 GCTGCTAGAACGAATAACTTTTGGT 60.107 40.000 0.00 0.00 0.00 3.67
61 62 5.622770 ACGAATAACTTTTGGTCCATCAC 57.377 39.130 0.00 0.00 0.00 3.06
204 214 1.843421 CCCAAAGACCACCTCACCA 59.157 57.895 0.00 0.00 0.00 4.17
211 221 2.240162 GACCACCTCACCACCGGATC 62.240 65.000 9.46 0.00 0.00 3.36
384 402 3.906720 TCACCCAATCTTAGCTGTACC 57.093 47.619 0.00 0.00 0.00 3.34
402 426 6.594159 GCTGTACCAGTACATGTTGATAAGTT 59.406 38.462 2.30 0.00 44.15 2.66
403 427 7.413000 GCTGTACCAGTACATGTTGATAAGTTG 60.413 40.741 2.30 0.00 44.15 3.16
493 517 7.589958 TTGAAATTTTGAGCTAGGTTTGGTA 57.410 32.000 0.00 0.00 0.00 3.25
503 527 6.666546 TGAGCTAGGTTTGGTAATGTACTACT 59.333 38.462 0.00 0.00 0.00 2.57
504 528 7.835682 TGAGCTAGGTTTGGTAATGTACTACTA 59.164 37.037 0.00 0.00 0.00 1.82
505 529 8.005192 AGCTAGGTTTGGTAATGTACTACTAC 57.995 38.462 0.00 0.00 0.00 2.73
506 530 7.069208 AGCTAGGTTTGGTAATGTACTACTACC 59.931 40.741 10.13 10.13 36.42 3.18
507 531 7.147846 GCTAGGTTTGGTAATGTACTACTACCA 60.148 40.741 13.86 13.86 42.60 3.25
520 544 8.762481 TGTACTACTACCATGATCTTGTACAT 57.238 34.615 0.00 0.00 34.72 2.29
521 545 9.856162 TGTACTACTACCATGATCTTGTACATA 57.144 33.333 0.00 0.00 34.72 2.29
523 547 8.762481 ACTACTACCATGATCTTGTACATACA 57.238 34.615 0.00 0.00 0.00 2.29
524 548 8.851145 ACTACTACCATGATCTTGTACATACAG 58.149 37.037 0.00 0.00 37.52 2.74
525 549 7.898014 ACTACCATGATCTTGTACATACAGA 57.102 36.000 0.00 0.00 37.52 3.41
526 550 7.717568 ACTACCATGATCTTGTACATACAGAC 58.282 38.462 0.00 0.00 37.52 3.51
527 551 5.918608 ACCATGATCTTGTACATACAGACC 58.081 41.667 0.00 0.00 37.52 3.85
528 552 4.984785 CCATGATCTTGTACATACAGACCG 59.015 45.833 0.00 0.00 37.52 4.79
529 553 5.451937 CCATGATCTTGTACATACAGACCGT 60.452 44.000 0.00 0.00 37.52 4.83
530 554 6.238925 CCATGATCTTGTACATACAGACCGTA 60.239 42.308 0.00 0.00 37.52 4.02
531 555 6.127810 TGATCTTGTACATACAGACCGTAC 57.872 41.667 0.00 0.00 37.52 3.67
532 556 5.884232 TGATCTTGTACATACAGACCGTACT 59.116 40.000 0.00 0.00 37.52 2.73
533 557 6.376299 TGATCTTGTACATACAGACCGTACTT 59.624 38.462 0.00 0.00 37.52 2.24
534 558 6.579666 TCTTGTACATACAGACCGTACTTT 57.420 37.500 0.00 0.00 37.52 2.66
535 559 6.384224 TCTTGTACATACAGACCGTACTTTG 58.616 40.000 0.00 0.00 37.52 2.77
536 560 4.487948 TGTACATACAGACCGTACTTTGC 58.512 43.478 0.00 0.00 37.11 3.68
537 561 3.671008 ACATACAGACCGTACTTTGCA 57.329 42.857 0.00 0.00 31.27 4.08
538 562 4.202245 ACATACAGACCGTACTTTGCAT 57.798 40.909 0.00 0.00 31.27 3.96
539 563 3.932710 ACATACAGACCGTACTTTGCATG 59.067 43.478 0.00 0.00 31.27 4.06
540 564 2.543777 ACAGACCGTACTTTGCATGT 57.456 45.000 0.00 0.00 0.00 3.21
541 565 2.413837 ACAGACCGTACTTTGCATGTC 58.586 47.619 0.00 0.00 0.00 3.06
542 566 1.732259 CAGACCGTACTTTGCATGTCC 59.268 52.381 0.00 0.00 0.00 4.02
543 567 1.346395 AGACCGTACTTTGCATGTCCA 59.654 47.619 0.00 0.00 0.00 4.02
544 568 1.463444 GACCGTACTTTGCATGTCCAC 59.537 52.381 0.00 0.00 0.00 4.02
545 569 1.202710 ACCGTACTTTGCATGTCCACA 60.203 47.619 0.00 0.00 0.00 4.17
546 570 2.083774 CCGTACTTTGCATGTCCACAT 58.916 47.619 0.00 0.00 36.96 3.21
554 578 1.010462 CATGTCCACATGCGATGCG 60.010 57.895 6.75 0.00 45.92 4.73
555 579 1.153389 ATGTCCACATGCGATGCGA 60.153 52.632 0.00 0.00 34.83 5.10
556 580 1.156034 ATGTCCACATGCGATGCGAG 61.156 55.000 0.00 0.00 34.83 5.03
557 581 2.202919 TCCACATGCGATGCGAGG 60.203 61.111 0.00 0.00 0.00 4.63
558 582 2.202919 CCACATGCGATGCGAGGA 60.203 61.111 0.00 0.00 0.00 3.71
559 583 2.528743 CCACATGCGATGCGAGGAC 61.529 63.158 0.00 0.00 0.00 3.85
560 584 2.583319 ACATGCGATGCGAGGACG 60.583 61.111 0.00 0.00 42.93 4.79
573 597 4.337013 GGACGCCATCCCAAACAT 57.663 55.556 0.00 0.00 42.46 2.71
574 598 1.809207 GGACGCCATCCCAAACATG 59.191 57.895 0.00 0.00 42.46 3.21
575 599 0.965363 GGACGCCATCCCAAACATGT 60.965 55.000 0.00 0.00 42.46 3.21
576 600 0.451783 GACGCCATCCCAAACATGTC 59.548 55.000 0.00 0.00 0.00 3.06
577 601 0.038166 ACGCCATCCCAAACATGTCT 59.962 50.000 0.00 0.00 0.00 3.41
578 602 1.176527 CGCCATCCCAAACATGTCTT 58.823 50.000 0.00 0.00 0.00 3.01
579 603 1.135315 CGCCATCCCAAACATGTCTTG 60.135 52.381 0.00 6.32 0.00 3.02
580 604 1.895131 GCCATCCCAAACATGTCTTGT 59.105 47.619 0.00 0.00 41.53 3.16
581 605 2.094545 GCCATCCCAAACATGTCTTGTC 60.095 50.000 0.00 0.00 37.68 3.18
582 606 3.156293 CCATCCCAAACATGTCTTGTCA 58.844 45.455 0.00 0.00 37.68 3.58
583 607 3.057315 CCATCCCAAACATGTCTTGTCAC 60.057 47.826 0.00 0.00 37.68 3.67
584 608 2.582052 TCCCAAACATGTCTTGTCACC 58.418 47.619 0.00 0.00 37.68 4.02
585 609 2.092158 TCCCAAACATGTCTTGTCACCA 60.092 45.455 0.00 0.00 37.68 4.17
586 610 2.692557 CCCAAACATGTCTTGTCACCAA 59.307 45.455 0.00 0.00 37.68 3.67
588 612 3.381272 CCAAACATGTCTTGTCACCAAGT 59.619 43.478 0.00 0.00 46.70 3.16
589 613 4.498009 CCAAACATGTCTTGTCACCAAGTC 60.498 45.833 0.00 0.00 46.70 3.01
590 614 2.483876 ACATGTCTTGTCACCAAGTCG 58.516 47.619 0.00 0.00 46.70 4.18
591 615 2.158957 ACATGTCTTGTCACCAAGTCGT 60.159 45.455 0.00 0.00 46.70 4.34
592 616 2.684001 TGTCTTGTCACCAAGTCGTT 57.316 45.000 2.69 0.00 46.70 3.85
593 617 2.276201 TGTCTTGTCACCAAGTCGTTG 58.724 47.619 2.69 0.00 46.70 4.10
602 626 3.234368 CAAGTCGTTGGTTGCACAC 57.766 52.632 0.00 0.00 0.00 3.82
603 627 0.449786 CAAGTCGTTGGTTGCACACA 59.550 50.000 0.00 0.00 0.00 3.72
604 628 1.135546 CAAGTCGTTGGTTGCACACAA 60.136 47.619 0.00 0.00 0.00 3.33
618 642 6.816134 TTGCACACAACACTATCAATACAT 57.184 33.333 0.00 0.00 0.00 2.29
619 643 6.421377 TGCACACAACACTATCAATACATC 57.579 37.500 0.00 0.00 0.00 3.06
620 644 5.353956 TGCACACAACACTATCAATACATCC 59.646 40.000 0.00 0.00 0.00 3.51
621 645 5.353956 GCACACAACACTATCAATACATCCA 59.646 40.000 0.00 0.00 0.00 3.41
622 646 6.675486 GCACACAACACTATCAATACATCCAC 60.675 42.308 0.00 0.00 0.00 4.02
623 647 6.371271 CACACAACACTATCAATACATCCACA 59.629 38.462 0.00 0.00 0.00 4.17
624 648 7.066163 CACACAACACTATCAATACATCCACAT 59.934 37.037 0.00 0.00 0.00 3.21
625 649 7.280876 ACACAACACTATCAATACATCCACATC 59.719 37.037 0.00 0.00 0.00 3.06
626 650 7.496920 CACAACACTATCAATACATCCACATCT 59.503 37.037 0.00 0.00 0.00 2.90
627 651 7.712639 ACAACACTATCAATACATCCACATCTC 59.287 37.037 0.00 0.00 0.00 2.75
628 652 7.609097 ACACTATCAATACATCCACATCTCT 57.391 36.000 0.00 0.00 0.00 3.10
629 653 7.665690 ACACTATCAATACATCCACATCTCTC 58.334 38.462 0.00 0.00 0.00 3.20
630 654 6.805760 CACTATCAATACATCCACATCTCTCG 59.194 42.308 0.00 0.00 0.00 4.04
631 655 5.798125 ATCAATACATCCACATCTCTCGT 57.202 39.130 0.00 0.00 0.00 4.18
632 656 6.901081 ATCAATACATCCACATCTCTCGTA 57.099 37.500 0.00 0.00 0.00 3.43
633 657 6.073327 TCAATACATCCACATCTCTCGTAC 57.927 41.667 0.00 0.00 0.00 3.67
634 658 5.592688 TCAATACATCCACATCTCTCGTACA 59.407 40.000 0.00 0.00 0.00 2.90
650 674 6.163476 TCTCGTACAAGAGTAAATTGCACAT 58.837 36.000 0.00 0.00 39.21 3.21
2566 2636 5.045286 ACCATAAAGAAGAGCTCATGAAGGT 60.045 40.000 17.77 10.01 38.79 3.50
2751 2821 5.438761 AATTGTGAACTCTGGCTGTTTAC 57.561 39.130 0.00 0.00 35.41 2.01
3041 3250 1.707989 TGATGGCTTTAGGTGGTTCCA 59.292 47.619 0.00 0.00 39.02 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.755507 TCGCCCCCATGCATTGCA 62.756 61.111 14.72 14.72 44.86 4.08
10 11 3.908081 CTCGCCCCCATGCATTGC 61.908 66.667 0.00 0.46 0.00 3.56
11 12 3.221389 CCTCGCCCCCATGCATTG 61.221 66.667 0.00 0.00 0.00 2.82
12 13 4.528039 CCCTCGCCCCCATGCATT 62.528 66.667 0.00 0.00 0.00 3.56
23 24 2.202946 GTTCTAGCAGCCCCTCGC 60.203 66.667 0.00 0.00 37.98 5.03
26 27 1.789523 TATTCGTTCTAGCAGCCCCT 58.210 50.000 0.00 0.00 0.00 4.79
36 37 6.001460 TGATGGACCAAAAGTTATTCGTTCT 58.999 36.000 0.00 0.00 0.00 3.01
54 55 5.698104 AGATGCAGATATTTTGGTGATGGA 58.302 37.500 0.00 0.00 0.00 3.41
193 198 2.203938 ATCCGGTGGTGAGGTGGT 60.204 61.111 0.00 0.00 0.00 4.16
211 221 0.532862 GTGCCCTCATCCGGTGTATG 60.533 60.000 0.00 0.00 0.00 2.39
384 402 9.973246 GATTACACAACTTATCAACATGTACTG 57.027 33.333 0.00 0.00 0.00 2.74
402 426 8.236586 GCATAAAGTTGACTCATTGATTACACA 58.763 33.333 0.00 0.00 0.00 3.72
403 427 8.454106 AGCATAAAGTTGACTCATTGATTACAC 58.546 33.333 0.00 0.00 0.00 2.90
493 517 9.197306 TGTACAAGATCATGGTAGTAGTACATT 57.803 33.333 9.89 0.00 35.69 2.71
503 527 6.238925 CGGTCTGTATGTACAAGATCATGGTA 60.239 42.308 0.00 0.00 35.50 3.25
504 528 5.451937 CGGTCTGTATGTACAAGATCATGGT 60.452 44.000 0.00 0.00 35.50 3.55
505 529 4.984785 CGGTCTGTATGTACAAGATCATGG 59.015 45.833 0.00 0.00 35.50 3.66
506 530 5.592054 ACGGTCTGTATGTACAAGATCATG 58.408 41.667 0.00 0.00 35.50 3.07
507 531 5.854010 ACGGTCTGTATGTACAAGATCAT 57.146 39.130 0.00 0.00 35.50 2.45
520 544 3.581755 GACATGCAAAGTACGGTCTGTA 58.418 45.455 0.00 0.00 0.00 2.74
521 545 2.413837 GACATGCAAAGTACGGTCTGT 58.586 47.619 0.00 0.00 0.00 3.41
522 546 1.732259 GGACATGCAAAGTACGGTCTG 59.268 52.381 0.00 0.00 0.00 3.51
523 547 1.346395 TGGACATGCAAAGTACGGTCT 59.654 47.619 0.00 0.00 0.00 3.85
524 548 1.463444 GTGGACATGCAAAGTACGGTC 59.537 52.381 0.00 0.00 0.00 4.79
525 549 1.202710 TGTGGACATGCAAAGTACGGT 60.203 47.619 0.00 0.00 0.00 4.83
526 550 1.518325 TGTGGACATGCAAAGTACGG 58.482 50.000 0.00 0.00 0.00 4.02
527 551 3.121559 CATGTGGACATGCAAAGTACG 57.878 47.619 6.82 0.00 45.92 3.67
537 561 1.153389 TCGCATCGCATGTGGACAT 60.153 52.632 6.39 0.00 41.01 3.06
538 562 1.810853 CTCGCATCGCATGTGGACA 60.811 57.895 6.39 0.00 41.01 4.02
539 563 2.528743 CCTCGCATCGCATGTGGAC 61.529 63.158 6.39 0.00 41.01 4.02
540 564 2.202919 CCTCGCATCGCATGTGGA 60.203 61.111 6.39 0.00 41.01 4.02
541 565 2.202919 TCCTCGCATCGCATGTGG 60.203 61.111 6.39 0.00 41.01 4.17
542 566 2.863853 CGTCCTCGCATCGCATGTG 61.864 63.158 0.00 0.00 41.98 3.21
543 567 2.583319 CGTCCTCGCATCGCATGT 60.583 61.111 0.00 0.00 0.00 3.21
553 577 2.106683 GTTTGGGATGGCGTCCTCG 61.107 63.158 24.35 0.00 46.91 4.63
554 578 0.394352 ATGTTTGGGATGGCGTCCTC 60.394 55.000 24.35 15.08 46.91 3.71
555 579 0.680921 CATGTTTGGGATGGCGTCCT 60.681 55.000 24.35 1.18 46.91 3.85
557 581 0.451783 GACATGTTTGGGATGGCGTC 59.548 55.000 0.00 0.00 0.00 5.19
558 582 0.038166 AGACATGTTTGGGATGGCGT 59.962 50.000 0.00 0.00 33.67 5.68
559 583 1.135315 CAAGACATGTTTGGGATGGCG 60.135 52.381 0.00 0.00 33.67 5.69
560 584 1.895131 ACAAGACATGTTTGGGATGGC 59.105 47.619 18.59 0.00 40.06 4.40
561 585 3.057315 GTGACAAGACATGTTTGGGATGG 60.057 47.826 18.59 1.56 44.12 3.51
562 586 3.057315 GGTGACAAGACATGTTTGGGATG 60.057 47.826 18.59 5.36 44.12 3.51
563 587 3.157087 GGTGACAAGACATGTTTGGGAT 58.843 45.455 18.59 4.76 44.12 3.85
564 588 2.092158 TGGTGACAAGACATGTTTGGGA 60.092 45.455 18.59 7.37 44.12 4.37
565 589 2.305928 TGGTGACAAGACATGTTTGGG 58.694 47.619 18.59 6.33 44.12 4.12
584 608 0.449786 TGTGTGCAACCAACGACTTG 59.550 50.000 0.00 0.00 34.36 3.16
585 609 1.135517 GTTGTGTGCAACCAACGACTT 60.136 47.619 12.39 0.00 46.81 3.01
586 610 0.450184 GTTGTGTGCAACCAACGACT 59.550 50.000 12.39 0.00 46.81 4.18
587 611 2.938403 GTTGTGTGCAACCAACGAC 58.062 52.632 12.39 4.82 46.81 4.34
595 619 6.128035 GGATGTATTGATAGTGTTGTGTGCAA 60.128 38.462 0.00 0.00 0.00 4.08
596 620 5.353956 GGATGTATTGATAGTGTTGTGTGCA 59.646 40.000 0.00 0.00 0.00 4.57
597 621 5.353956 TGGATGTATTGATAGTGTTGTGTGC 59.646 40.000 0.00 0.00 0.00 4.57
598 622 6.371271 TGTGGATGTATTGATAGTGTTGTGTG 59.629 38.462 0.00 0.00 0.00 3.82
599 623 6.472016 TGTGGATGTATTGATAGTGTTGTGT 58.528 36.000 0.00 0.00 0.00 3.72
600 624 6.983474 TGTGGATGTATTGATAGTGTTGTG 57.017 37.500 0.00 0.00 0.00 3.33
601 625 7.568349 AGATGTGGATGTATTGATAGTGTTGT 58.432 34.615 0.00 0.00 0.00 3.32
602 626 7.930325 AGAGATGTGGATGTATTGATAGTGTTG 59.070 37.037 0.00 0.00 0.00 3.33
603 627 8.027524 AGAGATGTGGATGTATTGATAGTGTT 57.972 34.615 0.00 0.00 0.00 3.32
604 628 7.522889 CGAGAGATGTGGATGTATTGATAGTGT 60.523 40.741 0.00 0.00 0.00 3.55
605 629 6.805760 CGAGAGATGTGGATGTATTGATAGTG 59.194 42.308 0.00 0.00 0.00 2.74
606 630 6.491745 ACGAGAGATGTGGATGTATTGATAGT 59.508 38.462 0.00 0.00 0.00 2.12
607 631 6.918626 ACGAGAGATGTGGATGTATTGATAG 58.081 40.000 0.00 0.00 0.00 2.08
608 632 6.901081 ACGAGAGATGTGGATGTATTGATA 57.099 37.500 0.00 0.00 0.00 2.15
609 633 5.798125 ACGAGAGATGTGGATGTATTGAT 57.202 39.130 0.00 0.00 0.00 2.57
610 634 5.592688 TGTACGAGAGATGTGGATGTATTGA 59.407 40.000 0.00 0.00 0.00 2.57
611 635 5.831997 TGTACGAGAGATGTGGATGTATTG 58.168 41.667 0.00 0.00 0.00 1.90
612 636 6.321435 TCTTGTACGAGAGATGTGGATGTATT 59.679 38.462 8.87 0.00 0.00 1.89
613 637 5.828328 TCTTGTACGAGAGATGTGGATGTAT 59.172 40.000 8.87 0.00 0.00 2.29
614 638 5.190677 TCTTGTACGAGAGATGTGGATGTA 58.809 41.667 8.87 0.00 0.00 2.29
615 639 4.017126 TCTTGTACGAGAGATGTGGATGT 58.983 43.478 8.87 0.00 0.00 3.06
616 640 4.097135 ACTCTTGTACGAGAGATGTGGATG 59.903 45.833 36.53 15.46 44.78 3.51
617 641 4.274147 ACTCTTGTACGAGAGATGTGGAT 58.726 43.478 36.53 16.63 44.78 3.41
618 642 3.687125 ACTCTTGTACGAGAGATGTGGA 58.313 45.455 36.53 5.80 44.78 4.02
619 643 5.562506 TTACTCTTGTACGAGAGATGTGG 57.437 43.478 36.53 17.33 44.78 4.17
620 644 7.463383 GCAATTTACTCTTGTACGAGAGATGTG 60.463 40.741 36.53 26.31 44.78 3.21
621 645 6.531948 GCAATTTACTCTTGTACGAGAGATGT 59.468 38.462 36.53 22.49 44.78 3.06
622 646 6.531594 TGCAATTTACTCTTGTACGAGAGATG 59.468 38.462 36.53 26.28 44.78 2.90
623 647 6.531948 GTGCAATTTACTCTTGTACGAGAGAT 59.468 38.462 36.53 25.06 44.78 2.75
624 648 5.862323 GTGCAATTTACTCTTGTACGAGAGA 59.138 40.000 36.53 20.77 44.78 3.10
625 649 5.633601 TGTGCAATTTACTCTTGTACGAGAG 59.366 40.000 30.81 30.81 46.82 3.20
626 650 5.534407 TGTGCAATTTACTCTTGTACGAGA 58.466 37.500 12.39 12.39 40.67 4.04
627 651 5.839262 TGTGCAATTTACTCTTGTACGAG 57.161 39.130 3.44 3.44 40.67 4.18
628 652 7.601130 ACTTATGTGCAATTTACTCTTGTACGA 59.399 33.333 0.00 0.00 40.67 3.43
629 653 7.739295 ACTTATGTGCAATTTACTCTTGTACG 58.261 34.615 0.00 0.00 40.67 3.67
630 654 9.968743 GTACTTATGTGCAATTTACTCTTGTAC 57.031 33.333 0.00 0.00 38.98 2.90
631 655 9.158233 GGTACTTATGTGCAATTTACTCTTGTA 57.842 33.333 0.00 0.00 0.00 2.41
632 656 7.663905 TGGTACTTATGTGCAATTTACTCTTGT 59.336 33.333 0.00 0.00 0.00 3.16
633 657 7.962918 GTGGTACTTATGTGCAATTTACTCTTG 59.037 37.037 0.00 0.00 0.00 3.02
634 658 7.663905 TGTGGTACTTATGTGCAATTTACTCTT 59.336 33.333 0.00 0.00 0.00 2.85
650 674 3.748645 ATGCCCCAATTGTGGTACTTA 57.251 42.857 8.84 0.00 44.30 2.24
2371 2411 1.963515 ACTTGAGGTTTTGGATGGCAC 59.036 47.619 0.00 0.00 0.00 5.01
2566 2636 4.017958 TCTTCTCCTTCAGCTTCTCCTCTA 60.018 45.833 0.00 0.00 0.00 2.43
2751 2821 8.904834 AGGATGAATAGCATATTAGTAGGTACG 58.095 37.037 0.00 0.00 37.34 3.67
3521 4378 2.978156 TTCTCTGCCCCAAGACAATT 57.022 45.000 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.