Multiple sequence alignment - TraesCS5B01G443200

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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 TraesCS5B01G443200 chr5B 100.000 2498 0 0 1 2498 616222411 616224908 0.000000e+00 4614
1 TraesCS5B01G443200 chr5B 99.041 1877 14 1 626 2498 616310222 616312098 0.000000e+00 3363
2 TraesCS5B01G443200 chr5B 99.041 1877 14 1 626 2498 616321858 616323734 0.000000e+00 3363
3 TraesCS5B01G443200 chr5B 98.934 1877 16 1 626 2498 616265373 616267249 0.000000e+00 3352
4 TraesCS5B01G443200 chr5B 98.828 1877 18 1 626 2498 616276294 616278170 0.000000e+00 3341
5 TraesCS5B01G443200 chr5B 98.775 1877 18 2 626 2498 616245609 616247484 0.000000e+00 3334
6 TraesCS5B01G443200 chr5B 98.615 1877 21 2 626 2498 616299290 616301165 0.000000e+00 3317
7 TraesCS5B01G443200 chr5B 97.619 504 9 3 1 502 616332089 616332591 0.000000e+00 861
8 TraesCS5B01G443200 chr5B 97.416 503 12 1 1 502 616264872 616265374 0.000000e+00 856
9 TraesCS5B01G443200 chr5B 97.416 503 12 1 1 502 616275793 616276295 0.000000e+00 856
10 TraesCS5B01G443200 chr5B 97.416 503 12 1 1 502 616309721 616310223 0.000000e+00 856
11 TraesCS5B01G443200 chr5B 97.416 503 12 1 1 502 616321357 616321859 0.000000e+00 856
12 TraesCS5B01G443200 chr5B 96.620 503 15 2 1 502 616245109 616245610 0.000000e+00 833
13 TraesCS5B01G443200 chr5B 96.421 503 15 3 1 502 616298791 616299291 0.000000e+00 826
14 TraesCS5B01G443200 chr5B 91.540 461 30 5 697 1154 616103971 616104425 5.870000e-176 627
15 TraesCS5B01G443200 chr5B 91.264 435 29 5 697 1128 615965239 615964811 3.580000e-163 584
16 TraesCS5B01G443200 chr5B 96.970 66 2 0 626 691 616159604 616159669 7.300000e-21 111
17 TraesCS5B01G443200 chr5D 91.540 1915 115 17 626 2498 497103588 497105497 0.000000e+00 2595
18 TraesCS5B01G443200 chrUn 91.880 1835 112 14 696 2498 68274357 68272528 0.000000e+00 2529
19 TraesCS5B01G443200 chrUn 91.880 1835 112 14 696 2498 302517263 302519092 0.000000e+00 2529
20 TraesCS5B01G443200 chrUn 94.024 502 28 1 1 502 335556619 335556120 0.000000e+00 760
21 TraesCS5B01G443200 chrUn 94.024 502 28 1 1 502 417158058 417158557 0.000000e+00 760
22 TraesCS5B01G443200 chr7B 95.522 134 6 0 494 627 705539826 705539959 5.410000e-52 215
23 TraesCS5B01G443200 chr7B 96.094 128 5 0 501 628 728671957 728671830 2.520000e-50 209
24 TraesCS5B01G443200 chr7B 95.385 130 6 0 498 627 642706337 642706208 9.060000e-50 207
25 TraesCS5B01G443200 chr4B 95.420 131 6 0 501 631 116479399 116479269 2.520000e-50 209
26 TraesCS5B01G443200 chr3A 95.385 130 6 0 499 628 78187592 78187721 9.060000e-50 207
27 TraesCS5B01G443200 chr3A 93.431 137 7 2 492 627 31653016 31653151 4.210000e-48 202
28 TraesCS5B01G443200 chr2B 95.385 130 6 0 498 627 712620227 712620356 9.060000e-50 207
29 TraesCS5B01G443200 chr2D 93.431 137 8 1 493 628 138806853 138806989 4.210000e-48 202
30 TraesCS5B01G443200 chr1B 91.608 143 11 1 486 627 688707692 688707834 1.960000e-46 196


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 TraesCS5B01G443200 chr5B 616222411 616224908 2497 False 4614.0 4614 100.0000 1 2498 1 chr5B.!!$F3 2497
1 TraesCS5B01G443200 chr5B 616309721 616312098 2377 False 2109.5 3363 98.2285 1 2498 2 chr5B.!!$F9 2497
2 TraesCS5B01G443200 chr5B 616321357 616323734 2377 False 2109.5 3363 98.2285 1 2498 2 chr5B.!!$F10 2497
3 TraesCS5B01G443200 chr5B 616264872 616267249 2377 False 2104.0 3352 98.1750 1 2498 2 chr5B.!!$F6 2497
4 TraesCS5B01G443200 chr5B 616275793 616278170 2377 False 2098.5 3341 98.1220 1 2498 2 chr5B.!!$F7 2497
5 TraesCS5B01G443200 chr5B 616245109 616247484 2375 False 2083.5 3334 97.6975 1 2498 2 chr5B.!!$F5 2497
6 TraesCS5B01G443200 chr5B 616298791 616301165 2374 False 2071.5 3317 97.5180 1 2498 2 chr5B.!!$F8 2497
7 TraesCS5B01G443200 chr5B 616332089 616332591 502 False 861.0 861 97.6190 1 502 1 chr5B.!!$F4 501
8 TraesCS5B01G443200 chr5D 497103588 497105497 1909 False 2595.0 2595 91.5400 626 2498 1 chr5D.!!$F1 1872
9 TraesCS5B01G443200 chrUn 68272528 68274357 1829 True 2529.0 2529 91.8800 696 2498 1 chrUn.!!$R1 1802
10 TraesCS5B01G443200 chrUn 302517263 302519092 1829 False 2529.0 2529 91.8800 696 2498 1 chrUn.!!$F1 1802

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
517 520 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 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
2454 2499 1.078214 CTCTGCCGAAATGCCCTGA 60.078 57.895 0.0 0.0 0.0 3.86 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
236 238 1.129811 GGGGATGTTACGAAAGTTGCG 59.870 52.381 0.38 0.38 46.40 4.85
282 284 6.128472 GGCATGACAAAGCAAAATAAAAGAGG 60.128 38.462 0.00 0.00 0.00 3.69
325 328 9.974980 ATATTATCGCCAACGGAAAAATAAATT 57.025 25.926 0.00 0.00 40.63 1.82
495 498 2.500098 CCACTAGCACCTAGTTGGCTAA 59.500 50.000 2.31 0.00 43.82 3.09
500 503 3.442076 AGCACCTAGTTGGCTAACTACT 58.558 45.455 17.78 11.00 45.07 2.57
501 504 4.607239 AGCACCTAGTTGGCTAACTACTA 58.393 43.478 17.78 1.27 45.07 1.82
502 505 4.401837 AGCACCTAGTTGGCTAACTACTAC 59.598 45.833 17.78 8.53 45.07 2.73
503 506 4.401837 GCACCTAGTTGGCTAACTACTACT 59.598 45.833 17.78 0.00 45.07 2.57
504 507 5.450274 GCACCTAGTTGGCTAACTACTACTC 60.450 48.000 17.78 4.22 45.07 2.59
505 508 5.067544 CACCTAGTTGGCTAACTACTACTCC 59.932 48.000 17.78 0.00 45.07 3.85
506 509 4.583907 CCTAGTTGGCTAACTACTACTCCC 59.416 50.000 17.78 0.00 45.07 4.30
507 510 4.334208 AGTTGGCTAACTACTACTCCCT 57.666 45.455 14.53 0.00 45.07 4.20
508 511 4.279982 AGTTGGCTAACTACTACTCCCTC 58.720 47.826 14.53 0.00 45.07 4.30
509 512 3.309600 TGGCTAACTACTACTCCCTCC 57.690 52.381 0.00 0.00 0.00 4.30
510 513 2.228925 GGCTAACTACTACTCCCTCCG 58.771 57.143 0.00 0.00 0.00 4.63
511 514 2.422661 GGCTAACTACTACTCCCTCCGT 60.423 54.545 0.00 0.00 0.00 4.69
512 515 3.286353 GCTAACTACTACTCCCTCCGTT 58.714 50.000 0.00 0.00 0.00 4.44
513 516 3.314913 GCTAACTACTACTCCCTCCGTTC 59.685 52.174 0.00 0.00 0.00 3.95
514 517 2.433662 ACTACTACTCCCTCCGTTCC 57.566 55.000 0.00 0.00 0.00 3.62
515 518 1.307097 CTACTACTCCCTCCGTTCCG 58.693 60.000 0.00 0.00 0.00 4.30
516 519 0.911769 TACTACTCCCTCCGTTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
517 520 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
518 521 1.341778 ACTACTCCCTCCGTTCCGAAT 60.342 52.381 0.00 0.00 0.00 3.34
519 522 1.755380 CTACTCCCTCCGTTCCGAATT 59.245 52.381 0.00 0.00 0.00 2.17
520 523 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
521 524 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
522 525 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
523 526 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
524 527 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
525 528 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
526 529 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
527 530 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
528 531 4.243270 CTCCGTTCCGAATTACTTGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
529 532 3.991773 TCCGTTCCGAATTACTTGTCTTG 59.008 43.478 0.00 0.00 0.00 3.02
530 533 3.124636 CCGTTCCGAATTACTTGTCTTGG 59.875 47.826 0.00 0.00 0.00 3.61
531 534 3.991773 CGTTCCGAATTACTTGTCTTGGA 59.008 43.478 0.00 0.00 0.00 3.53
532 535 4.630069 CGTTCCGAATTACTTGTCTTGGAT 59.370 41.667 0.00 0.00 0.00 3.41
533 536 5.121768 CGTTCCGAATTACTTGTCTTGGATT 59.878 40.000 0.00 0.00 0.00 3.01
534 537 6.348213 CGTTCCGAATTACTTGTCTTGGATTT 60.348 38.462 0.00 0.00 0.00 2.17
535 538 6.494893 TCCGAATTACTTGTCTTGGATTTG 57.505 37.500 0.00 0.00 0.00 2.32
536 539 6.001460 TCCGAATTACTTGTCTTGGATTTGT 58.999 36.000 0.00 0.00 0.00 2.83
537 540 6.148811 TCCGAATTACTTGTCTTGGATTTGTC 59.851 38.462 0.00 0.00 0.00 3.18
538 541 6.149474 CCGAATTACTTGTCTTGGATTTGTCT 59.851 38.462 0.00 0.00 0.00 3.41
539 542 7.333423 CCGAATTACTTGTCTTGGATTTGTCTA 59.667 37.037 0.00 0.00 0.00 2.59
540 543 8.383619 CGAATTACTTGTCTTGGATTTGTCTAG 58.616 37.037 0.00 0.00 0.00 2.43
541 544 9.436957 GAATTACTTGTCTTGGATTTGTCTAGA 57.563 33.333 0.00 0.00 0.00 2.43
542 545 9.965902 AATTACTTGTCTTGGATTTGTCTAGAT 57.034 29.630 0.00 0.00 0.00 1.98
544 547 9.871238 TTACTTGTCTTGGATTTGTCTAGATAC 57.129 33.333 0.00 0.00 0.00 2.24
545 548 7.907389 ACTTGTCTTGGATTTGTCTAGATACA 58.093 34.615 0.00 0.00 0.00 2.29
546 549 8.037758 ACTTGTCTTGGATTTGTCTAGATACAG 58.962 37.037 0.00 0.00 0.00 2.74
547 550 7.718334 TGTCTTGGATTTGTCTAGATACAGA 57.282 36.000 0.00 0.00 0.00 3.41
548 551 8.311395 TGTCTTGGATTTGTCTAGATACAGAT 57.689 34.615 0.00 0.00 0.00 2.90
549 552 8.200120 TGTCTTGGATTTGTCTAGATACAGATG 58.800 37.037 0.00 0.00 0.00 2.90
550 553 8.200792 GTCTTGGATTTGTCTAGATACAGATGT 58.799 37.037 0.00 0.00 0.00 3.06
551 554 9.421399 TCTTGGATTTGTCTAGATACAGATGTA 57.579 33.333 0.00 0.00 34.67 2.29
570 573 9.190858 CAGATGTATCTAGACTCACTTTAATGC 57.809 37.037 0.00 0.00 34.85 3.56
571 574 9.142014 AGATGTATCTAGACTCACTTTAATGCT 57.858 33.333 0.00 0.00 34.85 3.79
574 577 9.185680 TGTATCTAGACTCACTTTAATGCTACA 57.814 33.333 0.00 0.00 0.00 2.74
578 581 9.185680 TCTAGACTCACTTTAATGCTACATACA 57.814 33.333 0.00 0.00 0.00 2.29
579 582 9.973450 CTAGACTCACTTTAATGCTACATACAT 57.027 33.333 0.00 0.00 0.00 2.29
580 583 8.879342 AGACTCACTTTAATGCTACATACATC 57.121 34.615 0.00 0.00 0.00 3.06
581 584 7.928706 AGACTCACTTTAATGCTACATACATCC 59.071 37.037 0.00 0.00 0.00 3.51
582 585 6.701841 ACTCACTTTAATGCTACATACATCCG 59.298 38.462 0.00 0.00 0.00 4.18
583 586 6.578944 TCACTTTAATGCTACATACATCCGT 58.421 36.000 0.00 0.00 0.00 4.69
584 587 7.718525 TCACTTTAATGCTACATACATCCGTA 58.281 34.615 0.00 0.00 0.00 4.02
585 588 8.364894 TCACTTTAATGCTACATACATCCGTAT 58.635 33.333 0.00 0.00 38.96 3.06
586 589 8.988934 CACTTTAATGCTACATACATCCGTATT 58.011 33.333 0.00 0.00 36.11 1.89
587 590 9.555727 ACTTTAATGCTACATACATCCGTATTT 57.444 29.630 0.00 0.00 36.11 1.40
591 594 8.758633 AATGCTACATACATCCGTATTTAGAC 57.241 34.615 9.06 3.32 39.32 2.59
592 595 7.279750 TGCTACATACATCCGTATTTAGACA 57.720 36.000 9.06 5.16 39.32 3.41
593 596 7.718525 TGCTACATACATCCGTATTTAGACAA 58.281 34.615 9.06 0.00 39.32 3.18
594 597 8.198778 TGCTACATACATCCGTATTTAGACAAA 58.801 33.333 9.06 0.00 39.32 2.83
595 598 9.204570 GCTACATACATCCGTATTTAGACAAAT 57.795 33.333 9.06 0.00 39.32 2.32
602 605 9.530633 ACATCCGTATTTAGACAAATCTAAGAC 57.469 33.333 0.00 0.83 45.93 3.01
603 606 9.529325 CATCCGTATTTAGACAAATCTAAGACA 57.471 33.333 9.81 0.00 45.93 3.41
605 608 9.932207 TCCGTATTTAGACAAATCTAAGACAAA 57.068 29.630 9.81 0.00 45.93 2.83
618 621 9.855021 AAATCTAAGACAAATAATTTGGAACGG 57.145 29.630 0.00 0.00 44.81 4.44
619 622 8.801882 ATCTAAGACAAATAATTTGGAACGGA 57.198 30.769 0.00 0.00 44.81 4.69
620 623 8.263940 TCTAAGACAAATAATTTGGAACGGAG 57.736 34.615 0.00 0.00 44.81 4.63
621 624 5.897377 AGACAAATAATTTGGAACGGAGG 57.103 39.130 0.00 0.00 44.81 4.30
622 625 4.705023 AGACAAATAATTTGGAACGGAGGG 59.295 41.667 0.00 0.00 44.81 4.30
623 626 4.668636 ACAAATAATTTGGAACGGAGGGA 58.331 39.130 0.00 0.00 44.81 4.20
624 627 4.705023 ACAAATAATTTGGAACGGAGGGAG 59.295 41.667 0.00 0.00 44.81 4.30
1667 1698 4.171005 CCGGCTGTATATATGTACCGTTG 58.829 47.826 7.12 0.00 37.51 4.10
1835 1871 3.111853 TGTCATCTCGCACTTGTTCTT 57.888 42.857 0.00 0.00 0.00 2.52
1975 2016 1.270305 CGTGACAGTCACCCAATCTGT 60.270 52.381 25.11 0.00 44.20 3.41
2075 2116 1.407979 CTAGCGGTCCATCGTAGGTTT 59.592 52.381 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
236 238 4.201990 GCCTCTGTCATTTTCATGTGGATC 60.202 45.833 0.00 0.00 0.00 3.36
325 328 2.301583 TGTGTGCTGGTTGCTACATAGA 59.698 45.455 0.00 0.00 43.37 1.98
339 342 7.744087 TTGAGTTGTTCTAATATTGTGTGCT 57.256 32.000 0.00 0.00 0.00 4.40
378 381 0.672342 ACTCGCACACGTAAGAACCT 59.328 50.000 0.00 0.00 41.18 3.50
495 498 2.433662 GGAACGGAGGGAGTAGTAGT 57.566 55.000 0.00 0.00 0.00 2.73
510 513 6.496338 AATCCAAGACAAGTAATTCGGAAC 57.504 37.500 0.00 0.00 0.00 3.62
511 514 6.488683 ACAAATCCAAGACAAGTAATTCGGAA 59.511 34.615 0.00 0.00 0.00 4.30
512 515 6.001460 ACAAATCCAAGACAAGTAATTCGGA 58.999 36.000 0.00 0.00 0.00 4.55
513 516 6.149474 AGACAAATCCAAGACAAGTAATTCGG 59.851 38.462 0.00 0.00 0.00 4.30
514 517 7.133891 AGACAAATCCAAGACAAGTAATTCG 57.866 36.000 0.00 0.00 0.00 3.34
515 518 9.436957 TCTAGACAAATCCAAGACAAGTAATTC 57.563 33.333 0.00 0.00 0.00 2.17
516 519 9.965902 ATCTAGACAAATCCAAGACAAGTAATT 57.034 29.630 0.00 0.00 0.00 1.40
518 521 9.871238 GTATCTAGACAAATCCAAGACAAGTAA 57.129 33.333 0.00 0.00 0.00 2.24
519 522 9.031537 TGTATCTAGACAAATCCAAGACAAGTA 57.968 33.333 0.00 0.00 0.00 2.24
520 523 7.907389 TGTATCTAGACAAATCCAAGACAAGT 58.093 34.615 0.00 0.00 0.00 3.16
521 524 8.253810 TCTGTATCTAGACAAATCCAAGACAAG 58.746 37.037 0.00 0.00 0.00 3.16
522 525 8.134202 TCTGTATCTAGACAAATCCAAGACAA 57.866 34.615 0.00 0.00 0.00 3.18
523 526 7.718334 TCTGTATCTAGACAAATCCAAGACA 57.282 36.000 0.00 0.00 0.00 3.41
524 527 8.200792 ACATCTGTATCTAGACAAATCCAAGAC 58.799 37.037 0.00 0.00 0.00 3.01
525 528 8.311395 ACATCTGTATCTAGACAAATCCAAGA 57.689 34.615 0.00 0.00 0.00 3.02
544 547 9.190858 GCATTAAAGTGAGTCTAGATACATCTG 57.809 37.037 0.00 0.00 37.76 2.90
545 548 9.142014 AGCATTAAAGTGAGTCTAGATACATCT 57.858 33.333 0.00 0.00 40.86 2.90
548 551 9.185680 TGTAGCATTAAAGTGAGTCTAGATACA 57.814 33.333 0.00 0.00 0.00 2.29
552 555 9.185680 TGTATGTAGCATTAAAGTGAGTCTAGA 57.814 33.333 0.00 0.00 0.00 2.43
553 556 9.973450 ATGTATGTAGCATTAAAGTGAGTCTAG 57.027 33.333 0.00 0.00 0.00 2.43
554 557 9.967346 GATGTATGTAGCATTAAAGTGAGTCTA 57.033 33.333 0.00 0.00 0.00 2.59
555 558 7.928706 GGATGTATGTAGCATTAAAGTGAGTCT 59.071 37.037 0.00 0.00 0.00 3.24
556 559 7.096023 CGGATGTATGTAGCATTAAAGTGAGTC 60.096 40.741 0.00 0.00 0.00 3.36
557 560 6.701841 CGGATGTATGTAGCATTAAAGTGAGT 59.298 38.462 0.00 0.00 0.00 3.41
558 561 6.701841 ACGGATGTATGTAGCATTAAAGTGAG 59.298 38.462 0.00 0.00 0.00 3.51
559 562 6.578944 ACGGATGTATGTAGCATTAAAGTGA 58.421 36.000 0.00 0.00 0.00 3.41
560 563 6.844696 ACGGATGTATGTAGCATTAAAGTG 57.155 37.500 0.00 0.00 0.00 3.16
561 564 9.555727 AAATACGGATGTATGTAGCATTAAAGT 57.444 29.630 0.00 0.00 40.42 2.66
565 568 9.850628 GTCTAAATACGGATGTATGTAGCATTA 57.149 33.333 7.48 0.00 43.95 1.90
566 569 8.364894 TGTCTAAATACGGATGTATGTAGCATT 58.635 33.333 7.48 0.00 43.95 3.56
567 570 7.892609 TGTCTAAATACGGATGTATGTAGCAT 58.107 34.615 7.48 0.00 43.95 3.79
568 571 7.279750 TGTCTAAATACGGATGTATGTAGCA 57.720 36.000 7.48 6.68 43.95 3.49
569 572 8.583810 TTTGTCTAAATACGGATGTATGTAGC 57.416 34.615 7.48 4.82 43.95 3.58
576 579 9.530633 GTCTTAGATTTGTCTAAATACGGATGT 57.469 33.333 0.26 0.00 36.66 3.06
577 580 9.529325 TGTCTTAGATTTGTCTAAATACGGATG 57.471 33.333 0.26 0.00 36.66 3.51
579 582 9.932207 TTTGTCTTAGATTTGTCTAAATACGGA 57.068 29.630 0.26 0.00 36.66 4.69
592 595 9.855021 CCGTTCCAAATTATTTGTCTTAGATTT 57.145 29.630 15.40 0.00 38.98 2.17
593 596 9.238368 TCCGTTCCAAATTATTTGTCTTAGATT 57.762 29.630 15.40 0.00 38.98 2.40
594 597 8.801882 TCCGTTCCAAATTATTTGTCTTAGAT 57.198 30.769 15.40 0.00 38.98 1.98
595 598 7.335924 CCTCCGTTCCAAATTATTTGTCTTAGA 59.664 37.037 15.40 3.73 38.98 2.10
596 599 7.415206 CCCTCCGTTCCAAATTATTTGTCTTAG 60.415 40.741 15.40 6.14 38.98 2.18
597 600 6.376018 CCCTCCGTTCCAAATTATTTGTCTTA 59.624 38.462 15.40 0.00 38.98 2.10
598 601 5.185056 CCCTCCGTTCCAAATTATTTGTCTT 59.815 40.000 15.40 0.00 38.98 3.01
599 602 4.705023 CCCTCCGTTCCAAATTATTTGTCT 59.295 41.667 15.40 0.00 38.98 3.41
600 603 4.703093 TCCCTCCGTTCCAAATTATTTGTC 59.297 41.667 15.40 5.99 38.98 3.18
601 604 4.668636 TCCCTCCGTTCCAAATTATTTGT 58.331 39.130 15.40 0.00 38.98 2.83
602 605 4.705023 ACTCCCTCCGTTCCAAATTATTTG 59.295 41.667 10.46 10.46 40.32 2.32
603 606 4.930696 ACTCCCTCCGTTCCAAATTATTT 58.069 39.130 0.00 0.00 0.00 1.40
604 607 4.586306 ACTCCCTCCGTTCCAAATTATT 57.414 40.909 0.00 0.00 0.00 1.40
605 608 4.102681 CCTACTCCCTCCGTTCCAAATTAT 59.897 45.833 0.00 0.00 0.00 1.28
606 609 3.453353 CCTACTCCCTCCGTTCCAAATTA 59.547 47.826 0.00 0.00 0.00 1.40
607 610 2.238898 CCTACTCCCTCCGTTCCAAATT 59.761 50.000 0.00 0.00 0.00 1.82
608 611 1.838077 CCTACTCCCTCCGTTCCAAAT 59.162 52.381 0.00 0.00 0.00 2.32
609 612 1.272807 CCTACTCCCTCCGTTCCAAA 58.727 55.000 0.00 0.00 0.00 3.28
610 613 0.115745 ACCTACTCCCTCCGTTCCAA 59.884 55.000 0.00 0.00 0.00 3.53
611 614 1.002069 TACCTACTCCCTCCGTTCCA 58.998 55.000 0.00 0.00 0.00 3.53
612 615 1.397672 GTACCTACTCCCTCCGTTCC 58.602 60.000 0.00 0.00 0.00 3.62
613 616 1.020437 CGTACCTACTCCCTCCGTTC 58.980 60.000 0.00 0.00 0.00 3.95
614 617 0.329596 ACGTACCTACTCCCTCCGTT 59.670 55.000 0.00 0.00 0.00 4.44
615 618 0.393537 CACGTACCTACTCCCTCCGT 60.394 60.000 0.00 0.00 0.00 4.69
616 619 0.393537 ACACGTACCTACTCCCTCCG 60.394 60.000 0.00 0.00 0.00 4.63
617 620 1.101331 CACACGTACCTACTCCCTCC 58.899 60.000 0.00 0.00 0.00 4.30
618 621 1.742268 GACACACGTACCTACTCCCTC 59.258 57.143 0.00 0.00 0.00 4.30
619 622 1.615384 GGACACACGTACCTACTCCCT 60.615 57.143 0.00 0.00 0.00 4.20
620 623 0.813821 GGACACACGTACCTACTCCC 59.186 60.000 0.00 0.00 0.00 4.30
621 624 0.813821 GGGACACACGTACCTACTCC 59.186 60.000 0.00 0.00 43.75 3.85
622 625 0.449388 CGGGACACACGTACCTACTC 59.551 60.000 0.00 0.00 45.14 2.59
623 626 0.036732 TCGGGACACACGTACCTACT 59.963 55.000 0.00 0.00 45.14 2.57
624 627 0.169009 GTCGGGACACACGTACCTAC 59.831 60.000 0.00 0.00 45.14 3.18
1975 2016 2.134354 TGGATGGGTGAGCCATAATGA 58.866 47.619 17.19 0.00 34.19 2.57
2454 2499 1.078214 CTCTGCCGAAATGCCCTGA 60.078 57.895 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.