Multiple sequence alignment - TraesCS5B01G205600

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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 TraesCS5B01G205600 chr5B 100.000 2825 0 0 1 2825 374190150 374192974 0.000000e+00 5217
1 TraesCS5B01G205600 chr5B 94.915 118 6 0 505 622 614236433 614236316 4.810000e-43 185
2 TraesCS5B01G205600 chr5B 97.196 107 3 0 511 617 528584607 528584713 6.220000e-42 182
3 TraesCS5B01G205600 chr5D 97.705 2222 31 6 616 2825 322576842 322579055 0.000000e+00 3803
4 TraesCS5B01G205600 chr5D 94.886 528 9 5 1 513 322576320 322576844 0.000000e+00 809
5 TraesCS5B01G205600 chr5A 94.395 2248 70 32 616 2825 419206912 419209141 0.000000e+00 3402
6 TraesCS5B01G205600 chr5A 95.358 517 17 2 1 513 419206401 419206914 0.000000e+00 815
7 TraesCS5B01G205600 chr2D 88.021 192 23 0 1288 1479 9079974 9080165 7.870000e-56 228
8 TraesCS5B01G205600 chr2A 88.021 192 23 0 1288 1479 8543541 8543732 7.870000e-56 228
9 TraesCS5B01G205600 chr2B 86.567 201 27 0 1288 1488 11837389 11837189 3.660000e-54 222
10 TraesCS5B01G205600 chr7B 95.690 116 5 0 505 620 23007688 23007573 1.340000e-43 187
11 TraesCS5B01G205600 chr7B 90.476 126 10 2 508 632 146961172 146961048 6.260000e-37 165
12 TraesCS5B01G205600 chr6B 95.536 112 5 0 511 622 143439804 143439915 2.240000e-41 180
13 TraesCS5B01G205600 chr6A 92.188 128 8 2 501 627 27131002 27130876 2.240000e-41 180
14 TraesCS5B01G205600 chr4B 95.495 111 5 0 511 621 351634818 351634708 8.040000e-41 178
15 TraesCS5B01G205600 chr4B 83.333 150 23 2 1306 1454 30362603 30362751 1.360000e-28 137
16 TraesCS5B01G205600 chr3B 91.935 124 10 0 503 626 72218678 72218801 1.040000e-39 174
17 TraesCS5B01G205600 chr1D 90.625 128 8 4 491 617 48024747 48024623 1.740000e-37 167
18 TraesCS5B01G205600 chr4A 82.667 150 24 2 1306 1454 582840669 582840521 6.350000e-27 132
19 TraesCS5B01G205600 chr4D 82.550 149 24 2 1306 1453 18464575 18464722 2.280000e-26 130


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 TraesCS5B01G205600 chr5B 374190150 374192974 2824 False 5217.0 5217 100.0000 1 2825 1 chr5B.!!$F1 2824
1 TraesCS5B01G205600 chr5D 322576320 322579055 2735 False 2306.0 3803 96.2955 1 2825 2 chr5D.!!$F1 2824
2 TraesCS5B01G205600 chr5A 419206401 419209141 2740 False 2108.5 3402 94.8765 1 2825 2 chr5A.!!$F1 2824

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
641 665 0.388659 CTGCCTAGCTAGCTCACCAG 59.611 60.000 23.26 20.03 0.0 4.00 F
1588 1620 1.000486 AAGGAGACGGAGCTGGCTA 60.000 57.895 0.00 0.00 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1770 1802 1.426621 GTCGTACTCGCCATCGTCA 59.573 57.895 0.00 0.0 36.96 4.35 R
2424 2480 4.580167 ACTGATGCAAAGCTTTTGTGTAGA 59.420 37.500 9.53 0.0 0.00 2.59 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
243 263 2.238144 TCAGACAGCTACGTACCTACCT 59.762 50.000 0.00 0.00 0.00 3.08
244 264 3.452264 TCAGACAGCTACGTACCTACCTA 59.548 47.826 0.00 0.00 0.00 3.08
245 265 4.080919 TCAGACAGCTACGTACCTACCTAA 60.081 45.833 0.00 0.00 0.00 2.69
330 350 0.944311 GTGACGCAACAGTCGATGGT 60.944 55.000 0.00 0.00 43.70 3.55
354 374 4.947147 GCGGGCCACCACTCACAA 62.947 66.667 4.39 0.00 36.13 3.33
376 396 3.554692 GGACGACGCCATTGCTCG 61.555 66.667 0.00 8.40 41.09 5.03
430 450 1.889170 AGCTATAGCATAGCACGCAGA 59.111 47.619 26.07 0.00 45.16 4.26
510 530 6.502158 ACCCTATGCTAGCTCCACTAATAAAT 59.498 38.462 17.23 0.00 0.00 1.40
511 531 7.678598 ACCCTATGCTAGCTCCACTAATAAATA 59.321 37.037 17.23 0.00 0.00 1.40
512 532 7.982354 CCCTATGCTAGCTCCACTAATAAATAC 59.018 40.741 17.23 0.00 0.00 1.89
513 533 8.754080 CCTATGCTAGCTCCACTAATAAATACT 58.246 37.037 17.23 0.00 0.00 2.12
514 534 9.796120 CTATGCTAGCTCCACTAATAAATACTC 57.204 37.037 17.23 0.00 0.00 2.59
515 535 6.994221 TGCTAGCTCCACTAATAAATACTCC 58.006 40.000 17.23 0.00 0.00 3.85
516 536 6.014499 TGCTAGCTCCACTAATAAATACTCCC 60.014 42.308 17.23 0.00 0.00 4.30
517 537 6.211785 GCTAGCTCCACTAATAAATACTCCCT 59.788 42.308 7.70 0.00 0.00 4.20
518 538 6.673839 AGCTCCACTAATAAATACTCCCTC 57.326 41.667 0.00 0.00 0.00 4.30
519 539 5.544562 AGCTCCACTAATAAATACTCCCTCC 59.455 44.000 0.00 0.00 0.00 4.30
520 540 5.307196 GCTCCACTAATAAATACTCCCTCCA 59.693 44.000 0.00 0.00 0.00 3.86
521 541 6.013293 GCTCCACTAATAAATACTCCCTCCAT 60.013 42.308 0.00 0.00 0.00 3.41
522 542 7.474936 GCTCCACTAATAAATACTCCCTCCATT 60.475 40.741 0.00 0.00 0.00 3.16
523 543 7.974504 TCCACTAATAAATACTCCCTCCATTC 58.025 38.462 0.00 0.00 0.00 2.67
524 544 6.874134 CCACTAATAAATACTCCCTCCATTCG 59.126 42.308 0.00 0.00 0.00 3.34
525 545 6.874134 CACTAATAAATACTCCCTCCATTCGG 59.126 42.308 0.00 0.00 0.00 4.30
526 546 6.785963 ACTAATAAATACTCCCTCCATTCGGA 59.214 38.462 0.00 0.00 39.79 4.55
527 547 6.509523 AATAAATACTCCCTCCATTCGGAA 57.490 37.500 0.00 0.00 42.21 4.30
528 548 6.704056 ATAAATACTCCCTCCATTCGGAAT 57.296 37.500 0.00 0.00 42.21 3.01
529 549 5.388599 AAATACTCCCTCCATTCGGAATT 57.611 39.130 0.00 0.00 42.21 2.17
530 550 6.509523 AAATACTCCCTCCATTCGGAATTA 57.490 37.500 0.00 0.00 42.21 1.40
531 551 6.704056 AATACTCCCTCCATTCGGAATTAT 57.296 37.500 0.00 0.00 42.21 1.28
532 552 6.704056 ATACTCCCTCCATTCGGAATTATT 57.296 37.500 0.00 0.00 42.21 1.40
533 553 5.388599 ACTCCCTCCATTCGGAATTATTT 57.611 39.130 0.00 0.00 42.21 1.40
534 554 5.133221 ACTCCCTCCATTCGGAATTATTTG 58.867 41.667 0.00 0.00 42.21 2.32
535 555 5.124036 TCCCTCCATTCGGAATTATTTGT 57.876 39.130 0.00 0.00 42.21 2.83
536 556 5.130350 TCCCTCCATTCGGAATTATTTGTC 58.870 41.667 0.00 0.00 42.21 3.18
537 557 4.024048 CCCTCCATTCGGAATTATTTGTCG 60.024 45.833 0.00 0.00 42.21 4.35
538 558 4.527564 CTCCATTCGGAATTATTTGTCGC 58.472 43.478 0.00 0.00 42.21 5.19
539 559 3.001838 TCCATTCGGAATTATTTGTCGCG 59.998 43.478 0.00 0.00 38.83 5.87
540 560 3.001838 CCATTCGGAATTATTTGTCGCGA 59.998 43.478 3.71 3.71 0.00 5.87
541 561 4.495019 CCATTCGGAATTATTTGTCGCGAA 60.495 41.667 12.06 0.00 33.84 4.70
542 562 4.665281 TTCGGAATTATTTGTCGCGAAA 57.335 36.364 12.06 0.54 0.00 3.46
543 563 4.665281 TCGGAATTATTTGTCGCGAAAA 57.335 36.364 12.06 9.79 0.00 2.29
544 564 5.224562 TCGGAATTATTTGTCGCGAAAAT 57.775 34.783 23.08 23.08 0.00 1.82
545 565 5.025190 TCGGAATTATTTGTCGCGAAAATG 58.975 37.500 25.70 15.17 0.00 2.32
546 566 5.025190 CGGAATTATTTGTCGCGAAAATGA 58.975 37.500 25.70 21.41 0.00 2.57
547 567 5.509972 CGGAATTATTTGTCGCGAAAATGAA 59.490 36.000 25.70 18.26 0.00 2.57
548 568 6.196353 CGGAATTATTTGTCGCGAAAATGAAT 59.804 34.615 25.70 19.29 0.00 2.57
549 569 7.329582 GGAATTATTTGTCGCGAAAATGAATG 58.670 34.615 25.70 0.00 0.00 2.67
550 570 7.009174 GGAATTATTTGTCGCGAAAATGAATGT 59.991 33.333 25.70 14.53 0.00 2.71
551 571 8.903570 AATTATTTGTCGCGAAAATGAATGTA 57.096 26.923 25.70 8.95 0.00 2.29
552 572 9.515020 AATTATTTGTCGCGAAAATGAATGTAT 57.485 25.926 25.70 14.14 0.00 2.29
553 573 8.541733 TTATTTGTCGCGAAAATGAATGTATC 57.458 30.769 25.70 8.08 0.00 2.24
554 574 5.794687 TTGTCGCGAAAATGAATGTATCT 57.205 34.783 12.06 0.00 0.00 1.98
555 575 6.895607 TTGTCGCGAAAATGAATGTATCTA 57.104 33.333 12.06 0.00 0.00 1.98
556 576 6.510746 TGTCGCGAAAATGAATGTATCTAG 57.489 37.500 12.06 0.00 0.00 2.43
557 577 6.270064 TGTCGCGAAAATGAATGTATCTAGA 58.730 36.000 12.06 0.00 0.00 2.43
558 578 6.198403 TGTCGCGAAAATGAATGTATCTAGAC 59.802 38.462 12.06 0.00 0.00 2.59
559 579 6.198403 GTCGCGAAAATGAATGTATCTAGACA 59.802 38.462 12.06 0.00 0.00 3.41
560 580 6.923508 TCGCGAAAATGAATGTATCTAGACAT 59.076 34.615 6.20 0.00 41.92 3.06
561 581 8.079809 TCGCGAAAATGAATGTATCTAGACATA 58.920 33.333 6.20 0.00 39.16 2.29
562 582 8.864024 CGCGAAAATGAATGTATCTAGACATAT 58.136 33.333 0.00 0.00 39.16 1.78
591 611 8.324191 AGTTCTAGATACATCCATTTCCAAGA 57.676 34.615 0.00 0.00 0.00 3.02
592 612 8.207545 AGTTCTAGATACATCCATTTCCAAGAC 58.792 37.037 0.00 0.00 0.00 3.01
593 613 7.675161 TCTAGATACATCCATTTCCAAGACA 57.325 36.000 0.00 0.00 0.00 3.41
594 614 8.089625 TCTAGATACATCCATTTCCAAGACAA 57.910 34.615 0.00 0.00 0.00 3.18
595 615 8.206867 TCTAGATACATCCATTTCCAAGACAAG 58.793 37.037 0.00 0.00 0.00 3.16
596 616 6.725364 AGATACATCCATTTCCAAGACAAGT 58.275 36.000 0.00 0.00 0.00 3.16
597 617 7.861629 AGATACATCCATTTCCAAGACAAGTA 58.138 34.615 0.00 0.00 0.00 2.24
598 618 8.328758 AGATACATCCATTTCCAAGACAAGTAA 58.671 33.333 0.00 0.00 0.00 2.24
599 619 9.125026 GATACATCCATTTCCAAGACAAGTAAT 57.875 33.333 0.00 0.00 0.00 1.89
600 620 7.781324 ACATCCATTTCCAAGACAAGTAATT 57.219 32.000 0.00 0.00 0.00 1.40
601 621 7.830739 ACATCCATTTCCAAGACAAGTAATTC 58.169 34.615 0.00 0.00 0.00 2.17
602 622 6.834168 TCCATTTCCAAGACAAGTAATTCC 57.166 37.500 0.00 0.00 0.00 3.01
603 623 5.414454 TCCATTTCCAAGACAAGTAATTCCG 59.586 40.000 0.00 0.00 0.00 4.30
604 624 5.414454 CCATTTCCAAGACAAGTAATTCCGA 59.586 40.000 0.00 0.00 0.00 4.55
605 625 6.072175 CCATTTCCAAGACAAGTAATTCCGAA 60.072 38.462 0.00 0.00 0.00 4.30
606 626 5.934935 TTCCAAGACAAGTAATTCCGAAC 57.065 39.130 0.00 0.00 0.00 3.95
607 627 3.991773 TCCAAGACAAGTAATTCCGAACG 59.008 43.478 0.00 0.00 0.00 3.95
608 628 3.124636 CCAAGACAAGTAATTCCGAACGG 59.875 47.826 6.94 6.94 0.00 4.44
609 629 3.947910 AGACAAGTAATTCCGAACGGA 57.052 42.857 12.04 12.04 43.52 4.69
610 630 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
611 631 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
612 632 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
613 633 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
614 634 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
638 662 4.748409 GCTGCCTAGCTAGCTCAC 57.252 61.111 23.26 12.45 46.57 3.51
639 663 1.068921 GCTGCCTAGCTAGCTCACC 59.931 63.158 23.26 10.85 46.57 4.02
640 664 1.680522 GCTGCCTAGCTAGCTCACCA 61.681 60.000 23.26 14.89 46.57 4.17
641 665 0.388659 CTGCCTAGCTAGCTCACCAG 59.611 60.000 23.26 20.03 0.00 4.00
743 768 4.757773 GGCCTTCCCACTAAACCC 57.242 61.111 0.00 0.00 0.00 4.11
765 790 5.813080 CATTGATGGATCGATGCATATGT 57.187 39.130 29.33 16.20 40.65 2.29
852 877 6.980416 ACCTAGTCACTTCCAATATAGTCC 57.020 41.667 0.00 0.00 0.00 3.85
883 908 9.170734 CATATTTCTCATGTGAAAGAGGAAGAA 57.829 33.333 22.98 5.75 39.01 2.52
909 934 2.166664 GTGCTCGACCAAGGAGTAGAAT 59.833 50.000 0.00 0.00 34.00 2.40
1179 1208 1.176619 TCAACTCCGAGACGCTGGAA 61.177 55.000 1.33 0.00 32.89 3.53
1374 1403 4.598894 CGGATGCGGCTCTCCCTG 62.599 72.222 13.99 1.29 0.00 4.45
1588 1620 1.000486 AAGGAGACGGAGCTGGCTA 60.000 57.895 0.00 0.00 0.00 3.93
1623 1655 1.817099 GGCAGCGGATGTGGAGAAG 60.817 63.158 0.00 0.00 0.00 2.85
1957 1989 8.579850 TCTTGGTACTATTTGCAAATCTCATT 57.420 30.769 27.28 6.95 0.00 2.57
1965 1997 8.981647 ACTATTTGCAAATCTCATTGTTTTGTC 58.018 29.630 27.28 0.00 37.55 3.18
2077 2109 7.378181 GCTTTCTTTCATGTCTTAATTTGGGA 58.622 34.615 0.00 0.00 0.00 4.37
2271 2321 7.140705 CAGTCAGCACTTTTATGATCAAACAA 58.859 34.615 0.00 0.00 0.00 2.83
2725 2790 5.118729 TGAAAAAGTTGGAAGTACAGGGA 57.881 39.130 0.00 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
349 369 2.051971 CGTCGTCCGTCGTTGTGA 60.052 61.111 0.00 0.00 40.80 3.58
354 374 4.047059 AATGGCGTCGTCCGTCGT 62.047 61.111 8.00 0.00 46.52 4.34
376 396 1.135575 CAGCGAGGGCATTTGAGTTTC 60.136 52.381 0.00 0.00 43.41 2.78
430 450 8.888716 GTTTGTATGTTTTTCCCAGTGATTTTT 58.111 29.630 0.00 0.00 0.00 1.94
442 462 4.658289 GCGCGTTTTGTTTGTATGTTTTTC 59.342 37.500 8.43 0.00 0.00 2.29
517 537 3.001838 CGCGACAAATAATTCCGAATGGA 59.998 43.478 0.00 0.00 44.61 3.41
518 538 3.001838 TCGCGACAAATAATTCCGAATGG 59.998 43.478 3.71 0.00 0.00 3.16
519 539 4.190304 TCGCGACAAATAATTCCGAATG 57.810 40.909 3.71 0.00 0.00 2.67
520 540 4.868450 TTCGCGACAAATAATTCCGAAT 57.132 36.364 9.15 0.00 0.00 3.34
521 541 4.665281 TTTCGCGACAAATAATTCCGAA 57.335 36.364 9.15 0.00 0.00 4.30
522 542 4.665281 TTTTCGCGACAAATAATTCCGA 57.335 36.364 9.15 0.00 0.00 4.55
523 543 5.025190 TCATTTTCGCGACAAATAATTCCG 58.975 37.500 20.80 12.35 0.00 4.30
524 544 6.862944 TTCATTTTCGCGACAAATAATTCC 57.137 33.333 20.80 0.00 0.00 3.01
525 545 7.884668 ACATTCATTTTCGCGACAAATAATTC 58.115 30.769 20.80 0.00 0.00 2.17
526 546 7.810766 ACATTCATTTTCGCGACAAATAATT 57.189 28.000 20.80 10.93 0.00 1.40
527 547 9.169468 GATACATTCATTTTCGCGACAAATAAT 57.831 29.630 20.80 15.92 0.00 1.28
528 548 8.394877 AGATACATTCATTTTCGCGACAAATAA 58.605 29.630 20.80 14.73 0.00 1.40
529 549 7.915508 AGATACATTCATTTTCGCGACAAATA 58.084 30.769 20.80 12.17 0.00 1.40
530 550 6.785191 AGATACATTCATTTTCGCGACAAAT 58.215 32.000 9.15 15.06 0.00 2.32
531 551 6.176975 AGATACATTCATTTTCGCGACAAA 57.823 33.333 9.15 13.35 0.00 2.83
532 552 5.794687 AGATACATTCATTTTCGCGACAA 57.205 34.783 9.15 9.93 0.00 3.18
533 553 6.198403 GTCTAGATACATTCATTTTCGCGACA 59.802 38.462 9.15 0.00 0.00 4.35
534 554 6.198403 TGTCTAGATACATTCATTTTCGCGAC 59.802 38.462 9.15 0.00 0.00 5.19
535 555 6.270064 TGTCTAGATACATTCATTTTCGCGA 58.730 36.000 3.71 3.71 0.00 5.87
536 556 6.510746 TGTCTAGATACATTCATTTTCGCG 57.489 37.500 0.00 0.00 0.00 5.87
565 585 9.434275 TCTTGGAAATGGATGTATCTAGAACTA 57.566 33.333 0.00 0.00 0.00 2.24
566 586 8.207545 GTCTTGGAAATGGATGTATCTAGAACT 58.792 37.037 0.00 0.00 0.00 3.01
567 587 7.987458 TGTCTTGGAAATGGATGTATCTAGAAC 59.013 37.037 0.00 0.00 0.00 3.01
568 588 8.089625 TGTCTTGGAAATGGATGTATCTAGAA 57.910 34.615 0.00 0.00 0.00 2.10
569 589 7.675161 TGTCTTGGAAATGGATGTATCTAGA 57.325 36.000 0.00 0.00 0.00 2.43
570 590 7.989741 ACTTGTCTTGGAAATGGATGTATCTAG 59.010 37.037 0.00 0.00 0.00 2.43
571 591 7.861629 ACTTGTCTTGGAAATGGATGTATCTA 58.138 34.615 0.00 0.00 0.00 1.98
572 592 6.725364 ACTTGTCTTGGAAATGGATGTATCT 58.275 36.000 0.00 0.00 0.00 1.98
573 593 8.506168 TTACTTGTCTTGGAAATGGATGTATC 57.494 34.615 0.00 0.00 0.00 2.24
574 594 9.479549 AATTACTTGTCTTGGAAATGGATGTAT 57.520 29.630 0.00 0.00 0.00 2.29
575 595 8.877864 AATTACTTGTCTTGGAAATGGATGTA 57.122 30.769 0.00 0.00 0.00 2.29
576 596 7.093771 GGAATTACTTGTCTTGGAAATGGATGT 60.094 37.037 0.00 0.00 0.00 3.06
577 597 7.260603 GGAATTACTTGTCTTGGAAATGGATG 58.739 38.462 0.00 0.00 0.00 3.51
578 598 6.095440 CGGAATTACTTGTCTTGGAAATGGAT 59.905 38.462 0.00 0.00 0.00 3.41
579 599 5.414454 CGGAATTACTTGTCTTGGAAATGGA 59.586 40.000 0.00 0.00 0.00 3.41
580 600 5.414454 TCGGAATTACTTGTCTTGGAAATGG 59.586 40.000 0.00 0.00 0.00 3.16
581 601 6.494893 TCGGAATTACTTGTCTTGGAAATG 57.505 37.500 0.00 0.00 0.00 2.32
582 602 6.348213 CGTTCGGAATTACTTGTCTTGGAAAT 60.348 38.462 0.00 0.00 0.00 2.17
583 603 5.049954 CGTTCGGAATTACTTGTCTTGGAAA 60.050 40.000 0.00 0.00 0.00 3.13
584 604 4.449743 CGTTCGGAATTACTTGTCTTGGAA 59.550 41.667 0.00 0.00 0.00 3.53
585 605 3.991773 CGTTCGGAATTACTTGTCTTGGA 59.008 43.478 0.00 0.00 0.00 3.53
586 606 3.124636 CCGTTCGGAATTACTTGTCTTGG 59.875 47.826 5.19 0.00 0.00 3.61
587 607 3.991773 TCCGTTCGGAATTACTTGTCTTG 59.008 43.478 11.66 0.00 0.00 3.02
588 608 4.243270 CTCCGTTCGGAATTACTTGTCTT 58.757 43.478 14.79 0.00 33.41 3.01
589 609 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
590 610 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
591 611 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
592 612 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
593 613 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
594 614 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
595 615 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
596 616 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
597 617 1.479730 GTACTCCCTCCGTTCGGAATT 59.520 52.381 14.79 0.00 33.41 2.17
598 618 1.109609 GTACTCCCTCCGTTCGGAAT 58.890 55.000 14.79 2.09 33.41 3.01
599 619 0.967380 GGTACTCCCTCCGTTCGGAA 60.967 60.000 14.79 0.04 33.41 4.30
600 620 1.379044 GGTACTCCCTCCGTTCGGA 60.379 63.158 13.34 13.34 0.00 4.55
601 621 0.107017 TAGGTACTCCCTCCGTTCGG 60.107 60.000 4.74 4.74 44.81 4.30
602 622 1.307097 CTAGGTACTCCCTCCGTTCG 58.693 60.000 0.00 0.00 44.81 3.95
603 623 1.031235 GCTAGGTACTCCCTCCGTTC 58.969 60.000 0.00 0.00 44.81 3.95
604 624 0.630134 AGCTAGGTACTCCCTCCGTT 59.370 55.000 0.00 0.00 44.81 4.44
605 625 0.106619 CAGCTAGGTACTCCCTCCGT 60.107 60.000 0.00 0.00 44.81 4.69
606 626 1.457009 GCAGCTAGGTACTCCCTCCG 61.457 65.000 0.00 0.00 44.81 4.63
607 627 1.116536 GGCAGCTAGGTACTCCCTCC 61.117 65.000 0.00 0.00 44.81 4.30
608 628 0.105913 AGGCAGCTAGGTACTCCCTC 60.106 60.000 0.00 0.00 44.81 4.30
609 629 4.746982 GCTAGGCAGCTAGGTACTCCCT 62.747 59.091 0.00 1.22 44.93 4.20
610 630 1.623163 CTAGGCAGCTAGGTACTCCC 58.377 60.000 0.00 0.00 41.75 4.30
611 631 0.963225 GCTAGGCAGCTAGGTACTCC 59.037 60.000 0.00 0.00 44.93 3.85
635 659 0.473694 ATGGGAGTGGTGACTGGTGA 60.474 55.000 0.00 0.00 30.16 4.02
636 660 1.275666 TATGGGAGTGGTGACTGGTG 58.724 55.000 0.00 0.00 30.16 4.17
637 661 2.119495 GATATGGGAGTGGTGACTGGT 58.881 52.381 0.00 0.00 30.16 4.00
638 662 2.402564 AGATATGGGAGTGGTGACTGG 58.597 52.381 0.00 0.00 30.16 4.00
639 663 4.080919 TGAAAGATATGGGAGTGGTGACTG 60.081 45.833 0.00 0.00 30.16 3.51
640 664 4.104086 TGAAAGATATGGGAGTGGTGACT 58.896 43.478 0.00 0.00 33.98 3.41
641 665 4.446371 CTGAAAGATATGGGAGTGGTGAC 58.554 47.826 0.00 0.00 34.07 3.67
739 764 2.233271 GCATCGATCCATCAATGGGTT 58.767 47.619 9.12 0.00 42.59 4.11
743 768 5.813080 ACATATGCATCGATCCATCAATG 57.187 39.130 4.76 7.73 0.00 2.82
765 790 2.238646 GGTGTCCATTCCCACTGATGTA 59.761 50.000 0.00 0.00 0.00 2.29
852 877 8.775527 CCTCTTTCACATGAGAAATATGAGATG 58.224 37.037 23.09 11.10 36.94 2.90
883 908 0.251386 TCCTTGGTCGAGCACTCTCT 60.251 55.000 18.42 0.00 37.19 3.10
909 934 6.493802 ACTTCTTGATCTGGTACTACAGTTGA 59.506 38.462 0.00 0.00 39.48 3.18
950 979 6.049149 TGCCTGCACTTGAGTACTTTATATC 58.951 40.000 0.00 0.00 0.00 1.63
1179 1208 4.479993 GGCCTCATGAGCACCGCT 62.480 66.667 17.76 0.00 43.88 5.52
1302 1331 3.235481 TGCCGGTCCGTCCTGAAA 61.235 61.111 11.06 0.00 0.00 2.69
1770 1802 1.426621 GTCGTACTCGCCATCGTCA 59.573 57.895 0.00 0.00 36.96 4.35
2271 2321 5.116882 GCATACGGTTTCCTGATACTCTTT 58.883 41.667 0.00 0.00 0.00 2.52
2424 2480 4.580167 ACTGATGCAAAGCTTTTGTGTAGA 59.420 37.500 9.53 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.