Multiple sequence alignment - TraesCS7D01G276300

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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 TraesCS7D01G276300 chr7D 100.000 2193 0 0 1 2193 264751752 264753944 0.000000e+00 4050.0
1 TraesCS7D01G276300 chr7D 100.000 334 0 0 2506 2839 264754257 264754590 4.020000e-173 617.0
2 TraesCS7D01G276300 chr7A 94.481 1504 64 6 657 2149 288928222 288929717 0.000000e+00 2300.0
3 TraesCS7D01G276300 chr7A 95.495 333 12 1 1 333 288927764 288928093 1.940000e-146 529.0
4 TraesCS7D01G276300 chr7A 79.705 271 30 19 2506 2763 288929828 288930086 3.760000e-39 172.0
5 TraesCS7D01G276300 chr7B 90.581 1720 87 24 514 2192 245070473 245072158 0.000000e+00 2209.0
6 TraesCS7D01G276300 chr7B 91.892 370 18 3 1 362 245069906 245070271 9.080000e-140 507.0
7 TraesCS7D01G276300 chr7B 91.954 174 4 4 2637 2809 245072369 245072533 4.730000e-58 235.0
8 TraesCS7D01G276300 chr7B 92.754 138 10 0 2506 2643 245072191 245072328 1.720000e-47 200.0
9 TraesCS7D01G276300 chr1D 90.859 722 58 5 1122 1836 472561001 472561721 0.000000e+00 961.0
10 TraesCS7D01G276300 chr5B 89.031 784 71 10 1066 1834 532876674 532877457 0.000000e+00 957.0
11 TraesCS7D01G276300 chr5B 88.939 669 74 0 1168 1836 638336803 638336135 0.000000e+00 826.0
12 TraesCS7D01G276300 chr1A 90.720 722 59 5 1122 1836 566564258 566564978 0.000000e+00 955.0
13 TraesCS7D01G276300 chr5A 88.520 784 75 10 1066 1834 553420903 553421686 0.000000e+00 935.0
14 TraesCS7D01G276300 chr1B 89.751 722 66 5 1122 1836 657272150 657272870 0.000000e+00 917.0
15 TraesCS7D01G276300 chr5D 89.026 729 70 7 1113 1834 438360050 438360775 0.000000e+00 894.0
16 TraesCS7D01G276300 chr2A 100.000 28 0 0 335 362 706757274 706757301 5.000000e-03 52.8


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 TraesCS7D01G276300 chr7D 264751752 264754590 2838 False 2333.500000 4050 100.000000 1 2839 2 chr7D.!!$F1 2838
1 TraesCS7D01G276300 chr7A 288927764 288930086 2322 False 1000.333333 2300 89.893667 1 2763 3 chr7A.!!$F1 2762
2 TraesCS7D01G276300 chr7B 245069906 245072533 2627 False 787.750000 2209 91.795250 1 2809 4 chr7B.!!$F1 2808
3 TraesCS7D01G276300 chr1D 472561001 472561721 720 False 961.000000 961 90.859000 1122 1836 1 chr1D.!!$F1 714
4 TraesCS7D01G276300 chr5B 532876674 532877457 783 False 957.000000 957 89.031000 1066 1834 1 chr5B.!!$F1 768
5 TraesCS7D01G276300 chr5B 638336135 638336803 668 True 826.000000 826 88.939000 1168 1836 1 chr5B.!!$R1 668
6 TraesCS7D01G276300 chr1A 566564258 566564978 720 False 955.000000 955 90.720000 1122 1836 1 chr1A.!!$F1 714
7 TraesCS7D01G276300 chr5A 553420903 553421686 783 False 935.000000 935 88.520000 1066 1834 1 chr5A.!!$F1 768
8 TraesCS7D01G276300 chr1B 657272150 657272870 720 False 917.000000 917 89.751000 1122 1836 1 chr1B.!!$F1 714
9 TraesCS7D01G276300 chr5D 438360050 438360775 725 False 894.000000 894 89.026000 1113 1834 1 chr5D.!!$F1 721

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
369 378 0.038343 CCAAAACAAGTGCCGATGGG 60.038 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2150 2344 0.105964 TTCTCTCCCGGCAGCTATCT 60.106 55.0 0.0 0.0 0.0 1.98 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
232 233 3.127721 GCTAACTCAAGCCCAAAAGCTAG 59.872 47.826 0.00 0.00 44.11 3.42
235 236 4.367039 ACTCAAGCCCAAAAGCTAGTTA 57.633 40.909 0.00 0.00 44.11 2.24
335 344 2.327200 TTCAGCAGAGCATCCATCTG 57.673 50.000 0.00 0.00 45.71 2.90
350 359 1.543802 CATCTGCTACTCCCTCCGATC 59.456 57.143 0.00 0.00 0.00 3.69
356 365 2.742204 GCTACTCCCTCCGATCCAAAAC 60.742 54.545 0.00 0.00 0.00 2.43
362 371 1.200020 CCTCCGATCCAAAACAAGTGC 59.800 52.381 0.00 0.00 0.00 4.40
365 374 0.871722 CGATCCAAAACAAGTGCCGA 59.128 50.000 0.00 0.00 0.00 5.54
366 375 1.468520 CGATCCAAAACAAGTGCCGAT 59.531 47.619 0.00 0.00 0.00 4.18
368 377 0.958091 TCCAAAACAAGTGCCGATGG 59.042 50.000 0.00 0.00 0.00 3.51
369 378 0.038343 CCAAAACAAGTGCCGATGGG 60.038 55.000 0.00 0.00 0.00 4.00
370 379 0.038343 CAAAACAAGTGCCGATGGGG 60.038 55.000 0.00 0.00 39.58 4.96
389 414 3.004944 GGGGTTAGTTCAAAATTGCGACA 59.995 43.478 0.00 0.00 0.00 4.35
390 415 4.500035 GGGGTTAGTTCAAAATTGCGACAA 60.500 41.667 0.00 0.00 0.00 3.18
399 424 9.638239 AGTTCAAAATTGCGACAATTATTATGT 57.362 25.926 15.06 0.69 0.00 2.29
453 569 9.920133 CCATGCATATAATCTATCTATACGCTT 57.080 33.333 0.00 0.00 0.00 4.68
456 572 9.967346 TGCATATAATCTATCTATACGCTTTCC 57.033 33.333 0.00 0.00 0.00 3.13
463 579 8.819643 ATCTATCTATACGCTTTCCTTGTTTC 57.180 34.615 0.00 0.00 0.00 2.78
464 580 8.008513 TCTATCTATACGCTTTCCTTGTTTCT 57.991 34.615 0.00 0.00 0.00 2.52
465 581 9.128404 TCTATCTATACGCTTTCCTTGTTTCTA 57.872 33.333 0.00 0.00 0.00 2.10
466 582 9.182933 CTATCTATACGCTTTCCTTGTTTCTAC 57.817 37.037 0.00 0.00 0.00 2.59
467 583 7.166691 TCTATACGCTTTCCTTGTTTCTACT 57.833 36.000 0.00 0.00 0.00 2.57
468 584 8.284945 TCTATACGCTTTCCTTGTTTCTACTA 57.715 34.615 0.00 0.00 0.00 1.82
469 585 8.186821 TCTATACGCTTTCCTTGTTTCTACTAC 58.813 37.037 0.00 0.00 0.00 2.73
470 586 5.211174 ACGCTTTCCTTGTTTCTACTACT 57.789 39.130 0.00 0.00 0.00 2.57
471 587 6.336842 ACGCTTTCCTTGTTTCTACTACTA 57.663 37.500 0.00 0.00 0.00 1.82
472 588 6.155136 ACGCTTTCCTTGTTTCTACTACTAC 58.845 40.000 0.00 0.00 0.00 2.73
473 589 6.154445 CGCTTTCCTTGTTTCTACTACTACA 58.846 40.000 0.00 0.00 0.00 2.74
474 590 6.812160 CGCTTTCCTTGTTTCTACTACTACAT 59.188 38.462 0.00 0.00 0.00 2.29
475 591 7.201444 CGCTTTCCTTGTTTCTACTACTACATG 60.201 40.741 0.00 0.00 0.00 3.21
476 592 7.603024 GCTTTCCTTGTTTCTACTACTACATGT 59.397 37.037 2.69 2.69 0.00 3.21
477 593 8.827177 TTTCCTTGTTTCTACTACTACATGTG 57.173 34.615 9.11 0.93 0.00 3.21
478 594 6.931838 TCCTTGTTTCTACTACTACATGTGG 58.068 40.000 9.11 8.41 0.00 4.17
479 595 5.581085 CCTTGTTTCTACTACTACATGTGGC 59.419 44.000 9.11 0.00 0.00 5.01
480 596 5.995565 TGTTTCTACTACTACATGTGGCT 57.004 39.130 9.11 0.00 0.00 4.75
481 597 6.354794 TGTTTCTACTACTACATGTGGCTT 57.645 37.500 9.11 0.00 0.00 4.35
482 598 7.470935 TGTTTCTACTACTACATGTGGCTTA 57.529 36.000 9.11 0.00 0.00 3.09
483 599 7.318141 TGTTTCTACTACTACATGTGGCTTAC 58.682 38.462 9.11 0.00 0.00 2.34
484 600 7.177921 TGTTTCTACTACTACATGTGGCTTACT 59.822 37.037 9.11 0.00 0.00 2.24
485 601 7.713734 TTCTACTACTACATGTGGCTTACTT 57.286 36.000 9.11 0.00 0.00 2.24
486 602 7.096884 TCTACTACTACATGTGGCTTACTTG 57.903 40.000 9.11 6.17 39.60 3.16
487 603 4.504858 ACTACTACATGTGGCTTACTTGC 58.495 43.478 9.11 0.00 37.83 4.01
488 604 3.703001 ACTACATGTGGCTTACTTGCT 57.297 42.857 9.11 0.00 37.83 3.91
489 605 4.819105 ACTACATGTGGCTTACTTGCTA 57.181 40.909 9.11 0.00 37.83 3.49
490 606 4.504858 ACTACATGTGGCTTACTTGCTAC 58.495 43.478 9.11 0.00 43.35 3.58
491 607 2.711542 ACATGTGGCTTACTTGCTACC 58.288 47.619 0.00 0.00 42.57 3.18
492 608 2.305927 ACATGTGGCTTACTTGCTACCT 59.694 45.455 0.00 0.00 42.57 3.08
493 609 2.472695 TGTGGCTTACTTGCTACCTG 57.527 50.000 0.00 0.00 42.57 4.00
494 610 1.087501 GTGGCTTACTTGCTACCTGC 58.912 55.000 0.00 0.00 38.28 4.85
510 626 4.594367 GCAGAGTGCAGACTGAGG 57.406 61.111 19.90 0.00 44.26 3.86
511 627 1.670590 GCAGAGTGCAGACTGAGGT 59.329 57.895 19.90 0.00 44.26 3.85
512 628 0.669932 GCAGAGTGCAGACTGAGGTG 60.670 60.000 19.90 0.00 44.26 4.00
513 629 0.678395 CAGAGTGCAGACTGAGGTGT 59.322 55.000 6.65 0.00 36.38 4.16
514 630 1.069823 CAGAGTGCAGACTGAGGTGTT 59.930 52.381 6.65 0.00 36.38 3.32
515 631 1.765314 AGAGTGCAGACTGAGGTGTTT 59.235 47.619 6.65 0.00 30.16 2.83
516 632 1.869767 GAGTGCAGACTGAGGTGTTTG 59.130 52.381 6.65 0.00 30.16 2.93
517 633 1.210478 AGTGCAGACTGAGGTGTTTGT 59.790 47.619 6.65 0.00 0.00 2.83
518 634 2.017049 GTGCAGACTGAGGTGTTTGTT 58.983 47.619 6.65 0.00 0.00 2.83
519 635 2.032178 GTGCAGACTGAGGTGTTTGTTC 59.968 50.000 6.65 0.00 0.00 3.18
559 675 5.295431 TCTGTGTTGTCAACTCTGTTTTG 57.705 39.130 16.45 2.58 0.00 2.44
572 688 2.102757 TCTGTTTTGCTACCGTGGTGTA 59.897 45.455 0.72 0.00 0.00 2.90
618 743 3.665745 AATGCCAAAATCTCACCACAC 57.334 42.857 0.00 0.00 0.00 3.82
619 744 2.064434 TGCCAAAATCTCACCACACA 57.936 45.000 0.00 0.00 0.00 3.72
627 756 2.749280 TCTCACCACACATAGCAGTG 57.251 50.000 2.88 2.88 44.93 3.66
655 793 5.157940 TCCTAGTAGCCGTATAGTACCTG 57.842 47.826 0.00 0.00 0.00 4.00
662 800 7.453393 AGTAGCCGTATAGTACCTGTACAATA 58.547 38.462 9.90 0.00 38.48 1.90
975 1127 2.041265 TCCCTCCCTTGCTCCTCC 59.959 66.667 0.00 0.00 0.00 4.30
1118 1270 3.228017 GGAGCCTCCTACGCCCTC 61.228 72.222 2.64 0.00 32.53 4.30
1421 1588 2.357034 GTCAAGTTCGGCGAGGCA 60.357 61.111 10.46 0.00 0.00 4.75
1436 1603 2.328099 GGCAGTCTGGTTCAAGGCG 61.328 63.158 1.14 0.00 0.00 5.52
1676 1843 1.271054 GCTGAGCTCAAGGTGAAGGAA 60.271 52.381 18.85 0.00 0.00 3.36
1739 1906 2.046892 GTGCAGGCCATCGTCACT 60.047 61.111 5.01 0.00 0.00 3.41
1941 2110 3.551846 AGATGTTTACAAATAGGGCCCG 58.448 45.455 18.44 3.62 0.00 6.13
2034 2204 4.657436 TTGTTCGGGTTTGCTAAACATT 57.343 36.364 11.93 0.00 43.15 2.71
2072 2249 4.647424 TTTTGTCATTCACTTTCCGCTT 57.353 36.364 0.00 0.00 0.00 4.68
2084 2261 2.281761 CCGCTTTGTGTGAGGCCT 60.282 61.111 3.86 3.86 0.00 5.19
2103 2280 2.083774 CTAAGGCGGAAACAGCATGAA 58.916 47.619 0.00 0.00 39.69 2.57
2150 2344 1.674441 CGTGTATAAGCAGGAGTCGGA 59.326 52.381 0.00 0.00 0.00 4.55
2169 2363 0.105964 AGATAGCTGCCGGGAGAGAA 60.106 55.000 29.09 11.08 0.00 2.87
2182 2376 4.083271 CCGGGAGAGAATTTGAAACTTCAC 60.083 45.833 0.00 0.00 36.83 3.18
2192 2386 1.566018 GAAACTTCACGAGTGCGGGG 61.566 60.000 0.00 0.00 42.43 5.73
2535 2730 0.882484 GGGCTTAGAGAGATTGCCGC 60.882 60.000 0.00 0.00 44.07 6.53
2538 2733 0.385751 CTTAGAGAGATTGCCGCGGA 59.614 55.000 33.48 9.86 0.00 5.54
2610 2805 1.065854 GTTGGATGCAGACAGCTAGGT 60.066 52.381 0.00 0.00 45.94 3.08
2613 2808 2.311463 GGATGCAGACAGCTAGGTCTA 58.689 52.381 6.40 0.00 46.05 2.59
2667 2909 3.074412 CCAGTGGTTGTGAATAGTGACC 58.926 50.000 0.00 0.00 0.00 4.02
2770 3013 7.625828 ACTTTAGCTGTACTCAAGTGTTTTT 57.374 32.000 0.00 0.00 40.54 1.94
2810 3054 9.541143 AGTTCAAATACCTTTGTTACATTTTGG 57.459 29.630 0.00 0.00 42.02 3.28
2811 3055 7.954788 TCAAATACCTTTGTTACATTTTGGC 57.045 32.000 0.00 0.00 42.02 4.52
2812 3056 6.642950 TCAAATACCTTTGTTACATTTTGGCG 59.357 34.615 0.00 0.00 42.02 5.69
2813 3057 5.968528 ATACCTTTGTTACATTTTGGCGA 57.031 34.783 0.00 0.00 0.00 5.54
2814 3058 4.657436 ACCTTTGTTACATTTTGGCGAA 57.343 36.364 0.00 0.00 0.00 4.70
2815 3059 4.616953 ACCTTTGTTACATTTTGGCGAAG 58.383 39.130 0.00 0.00 0.00 3.79
2816 3060 4.098807 ACCTTTGTTACATTTTGGCGAAGT 59.901 37.500 0.00 0.00 0.00 3.01
2817 3061 5.299782 ACCTTTGTTACATTTTGGCGAAGTA 59.700 36.000 0.00 0.00 0.00 2.24
2818 3062 6.015772 ACCTTTGTTACATTTTGGCGAAGTAT 60.016 34.615 0.00 0.00 0.00 2.12
2819 3063 6.526674 CCTTTGTTACATTTTGGCGAAGTATC 59.473 38.462 0.00 0.00 0.00 2.24
2820 3064 6.561737 TTGTTACATTTTGGCGAAGTATCA 57.438 33.333 0.00 0.00 0.00 2.15
2821 3065 6.176975 TGTTACATTTTGGCGAAGTATCAG 57.823 37.500 0.00 0.00 0.00 2.90
2822 3066 5.123186 TGTTACATTTTGGCGAAGTATCAGG 59.877 40.000 0.00 0.00 0.00 3.86
2823 3067 3.686016 ACATTTTGGCGAAGTATCAGGT 58.314 40.909 0.00 0.00 0.00 4.00
2824 3068 3.440173 ACATTTTGGCGAAGTATCAGGTG 59.560 43.478 0.00 0.00 0.00 4.00
2825 3069 3.410631 TTTTGGCGAAGTATCAGGTGA 57.589 42.857 0.00 0.00 0.00 4.02
2826 3070 3.410631 TTTGGCGAAGTATCAGGTGAA 57.589 42.857 0.00 0.00 0.00 3.18
2827 3071 3.410631 TTGGCGAAGTATCAGGTGAAA 57.589 42.857 0.00 0.00 0.00 2.69
2828 3072 3.410631 TGGCGAAGTATCAGGTGAAAA 57.589 42.857 0.00 0.00 0.00 2.29
2829 3073 3.950397 TGGCGAAGTATCAGGTGAAAAT 58.050 40.909 0.00 0.00 0.00 1.82
2830 3074 3.689161 TGGCGAAGTATCAGGTGAAAATG 59.311 43.478 0.00 0.00 0.00 2.32
2831 3075 3.938963 GGCGAAGTATCAGGTGAAAATGA 59.061 43.478 0.00 0.00 0.00 2.57
2832 3076 4.394920 GGCGAAGTATCAGGTGAAAATGAA 59.605 41.667 0.00 0.00 0.00 2.57
2833 3077 5.106317 GGCGAAGTATCAGGTGAAAATGAAA 60.106 40.000 0.00 0.00 0.00 2.69
2834 3078 6.378582 GCGAAGTATCAGGTGAAAATGAAAA 58.621 36.000 0.00 0.00 0.00 2.29
2835 3079 7.029563 GCGAAGTATCAGGTGAAAATGAAAAT 58.970 34.615 0.00 0.00 0.00 1.82
2836 3080 7.218963 GCGAAGTATCAGGTGAAAATGAAAATC 59.781 37.037 0.00 0.00 0.00 2.17
2837 3081 8.454106 CGAAGTATCAGGTGAAAATGAAAATCT 58.546 33.333 0.00 0.00 0.00 2.40
2838 3082 9.565213 GAAGTATCAGGTGAAAATGAAAATCTG 57.435 33.333 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
248 249 9.431887 CATATACAAATACAATACGGCTAAGGT 57.568 33.333 0.00 0.00 0.00 3.50
308 317 3.747010 GGATGCTCTGCTGAATCATACAG 59.253 47.826 10.80 6.99 38.27 2.74
309 318 3.135167 TGGATGCTCTGCTGAATCATACA 59.865 43.478 13.13 13.13 0.00 2.29
310 319 3.736720 TGGATGCTCTGCTGAATCATAC 58.263 45.455 9.45 9.45 0.00 2.39
335 344 1.120530 TTTGGATCGGAGGGAGTAGC 58.879 55.000 0.00 0.00 0.00 3.58
350 359 0.038343 CCCATCGGCACTTGTTTTGG 60.038 55.000 0.00 0.00 0.00 3.28
356 365 0.035439 ACTAACCCCATCGGCACTTG 60.035 55.000 0.00 0.00 33.26 3.16
362 371 4.743493 CAATTTTGAACTAACCCCATCGG 58.257 43.478 0.00 0.00 37.81 4.18
365 374 3.829601 TCGCAATTTTGAACTAACCCCAT 59.170 39.130 0.00 0.00 0.00 4.00
366 375 3.004944 GTCGCAATTTTGAACTAACCCCA 59.995 43.478 0.00 0.00 0.00 4.96
368 377 4.231718 TGTCGCAATTTTGAACTAACCC 57.768 40.909 0.00 0.00 0.00 4.11
369 378 6.763303 AATTGTCGCAATTTTGAACTAACC 57.237 33.333 10.67 0.00 0.00 2.85
399 424 9.672673 GTAGTATATGAATTACTACCTCCGGTA 57.327 37.037 0.00 0.00 39.89 4.02
401 426 8.457261 GTGTAGTATATGAATTACTACCTCCGG 58.543 40.741 14.93 0.00 43.15 5.14
426 451 9.083422 AGCGTATAGATAGATTATATGCATGGT 57.917 33.333 10.16 0.04 43.55 3.55
430 455 9.967346 GGAAAGCGTATAGATAGATTATATGCA 57.033 33.333 15.09 0.00 43.55 3.96
453 569 7.383687 CCACATGTAGTAGTAGAAACAAGGAA 58.616 38.462 0.00 0.00 0.00 3.36
456 572 6.398918 AGCCACATGTAGTAGTAGAAACAAG 58.601 40.000 0.00 0.00 0.00 3.16
463 579 5.749109 GCAAGTAAGCCACATGTAGTAGTAG 59.251 44.000 0.00 0.00 0.00 2.57
464 580 5.421056 AGCAAGTAAGCCACATGTAGTAGTA 59.579 40.000 0.00 0.00 34.23 1.82
465 581 4.223032 AGCAAGTAAGCCACATGTAGTAGT 59.777 41.667 0.00 0.00 34.23 2.73
466 582 4.759782 AGCAAGTAAGCCACATGTAGTAG 58.240 43.478 0.00 0.00 34.23 2.57
467 583 4.819105 AGCAAGTAAGCCACATGTAGTA 57.181 40.909 0.00 0.00 34.23 1.82
468 584 3.703001 AGCAAGTAAGCCACATGTAGT 57.297 42.857 0.00 0.00 34.23 2.73
469 585 3.871594 GGTAGCAAGTAAGCCACATGTAG 59.128 47.826 0.00 0.00 34.23 2.74
470 586 3.517901 AGGTAGCAAGTAAGCCACATGTA 59.482 43.478 0.00 0.00 34.23 2.29
471 587 2.305927 AGGTAGCAAGTAAGCCACATGT 59.694 45.455 0.00 0.00 34.23 3.21
472 588 2.679837 CAGGTAGCAAGTAAGCCACATG 59.320 50.000 0.00 0.00 32.38 3.21
473 589 2.941415 GCAGGTAGCAAGTAAGCCACAT 60.941 50.000 0.00 0.00 44.79 3.21
474 590 1.610624 GCAGGTAGCAAGTAAGCCACA 60.611 52.381 0.00 0.00 44.79 4.17
475 591 1.087501 GCAGGTAGCAAGTAAGCCAC 58.912 55.000 0.00 0.00 44.79 5.01
476 592 3.551259 GCAGGTAGCAAGTAAGCCA 57.449 52.632 0.00 0.00 44.79 4.75
493 609 0.669932 CACCTCAGTCTGCACTCTGC 60.670 60.000 8.11 0.00 45.29 4.26
494 610 0.678395 ACACCTCAGTCTGCACTCTG 59.322 55.000 6.96 6.96 0.00 3.35
495 611 1.418334 AACACCTCAGTCTGCACTCT 58.582 50.000 0.00 0.00 0.00 3.24
496 612 1.869767 CAAACACCTCAGTCTGCACTC 59.130 52.381 0.00 0.00 0.00 3.51
497 613 1.210478 ACAAACACCTCAGTCTGCACT 59.790 47.619 0.00 0.00 0.00 4.40
498 614 1.668419 ACAAACACCTCAGTCTGCAC 58.332 50.000 0.00 0.00 0.00 4.57
499 615 2.288666 GAACAAACACCTCAGTCTGCA 58.711 47.619 0.00 0.00 0.00 4.41
500 616 1.604278 GGAACAAACACCTCAGTCTGC 59.396 52.381 0.00 0.00 0.00 4.26
501 617 2.874701 CTGGAACAAACACCTCAGTCTG 59.125 50.000 0.00 0.00 38.70 3.51
502 618 2.746472 GCTGGAACAAACACCTCAGTCT 60.746 50.000 0.00 0.00 38.70 3.24
503 619 1.604278 GCTGGAACAAACACCTCAGTC 59.396 52.381 0.00 0.00 38.70 3.51
504 620 1.212935 AGCTGGAACAAACACCTCAGT 59.787 47.619 0.00 0.00 38.70 3.41
505 621 1.972872 AGCTGGAACAAACACCTCAG 58.027 50.000 0.00 0.00 38.70 3.35
506 622 2.810400 GCTAGCTGGAACAAACACCTCA 60.810 50.000 7.70 0.00 38.70 3.86
507 623 1.807142 GCTAGCTGGAACAAACACCTC 59.193 52.381 7.70 0.00 38.70 3.85
508 624 1.142870 TGCTAGCTGGAACAAACACCT 59.857 47.619 17.23 0.00 38.70 4.00
509 625 1.604604 TGCTAGCTGGAACAAACACC 58.395 50.000 17.23 0.00 38.70 4.16
510 626 6.662616 CATATATGCTAGCTGGAACAAACAC 58.337 40.000 17.23 0.00 38.70 3.32
511 627 6.866010 CATATATGCTAGCTGGAACAAACA 57.134 37.500 17.23 0.00 38.70 2.83
537 653 4.379394 GCAAAACAGAGTTGACAACACAGA 60.379 41.667 20.08 0.00 0.00 3.41
545 661 2.870411 ACGGTAGCAAAACAGAGTTGAC 59.130 45.455 0.00 0.00 0.00 3.18
559 675 3.075884 TCCAAAAATACACCACGGTAGC 58.924 45.455 0.00 0.00 0.00 3.58
572 688 5.123661 CAGCACCAAAACACTTTCCAAAAAT 59.876 36.000 0.00 0.00 0.00 1.82
618 743 5.751028 GCTACTAGGAAACTTCACTGCTATG 59.249 44.000 0.00 0.00 43.67 2.23
619 744 5.163395 GGCTACTAGGAAACTTCACTGCTAT 60.163 44.000 0.00 0.00 43.67 2.97
627 756 6.631971 ACTATACGGCTACTAGGAAACTTC 57.368 41.667 0.00 0.00 43.67 3.01
655 793 4.938832 TGTAACATGCACCCTGTATTGTAC 59.061 41.667 0.00 0.00 0.00 2.90
662 800 1.064003 TCCTGTAACATGCACCCTGT 58.936 50.000 0.00 0.00 0.00 4.00
687 825 5.106712 GCACGTCCAAAAGTAGAATCATTCA 60.107 40.000 0.00 0.00 0.00 2.57
800 942 2.572284 GACCCGGACGACCTGAAG 59.428 66.667 0.73 0.00 0.00 3.02
975 1127 2.743928 GTGGCTGCGTGAGGAAGG 60.744 66.667 0.00 0.00 0.00 3.46
1421 1588 2.750350 CCCGCCTTGAACCAGACT 59.250 61.111 0.00 0.00 0.00 3.24
1436 1603 1.148048 GCTGAAGATCTGGGAGCCC 59.852 63.158 0.00 0.00 0.00 5.19
1583 1750 0.748729 AGAGTGGGTCGACGATCTCC 60.749 60.000 20.57 12.80 0.00 3.71
1646 1813 2.359230 AGCTCAGCAAACGCCTCC 60.359 61.111 0.00 0.00 0.00 4.30
1676 1843 1.303317 AAGGCGGCCGTTCTTGATT 60.303 52.632 28.70 8.28 0.00 2.57
1739 1906 1.987855 CTCCAGCGGACCCTTACCA 60.988 63.158 0.00 0.00 0.00 3.25
1941 2110 8.893219 TCATATAGACATTTCATGTTCCAGAC 57.107 34.615 0.00 0.00 45.03 3.51
2052 2229 4.142271 ACAAAGCGGAAAGTGAATGACAAA 60.142 37.500 0.00 0.00 0.00 2.83
2053 2230 3.380004 ACAAAGCGGAAAGTGAATGACAA 59.620 39.130 0.00 0.00 0.00 3.18
2084 2261 2.083774 CTTCATGCTGTTTCCGCCTTA 58.916 47.619 0.00 0.00 0.00 2.69
2091 2268 0.179179 GCCGCTCTTCATGCTGTTTC 60.179 55.000 0.00 0.00 0.00 2.78
2093 2270 2.393768 CGCCGCTCTTCATGCTGTT 61.394 57.895 0.00 0.00 0.00 3.16
2126 2303 1.137086 ACTCCTGCTTATACACGGCTG 59.863 52.381 0.00 0.00 0.00 4.85
2134 2311 4.011023 GCTATCTCCGACTCCTGCTTATA 58.989 47.826 0.00 0.00 0.00 0.98
2150 2344 0.105964 TTCTCTCCCGGCAGCTATCT 60.106 55.000 0.00 0.00 0.00 1.98
2169 2363 2.032030 CCGCACTCGTGAAGTTTCAAAT 60.032 45.455 0.39 0.00 39.21 2.32
2512 2706 1.488393 GCAATCTCTCTAAGCCCCACT 59.512 52.381 0.00 0.00 0.00 4.00
2535 2730 2.670148 CCCTCCCCTCAACCTTCCG 61.670 68.421 0.00 0.00 0.00 4.30
2538 2733 3.330720 CGCCCTCCCCTCAACCTT 61.331 66.667 0.00 0.00 0.00 3.50
2576 2771 2.357056 CAACCCCCACGGCCAATA 59.643 61.111 2.24 0.00 33.26 1.90
2577 2772 4.694987 CCAACCCCCACGGCCAAT 62.695 66.667 2.24 0.00 33.26 3.16
2610 2805 2.365105 CCGCCCCTCCAACCTAGA 60.365 66.667 0.00 0.00 0.00 2.43
2667 2909 4.973051 CCTGAAAATCTCATCTACGAGTCG 59.027 45.833 11.85 11.85 34.46 4.18
2769 3012 4.377839 TTGAACTTCATCGGCACAAAAA 57.622 36.364 0.00 0.00 0.00 1.94
2770 3013 4.377839 TTTGAACTTCATCGGCACAAAA 57.622 36.364 0.00 0.00 0.00 2.44
2771 3014 4.582701 ATTTGAACTTCATCGGCACAAA 57.417 36.364 0.00 0.00 0.00 2.83
2772 3015 4.083003 GGTATTTGAACTTCATCGGCACAA 60.083 41.667 0.00 0.00 0.00 3.33
2773 3016 3.438781 GGTATTTGAACTTCATCGGCACA 59.561 43.478 0.00 0.00 0.00 4.57
2774 3017 3.689649 AGGTATTTGAACTTCATCGGCAC 59.310 43.478 0.00 0.00 0.00 5.01
2775 3018 3.950397 AGGTATTTGAACTTCATCGGCA 58.050 40.909 0.00 0.00 0.00 5.69
2809 3053 3.938963 TCATTTTCACCTGATACTTCGCC 59.061 43.478 0.00 0.00 0.00 5.54
2810 3054 5.545658 TTCATTTTCACCTGATACTTCGC 57.454 39.130 0.00 0.00 0.00 4.70
2811 3055 8.454106 AGATTTTCATTTTCACCTGATACTTCG 58.546 33.333 0.00 0.00 0.00 3.79
2812 3056 9.565213 CAGATTTTCATTTTCACCTGATACTTC 57.435 33.333 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.