Multiple sequence alignment - TraesCS7B01G306900

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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 TraesCS7B01G306900 chr7B 100.000 3248 0 0 1 3248 550655876 550659123 0.000000e+00 5999.0
1 TraesCS7B01G306900 chr7D 94.210 1779 84 10 601 2373 517553780 517555545 0.000000e+00 2697.0
2 TraesCS7B01G306900 chr7D 89.780 499 24 11 2669 3143 517555921 517556416 5.960000e-172 614.0
3 TraesCS7B01G306900 chr7D 87.368 380 38 10 1 373 517553083 517553459 8.330000e-116 427.0
4 TraesCS7B01G306900 chr7D 92.273 220 11 4 2407 2625 517555617 517555831 1.130000e-79 307.0
5 TraesCS7B01G306900 chr7A 91.735 1827 103 24 601 2406 592261303 592263102 0.000000e+00 2494.0
6 TraesCS7B01G306900 chr7A 85.484 806 53 21 2407 3166 592263157 592263944 0.000000e+00 782.0
7 TraesCS7B01G306900 chr7A 86.395 147 8 7 372 514 592261156 592261294 2.020000e-32 150.0
8 TraesCS7B01G306900 chr6A 82.312 718 100 18 1224 1937 119758904 119759598 6.000000e-167 597.0
9 TraesCS7B01G306900 chr1A 81.034 348 50 10 1643 1982 21675568 21675229 2.490000e-66 263.0
10 TraesCS7B01G306900 chr1A 94.444 36 1 1 250 285 546797200 546797234 2.000000e-03 54.7
11 TraesCS7B01G306900 chr5A 75.300 583 114 17 1410 1991 627664574 627664021 5.380000e-63 252.0
12 TraesCS7B01G306900 chr6D 75.107 233 40 9 1260 1492 472906103 472906317 3.450000e-15 93.5
13 TraesCS7B01G306900 chr6B 100.000 28 0 0 541 568 637859975 637860002 6.000000e-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 TraesCS7B01G306900 chr7B 550655876 550659123 3247 False 5999.00 5999 100.000000 1 3248 1 chr7B.!!$F1 3247
1 TraesCS7B01G306900 chr7D 517553083 517556416 3333 False 1011.25 2697 90.907750 1 3143 4 chr7D.!!$F1 3142
2 TraesCS7B01G306900 chr7A 592261156 592263944 2788 False 1142.00 2494 87.871333 372 3166 3 chr7A.!!$F1 2794
3 TraesCS7B01G306900 chr6A 119758904 119759598 694 False 597.00 597 82.312000 1224 1937 1 chr6A.!!$F1 713
4 TraesCS7B01G306900 chr5A 627664021 627664574 553 True 252.00 252 75.300000 1410 1991 1 chr5A.!!$R1 581

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
544 728 0.523966 CAACCGCGAAAAGGCCATAA 59.476 50.0 8.23 0.0 0.0 1.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2481 2756 1.063266 GGACAGAGAGGACCAGAGGAT 60.063 57.143 0.0 0.0 0.0 3.24 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
39 40 5.351465 ACACATGATTAAATGACACGTCCTC 59.649 40.000 0.00 0.00 0.00 3.71
45 46 6.811665 TGATTAAATGACACGTCCTCTTGTAG 59.188 38.462 0.00 0.00 0.00 2.74
86 88 8.985315 TTAGAATACTACGGGAGTTTAGATGA 57.015 34.615 0.00 0.00 43.33 2.92
108 110 8.859236 ATGAAAGAGTATTCCATATCACATGG 57.141 34.615 0.00 0.00 40.48 3.66
122 124 9.745018 CCATATCACATGGAAAAATATCTACCT 57.255 33.333 0.00 0.00 41.64 3.08
199 201 9.971922 GGATTTTATTAACTAGCAATGAAGCAT 57.028 29.630 0.00 0.00 36.85 3.79
232 235 5.066634 ACAAACACAATAAACACACATCCGA 59.933 36.000 0.00 0.00 0.00 4.55
236 239 4.000988 ACAATAAACACACATCCGACCTC 58.999 43.478 0.00 0.00 0.00 3.85
238 241 5.046878 ACAATAAACACACATCCGACCTCTA 60.047 40.000 0.00 0.00 0.00 2.43
248 251 5.763698 CACATCCGACCTCTACATAACTAGA 59.236 44.000 0.00 0.00 0.00 2.43
252 255 7.893124 TCCGACCTCTACATAACTAGAAATT 57.107 36.000 0.00 0.00 0.00 1.82
270 273 7.408756 AGAAATTTAGAATGCACATAGCCAA 57.591 32.000 0.00 0.00 44.83 4.52
276 279 4.018490 AGAATGCACATAGCCAACATCAA 58.982 39.130 0.00 0.00 44.83 2.57
277 280 4.647853 AGAATGCACATAGCCAACATCAAT 59.352 37.500 0.00 0.00 44.83 2.57
282 285 4.096231 GCACATAGCCAACATCAATACACA 59.904 41.667 0.00 0.00 37.23 3.72
313 316 7.833285 AACACATCCACTAATAAGTTTTGGT 57.167 32.000 0.00 0.00 31.97 3.67
314 317 7.214467 ACACATCCACTAATAAGTTTTGGTG 57.786 36.000 0.00 0.00 37.70 4.17
389 568 5.331098 TCCTTTTCGTTTACCGTTTCAAAC 58.669 37.500 0.00 0.00 37.94 2.93
396 575 6.215121 TCGTTTACCGTTTCAAACAGATCTA 58.785 36.000 0.22 0.00 34.93 1.98
412 593 5.775195 ACAGATCTATCGTTACATGATCCCA 59.225 40.000 0.00 0.00 35.46 4.37
525 709 4.587189 CGTAGGTAGGCGGCAGGC 62.587 72.222 13.08 1.08 44.19 4.85
526 710 3.467226 GTAGGTAGGCGGCAGGCA 61.467 66.667 13.08 0.00 46.16 4.75
527 711 2.685743 TAGGTAGGCGGCAGGCAA 60.686 61.111 13.08 0.00 46.16 4.52
528 712 3.026431 TAGGTAGGCGGCAGGCAAC 62.026 63.158 13.08 1.49 46.16 4.17
536 720 3.972276 GGCAGGCAACCGCGAAAA 61.972 61.111 8.23 0.00 39.92 2.29
537 721 2.429069 GCAGGCAACCGCGAAAAG 60.429 61.111 8.23 0.00 39.92 2.27
538 722 2.255252 CAGGCAACCGCGAAAAGG 59.745 61.111 8.23 0.00 39.92 3.11
539 723 3.670377 AGGCAACCGCGAAAAGGC 61.670 61.111 8.23 6.99 39.92 4.35
540 724 4.717629 GGCAACCGCGAAAAGGCC 62.718 66.667 8.23 9.71 39.92 5.19
541 725 3.972276 GCAACCGCGAAAAGGCCA 61.972 61.111 8.23 0.00 0.00 5.36
542 726 2.961768 CAACCGCGAAAAGGCCAT 59.038 55.556 8.23 0.00 0.00 4.40
543 727 1.928706 GCAACCGCGAAAAGGCCATA 61.929 55.000 8.23 0.00 0.00 2.74
544 728 0.523966 CAACCGCGAAAAGGCCATAA 59.476 50.000 8.23 0.00 0.00 1.90
545 729 1.068194 CAACCGCGAAAAGGCCATAAA 60.068 47.619 8.23 0.00 0.00 1.40
546 730 1.249407 ACCGCGAAAAGGCCATAAAA 58.751 45.000 8.23 0.00 0.00 1.52
547 731 1.614413 ACCGCGAAAAGGCCATAAAAA 59.386 42.857 8.23 0.00 0.00 1.94
569 753 7.542534 AAAACAAAGTACAAGTCACGTATGA 57.457 32.000 0.00 0.00 0.00 2.15
570 754 7.542534 AAACAAAGTACAAGTCACGTATGAA 57.457 32.000 0.00 0.00 36.31 2.57
571 755 7.724305 AACAAAGTACAAGTCACGTATGAAT 57.276 32.000 0.00 0.00 36.31 2.57
572 756 7.117241 ACAAAGTACAAGTCACGTATGAATG 57.883 36.000 0.00 0.00 36.31 2.67
573 757 6.926826 ACAAAGTACAAGTCACGTATGAATGA 59.073 34.615 0.00 0.00 36.31 2.57
574 758 7.116376 ACAAAGTACAAGTCACGTATGAATGAG 59.884 37.037 0.00 0.00 36.31 2.90
575 759 6.510879 AGTACAAGTCACGTATGAATGAGA 57.489 37.500 0.00 0.00 36.31 3.27
576 760 6.323266 AGTACAAGTCACGTATGAATGAGAC 58.677 40.000 0.00 0.00 36.31 3.36
577 761 5.134202 ACAAGTCACGTATGAATGAGACA 57.866 39.130 0.00 0.00 36.31 3.41
578 762 4.923871 ACAAGTCACGTATGAATGAGACAC 59.076 41.667 0.00 0.00 36.31 3.67
579 763 3.759418 AGTCACGTATGAATGAGACACG 58.241 45.455 0.00 0.00 36.31 4.49
580 764 3.190744 AGTCACGTATGAATGAGACACGT 59.809 43.478 0.00 0.00 45.87 4.49
581 765 4.393990 AGTCACGTATGAATGAGACACGTA 59.606 41.667 0.00 0.00 43.37 3.57
582 766 5.066117 AGTCACGTATGAATGAGACACGTAT 59.934 40.000 0.00 0.00 43.37 3.06
583 767 5.742453 GTCACGTATGAATGAGACACGTATT 59.258 40.000 0.00 0.00 43.37 1.89
584 768 6.908820 GTCACGTATGAATGAGACACGTATTA 59.091 38.462 0.00 0.00 43.37 0.98
585 769 6.908820 TCACGTATGAATGAGACACGTATTAC 59.091 38.462 0.00 0.00 43.37 1.89
586 770 6.141844 CACGTATGAATGAGACACGTATTACC 59.858 42.308 0.00 0.00 43.37 2.85
587 771 6.183360 ACGTATGAATGAGACACGTATTACCA 60.183 38.462 0.00 0.00 43.39 3.25
588 772 6.141844 CGTATGAATGAGACACGTATTACCAC 59.858 42.308 0.00 0.00 0.00 4.16
660 844 2.594303 CCGGCAAGCCAGACAACA 60.594 61.111 12.19 0.00 35.37 3.33
732 916 3.625897 CCAGTCTCCCACGCCACA 61.626 66.667 0.00 0.00 0.00 4.17
734 918 4.008933 AGTCTCCCACGCCACAGC 62.009 66.667 0.00 0.00 0.00 4.40
735 919 4.314440 GTCTCCCACGCCACAGCA 62.314 66.667 0.00 0.00 39.83 4.41
795 982 2.656328 CGCGAGCGAGCATCATCA 60.656 61.111 12.58 0.00 42.83 3.07
1056 1251 3.157949 CCCTCCTCCTCCGCTTCC 61.158 72.222 0.00 0.00 0.00 3.46
1115 1313 1.375396 CCATGGAAAGGCACGACGA 60.375 57.895 5.56 0.00 0.00 4.20
1116 1314 1.361668 CCATGGAAAGGCACGACGAG 61.362 60.000 5.56 0.00 0.00 4.18
1308 1511 0.319211 CGTTCTTGTCCCTGTACGCA 60.319 55.000 0.00 0.00 0.00 5.24
1311 1514 0.317160 TCTTGTCCCTGTACGCACTG 59.683 55.000 0.00 0.00 0.00 3.66
2082 2285 4.382320 GGCGGAAGGGTGTGCGTA 62.382 66.667 0.00 0.00 34.45 4.42
2086 2289 1.375523 GGAAGGGTGTGCGTAGTGG 60.376 63.158 0.00 0.00 0.00 4.00
2261 2474 0.263468 GAGTAGGCTTCCTCCCTCCT 59.737 60.000 0.00 0.00 34.61 3.69
2294 2509 8.120465 CCACTGTACAAAGTACAAACAAACTAG 58.880 37.037 10.77 0.00 0.00 2.57
2335 2550 4.212214 CCTTTGGTTCGTCTTCTCTTCTTG 59.788 45.833 0.00 0.00 0.00 3.02
2477 2752 6.612247 TTTTGATTCTTGCGTTCTTCTGTA 57.388 33.333 0.00 0.00 0.00 2.74
2481 2756 4.316205 TTCTTGCGTTCTTCTGTACTGA 57.684 40.909 0.00 0.00 0.00 3.41
2489 2764 4.439426 CGTTCTTCTGTACTGATCCTCTGG 60.439 50.000 3.03 0.00 0.00 3.86
2503 2778 1.342874 CCTCTGGTCCTCTCTGTCCAT 60.343 57.143 0.00 0.00 0.00 3.41
2625 2908 6.015434 ACTGCTAATTTTCTGTTAAACCCAGG 60.015 38.462 0.00 0.00 0.00 4.45
2626 2909 6.071984 TGCTAATTTTCTGTTAAACCCAGGA 58.928 36.000 0.00 0.00 0.00 3.86
2658 2965 1.140134 ACCCAATGCTGGTACCCTGT 61.140 55.000 10.07 0.00 41.72 4.00
2659 2966 0.039618 CCCAATGCTGGTACCCTGTT 59.960 55.000 10.07 0.00 41.72 3.16
2660 2967 1.463674 CCAATGCTGGTACCCTGTTC 58.536 55.000 10.07 0.00 38.00 3.18
2666 2973 0.391263 CTGGTACCCTGTTCCGCTTC 60.391 60.000 10.07 0.00 0.00 3.86
2758 3091 1.705997 ATATTTTCTCCGCCCGGCCT 61.706 55.000 3.10 0.00 34.68 5.19
2800 3133 1.071471 CACTCCACAGCTTTCCGGT 59.929 57.895 0.00 0.00 0.00 5.28
2899 3232 0.108329 ACGCCGTTACCTCCTCAATG 60.108 55.000 0.00 0.00 0.00 2.82
2905 3238 3.306780 CCGTTACCTCCTCAATGAACACT 60.307 47.826 0.00 0.00 0.00 3.55
2926 3281 0.537143 GTGCCCAAGATCACACACCA 60.537 55.000 0.00 0.00 33.63 4.17
2952 3307 3.897239 TGCATATTCCCGTTCCTTTCAT 58.103 40.909 0.00 0.00 0.00 2.57
2975 3330 2.231618 GCCGCGGACGATTCTTCTC 61.232 63.158 33.48 1.41 43.93 2.87
3016 3376 2.602267 TCTCCAAACGGCGAGGGA 60.602 61.111 16.62 15.90 0.00 4.20
3117 3479 2.125269 CCTCGGGGCCAAGTAACG 60.125 66.667 4.39 0.00 0.00 3.18
3122 3484 3.654143 GGGCCAAGTAACGGGGGT 61.654 66.667 4.39 0.00 0.00 4.95
3123 3485 2.360726 GGCCAAGTAACGGGGGTG 60.361 66.667 0.00 0.00 0.00 4.61
3182 3544 4.814294 GGGCGACGGCGAGTGAAT 62.814 66.667 18.90 0.00 41.24 2.57
3183 3545 3.554692 GGCGACGGCGAGTGAATG 61.555 66.667 18.90 0.00 41.24 2.67
3184 3546 3.554692 GCGACGGCGAGTGAATGG 61.555 66.667 18.90 0.00 40.82 3.16
3185 3547 3.554692 CGACGGCGAGTGAATGGC 61.555 66.667 16.62 0.00 40.82 4.40
3206 3568 3.878519 CCGGAGAGAGACGGCGAC 61.879 72.222 16.62 7.87 43.96 5.19
3207 3569 3.878519 CGGAGAGAGACGGCGACC 61.879 72.222 16.62 4.70 0.00 4.79
3220 3582 2.668212 CGACCGCTCTTTGCCCAA 60.668 61.111 0.00 0.00 38.78 4.12
3221 3583 2.954611 GACCGCTCTTTGCCCAAC 59.045 61.111 0.00 0.00 38.78 3.77
3222 3584 2.597510 ACCGCTCTTTGCCCAACC 60.598 61.111 0.00 0.00 38.78 3.77
3223 3585 3.373565 CCGCTCTTTGCCCAACCC 61.374 66.667 0.00 0.00 38.78 4.11
3224 3586 3.737172 CGCTCTTTGCCCAACCCG 61.737 66.667 0.00 0.00 38.78 5.28
3225 3587 2.597510 GCTCTTTGCCCAACCCGT 60.598 61.111 0.00 0.00 35.15 5.28
3226 3588 2.626780 GCTCTTTGCCCAACCCGTC 61.627 63.158 0.00 0.00 35.15 4.79
3227 3589 2.281208 TCTTTGCCCAACCCGTCG 60.281 61.111 0.00 0.00 0.00 5.12
3228 3590 3.361977 CTTTGCCCAACCCGTCGG 61.362 66.667 3.60 3.60 0.00 4.79
3229 3591 3.835790 CTTTGCCCAACCCGTCGGA 62.836 63.158 14.39 0.00 0.00 4.55
3230 3592 3.835790 TTTGCCCAACCCGTCGGAG 62.836 63.158 14.39 5.47 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 7.642082 AGAATAATACTACAAGAGGACGTGT 57.358 36.000 0.00 0.00 41.16 4.49
67 68 6.888632 ACTCTTTCATCTAAACTCCCGTAGTA 59.111 38.462 0.00 0.00 37.50 1.82
73 74 7.565680 TGGAATACTCTTTCATCTAAACTCCC 58.434 38.462 0.00 0.00 0.00 4.30
187 189 8.571336 GTTTGTATATCCTTATGCTTCATTGCT 58.429 33.333 0.00 0.00 0.00 3.91
188 190 8.352201 TGTTTGTATATCCTTATGCTTCATTGC 58.648 33.333 0.00 0.00 0.00 3.56
221 224 1.919240 TGTAGAGGTCGGATGTGTGT 58.081 50.000 0.00 0.00 0.00 3.72
248 251 6.934056 TGTTGGCTATGTGCATTCTAAATTT 58.066 32.000 0.00 0.00 45.15 1.82
252 255 5.192176 TGATGTTGGCTATGTGCATTCTAA 58.808 37.500 0.00 0.00 45.15 2.10
256 259 5.360429 TGTATTGATGTTGGCTATGTGCATT 59.640 36.000 0.00 0.00 45.15 3.56
262 265 5.816449 TGTGTGTATTGATGTTGGCTATG 57.184 39.130 0.00 0.00 0.00 2.23
270 273 9.624697 GATGTGTTTATTTGTGTGTATTGATGT 57.375 29.630 0.00 0.00 0.00 3.06
276 279 7.759489 AGTGGATGTGTTTATTTGTGTGTAT 57.241 32.000 0.00 0.00 0.00 2.29
277 280 8.678593 TTAGTGGATGTGTTTATTTGTGTGTA 57.321 30.769 0.00 0.00 0.00 2.90
307 310 9.377312 CTAAAGAAAACTTTCATTCCACCAAAA 57.623 29.630 5.07 0.00 39.61 2.44
308 311 8.754080 TCTAAAGAAAACTTTCATTCCACCAAA 58.246 29.630 5.07 0.00 39.61 3.28
389 568 6.272822 TGGGATCATGTAACGATAGATCTG 57.727 41.667 5.18 0.00 36.30 2.90
396 575 2.210116 GCGTTGGGATCATGTAACGAT 58.790 47.619 19.90 0.00 46.18 3.73
412 593 0.879765 AGTACTAGTCGTGCTGCGTT 59.120 50.000 0.00 0.00 37.18 4.84
450 631 1.616865 GCCCGTGCTCCATGTACTATA 59.383 52.381 0.00 0.00 33.53 1.31
454 638 2.513897 GGCCCGTGCTCCATGTAC 60.514 66.667 0.00 0.00 37.74 2.90
521 705 2.255252 CCTTTTCGCGGTTGCCTG 59.745 61.111 6.13 0.00 38.08 4.85
525 709 0.523966 TTATGGCCTTTTCGCGGTTG 59.476 50.000 6.13 0.00 0.00 3.77
526 710 1.249407 TTTATGGCCTTTTCGCGGTT 58.751 45.000 6.13 0.00 0.00 4.44
527 711 1.249407 TTTTATGGCCTTTTCGCGGT 58.751 45.000 6.13 0.00 0.00 5.68
528 712 2.355717 TTTTTATGGCCTTTTCGCGG 57.644 45.000 6.13 0.00 0.00 6.46
544 728 7.976826 TCATACGTGACTTGTACTTTGTTTTT 58.023 30.769 0.00 0.00 0.00 1.94
545 729 7.542534 TCATACGTGACTTGTACTTTGTTTT 57.457 32.000 0.00 0.00 0.00 2.43
546 730 7.542534 TTCATACGTGACTTGTACTTTGTTT 57.457 32.000 0.00 0.00 33.11 2.83
547 731 7.439955 TCATTCATACGTGACTTGTACTTTGTT 59.560 33.333 0.00 0.00 33.11 2.83
548 732 6.926826 TCATTCATACGTGACTTGTACTTTGT 59.073 34.615 0.00 0.00 33.11 2.83
549 733 7.328493 TCTCATTCATACGTGACTTGTACTTTG 59.672 37.037 0.00 0.00 33.11 2.77
550 734 7.328737 GTCTCATTCATACGTGACTTGTACTTT 59.671 37.037 0.00 0.00 33.11 2.66
551 735 6.807230 GTCTCATTCATACGTGACTTGTACTT 59.193 38.462 0.00 0.00 33.11 2.24
552 736 6.072119 TGTCTCATTCATACGTGACTTGTACT 60.072 38.462 0.00 0.00 33.11 2.73
553 737 6.033619 GTGTCTCATTCATACGTGACTTGTAC 59.966 42.308 0.00 0.00 33.11 2.90
554 738 6.090783 GTGTCTCATTCATACGTGACTTGTA 58.909 40.000 0.00 0.00 33.11 2.41
555 739 4.923871 GTGTCTCATTCATACGTGACTTGT 59.076 41.667 0.00 0.00 33.11 3.16
556 740 4.030641 CGTGTCTCATTCATACGTGACTTG 59.969 45.833 0.00 0.00 33.11 3.16
557 741 4.166523 CGTGTCTCATTCATACGTGACTT 58.833 43.478 0.00 0.00 33.11 3.01
558 742 3.190744 ACGTGTCTCATTCATACGTGACT 59.809 43.478 0.00 0.00 45.03 3.41
559 743 3.499048 ACGTGTCTCATTCATACGTGAC 58.501 45.455 0.00 0.00 45.03 3.67
560 744 3.842732 ACGTGTCTCATTCATACGTGA 57.157 42.857 0.00 0.00 45.03 4.35
561 745 6.141844 GGTAATACGTGTCTCATTCATACGTG 59.858 42.308 10.51 0.00 46.04 4.49
563 747 6.141844 GTGGTAATACGTGTCTCATTCATACG 59.858 42.308 0.00 0.00 40.30 3.06
564 748 6.141844 CGTGGTAATACGTGTCTCATTCATAC 59.858 42.308 0.00 0.00 39.13 2.39
565 749 6.203647 CGTGGTAATACGTGTCTCATTCATA 58.796 40.000 0.00 0.00 39.13 2.15
566 750 5.041287 CGTGGTAATACGTGTCTCATTCAT 58.959 41.667 0.00 0.00 39.13 2.57
567 751 4.417506 CGTGGTAATACGTGTCTCATTCA 58.582 43.478 0.00 0.00 39.13 2.57
594 778 1.299544 CGGCCTTTTCGCGGTTTTT 60.300 52.632 6.13 0.00 0.00 1.94
595 779 2.333581 CGGCCTTTTCGCGGTTTT 59.666 55.556 6.13 0.00 0.00 2.43
596 780 3.666253 CCGGCCTTTTCGCGGTTT 61.666 61.111 6.13 0.00 0.00 3.27
648 832 1.598130 GCGGTCTGTTGTCTGGCTT 60.598 57.895 0.00 0.00 0.00 4.35
704 888 1.239968 GGAGACTGGCAGCCAACAAG 61.240 60.000 17.03 6.19 30.80 3.16
708 892 2.853542 TGGGAGACTGGCAGCCAA 60.854 61.111 17.03 0.00 30.80 4.52
778 965 1.942549 GATGATGATGCTCGCTCGCG 61.943 60.000 0.00 0.00 41.35 5.87
786 973 0.769873 GGGTGGAGGATGATGATGCT 59.230 55.000 0.00 0.00 31.83 3.79
795 982 3.203834 CCATATGGGGGTGGAGGAT 57.796 57.895 14.52 0.00 37.72 3.24
823 1010 1.334384 GGCAGAGGAGGAAGAGGGAC 61.334 65.000 0.00 0.00 0.00 4.46
907 1101 2.433239 ACCCTACACTAAACTATGCCGG 59.567 50.000 0.00 0.00 0.00 6.13
941 1135 3.357079 CCGCGCCTTCTTGCTTGT 61.357 61.111 0.00 0.00 0.00 3.16
1037 1232 3.986116 GAAGCGGAGGAGGAGGGGT 62.986 68.421 0.00 0.00 0.00 4.95
1269 1472 2.879462 GGGAACGACAGCGCGTAG 60.879 66.667 8.43 6.35 44.86 3.51
1308 1511 4.379243 CCGGCGTCCTCAAGCAGT 62.379 66.667 6.01 0.00 34.54 4.40
2070 2273 2.032071 GCCACTACGCACACCCTT 59.968 61.111 0.00 0.00 0.00 3.95
2132 2335 2.040464 TGGAGCCCCTCATCCTCC 60.040 66.667 0.00 0.00 44.28 4.30
2261 2474 1.134037 ACTTTGTACAGTGGCGGGAAA 60.134 47.619 0.00 0.00 0.00 3.13
2294 2509 4.672587 AAGGGAGAGCCTTTTGTTTTTC 57.327 40.909 0.00 0.00 27.15 2.29
2361 2576 3.735208 CGACATAGGAGTACTGCACAAGG 60.735 52.174 17.34 5.91 0.00 3.61
2363 2578 2.823747 ACGACATAGGAGTACTGCACAA 59.176 45.455 17.34 1.89 0.00 3.33
2366 2581 3.882444 ACTACGACATAGGAGTACTGCA 58.118 45.455 17.34 3.16 34.89 4.41
2477 2752 1.929494 AGAGAGGACCAGAGGATCAGT 59.071 52.381 0.00 0.00 37.82 3.41
2481 2756 1.063266 GGACAGAGAGGACCAGAGGAT 60.063 57.143 0.00 0.00 0.00 3.24
2489 2764 5.537300 TTTGCTATATGGACAGAGAGGAC 57.463 43.478 0.00 0.00 0.00 3.85
2534 2813 3.740115 TCTCTGAAAGAAAAGGAACCGG 58.260 45.455 0.00 0.00 46.34 5.28
2535 2814 6.166982 AGTATCTCTGAAAGAAAAGGAACCG 58.833 40.000 0.00 0.00 46.34 4.44
2625 2908 3.181500 GCATTGGGTTTAACGGATCTGTC 60.181 47.826 7.86 0.00 0.00 3.51
2626 2909 2.752903 GCATTGGGTTTAACGGATCTGT 59.247 45.455 0.00 0.00 0.00 3.41
2800 3133 1.605165 GTGTGGCCGGGGAATCAAA 60.605 57.895 2.18 0.00 0.00 2.69
2899 3232 1.079503 GATCTTGGGCACGAGTGTTC 58.920 55.000 2.32 0.00 0.00 3.18
2905 3238 0.602638 GTGTGTGATCTTGGGCACGA 60.603 55.000 0.00 0.00 37.83 4.35
2926 3281 2.024414 GGAACGGGAATATGCAAAGCT 58.976 47.619 0.00 0.00 0.00 3.74
3016 3376 0.739813 GCATACGCCACCTTTCGAGT 60.740 55.000 0.00 0.00 0.00 4.18
3117 3479 1.605451 CCGAACCCTTTTCACCCCC 60.605 63.158 0.00 0.00 0.00 5.40
3122 3484 2.312390 CTTTTCCCCGAACCCTTTTCA 58.688 47.619 0.00 0.00 0.00 2.69
3123 3485 1.616865 CCTTTTCCCCGAACCCTTTTC 59.383 52.381 0.00 0.00 0.00 2.29
3166 3528 3.554692 CATTCACTCGCCGTCGCC 61.555 66.667 0.00 0.00 35.26 5.54
3167 3529 3.554692 CCATTCACTCGCCGTCGC 61.555 66.667 0.00 0.00 35.26 5.19
3168 3530 3.554692 GCCATTCACTCGCCGTCG 61.555 66.667 0.00 0.00 0.00 5.12
3169 3531 3.195698 GGCCATTCACTCGCCGTC 61.196 66.667 0.00 0.00 31.92 4.79
3179 3541 4.918201 CTCTCCGGCCGGCCATTC 62.918 72.222 42.78 18.48 35.37 2.67
3189 3551 3.878519 GTCGCCGTCTCTCTCCGG 61.879 72.222 0.00 0.00 46.90 5.14
3190 3552 3.878519 GGTCGCCGTCTCTCTCCG 61.879 72.222 0.00 0.00 0.00 4.63
3191 3553 3.878519 CGGTCGCCGTCTCTCTCC 61.879 72.222 9.69 0.00 42.73 3.71
3208 3570 2.597510 ACGGGTTGGGCAAAGAGC 60.598 61.111 0.00 0.00 44.65 4.09
3209 3571 2.325082 CGACGGGTTGGGCAAAGAG 61.325 63.158 0.00 0.00 0.00 2.85
3210 3572 2.281208 CGACGGGTTGGGCAAAGA 60.281 61.111 0.00 0.00 0.00 2.52
3211 3573 3.361977 CCGACGGGTTGGGCAAAG 61.362 66.667 5.81 0.00 0.00 2.77
3212 3574 3.835790 CTCCGACGGGTTGGGCAAA 62.836 63.158 15.25 0.00 34.78 3.68
3213 3575 4.323477 CTCCGACGGGTTGGGCAA 62.323 66.667 15.25 0.00 34.78 4.52
3215 3577 4.754667 GTCTCCGACGGGTTGGGC 62.755 72.222 15.25 0.00 34.78 5.36


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

AutoCloner maintained by Alex Coulton.