Multiple sequence alignment - TraesCS7B01G363000

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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 TraesCS7B01G363000 chr7B 100.000 3194 0 0 1 3194 624948290 624945097 0.000000e+00 5899.0
1 TraesCS7B01G363000 chr7B 85.859 297 17 4 1183 1479 604278078 604278349 3.120000e-75 292.0
2 TraesCS7B01G363000 chr7B 90.206 194 10 1 1180 1373 532456347 532456163 8.850000e-61 244.0
3 TraesCS7B01G363000 chr7A 91.607 3217 149 56 41 3194 657521106 657517948 0.000000e+00 4333.0
4 TraesCS7B01G363000 chr7A 86.053 380 34 7 1109 1479 474143520 474143151 1.070000e-104 390.0
5 TraesCS7B01G363000 chr7D 91.291 3238 156 63 40 3194 568757171 568753977 0.000000e+00 4301.0
6 TraesCS7B01G363000 chr4B 82.095 296 27 6 1181 1476 235738462 235738731 2.480000e-56 230.0
7 TraesCS7B01G363000 chr4B 81.208 298 28 11 1180 1476 225958075 225958345 6.940000e-52 215.0
8 TraesCS7B01G363000 chr3D 85.859 99 4 2 1154 1242 23125141 23125239 2.620000e-16 97.1
9 TraesCS7B01G363000 chr5A 79.839 124 18 5 678 801 123608452 123608336 2.040000e-12 84.2


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 TraesCS7B01G363000 chr7B 624945097 624948290 3193 True 5899 5899 100.000 1 3194 1 chr7B.!!$R2 3193
1 TraesCS7B01G363000 chr7A 657517948 657521106 3158 True 4333 4333 91.607 41 3194 1 chr7A.!!$R2 3153
2 TraesCS7B01G363000 chr7D 568753977 568757171 3194 True 4301 4301 91.291 40 3194 1 chr7D.!!$R1 3154

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
745 790 0.392461 TAGGATGCAAAGGTGACGCC 60.392 55.0 0.0 0.0 37.58 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2423 2518 0.30289 CGTCTCAATCTTGCGGCATC 59.697 55.0 2.28 0.0 0.0 3.91 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
29 30 6.546972 GTTCGAGAAAGAACCTTTTGATCT 57.453 37.500 0.00 0.00 43.33 2.75
30 31 6.960468 GTTCGAGAAAGAACCTTTTGATCTT 58.040 36.000 0.00 0.00 43.33 2.40
31 32 7.418408 GTTCGAGAAAGAACCTTTTGATCTTT 58.582 34.615 0.00 0.00 43.93 2.52
32 33 6.959361 TCGAGAAAGAACCTTTTGATCTTTG 58.041 36.000 4.85 0.00 41.96 2.77
33 34 6.765989 TCGAGAAAGAACCTTTTGATCTTTGA 59.234 34.615 4.85 0.00 41.96 2.69
34 35 7.282224 TCGAGAAAGAACCTTTTGATCTTTGAA 59.718 33.333 4.85 0.00 41.96 2.69
35 36 7.377131 CGAGAAAGAACCTTTTGATCTTTGAAC 59.623 37.037 4.85 0.00 41.96 3.18
36 37 8.298729 AGAAAGAACCTTTTGATCTTTGAACT 57.701 30.769 4.85 0.00 41.96 3.01
37 38 8.193438 AGAAAGAACCTTTTGATCTTTGAACTG 58.807 33.333 4.85 0.00 41.96 3.16
38 39 6.396829 AGAACCTTTTGATCTTTGAACTGG 57.603 37.500 0.00 0.00 0.00 4.00
301 306 2.093447 CCCCTCGACTAAAAGTGATGCT 60.093 50.000 0.00 0.00 0.00 3.79
404 409 1.308047 CACAACAGCTAGGCAACACA 58.692 50.000 0.00 0.00 41.41 3.72
425 430 3.629398 CAGAACAAGGAGCTGTCAGTTTT 59.371 43.478 0.93 0.00 0.00 2.43
455 460 3.761752 ACTGTGCAGTGGTTAAAGTGTTT 59.238 39.130 3.80 0.00 40.75 2.83
469 474 8.245491 GGTTAAAGTGTTTGGTCTTTCAGTTAA 58.755 33.333 0.00 0.00 35.79 2.01
470 475 9.285770 GTTAAAGTGTTTGGTCTTTCAGTTAAG 57.714 33.333 0.00 0.00 35.79 1.85
471 476 5.500645 AGTGTTTGGTCTTTCAGTTAAGC 57.499 39.130 0.00 0.00 0.00 3.09
493 498 1.097232 CATCGGTGCATGATTGTGGT 58.903 50.000 0.00 0.00 0.00 4.16
527 536 0.740868 ATCATGCAGACGTTGGACCG 60.741 55.000 0.00 0.00 0.00 4.79
528 537 1.667830 CATGCAGACGTTGGACCGT 60.668 57.895 0.00 0.00 45.18 4.83
549 559 5.116377 CCGTTTTTAACATGTGATTTGACCG 59.884 40.000 0.00 0.00 0.00 4.79
560 570 1.526575 ATTTGACCGCCCACAAGCAG 61.527 55.000 0.00 0.00 0.00 4.24
571 582 3.954258 GCCCACAAGCAGGATAAAACTAT 59.046 43.478 0.00 0.00 0.00 2.12
574 585 6.459710 GCCCACAAGCAGGATAAAACTATAAC 60.460 42.308 0.00 0.00 0.00 1.89
575 586 6.828785 CCCACAAGCAGGATAAAACTATAACT 59.171 38.462 0.00 0.00 0.00 2.24
592 603 8.294954 ACTATAACTAATGTATCCATCTCCGG 57.705 38.462 0.00 0.00 0.00 5.14
593 604 8.114102 ACTATAACTAATGTATCCATCTCCGGA 58.886 37.037 2.93 2.93 40.07 5.14
594 605 7.792364 ATAACTAATGTATCCATCTCCGGAA 57.208 36.000 5.23 0.00 38.95 4.30
595 606 6.494666 AACTAATGTATCCATCTCCGGAAA 57.505 37.500 5.23 0.00 38.95 3.13
599 641 6.884280 AATGTATCCATCTCCGGAAAAATC 57.116 37.500 5.23 0.00 38.95 2.17
608 653 7.013274 TCCATCTCCGGAAAAATCAATGAATAC 59.987 37.037 5.23 0.00 29.93 1.89
609 654 7.013655 CCATCTCCGGAAAAATCAATGAATACT 59.986 37.037 5.23 0.00 0.00 2.12
610 655 7.553881 TCTCCGGAAAAATCAATGAATACTC 57.446 36.000 5.23 0.00 0.00 2.59
614 659 7.280876 TCCGGAAAAATCAATGAATACTCTCTG 59.719 37.037 0.00 0.00 0.00 3.35
615 660 7.280876 CCGGAAAAATCAATGAATACTCTCTGA 59.719 37.037 0.00 0.00 0.00 3.27
616 661 8.834465 CGGAAAAATCAATGAATACTCTCTGAT 58.166 33.333 0.00 0.00 0.00 2.90
649 694 5.968528 AAATAAACCGGCAATGTTCTGTA 57.031 34.783 0.00 0.00 0.00 2.74
653 698 2.858745 ACCGGCAATGTTCTGTAACTT 58.141 42.857 0.00 0.00 36.51 2.66
676 721 3.691049 TTCTGCCAAAGAAACGTGAAG 57.309 42.857 0.00 0.00 42.09 3.02
678 723 3.013921 TCTGCCAAAGAAACGTGAAGTT 58.986 40.909 0.00 0.00 46.76 2.66
694 739 5.334105 CGTGAAGTTTCAGGACTGTAATTGG 60.334 44.000 8.46 0.00 43.66 3.16
695 740 4.518970 TGAAGTTTCAGGACTGTAATTGGC 59.481 41.667 0.00 0.00 32.50 4.52
696 741 4.098914 AGTTTCAGGACTGTAATTGGCA 57.901 40.909 0.00 0.00 0.00 4.92
698 743 4.460382 AGTTTCAGGACTGTAATTGGCATG 59.540 41.667 0.00 0.00 0.00 4.06
719 764 1.194098 CAGCAACTTCTTCACTGCGAG 59.806 52.381 0.00 0.00 39.80 5.03
720 765 1.202580 AGCAACTTCTTCACTGCGAGT 60.203 47.619 0.00 0.00 39.80 4.18
739 784 4.396166 CGAGTGAAATTAGGATGCAAAGGT 59.604 41.667 0.00 0.00 0.00 3.50
745 790 0.392461 TAGGATGCAAAGGTGACGCC 60.392 55.000 0.00 0.00 37.58 5.68
862 909 3.009033 CACCCATCTTTCCAACCTACTCA 59.991 47.826 0.00 0.00 0.00 3.41
917 964 1.755959 CTCCATCTCCTCTGACACCAG 59.244 57.143 0.00 0.00 41.74 4.00
1174 1233 4.111016 CTGACTACCACGCCGCGA 62.111 66.667 21.79 0.00 0.00 5.87
1560 1629 2.097685 CGTTCGATCATCATTCTGACGC 60.098 50.000 0.00 0.00 0.00 5.19
1563 1632 2.057316 CGATCATCATTCTGACGCTCC 58.943 52.381 0.00 0.00 0.00 4.70
1564 1633 2.411904 GATCATCATTCTGACGCTCCC 58.588 52.381 0.00 0.00 0.00 4.30
1565 1634 0.103026 TCATCATTCTGACGCTCCCG 59.897 55.000 0.00 0.00 41.14 5.14
1842 1917 2.027625 CTGCTTCACGTCGAACCCC 61.028 63.158 0.00 0.00 0.00 4.95
2222 2300 0.815734 GCAGTGGCAGAAGCATGATT 59.184 50.000 0.00 0.00 44.61 2.57
2223 2301 1.203994 GCAGTGGCAGAAGCATGATTT 59.796 47.619 0.00 0.00 44.61 2.17
2261 2347 5.777732 ACATTAGGTCTCAACTCTCAAGTCT 59.222 40.000 0.00 0.00 33.48 3.24
2262 2348 5.968528 TTAGGTCTCAACTCTCAAGTCTC 57.031 43.478 0.00 0.00 33.48 3.36
2264 2350 2.894126 GGTCTCAACTCTCAAGTCTCCA 59.106 50.000 0.00 0.00 33.48 3.86
2265 2351 3.305744 GGTCTCAACTCTCAAGTCTCCAC 60.306 52.174 0.00 0.00 33.48 4.02
2266 2352 3.572255 GTCTCAACTCTCAAGTCTCCACT 59.428 47.826 0.00 0.00 33.48 4.00
2276 2364 6.750148 TCTCAAGTCTCCACTAAAAGAAGAC 58.250 40.000 0.00 0.00 30.14 3.01
2282 2370 7.740805 AGTCTCCACTAAAAGAAGACAAAGAT 58.259 34.615 0.00 0.00 0.00 2.40
2283 2371 8.214364 AGTCTCCACTAAAAGAAGACAAAGATT 58.786 33.333 0.00 0.00 0.00 2.40
2300 2391 7.043565 ACAAAGATTGATTTGAAGTTGCAACT 58.956 30.769 26.36 26.36 41.71 3.16
2324 2415 8.417106 ACTACACTGACATTCTAGATTATGTGG 58.583 37.037 13.58 9.17 35.24 4.17
2354 2445 8.387190 TGATGATATGTCCAGATCAACATTTC 57.613 34.615 8.50 13.13 41.64 2.17
2380 2471 6.449635 TCCACTGTAATGTTTTATCATGGC 57.550 37.500 0.00 0.00 0.00 4.40
2382 2473 5.163663 CCACTGTAATGTTTTATCATGGCGT 60.164 40.000 0.00 0.00 0.00 5.68
2423 2518 9.467258 CATATCAAACCAAATATACAAAGCAGG 57.533 33.333 0.00 0.00 0.00 4.85
2453 2548 5.348724 GCAAGATTGAGACGATGTAGTTCAA 59.651 40.000 0.00 0.00 32.90 2.69
2492 2587 9.528489 AAGGGTAAAGATAGCAAAAATTACTGA 57.472 29.630 0.00 0.00 0.00 3.41
2494 2589 8.957466 GGGTAAAGATAGCAAAAATTACTGAGT 58.043 33.333 0.00 0.00 0.00 3.41
2495 2590 9.989869 GGTAAAGATAGCAAAAATTACTGAGTC 57.010 33.333 0.00 0.00 0.00 3.36
2535 2630 8.469200 AGAACATGATTTTCTCAACACAAGAAA 58.531 29.630 0.00 0.00 40.14 2.52
2544 2639 3.947834 CTCAACACAAGAAACAGGTTCCT 59.052 43.478 0.00 0.00 36.86 3.36
2549 2644 6.844097 ACACAAGAAACAGGTTCCTTTTTA 57.156 33.333 3.40 0.00 36.86 1.52
2871 2984 7.169476 GTGATGACTCTCTGTGTGATATCAATG 59.831 40.741 7.07 0.00 0.00 2.82
2964 3077 1.292061 TAACGTGTTCTTGCGCAAGT 58.708 45.000 40.37 26.07 39.38 3.16
2997 3110 1.676678 CGATTCCCCGGCTCTTCTGA 61.677 60.000 0.00 0.00 0.00 3.27
3026 3139 2.099756 CCAAGGCCTATAGTTTGCAAGC 59.900 50.000 5.16 4.95 0.00 4.01
3038 3152 5.410355 AGTTTGCAAGCATGGATGTTATT 57.590 34.783 16.04 0.00 0.00 1.40
3052 3166 8.853126 CATGGATGTTATTTCAGGTCACAATAT 58.147 33.333 0.00 0.00 0.00 1.28
3131 3245 2.791383 TTGCAGGATTGTCAAAACCG 57.209 45.000 0.00 0.00 33.54 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 5.878116 TCAAAAGGTTCTTTCTCGAACAGAA 59.122 36.000 6.09 0.00 43.87 3.02
3 4 5.424757 TCAAAAGGTTCTTTCTCGAACAGA 58.575 37.500 6.09 0.00 43.87 3.41
4 5 5.734855 TCAAAAGGTTCTTTCTCGAACAG 57.265 39.130 6.09 0.00 43.87 3.16
5 6 6.055588 AGATCAAAAGGTTCTTTCTCGAACA 58.944 36.000 0.00 0.00 43.87 3.18
6 7 6.546972 AGATCAAAAGGTTCTTTCTCGAAC 57.453 37.500 0.00 0.00 41.91 3.95
7 8 7.282224 TCAAAGATCAAAAGGTTCTTTCTCGAA 59.718 33.333 0.00 0.00 41.41 3.71
8 9 6.765989 TCAAAGATCAAAAGGTTCTTTCTCGA 59.234 34.615 0.00 0.00 41.41 4.04
9 10 6.959361 TCAAAGATCAAAAGGTTCTTTCTCG 58.041 36.000 0.00 0.00 41.41 4.04
10 11 8.409371 AGTTCAAAGATCAAAAGGTTCTTTCTC 58.591 33.333 0.00 0.00 41.41 2.87
11 12 8.193438 CAGTTCAAAGATCAAAAGGTTCTTTCT 58.807 33.333 0.00 0.00 41.41 2.52
12 13 7.436376 CCAGTTCAAAGATCAAAAGGTTCTTTC 59.564 37.037 0.00 0.00 41.41 2.62
13 14 7.124147 TCCAGTTCAAAGATCAAAAGGTTCTTT 59.876 33.333 0.00 0.00 43.16 2.52
14 15 6.607198 TCCAGTTCAAAGATCAAAAGGTTCTT 59.393 34.615 0.00 0.00 37.18 2.52
15 16 6.129179 TCCAGTTCAAAGATCAAAAGGTTCT 58.871 36.000 0.00 0.00 0.00 3.01
16 17 6.391227 TCCAGTTCAAAGATCAAAAGGTTC 57.609 37.500 0.00 0.00 0.00 3.62
17 18 6.983906 ATCCAGTTCAAAGATCAAAAGGTT 57.016 33.333 0.00 0.00 0.00 3.50
18 19 8.655935 ATTATCCAGTTCAAAGATCAAAAGGT 57.344 30.769 0.00 0.00 0.00 3.50
19 20 9.933723 AAATTATCCAGTTCAAAGATCAAAAGG 57.066 29.630 0.00 0.00 0.00 3.11
25 26 9.922305 CGTAGAAAATTATCCAGTTCAAAGATC 57.078 33.333 0.00 0.00 0.00 2.75
26 27 8.398665 GCGTAGAAAATTATCCAGTTCAAAGAT 58.601 33.333 0.00 0.00 0.00 2.40
27 28 7.148306 GGCGTAGAAAATTATCCAGTTCAAAGA 60.148 37.037 0.00 0.00 0.00 2.52
28 29 6.967199 GGCGTAGAAAATTATCCAGTTCAAAG 59.033 38.462 0.00 0.00 0.00 2.77
29 30 6.127842 GGGCGTAGAAAATTATCCAGTTCAAA 60.128 38.462 0.00 0.00 0.00 2.69
30 31 5.355910 GGGCGTAGAAAATTATCCAGTTCAA 59.644 40.000 0.00 0.00 0.00 2.69
31 32 4.879545 GGGCGTAGAAAATTATCCAGTTCA 59.120 41.667 0.00 0.00 0.00 3.18
32 33 5.007724 CAGGGCGTAGAAAATTATCCAGTTC 59.992 44.000 0.00 0.00 0.00 3.01
33 34 4.881850 CAGGGCGTAGAAAATTATCCAGTT 59.118 41.667 0.00 0.00 0.00 3.16
34 35 4.080526 ACAGGGCGTAGAAAATTATCCAGT 60.081 41.667 0.00 0.00 0.00 4.00
35 36 4.451900 ACAGGGCGTAGAAAATTATCCAG 58.548 43.478 0.00 0.00 0.00 3.86
36 37 4.497291 ACAGGGCGTAGAAAATTATCCA 57.503 40.909 0.00 0.00 0.00 3.41
37 38 6.053650 AGTTACAGGGCGTAGAAAATTATCC 58.946 40.000 0.00 0.00 0.00 2.59
38 39 8.652810 TTAGTTACAGGGCGTAGAAAATTATC 57.347 34.615 0.00 0.00 0.00 1.75
136 141 1.028905 TTGCCTTTTCCACTTGACCG 58.971 50.000 0.00 0.00 0.00 4.79
323 328 0.741221 GCGTGCAAGAGGGGAGTAAG 60.741 60.000 2.99 0.00 0.00 2.34
404 409 3.567478 AAACTGACAGCTCCTTGTTCT 57.433 42.857 1.25 0.00 0.00 3.01
425 430 1.484653 ACCACTGCACAGTTGTCAGTA 59.515 47.619 0.00 0.00 40.20 2.74
455 460 3.207265 TGCTGCTTAACTGAAAGACCA 57.793 42.857 0.00 0.00 37.43 4.02
493 498 4.773013 TGCATGATTAAGCACTCTGATCA 58.227 39.130 0.00 0.00 35.51 2.92
527 536 5.107645 GGCGGTCAAATCACATGTTAAAAAC 60.108 40.000 0.00 0.00 0.00 2.43
528 537 4.985409 GGCGGTCAAATCACATGTTAAAAA 59.015 37.500 0.00 0.00 0.00 1.94
549 559 2.171003 AGTTTTATCCTGCTTGTGGGC 58.829 47.619 0.00 0.00 0.00 5.36
579 590 6.486657 TCATTGATTTTTCCGGAGATGGATAC 59.513 38.462 3.34 0.00 38.00 2.24
580 591 6.600388 TCATTGATTTTTCCGGAGATGGATA 58.400 36.000 3.34 0.00 38.00 2.59
582 593 4.854173 TCATTGATTTTTCCGGAGATGGA 58.146 39.130 3.34 0.00 35.83 3.41
584 595 7.934457 AGTATTCATTGATTTTTCCGGAGATG 58.066 34.615 3.34 2.46 0.00 2.90
585 596 7.995488 AGAGTATTCATTGATTTTTCCGGAGAT 59.005 33.333 3.34 0.00 0.00 2.75
587 598 7.497249 AGAGAGTATTCATTGATTTTTCCGGAG 59.503 37.037 3.34 0.00 0.00 4.63
589 600 7.280876 TCAGAGAGTATTCATTGATTTTTCCGG 59.719 37.037 0.00 0.00 0.00 5.14
590 601 8.201554 TCAGAGAGTATTCATTGATTTTTCCG 57.798 34.615 0.00 0.00 0.00 4.30
621 666 9.528018 CAGAACATTGCCGGTTTATTTATATTT 57.472 29.630 1.90 0.00 0.00 1.40
622 667 8.691797 ACAGAACATTGCCGGTTTATTTATATT 58.308 29.630 1.90 0.00 0.00 1.28
623 668 8.232913 ACAGAACATTGCCGGTTTATTTATAT 57.767 30.769 1.90 0.00 0.00 0.86
624 669 7.633193 ACAGAACATTGCCGGTTTATTTATA 57.367 32.000 1.90 0.00 0.00 0.98
625 670 6.524101 ACAGAACATTGCCGGTTTATTTAT 57.476 33.333 1.90 0.00 0.00 1.40
626 671 5.968528 ACAGAACATTGCCGGTTTATTTA 57.031 34.783 1.90 0.00 0.00 1.40
627 672 4.864704 ACAGAACATTGCCGGTTTATTT 57.135 36.364 1.90 0.00 0.00 1.40
628 673 5.475564 AGTTACAGAACATTGCCGGTTTATT 59.524 36.000 1.90 0.00 38.10 1.40
629 674 5.007682 AGTTACAGAACATTGCCGGTTTAT 58.992 37.500 1.90 0.00 38.10 1.40
630 675 4.391155 AGTTACAGAACATTGCCGGTTTA 58.609 39.130 1.90 0.00 38.10 2.01
631 676 3.219281 AGTTACAGAACATTGCCGGTTT 58.781 40.909 1.90 0.00 38.10 3.27
632 677 2.858745 AGTTACAGAACATTGCCGGTT 58.141 42.857 1.90 0.00 38.10 4.44
633 678 2.561478 AGTTACAGAACATTGCCGGT 57.439 45.000 1.90 0.00 38.10 5.28
634 679 3.915437 AAAGTTACAGAACATTGCCGG 57.085 42.857 0.00 0.00 38.10 6.13
670 715 5.334105 CCAATTACAGTCCTGAAACTTCACG 60.334 44.000 0.40 0.00 32.90 4.35
676 721 4.737054 CATGCCAATTACAGTCCTGAAAC 58.263 43.478 0.40 0.00 0.00 2.78
678 723 2.754552 GCATGCCAATTACAGTCCTGAA 59.245 45.455 6.36 0.00 0.00 3.02
680 725 2.093890 TGCATGCCAATTACAGTCCTG 58.906 47.619 16.68 0.00 0.00 3.86
683 728 1.473677 TGCTGCATGCCAATTACAGTC 59.526 47.619 16.68 1.36 42.00 3.51
694 739 1.268899 AGTGAAGAAGTTGCTGCATGC 59.731 47.619 11.82 11.82 43.25 4.06
695 740 2.929960 CAGTGAAGAAGTTGCTGCATG 58.070 47.619 1.84 0.00 0.00 4.06
698 743 0.385223 CGCAGTGAAGAAGTTGCTGC 60.385 55.000 0.00 0.00 46.22 5.25
719 764 5.402398 GTCACCTTTGCATCCTAATTTCAC 58.598 41.667 0.00 0.00 0.00 3.18
720 765 4.155826 CGTCACCTTTGCATCCTAATTTCA 59.844 41.667 0.00 0.00 0.00 2.69
721 766 4.662145 CGTCACCTTTGCATCCTAATTTC 58.338 43.478 0.00 0.00 0.00 2.17
722 767 3.119495 GCGTCACCTTTGCATCCTAATTT 60.119 43.478 0.00 0.00 0.00 1.82
723 768 2.423538 GCGTCACCTTTGCATCCTAATT 59.576 45.455 0.00 0.00 0.00 1.40
724 769 2.017049 GCGTCACCTTTGCATCCTAAT 58.983 47.619 0.00 0.00 0.00 1.73
739 784 1.402968 GACAGGTACTAATCGGCGTCA 59.597 52.381 6.85 0.00 36.02 4.35
768 813 2.517959 ACGTACTGTAGCCAGGTACAA 58.482 47.619 10.60 0.00 43.36 2.41
862 909 5.499004 TTTATACAAGAGACAAGCAGGGT 57.501 39.130 0.00 0.00 0.00 4.34
893 940 1.287442 TGTCAGAGGAGATGGAGCTCT 59.713 52.381 14.64 0.00 35.26 4.09
917 964 0.823356 TGTGAGGGCTTTGTGCTTCC 60.823 55.000 0.00 0.00 42.39 3.46
965 1020 0.599991 CACGCACCAGAGCACACTAA 60.600 55.000 0.00 0.00 0.00 2.24
1149 1208 4.063967 TGGTAGTCAGCGGCACCG 62.064 66.667 4.30 4.30 43.09 4.94
1151 1210 2.809601 CGTGGTAGTCAGCGGCAC 60.810 66.667 1.45 0.00 0.00 5.01
1152 1211 4.735132 GCGTGGTAGTCAGCGGCA 62.735 66.667 1.45 0.00 0.00 5.69
1560 1629 3.373565 GGCCTGCAAAACCGGGAG 61.374 66.667 6.32 0.00 32.76 4.30
1563 1632 2.582493 AATGGGCCTGCAAAACCGG 61.582 57.895 4.53 0.00 0.00 5.28
1564 1633 1.374505 CAATGGGCCTGCAAAACCG 60.375 57.895 4.53 0.00 0.00 4.44
1565 1634 1.672030 GCAATGGGCCTGCAAAACC 60.672 57.895 12.50 0.00 39.69 3.27
1776 1851 3.199190 CGCGACGAGGAGCTCTCT 61.199 66.667 14.64 9.10 40.30 3.10
2222 2300 3.768757 CCTAATGTGGGCCTTCAAATCAA 59.231 43.478 4.53 0.00 0.00 2.57
2223 2301 3.245586 ACCTAATGTGGGCCTTCAAATCA 60.246 43.478 4.53 0.00 0.00 2.57
2261 2347 8.924511 ATCAATCTTTGTCTTCTTTTAGTGGA 57.075 30.769 0.00 0.00 0.00 4.02
2262 2348 9.971922 AAATCAATCTTTGTCTTCTTTTAGTGG 57.028 29.630 0.00 0.00 0.00 4.00
2276 2364 7.473027 AGTTGCAACTTCAAATCAATCTTTG 57.527 32.000 26.36 0.00 35.21 2.77
2282 2370 6.094742 TCAGTGTAGTTGCAACTTCAAATCAA 59.905 34.615 35.20 17.38 37.92 2.57
2283 2371 5.588246 TCAGTGTAGTTGCAACTTCAAATCA 59.412 36.000 35.20 20.46 37.92 2.57
2300 2391 7.210174 GCCACATAATCTAGAATGTCAGTGTA 58.790 38.462 7.03 0.00 34.12 2.90
2324 2415 5.250982 TGATCTGGACATATCATCAATGGC 58.749 41.667 0.00 0.00 0.00 4.40
2354 2445 7.489113 GCCATGATAAAACATTACAGTGGAAAG 59.511 37.037 0.00 0.00 0.00 2.62
2380 2471 7.967771 TTGATATGCAAATGTGTTCAATACG 57.032 32.000 0.00 0.00 32.46 3.06
2423 2518 0.302890 CGTCTCAATCTTGCGGCATC 59.697 55.000 2.28 0.00 0.00 3.91
2491 2586 5.168569 TGTTCTTCCGTATGTTGATGACTC 58.831 41.667 0.00 0.00 0.00 3.36
2492 2587 5.147330 TGTTCTTCCGTATGTTGATGACT 57.853 39.130 0.00 0.00 0.00 3.41
2494 2589 5.729510 TCATGTTCTTCCGTATGTTGATGA 58.270 37.500 0.00 0.00 0.00 2.92
2495 2590 6.609237 ATCATGTTCTTCCGTATGTTGATG 57.391 37.500 0.00 0.00 0.00 3.07
2496 2591 7.630242 AAATCATGTTCTTCCGTATGTTGAT 57.370 32.000 0.00 0.00 0.00 2.57
2535 2630 3.851458 ACGAGGTAAAAAGGAACCTGT 57.149 42.857 0.00 0.00 46.22 4.00
2871 2984 1.349973 GATTTCAAGGCGCGCTCTC 59.650 57.895 32.29 14.98 0.00 3.20
2997 3110 4.282292 ACTATAGGCCTTGGACTACCTT 57.718 45.455 12.58 0.00 37.04 3.50
3026 3139 6.513806 TTGTGACCTGAAATAACATCCATG 57.486 37.500 0.00 0.00 0.00 3.66
3038 3152 6.212589 TGTCTTGACCTATATTGTGACCTGAA 59.787 38.462 0.00 0.00 0.00 3.02
3052 3166 3.776969 AGAATGGATGCTGTCTTGACCTA 59.223 43.478 0.00 0.00 0.00 3.08
3104 3218 4.933505 TGACAATCCTGCAAATGTTGAA 57.066 36.364 7.51 0.00 0.00 2.69
3131 3245 3.650139 ACTACAAGATGTCGTTGACCAC 58.350 45.455 0.00 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.