Multiple sequence alignment - TraesCS6B01G013500

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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 TraesCS6B01G013500 chr6B 100.000 2612 0 0 1 2612 8412114 8409503 0.000000e+00 4824.0
1 TraesCS6B01G013500 chr6D 90.353 1814 133 17 805 2612 4291260 4293037 0.000000e+00 2342.0
2 TraesCS6B01G013500 chr6D 89.262 745 40 23 1 741 4290360 4291068 0.000000e+00 896.0
3 TraesCS6B01G013500 chr6A 87.178 1903 140 44 781 2612 2750720 2752589 0.000000e+00 2067.0
4 TraesCS6B01G013500 chr6A 89.142 746 34 20 2 745 2749493 2750193 0.000000e+00 885.0
5 TraesCS6B01G013500 chr1B 87.335 379 37 3 1262 1630 683111336 683110959 8.640000e-115 424.0
6 TraesCS6B01G013500 chr1D 86.822 129 17 0 1272 1400 460602825 460602697 7.530000e-31 145.0
7 TraesCS6B01G013500 chr1A 100.000 34 0 0 1314 1347 540666588 540666555 2.170000e-06 63.9


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 TraesCS6B01G013500 chr6B 8409503 8412114 2611 True 4824 4824 100.0000 1 2612 1 chr6B.!!$R1 2611
1 TraesCS6B01G013500 chr6D 4290360 4293037 2677 False 1619 2342 89.8075 1 2612 2 chr6D.!!$F1 2611
2 TraesCS6B01G013500 chr6A 2749493 2752589 3096 False 1476 2067 88.1600 2 2612 2 chr6A.!!$F1 2610

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
898 1416 0.890542 CAGTTGCAAGCCACAGCCTA 60.891 55.0 0.0 0.0 41.25 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1735 2287 0.108472 CTGCATGCTTCCTCTGTCGA 60.108 55.0 20.33 0.0 0.0 4.2 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
216 220 2.740826 CAGGCCAACGTGTACGGG 60.741 66.667 5.01 2.59 44.95 5.28
234 238 3.826754 CTGGCCATGCAGCAGCTG 61.827 66.667 18.93 18.93 42.74 4.24
380 384 4.612536 CGCCGCCGCCAAATGATC 62.613 66.667 0.00 0.00 0.00 2.92
381 385 4.270376 GCCGCCGCCAAATGATCC 62.270 66.667 0.00 0.00 0.00 3.36
382 386 2.828095 CCGCCGCCAAATGATCCA 60.828 61.111 0.00 0.00 0.00 3.41
398 402 2.547798 CATCATGCATCGTCGCCG 59.452 61.111 0.00 0.00 0.00 6.46
441 445 3.058432 TCATCGTCGTCGTCTTCTTCTTT 60.058 43.478 1.33 0.00 38.33 2.52
442 446 2.647337 TCGTCGTCGTCTTCTTCTTTG 58.353 47.619 1.33 0.00 38.33 2.77
443 447 1.122680 CGTCGTCGTCTTCTTCTTTGC 59.877 52.381 0.00 0.00 0.00 3.68
444 448 2.124903 GTCGTCGTCTTCTTCTTTGCA 58.875 47.619 0.00 0.00 0.00 4.08
445 449 2.731976 GTCGTCGTCTTCTTCTTTGCAT 59.268 45.455 0.00 0.00 0.00 3.96
446 450 2.731451 TCGTCGTCTTCTTCTTTGCATG 59.269 45.455 0.00 0.00 0.00 4.06
447 451 2.159787 CGTCGTCTTCTTCTTTGCATGG 60.160 50.000 0.00 0.00 0.00 3.66
448 452 3.067106 GTCGTCTTCTTCTTTGCATGGA 58.933 45.455 0.00 0.00 0.00 3.41
449 453 3.686726 GTCGTCTTCTTCTTTGCATGGAT 59.313 43.478 0.00 0.00 0.00 3.41
450 454 3.935203 TCGTCTTCTTCTTTGCATGGATC 59.065 43.478 0.00 0.00 0.00 3.36
475 481 3.266510 TGGATTGGATTTCCTCGTCAG 57.733 47.619 0.00 0.00 36.82 3.51
481 487 2.171237 TGGATTTCCTCGTCAGCATCAT 59.829 45.455 0.00 0.00 36.82 2.45
482 488 2.805099 GGATTTCCTCGTCAGCATCATC 59.195 50.000 0.00 0.00 0.00 2.92
500 506 7.176165 AGCATCATCCATCGTTCATTATTGATT 59.824 33.333 0.00 0.00 0.00 2.57
501 507 7.272731 GCATCATCCATCGTTCATTATTGATTG 59.727 37.037 0.00 0.00 0.00 2.67
502 508 8.508875 CATCATCCATCGTTCATTATTGATTGA 58.491 33.333 0.00 0.00 0.00 2.57
503 509 8.625786 TCATCCATCGTTCATTATTGATTGAT 57.374 30.769 0.00 0.00 30.43 2.57
554 560 3.370209 GGTGTAGTAGTTGGAACCCCATC 60.370 52.174 0.00 0.00 43.12 3.51
560 566 3.441500 AGTTGGAACCCCATCTTCTTC 57.558 47.619 0.00 0.00 43.12 2.87
568 574 5.515710 GGAACCCCATCTTCTTCTTCTTCTT 60.516 44.000 0.00 0.00 0.00 2.52
569 575 5.172687 ACCCCATCTTCTTCTTCTTCTTC 57.827 43.478 0.00 0.00 0.00 2.87
572 578 5.879777 CCCCATCTTCTTCTTCTTCTTCTTC 59.120 44.000 0.00 0.00 0.00 2.87
620 626 7.490962 TGTCCATAAAAGCGAATATTGTAGG 57.509 36.000 0.00 0.00 0.00 3.18
644 650 5.300034 GCCATGATTTACTGATCACCATCAA 59.700 40.000 0.00 0.00 38.63 2.57
700 706 7.587629 TGAATTCACTCATCACATCTGTTTTC 58.412 34.615 3.38 0.00 0.00 2.29
800 1310 5.289595 TGATCTAGAAACAAATCGATCCCG 58.710 41.667 0.00 0.00 37.07 5.14
801 1311 4.054780 TCTAGAAACAAATCGATCCCGG 57.945 45.455 0.00 0.00 36.24 5.73
820 1338 3.881688 CCGGCAGAGATTCAGATGATTTT 59.118 43.478 0.00 0.00 0.00 1.82
857 1375 5.247110 TCTGAATTTGACAGGAAGAGTAGCT 59.753 40.000 0.00 0.00 36.22 3.32
898 1416 0.890542 CAGTTGCAAGCCACAGCCTA 60.891 55.000 0.00 0.00 41.25 3.93
967 1519 5.043762 ACCCATTTCCTCCTTCAACCTATA 58.956 41.667 0.00 0.00 0.00 1.31
1031 1583 2.907917 CCCGAGTAGAGGAGGCGG 60.908 72.222 0.00 0.00 41.53 6.13
1053 1605 1.461317 CGAACATGTCGTCGCTACCG 61.461 60.000 6.98 0.00 45.09 4.02
1057 1609 3.122250 ATGTCGTCGCTACCGAGCC 62.122 63.158 0.00 0.00 46.86 4.70
1075 1627 0.176680 CCACATCTTCCTCCTCACCG 59.823 60.000 0.00 0.00 0.00 4.94
1079 1631 4.821589 CTTCCTCCTCACCGCCGC 62.822 72.222 0.00 0.00 0.00 6.53
1100 1652 1.227973 CCCTCTTATTCCTGCCGCC 60.228 63.158 0.00 0.00 0.00 6.13
1121 1673 4.530857 GGCGATGTCCTCCACCGG 62.531 72.222 0.00 0.00 0.00 5.28
1194 1746 2.240612 GATGCGGCGAGAACAACCAC 62.241 60.000 12.98 0.00 0.00 4.16
1389 1941 1.450134 CTGCCTCAACGCCTGCATA 60.450 57.895 0.00 0.00 32.53 3.14
1401 1953 0.806102 CCTGCATAGACGTGTTCCGG 60.806 60.000 0.00 0.00 42.24 5.14
1446 1998 3.306311 ATCGCCGCCATCGAGGAT 61.306 61.111 0.00 0.00 41.22 3.24
1461 2013 5.263968 TCGAGGATGGAAGTTATTCTGAC 57.736 43.478 0.00 0.00 35.63 3.51
1469 2021 4.192317 GGAAGTTATTCTGACGCCAAGAT 58.808 43.478 0.00 0.00 35.63 2.40
1477 2029 1.938577 CTGACGCCAAGATGAAGATGG 59.061 52.381 0.00 0.00 37.29 3.51
1606 2158 2.972021 TCCCTCGCCATCATCTCATTAA 59.028 45.455 0.00 0.00 0.00 1.40
1613 2165 5.698089 TCGCCATCATCTCATTAATCTGAAC 59.302 40.000 0.00 0.00 0.00 3.18
1673 2225 8.824159 ATATATTGCTCTATTCGGCATACATC 57.176 34.615 0.00 0.00 38.30 3.06
1677 2229 3.427638 GCTCTATTCGGCATACATCGCTA 60.428 47.826 0.00 0.00 0.00 4.26
1681 2233 7.039313 TCTATTCGGCATACATCGCTATATT 57.961 36.000 0.00 0.00 0.00 1.28
1682 2234 7.139392 TCTATTCGGCATACATCGCTATATTC 58.861 38.462 0.00 0.00 0.00 1.75
1683 2235 4.712122 TCGGCATACATCGCTATATTCA 57.288 40.909 0.00 0.00 0.00 2.57
1735 2287 3.354948 TCTAGTGCTCCATGTTGCAAT 57.645 42.857 0.59 13.12 41.10 3.56
1746 2298 2.542020 TGTTGCAATCGACAGAGGAA 57.458 45.000 0.59 0.00 32.92 3.36
1747 2299 2.416747 TGTTGCAATCGACAGAGGAAG 58.583 47.619 0.59 0.00 32.92 3.46
1748 2300 1.129437 GTTGCAATCGACAGAGGAAGC 59.871 52.381 0.59 0.00 0.00 3.86
1813 2365 2.412325 GGAAACGAACGTGCCAATGTAG 60.412 50.000 12.30 0.00 0.00 2.74
1817 2369 0.447801 GAACGTGCCAATGTAGCTGG 59.552 55.000 0.00 0.00 36.99 4.85
1834 2386 6.884295 TGTAGCTGGCATGTTACTTAATCTTT 59.116 34.615 0.00 0.00 0.00 2.52
1835 2387 6.199937 AGCTGGCATGTTACTTAATCTTTG 57.800 37.500 0.00 0.00 0.00 2.77
1854 2410 9.593134 AATCTTTGTATCAAGCTACAGAACTAG 57.407 33.333 0.00 0.00 33.38 2.57
1988 2545 1.084370 CACCCTTCGAGATCAACGGC 61.084 60.000 11.25 0.00 0.00 5.68
2034 2592 0.885196 TGGTTAATTTCAGGCGTGGC 59.115 50.000 6.56 0.00 0.00 5.01
2039 2597 0.968405 AATTTCAGGCGTGGCACAAT 59.032 45.000 19.09 5.63 44.16 2.71
2049 2607 1.464023 CGTGGCACAATGTTCATCGAC 60.464 52.381 19.09 0.00 44.16 4.20
2075 2633 2.220653 TCCTGAAAAAGATGGCCAGG 57.779 50.000 13.05 3.14 44.23 4.45
2089 2647 1.364626 GCCAGGCGACACAATGAGAG 61.365 60.000 0.00 0.00 0.00 3.20
2090 2648 0.036952 CCAGGCGACACAATGAGAGT 60.037 55.000 0.00 0.00 0.00 3.24
2091 2649 1.609061 CCAGGCGACACAATGAGAGTT 60.609 52.381 0.00 0.00 0.00 3.01
2092 2650 1.728971 CAGGCGACACAATGAGAGTTC 59.271 52.381 0.00 0.00 0.00 3.01
2103 2661 4.929808 ACAATGAGAGTTCGTTCACCATAC 59.070 41.667 0.00 0.00 30.09 2.39
2112 2670 1.722011 GTTCACCATACACGACAGGG 58.278 55.000 0.00 0.00 0.00 4.45
2122 2680 1.300697 ACGACAGGGTTCAAGCGTC 60.301 57.895 0.00 0.00 0.00 5.19
2205 2801 3.123050 GCAACGAAAATTTCTGCAGGTT 58.877 40.909 15.13 4.34 32.80 3.50
2253 2849 3.163630 GCACAAGCAACTTGAAAGGAA 57.836 42.857 13.94 0.00 43.42 3.36
2274 2870 4.422073 AATGAGGATTATCGGAGCAACA 57.578 40.909 0.00 0.00 0.00 3.33
2298 2894 4.745751 TAGGCAAACGGACCGGCG 62.746 66.667 20.00 0.00 0.00 6.46
2304 2900 3.229156 AAACGGACCGGCGTCATGA 62.229 57.895 20.00 0.00 41.13 3.07
2308 2904 2.264794 GACCGGCGTCATGACCTT 59.735 61.111 20.03 0.00 38.99 3.50
2309 2905 1.514087 GACCGGCGTCATGACCTTA 59.486 57.895 20.03 0.00 38.99 2.69
2310 2906 0.108520 GACCGGCGTCATGACCTTAA 60.109 55.000 20.03 0.00 38.99 1.85
2311 2907 0.390735 ACCGGCGTCATGACCTTAAC 60.391 55.000 20.03 4.80 0.00 2.01
2312 2908 0.108329 CCGGCGTCATGACCTTAACT 60.108 55.000 20.03 0.00 0.00 2.24
2331 2927 5.936187 AACTTAACTAGGAGAGGGTAAGC 57.064 43.478 0.00 0.00 33.33 3.09
2395 2991 4.082523 TCGCTTCCCCCTTCTGCG 62.083 66.667 0.00 0.00 46.71 5.18
2445 3041 1.996786 GCATCGTCACTTGGGCCATG 61.997 60.000 17.21 17.21 0.00 3.66
2538 3134 0.882927 TTCCGCAAACCTGGAGAACG 60.883 55.000 0.00 0.00 35.26 3.95
2559 3155 2.162408 GTGAGCAGCCACAAATAAGACC 59.838 50.000 8.64 0.00 37.04 3.85
2582 3178 4.089208 CGTCGACAATCTTTCAGAGTTCTG 59.911 45.833 17.16 2.69 45.08 3.02
2594 3190 3.055819 TCAGAGTTCTGGGATGCAACTAC 60.056 47.826 9.13 0.00 43.91 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
379 383 1.595109 GGCGACGATGCATGATGGA 60.595 57.895 2.46 0.00 36.28 3.41
380 384 2.941333 GGCGACGATGCATGATGG 59.059 61.111 2.46 0.00 36.28 3.51
398 402 0.954449 CTGATCTGATCCATGGCGGC 60.954 60.000 14.71 0.00 33.14 6.53
400 404 2.028385 TGATCTGATCTGATCCATGGCG 60.028 50.000 29.27 0.00 41.42 5.69
401 405 3.697619 TGATCTGATCTGATCCATGGC 57.302 47.619 29.27 12.68 41.42 4.40
403 407 5.074584 ACGATGATCTGATCTGATCCATG 57.925 43.478 29.27 22.40 41.42 3.66
404 408 4.142425 CGACGATGATCTGATCTGATCCAT 60.142 45.833 29.27 23.42 41.42 3.41
405 409 3.190118 CGACGATGATCTGATCTGATCCA 59.810 47.826 29.27 20.87 41.42 3.41
406 410 3.190327 ACGACGATGATCTGATCTGATCC 59.810 47.826 29.27 18.65 41.42 3.36
407 411 4.402583 GACGACGATGATCTGATCTGATC 58.597 47.826 27.10 27.10 42.19 2.92
408 412 3.120373 CGACGACGATGATCTGATCTGAT 60.120 47.826 17.82 14.33 42.66 2.90
409 413 2.221981 CGACGACGATGATCTGATCTGA 59.778 50.000 17.82 4.63 42.66 3.27
410 414 2.032463 ACGACGACGATGATCTGATCTG 60.032 50.000 15.32 10.45 42.66 2.90
411 415 2.214347 ACGACGACGATGATCTGATCT 58.786 47.619 15.32 4.53 42.66 2.75
441 445 2.232399 CAATCCAATCCGATCCATGCA 58.768 47.619 0.00 0.00 0.00 3.96
442 446 1.542915 CCAATCCAATCCGATCCATGC 59.457 52.381 0.00 0.00 0.00 4.06
443 447 3.144657 TCCAATCCAATCCGATCCATG 57.855 47.619 0.00 0.00 0.00 3.66
444 448 4.393239 AATCCAATCCAATCCGATCCAT 57.607 40.909 0.00 0.00 0.00 3.41
445 449 3.882102 AATCCAATCCAATCCGATCCA 57.118 42.857 0.00 0.00 0.00 3.41
446 450 3.507622 GGAAATCCAATCCAATCCGATCC 59.492 47.826 0.00 0.00 36.92 3.36
447 451 4.401925 AGGAAATCCAATCCAATCCGATC 58.598 43.478 1.67 0.00 39.55 3.69
448 452 4.401925 GAGGAAATCCAATCCAATCCGAT 58.598 43.478 1.67 0.00 39.55 4.18
449 453 3.744214 CGAGGAAATCCAATCCAATCCGA 60.744 47.826 1.67 0.00 39.55 4.55
450 454 2.549754 CGAGGAAATCCAATCCAATCCG 59.450 50.000 1.67 0.00 39.55 4.18
475 481 6.245115 TCAATAATGAACGATGGATGATGC 57.755 37.500 0.00 0.00 30.99 3.91
578 584 4.685165 TGGACAATCGATCGAAAACGTAAA 59.315 37.500 23.50 5.88 0.00 2.01
579 585 4.236147 TGGACAATCGATCGAAAACGTAA 58.764 39.130 23.50 2.75 0.00 3.18
580 586 3.835779 TGGACAATCGATCGAAAACGTA 58.164 40.909 23.50 5.15 0.00 3.57
581 587 2.679450 TGGACAATCGATCGAAAACGT 58.321 42.857 23.50 15.89 0.00 3.99
582 588 3.925688 ATGGACAATCGATCGAAAACG 57.074 42.857 23.50 12.78 0.00 3.60
583 589 6.194692 GCTTTTATGGACAATCGATCGAAAAC 59.805 38.462 23.50 13.22 0.00 2.43
584 590 6.255215 GCTTTTATGGACAATCGATCGAAAA 58.745 36.000 23.50 12.23 0.00 2.29
585 591 5.501736 CGCTTTTATGGACAATCGATCGAAA 60.502 40.000 23.50 6.19 0.00 3.46
620 626 4.823442 TGATGGTGATCAGTAAATCATGGC 59.177 41.667 0.00 0.00 37.93 4.40
700 706 9.390795 CAAATTCATCTTTGTACAGACAGAAAG 57.609 33.333 0.00 0.00 36.76 2.62
772 1167 8.138712 GGATCGATTTGTTTCTAGATCAGTAGT 58.861 37.037 0.00 0.00 36.99 2.73
775 1170 6.284459 GGGATCGATTTGTTTCTAGATCAGT 58.716 40.000 0.00 0.00 36.99 3.41
776 1171 5.403766 CGGGATCGATTTGTTTCTAGATCAG 59.596 44.000 0.00 0.00 36.99 2.90
778 1173 4.686554 CCGGGATCGATTTGTTTCTAGATC 59.313 45.833 0.00 0.00 39.00 2.75
779 1174 4.632153 CCGGGATCGATTTGTTTCTAGAT 58.368 43.478 0.00 0.00 39.00 1.98
800 1310 4.499357 GGCAAAATCATCTGAATCTCTGCC 60.499 45.833 0.00 0.00 38.89 4.85
801 1311 4.499357 GGGCAAAATCATCTGAATCTCTGC 60.499 45.833 0.00 0.00 0.00 4.26
820 1338 4.019051 TCAAATTCAGAGATTCTCAGGGCA 60.019 41.667 15.83 0.00 32.06 5.36
967 1519 9.407380 CTGCTATACATATAGTGAGAGGAAGAT 57.593 37.037 7.57 0.00 38.30 2.40
1038 1590 1.939785 GCTCGGTAGCGACGACATG 60.940 63.158 13.94 3.70 39.39 3.21
1050 1602 1.617947 GGAGGAAGATGTGGCTCGGT 61.618 60.000 0.00 0.00 0.00 4.69
1053 1605 1.134551 GTGAGGAGGAAGATGTGGCTC 60.135 57.143 0.00 0.00 0.00 4.70
1057 1609 0.460987 GCGGTGAGGAGGAAGATGTG 60.461 60.000 0.00 0.00 0.00 3.21
1075 1627 2.973052 GAATAAGAGGGCGGCGGC 60.973 66.667 26.59 26.59 38.90 6.53
1079 1631 1.227973 GGCAGGAATAAGAGGGCGG 60.228 63.158 0.00 0.00 0.00 6.13
1152 1704 1.953138 GCAGGTCTCGGCGATGATG 60.953 63.158 11.27 8.57 0.00 3.07
1212 1764 3.760035 GAGAGGGAGGCGACGCAA 61.760 66.667 23.09 0.00 0.00 4.85
1272 1824 2.178890 CAGCTTGGCCGAGATGAGC 61.179 63.158 31.04 12.74 35.10 4.26
1389 1941 4.353437 GCGTCCCGGAACACGTCT 62.353 66.667 18.07 0.00 42.24 4.18
1401 1953 3.718210 GAGGTCGACCATGGCGTCC 62.718 68.421 35.00 25.40 38.89 4.79
1446 1998 3.007506 TCTTGGCGTCAGAATAACTTCCA 59.992 43.478 0.00 0.00 31.27 3.53
1449 2001 4.832248 TCATCTTGGCGTCAGAATAACTT 58.168 39.130 0.00 0.00 0.00 2.66
1452 2004 5.084818 TCTTCATCTTGGCGTCAGAATAA 57.915 39.130 0.00 0.00 0.00 1.40
1455 2007 3.264947 CATCTTCATCTTGGCGTCAGAA 58.735 45.455 0.00 0.00 0.00 3.02
1456 2008 2.419159 CCATCTTCATCTTGGCGTCAGA 60.419 50.000 0.00 0.00 0.00 3.27
1458 2010 2.013563 GCCATCTTCATCTTGGCGTCA 61.014 52.381 0.00 0.00 45.75 4.35
1469 2021 3.645660 TGGTGGCGGCCATCTTCA 61.646 61.111 30.78 20.07 35.30 3.02
1494 2046 2.280797 TCGTTGCAGGTCACTGGC 60.281 61.111 0.00 0.00 45.04 4.85
1497 2049 1.007271 CTCGTCGTTGCAGGTCACT 60.007 57.895 0.00 0.00 0.00 3.41
1626 2178 3.674997 ACTGGTGACGTTTGCTCAATAT 58.325 40.909 0.00 0.00 0.00 1.28
1627 2179 3.120321 ACTGGTGACGTTTGCTCAATA 57.880 42.857 0.00 0.00 0.00 1.90
1628 2180 1.967319 ACTGGTGACGTTTGCTCAAT 58.033 45.000 0.00 0.00 0.00 2.57
1629 2181 2.605837 TACTGGTGACGTTTGCTCAA 57.394 45.000 0.00 0.00 0.00 3.02
1638 2190 7.429630 CGAATAGAGCAATATATACTGGTGACG 59.570 40.741 0.00 0.00 0.00 4.35
1644 2196 9.186323 GTATGCCGAATAGAGCAATATATACTG 57.814 37.037 0.00 0.00 43.36 2.74
1696 2248 9.920133 GCACTAGATGATAAAAGAGTCATATCA 57.080 33.333 12.74 12.74 39.58 2.15
1719 2271 0.804364 TCGATTGCAACATGGAGCAC 59.196 50.000 13.05 3.63 41.05 4.40
1720 2272 0.804364 GTCGATTGCAACATGGAGCA 59.196 50.000 0.00 9.88 39.32 4.26
1721 2273 0.804364 TGTCGATTGCAACATGGAGC 59.196 50.000 0.00 0.54 0.00 4.70
1735 2287 0.108472 CTGCATGCTTCCTCTGTCGA 60.108 55.000 20.33 0.00 0.00 4.20
1813 2365 5.954335 ACAAAGATTAAGTAACATGCCAGC 58.046 37.500 0.00 0.00 0.00 4.85
1817 2369 9.226345 GCTTGATACAAAGATTAAGTAACATGC 57.774 33.333 0.00 0.00 35.88 4.06
1834 2386 7.027760 CGAAACTAGTTCTGTAGCTTGATACA 58.972 38.462 8.95 0.00 33.70 2.29
1835 2387 6.020520 GCGAAACTAGTTCTGTAGCTTGATAC 60.021 42.308 8.95 0.00 33.70 2.24
1854 2410 8.083462 TGGTGTATATATTTGAGATGCGAAAC 57.917 34.615 0.00 0.00 0.00 2.78
1914 2471 2.189594 TCCTGAAGGCTGAATGTGTG 57.810 50.000 0.00 0.00 34.44 3.82
1952 2509 1.086634 GTGATTGGAGCGTCTGAGGC 61.087 60.000 14.08 14.08 0.00 4.70
1988 2545 9.117449 AAGAATGACTTGTAACACGATTGTGGG 62.117 40.741 17.50 3.20 42.88 4.61
2034 2592 2.481568 ACTGCAGTCGATGAACATTGTG 59.518 45.455 15.25 0.00 0.00 3.33
2039 2597 1.344438 AGGAACTGCAGTCGATGAACA 59.656 47.619 21.95 0.00 37.18 3.18
2075 2633 1.419374 ACGAACTCTCATTGTGTCGC 58.581 50.000 0.00 0.00 0.00 5.19
2089 2647 2.396601 TGTCGTGTATGGTGAACGAAC 58.603 47.619 0.00 0.00 46.73 3.95
2090 2648 2.608506 CCTGTCGTGTATGGTGAACGAA 60.609 50.000 0.00 0.00 46.73 3.85
2091 2649 1.068125 CCTGTCGTGTATGGTGAACGA 60.068 52.381 0.00 0.00 43.50 3.85
2092 2650 1.346365 CCTGTCGTGTATGGTGAACG 58.654 55.000 0.00 0.00 38.64 3.95
2103 2661 1.557443 GACGCTTGAACCCTGTCGTG 61.557 60.000 0.00 0.00 0.00 4.35
2112 2670 6.663944 ACATTATTTCTAGGACGCTTGAAC 57.336 37.500 0.00 0.00 0.00 3.18
2253 2849 4.422073 TGTTGCTCCGATAATCCTCATT 57.578 40.909 0.00 0.00 0.00 2.57
2292 2888 0.390735 GTTAAGGTCATGACGCCGGT 60.391 55.000 19.33 5.35 0.00 5.28
2298 2894 8.064336 TCTCCTAGTTAAGTTAAGGTCATGAC 57.936 38.462 17.91 17.91 0.00 3.06
2304 2900 5.913277 ACCCTCTCCTAGTTAAGTTAAGGT 58.087 41.667 0.00 0.00 0.00 3.50
2308 2904 6.496743 TGCTTACCCTCTCCTAGTTAAGTTA 58.503 40.000 0.00 0.00 0.00 2.24
2309 2905 5.339477 TGCTTACCCTCTCCTAGTTAAGTT 58.661 41.667 0.00 0.00 0.00 2.66
2310 2906 4.944177 TGCTTACCCTCTCCTAGTTAAGT 58.056 43.478 0.00 0.00 0.00 2.24
2311 2907 5.934402 TTGCTTACCCTCTCCTAGTTAAG 57.066 43.478 0.00 0.00 0.00 1.85
2312 2908 6.691255 TTTTGCTTACCCTCTCCTAGTTAA 57.309 37.500 0.00 0.00 0.00 2.01
2395 2991 3.181480 TGCAAGCTTTTGTTTCAGGTACC 60.181 43.478 2.73 2.73 0.00 3.34
2445 3041 5.062528 TCATTCTGCAAAAATGGGGAAAAC 58.937 37.500 17.09 0.00 35.32 2.43
2538 3134 2.162408 GGTCTTATTTGTGGCTGCTCAC 59.838 50.000 12.44 12.44 38.09 3.51
2559 3155 4.089208 CAGAACTCTGAAAGATTGTCGACG 59.911 45.833 11.62 0.00 45.62 5.12


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

AutoCloner maintained by Alex Coulton.