Multiple sequence alignment - TraesCS2B01G271600

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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 TraesCS2B01G271600 chr2B 100.000 2414 0 0 1 2414 372090267 372087854 0.000000e+00 4458.0
1 TraesCS2B01G271600 chr2D 90.926 1598 51 38 1 1554 303516136 303514589 0.000000e+00 2061.0
2 TraesCS2B01G271600 chr2D 89.889 633 46 11 1584 2203 303514594 303513967 0.000000e+00 798.0
3 TraesCS2B01G271600 chr2D 92.935 184 5 4 2235 2413 303513977 303513797 6.620000e-66 261.0
4 TraesCS2B01G271600 chr2A 87.301 1504 69 46 995 2414 381503526 381502061 0.000000e+00 1607.0
5 TraesCS2B01G271600 chr2A 88.337 523 17 17 502 997 381504062 381503557 2.670000e-164 588.0
6 TraesCS2B01G271600 chr2A 91.587 416 12 7 1 395 381504707 381504294 9.750000e-154 553.0
7 TraesCS2B01G271600 chr1A 81.667 120 20 2 1296 1414 562902781 562902899 5.490000e-17 99.0
8 TraesCS2B01G271600 chr1B 81.356 118 20 2 1299 1415 651286856 651286740 7.100000e-16 95.3
9 TraesCS2B01G271600 chr1B 81.250 112 19 2 1307 1417 649670511 649670621 3.310000e-14 89.8
10 TraesCS2B01G271600 chr3B 80.165 121 22 2 1296 1415 379654012 379654131 3.310000e-14 89.8
11 TraesCS2B01G271600 chr1D 79.675 123 23 2 1296 1417 469795846 469795967 1.190000e-13 87.9
12 TraesCS2B01G271600 chr5B 80.556 108 19 2 1306 1412 328274092 328274198 5.530000e-12 82.4
13 TraesCS2B01G271600 chr6D 78.814 118 23 2 1299 1415 17042690 17042574 7.160000e-11 78.7


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 TraesCS2B01G271600 chr2B 372087854 372090267 2413 True 4458 4458 100.000 1 2414 1 chr2B.!!$R1 2413
1 TraesCS2B01G271600 chr2D 303513797 303516136 2339 True 1040 2061 91.250 1 2413 3 chr2D.!!$R1 2412
2 TraesCS2B01G271600 chr2A 381502061 381504707 2646 True 916 1607 89.075 1 2414 3 chr2A.!!$R1 2413

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
574 792 0.036577 ATGCATGCTAGGATCGCCTC 60.037 55.0 20.33 0.0 45.54 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1476 1763 0.028374 ACACACAAAGTAAACGCCGC 59.972 50.0 0.0 0.0 0.0 6.53 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
38 40 2.311124 ATTACCGTTGCTCTACTGCC 57.689 50.000 0.00 0.00 0.00 4.85
85 87 4.142600 GCTGATCTATTGGTTGGTTGTGTC 60.143 45.833 0.00 0.00 0.00 3.67
90 92 1.535833 TTGGTTGGTTGTGTCGTGTT 58.464 45.000 0.00 0.00 0.00 3.32
224 234 4.555709 TGACGGCGTTTGGTGGCT 62.556 61.111 16.19 0.00 0.00 4.75
366 388 2.218603 AGTCGGCGTTCAAATTCTTGT 58.781 42.857 6.85 0.00 33.94 3.16
391 413 7.171678 GTCCTGCAGATACATGTAAATTCCTAC 59.828 40.741 17.39 0.00 0.00 3.18
392 414 6.992123 CCTGCAGATACATGTAAATTCCTACA 59.008 38.462 17.39 3.25 36.27 2.74
393 415 7.172190 CCTGCAGATACATGTAAATTCCTACAG 59.828 40.741 17.39 11.17 35.32 2.74
394 416 7.564793 TGCAGATACATGTAAATTCCTACAGT 58.435 34.615 10.14 0.00 35.32 3.55
395 417 8.700973 TGCAGATACATGTAAATTCCTACAGTA 58.299 33.333 10.14 1.27 35.32 2.74
396 418 9.197694 GCAGATACATGTAAATTCCTACAGTAG 57.802 37.037 10.14 0.00 35.32 2.57
427 449 8.038944 ACTACTTTAGAATTCGCCTGTAAATCA 58.961 33.333 0.00 0.00 0.00 2.57
437 459 3.879295 CGCCTGTAAATCAAGATGGACAT 59.121 43.478 0.00 0.00 0.00 3.06
458 480 6.603095 ACATTATTTTCTGAGAGCGTTGAAC 58.397 36.000 0.00 0.00 0.00 3.18
477 499 5.136828 TGAACGCCCATTGGTTCATTATAT 58.863 37.500 1.20 0.00 45.38 0.86
478 500 5.596361 TGAACGCCCATTGGTTCATTATATT 59.404 36.000 1.20 0.00 45.38 1.28
479 501 6.773200 TGAACGCCCATTGGTTCATTATATTA 59.227 34.615 1.20 0.00 45.38 0.98
480 502 7.450014 TGAACGCCCATTGGTTCATTATATTAT 59.550 33.333 1.20 0.00 45.38 1.28
481 503 8.871629 AACGCCCATTGGTTCATTATATTATA 57.128 30.769 1.20 0.00 0.00 0.98
482 504 8.506168 ACGCCCATTGGTTCATTATATTATAG 57.494 34.615 1.20 0.00 0.00 1.31
483 505 7.556275 ACGCCCATTGGTTCATTATATTATAGG 59.444 37.037 1.20 0.00 0.00 2.57
484 506 7.773224 CGCCCATTGGTTCATTATATTATAGGA 59.227 37.037 1.20 0.00 0.00 2.94
485 507 9.125026 GCCCATTGGTTCATTATATTATAGGAG 57.875 37.037 1.20 0.00 0.00 3.69
525 743 1.068402 TGATTTTGCTGATGTGCCACG 60.068 47.619 0.00 0.00 0.00 4.94
529 747 1.229975 TTGCTGATGTGCCACGACAG 61.230 55.000 13.99 13.99 0.00 3.51
546 764 1.333177 CAGGAGTAGATTAGGCGGCT 58.667 55.000 18.33 18.33 0.00 5.52
572 790 2.168947 CATGCATGCTAGGATCGCC 58.831 57.895 20.33 0.00 0.00 5.54
574 792 0.036577 ATGCATGCTAGGATCGCCTC 60.037 55.000 20.33 0.00 45.54 4.70
575 793 1.735920 GCATGCTAGGATCGCCTCG 60.736 63.158 11.37 0.00 45.54 4.63
578 796 3.606662 GCTAGGATCGCCTCGCCA 61.607 66.667 0.00 0.00 44.86 5.69
579 797 2.936912 GCTAGGATCGCCTCGCCAT 61.937 63.158 0.00 0.00 44.86 4.40
580 798 1.080230 CTAGGATCGCCTCGCCATG 60.080 63.158 0.00 0.00 45.54 3.66
583 801 4.916293 GATCGCCTCGCCATGCCA 62.916 66.667 0.00 0.00 0.00 4.92
584 802 4.260609 ATCGCCTCGCCATGCCAT 62.261 61.111 0.00 0.00 0.00 4.40
623 842 1.312815 CATCTTTCGGCCATCCCTTC 58.687 55.000 2.24 0.00 0.00 3.46
730 959 1.286248 AGTGGAATGGGGTGGAGTAC 58.714 55.000 0.00 0.00 0.00 2.73
732 961 2.045326 AGTGGAATGGGGTGGAGTACTA 59.955 50.000 0.00 0.00 0.00 1.82
846 1086 1.406069 CCTTCTCCCATCACACTTCCG 60.406 57.143 0.00 0.00 0.00 4.30
863 1109 0.526739 CCGTTCGAGACACACACACA 60.527 55.000 0.00 0.00 0.00 3.72
865 1111 1.635844 GTTCGAGACACACACACACA 58.364 50.000 0.00 0.00 0.00 3.72
866 1112 1.323534 GTTCGAGACACACACACACAC 59.676 52.381 0.00 0.00 0.00 3.82
868 1114 1.151777 CGAGACACACACACACACCC 61.152 60.000 0.00 0.00 0.00 4.61
869 1115 0.178068 GAGACACACACACACACCCT 59.822 55.000 0.00 0.00 0.00 4.34
870 1116 0.107703 AGACACACACACACACCCTG 60.108 55.000 0.00 0.00 0.00 4.45
871 1117 0.392461 GACACACACACACACCCTGT 60.392 55.000 0.00 0.00 0.00 4.00
872 1118 0.392461 ACACACACACACACCCTGTC 60.392 55.000 0.00 0.00 0.00 3.51
873 1119 1.095228 CACACACACACACCCTGTCC 61.095 60.000 0.00 0.00 0.00 4.02
874 1120 1.887242 CACACACACACCCTGTCCG 60.887 63.158 0.00 0.00 0.00 4.79
876 1122 3.161450 ACACACACCCTGTCCGCT 61.161 61.111 0.00 0.00 0.00 5.52
877 1123 2.111043 CACACACCCTGTCCGCTT 59.889 61.111 0.00 0.00 0.00 4.68
878 1124 1.961277 CACACACCCTGTCCGCTTC 60.961 63.158 0.00 0.00 0.00 3.86
879 1125 2.140792 ACACACCCTGTCCGCTTCT 61.141 57.895 0.00 0.00 0.00 2.85
883 1129 0.970937 CACCCTGTCCGCTTCTCCTA 60.971 60.000 0.00 0.00 0.00 2.94
964 1210 4.202020 TGCGCCAACAAACAATTAACTACA 60.202 37.500 4.18 0.00 0.00 2.74
965 1211 4.147479 GCGCCAACAAACAATTAACTACAC 59.853 41.667 0.00 0.00 0.00 2.90
966 1212 5.516090 CGCCAACAAACAATTAACTACACT 58.484 37.500 0.00 0.00 0.00 3.55
967 1213 5.623673 CGCCAACAAACAATTAACTACACTC 59.376 40.000 0.00 0.00 0.00 3.51
968 1214 6.512741 CGCCAACAAACAATTAACTACACTCT 60.513 38.462 0.00 0.00 0.00 3.24
969 1215 6.856426 GCCAACAAACAATTAACTACACTCTC 59.144 38.462 0.00 0.00 0.00 3.20
1314 1598 2.898343 GTGCCCGTGGTGTTCGTT 60.898 61.111 0.00 0.00 0.00 3.85
1476 1763 1.089481 CCGATGGTGGTGATCAACGG 61.089 60.000 6.21 5.56 35.35 4.44
1541 1833 4.873810 TTGTGCCGTGCCTGTGCT 62.874 61.111 0.00 0.00 38.71 4.40
1550 1842 3.667282 GCCTGTGCTGTGGCTGTG 61.667 66.667 7.08 0.00 45.26 3.66
1551 1843 3.667282 CCTGTGCTGTGGCTGTGC 61.667 66.667 0.00 0.00 39.59 4.57
1552 1844 4.021631 CTGTGCTGTGGCTGTGCG 62.022 66.667 0.00 0.00 39.59 5.34
1553 1845 4.854924 TGTGCTGTGGCTGTGCGT 62.855 61.111 0.00 0.00 39.59 5.24
1554 1846 4.318021 GTGCTGTGGCTGTGCGTG 62.318 66.667 0.00 0.00 39.59 5.34
1563 1855 4.758251 CTGTGCGTGGGCGATGGA 62.758 66.667 0.00 0.00 44.10 3.41
1564 1856 4.094646 TGTGCGTGGGCGATGGAT 62.095 61.111 0.00 0.00 44.10 3.41
1565 1857 3.576356 GTGCGTGGGCGATGGATG 61.576 66.667 0.00 0.00 44.10 3.51
1566 1858 4.854924 TGCGTGGGCGATGGATGG 62.855 66.667 0.00 0.00 44.10 3.51
1567 1859 4.545706 GCGTGGGCGATGGATGGA 62.546 66.667 0.00 0.00 41.33 3.41
1568 1860 2.588877 CGTGGGCGATGGATGGAC 60.589 66.667 0.00 0.00 41.33 4.02
1569 1861 2.588877 GTGGGCGATGGATGGACG 60.589 66.667 0.00 0.00 0.00 4.79
1573 1865 3.630148 GCGATGGATGGACGCGTG 61.630 66.667 20.70 0.00 42.65 5.34
1574 1866 3.630148 CGATGGATGGACGCGTGC 61.630 66.667 24.88 24.88 0.00 5.34
1575 1867 3.630148 GATGGATGGACGCGTGCG 61.630 66.667 25.71 13.39 46.03 5.34
1609 1922 0.110056 GCATGGTGTGTTGAGCTTCG 60.110 55.000 0.00 0.00 0.00 3.79
1773 2129 1.592939 GACGCCTAGCAAGCTAGCC 60.593 63.158 20.83 11.24 43.35 3.93
1781 2137 0.747283 AGCAAGCTAGCCTGCACATC 60.747 55.000 33.69 9.95 34.99 3.06
1868 2224 4.982295 TCTATGCATGTTCGTGTATACTGC 59.018 41.667 10.16 4.37 0.00 4.40
1870 2226 4.379339 TGCATGTTCGTGTATACTGCTA 57.621 40.909 4.17 0.00 0.00 3.49
1912 2293 0.105964 TGGGTATACATGCCTCGCAC 59.894 55.000 5.01 0.00 43.04 5.34
2038 2426 6.718522 TTTTTCGAGGGTACAAGGAAAATT 57.281 33.333 11.53 0.00 36.73 1.82
2039 2427 5.699097 TTTCGAGGGTACAAGGAAAATTG 57.301 39.130 0.00 0.00 36.22 2.32
2040 2428 4.627284 TCGAGGGTACAAGGAAAATTGA 57.373 40.909 0.00 0.00 34.20 2.57
2041 2429 5.174037 TCGAGGGTACAAGGAAAATTGAT 57.826 39.130 0.00 0.00 34.20 2.57
2042 2430 5.566469 TCGAGGGTACAAGGAAAATTGATT 58.434 37.500 0.00 0.00 34.20 2.57
2043 2431 6.007703 TCGAGGGTACAAGGAAAATTGATTT 58.992 36.000 0.00 0.00 34.20 2.17
2044 2432 6.492087 TCGAGGGTACAAGGAAAATTGATTTT 59.508 34.615 1.54 1.54 42.24 1.82
2045 2433 7.014808 TCGAGGGTACAAGGAAAATTGATTTTT 59.985 33.333 3.45 0.00 39.86 1.94
2147 2567 2.916052 GCAGCAGCAGAGCAAAGCA 61.916 57.895 0.00 0.00 41.58 3.91
2203 2626 0.394938 TTCAAAGGCGTGAGGTAGCA 59.605 50.000 0.00 0.00 34.54 3.49
2204 2627 0.037326 TCAAAGGCGTGAGGTAGCAG 60.037 55.000 0.00 0.00 34.54 4.24
2322 2749 4.202121 CGGTAAGAATGCTGAGGTTAGCTA 60.202 45.833 0.00 0.00 44.01 3.32
2334 2761 6.183360 GCTGAGGTTAGCTAAAGACTAGATGT 60.183 42.308 7.99 0.00 40.52 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 40 2.895372 GGCCATAGTCGGTTGCGG 60.895 66.667 0.00 0.00 0.00 5.69
85 87 1.857364 GTCACCAACGCCTAACACG 59.143 57.895 0.00 0.00 0.00 4.49
224 234 4.631740 TGACTCCTCGGCCCCACA 62.632 66.667 0.00 0.00 0.00 4.17
366 388 6.252599 AGGAATTTACATGTATCTGCAGGA 57.747 37.500 15.13 0.57 0.00 3.86
394 416 8.834465 CAGGCGAATTCTAAAGTAGTAGTACTA 58.166 37.037 10.68 5.90 38.66 1.82
395 417 7.338957 ACAGGCGAATTCTAAAGTAGTAGTACT 59.661 37.037 8.14 8.14 41.61 2.73
396 418 7.479150 ACAGGCGAATTCTAAAGTAGTAGTAC 58.521 38.462 3.52 0.00 0.00 2.73
397 419 7.636150 ACAGGCGAATTCTAAAGTAGTAGTA 57.364 36.000 3.52 0.00 0.00 1.82
398 420 6.527057 ACAGGCGAATTCTAAAGTAGTAGT 57.473 37.500 3.52 0.00 0.00 2.73
399 421 8.922058 TTTACAGGCGAATTCTAAAGTAGTAG 57.078 34.615 3.52 0.00 0.00 2.57
400 422 9.525409 GATTTACAGGCGAATTCTAAAGTAGTA 57.475 33.333 3.52 0.00 0.00 1.82
401 423 8.038944 TGATTTACAGGCGAATTCTAAAGTAGT 58.961 33.333 3.52 0.00 0.00 2.73
402 424 8.420374 TGATTTACAGGCGAATTCTAAAGTAG 57.580 34.615 3.52 0.00 0.00 2.57
403 425 8.780846 TTGATTTACAGGCGAATTCTAAAGTA 57.219 30.769 3.52 0.00 0.00 2.24
404 426 7.606456 TCTTGATTTACAGGCGAATTCTAAAGT 59.394 33.333 3.52 0.30 0.00 2.66
405 427 7.974675 TCTTGATTTACAGGCGAATTCTAAAG 58.025 34.615 3.52 0.00 0.00 1.85
406 428 7.915293 TCTTGATTTACAGGCGAATTCTAAA 57.085 32.000 3.52 1.95 0.00 1.85
427 449 6.259608 CGCTCTCAGAAAATAATGTCCATCTT 59.740 38.462 0.00 0.00 0.00 2.40
437 459 5.264060 CGTTCAACGCTCTCAGAAAATAA 57.736 39.130 0.00 0.00 33.65 1.40
458 480 7.773224 TCCTATAATATAATGAACCAATGGGCG 59.227 37.037 3.55 0.00 37.90 6.13
481 503 8.842764 TCAATTACCCCTTTTCTTTATACTCCT 58.157 33.333 0.00 0.00 0.00 3.69
482 504 9.642343 ATCAATTACCCCTTTTCTTTATACTCC 57.358 33.333 0.00 0.00 0.00 3.85
487 509 9.448438 GCAAAATCAATTACCCCTTTTCTTTAT 57.552 29.630 0.00 0.00 0.00 1.40
488 510 8.655901 AGCAAAATCAATTACCCCTTTTCTTTA 58.344 29.630 0.00 0.00 0.00 1.85
489 511 7.445096 CAGCAAAATCAATTACCCCTTTTCTTT 59.555 33.333 0.00 0.00 0.00 2.52
525 743 1.000052 GCCGCCTAATCTACTCCTGTC 60.000 57.143 0.00 0.00 0.00 3.51
529 747 1.041437 ACAGCCGCCTAATCTACTCC 58.959 55.000 0.00 0.00 0.00 3.85
567 785 4.260609 ATGGCATGGCGAGGCGAT 62.261 61.111 15.27 0.00 0.00 4.58
623 842 1.727335 GACGAGGAGAAGGAAAAAGCG 59.273 52.381 0.00 0.00 0.00 4.68
730 959 0.109086 CGGCACACTCTGACCACTAG 60.109 60.000 0.00 0.00 0.00 2.57
732 961 2.737180 CGGCACACTCTGACCACT 59.263 61.111 0.00 0.00 0.00 4.00
846 1086 1.323534 GTGTGTGTGTGTGTCTCGAAC 59.676 52.381 0.00 0.00 0.00 3.95
863 1109 2.584391 GGAGAAGCGGACAGGGTGT 61.584 63.158 0.00 0.00 0.00 4.16
865 1111 0.032017 ATAGGAGAAGCGGACAGGGT 60.032 55.000 0.00 0.00 0.00 4.34
866 1112 0.676736 GATAGGAGAAGCGGACAGGG 59.323 60.000 0.00 0.00 0.00 4.45
868 1114 1.698506 AGGATAGGAGAAGCGGACAG 58.301 55.000 0.00 0.00 0.00 3.51
869 1115 3.527507 ATAGGATAGGAGAAGCGGACA 57.472 47.619 0.00 0.00 0.00 4.02
870 1116 7.482474 GTTTATATAGGATAGGAGAAGCGGAC 58.518 42.308 0.00 0.00 0.00 4.79
871 1117 6.318144 CGTTTATATAGGATAGGAGAAGCGGA 59.682 42.308 0.00 0.00 0.00 5.54
872 1118 6.496571 CGTTTATATAGGATAGGAGAAGCGG 58.503 44.000 0.00 0.00 0.00 5.52
873 1119 5.972382 GCGTTTATATAGGATAGGAGAAGCG 59.028 44.000 0.00 0.00 0.00 4.68
874 1120 6.752815 GTGCGTTTATATAGGATAGGAGAAGC 59.247 42.308 0.00 0.00 0.00 3.86
876 1122 6.432162 ACGTGCGTTTATATAGGATAGGAGAA 59.568 38.462 0.00 0.00 0.00 2.87
877 1123 5.942236 ACGTGCGTTTATATAGGATAGGAGA 59.058 40.000 0.00 0.00 0.00 3.71
878 1124 6.192234 ACGTGCGTTTATATAGGATAGGAG 57.808 41.667 0.00 0.00 0.00 3.69
879 1125 5.124457 GGACGTGCGTTTATATAGGATAGGA 59.876 44.000 0.00 0.00 0.00 2.94
883 1129 4.553323 GTGGACGTGCGTTTATATAGGAT 58.447 43.478 1.60 0.00 0.00 3.24
964 1210 3.199946 AGCTAGCTAGTGAGAGTGAGAGT 59.800 47.826 17.69 0.00 0.00 3.24
965 1211 3.808728 AGCTAGCTAGTGAGAGTGAGAG 58.191 50.000 17.69 0.00 0.00 3.20
966 1212 3.924114 AGCTAGCTAGTGAGAGTGAGA 57.076 47.619 17.69 0.00 0.00 3.27
967 1213 4.065088 CCTAGCTAGCTAGTGAGAGTGAG 58.935 52.174 37.50 21.85 43.22 3.51
968 1214 3.746114 GCCTAGCTAGCTAGTGAGAGTGA 60.746 52.174 37.50 12.64 43.22 3.41
969 1215 2.552315 GCCTAGCTAGCTAGTGAGAGTG 59.448 54.545 37.50 25.82 43.22 3.51
1194 1478 1.134788 CCCATCTGGTCCAACTCGTAC 60.135 57.143 0.00 0.00 0.00 3.67
1458 1742 1.705337 GCCGTTGATCACCACCATCG 61.705 60.000 0.00 0.00 0.00 3.84
1476 1763 0.028374 ACACACAAAGTAAACGCCGC 59.972 50.000 0.00 0.00 0.00 6.53
1546 1838 4.758251 TCCATCGCCCACGCACAG 62.758 66.667 0.00 0.00 39.84 3.66
1547 1839 4.094646 ATCCATCGCCCACGCACA 62.095 61.111 0.00 0.00 39.84 4.57
1548 1840 3.576356 CATCCATCGCCCACGCAC 61.576 66.667 0.00 0.00 39.84 5.34
1549 1841 4.854924 CCATCCATCGCCCACGCA 62.855 66.667 0.00 0.00 39.84 5.24
1550 1842 4.545706 TCCATCCATCGCCCACGC 62.546 66.667 0.00 0.00 39.84 5.34
1551 1843 2.588877 GTCCATCCATCGCCCACG 60.589 66.667 0.00 0.00 42.01 4.94
1552 1844 2.588877 CGTCCATCCATCGCCCAC 60.589 66.667 0.00 0.00 0.00 4.61
1553 1845 4.545706 GCGTCCATCCATCGCCCA 62.546 66.667 0.00 0.00 43.41 5.36
1555 1847 4.891727 ACGCGTCCATCCATCGCC 62.892 66.667 5.58 0.00 45.85 5.54
1556 1848 3.630148 CACGCGTCCATCCATCGC 61.630 66.667 9.86 0.00 45.28 4.58
1557 1849 3.630148 GCACGCGTCCATCCATCG 61.630 66.667 9.86 0.00 0.00 3.84
1558 1850 3.630148 CGCACGCGTCCATCCATC 61.630 66.667 9.86 0.00 34.35 3.51
1579 1871 4.326766 ACCATGCAACGCACGCAC 62.327 61.111 0.00 0.00 43.04 5.34
1580 1872 4.325304 CACCATGCAACGCACGCA 62.325 61.111 0.00 0.00 43.04 5.24
1581 1873 4.326766 ACACCATGCAACGCACGC 62.327 61.111 0.00 0.00 43.04 5.34
1582 1874 2.427245 CACACCATGCAACGCACG 60.427 61.111 0.00 0.00 43.04 5.34
1609 1922 5.913137 ATATCTACATCTCACTAGCCAGC 57.087 43.478 0.00 0.00 0.00 4.85
1773 2129 7.384932 TCAGGATAATAATAACACGATGTGCAG 59.615 37.037 0.00 0.00 36.98 4.41
1868 2224 5.929992 TCAAAACGTCCAATTGAGTAGGTAG 59.070 40.000 7.12 0.00 0.00 3.18
1870 2226 4.710324 TCAAAACGTCCAATTGAGTAGGT 58.290 39.130 7.12 1.24 0.00 3.08
1912 2293 4.611943 AGTAGTACAAGTATGCATGCGAG 58.388 43.478 14.09 8.65 0.00 5.03
1965 2349 6.610020 TGCTACTACACCTCCAACAACTATAT 59.390 38.462 0.00 0.00 0.00 0.86
1977 2361 4.760204 ACCAACAAAATGCTACTACACCTC 59.240 41.667 0.00 0.00 0.00 3.85
2016 2404 5.828859 TCAATTTTCCTTGTACCCTCGAAAA 59.171 36.000 8.68 8.68 36.98 2.29
2017 2405 5.378332 TCAATTTTCCTTGTACCCTCGAAA 58.622 37.500 0.00 0.00 0.00 3.46
2018 2406 4.975631 TCAATTTTCCTTGTACCCTCGAA 58.024 39.130 0.00 0.00 0.00 3.71
2019 2407 4.627284 TCAATTTTCCTTGTACCCTCGA 57.373 40.909 0.00 0.00 0.00 4.04
2020 2408 5.897377 AATCAATTTTCCTTGTACCCTCG 57.103 39.130 0.00 0.00 0.00 4.63
2021 2409 8.147704 TCAAAAATCAATTTTCCTTGTACCCTC 58.852 33.333 1.43 0.00 39.20 4.30
2022 2410 8.028652 TCAAAAATCAATTTTCCTTGTACCCT 57.971 30.769 1.43 0.00 39.20 4.34
2023 2411 8.669946 TTCAAAAATCAATTTTCCTTGTACCC 57.330 30.769 1.43 0.00 39.20 3.69
2030 2418 9.796180 TCCATCAATTCAAAAATCAATTTTCCT 57.204 25.926 1.43 0.00 39.20 3.36
2035 2423 9.431887 CACTCTCCATCAATTCAAAAATCAATT 57.568 29.630 0.00 0.00 0.00 2.32
2036 2424 8.038944 CCACTCTCCATCAATTCAAAAATCAAT 58.961 33.333 0.00 0.00 0.00 2.57
2037 2425 7.380536 CCACTCTCCATCAATTCAAAAATCAA 58.619 34.615 0.00 0.00 0.00 2.57
2038 2426 6.071221 CCCACTCTCCATCAATTCAAAAATCA 60.071 38.462 0.00 0.00 0.00 2.57
2039 2427 6.153340 TCCCACTCTCCATCAATTCAAAAATC 59.847 38.462 0.00 0.00 0.00 2.17
2040 2428 6.018469 TCCCACTCTCCATCAATTCAAAAAT 58.982 36.000 0.00 0.00 0.00 1.82
2041 2429 5.392995 TCCCACTCTCCATCAATTCAAAAA 58.607 37.500 0.00 0.00 0.00 1.94
2042 2430 4.996793 TCCCACTCTCCATCAATTCAAAA 58.003 39.130 0.00 0.00 0.00 2.44
2043 2431 4.656100 TCCCACTCTCCATCAATTCAAA 57.344 40.909 0.00 0.00 0.00 2.69
2044 2432 4.289410 TCTTCCCACTCTCCATCAATTCAA 59.711 41.667 0.00 0.00 0.00 2.69
2045 2433 3.845992 TCTTCCCACTCTCCATCAATTCA 59.154 43.478 0.00 0.00 0.00 2.57
2147 2567 0.951558 GGCAAGTCACGTTTCATGGT 59.048 50.000 0.00 0.00 0.00 3.55
2174 2597 1.243902 CGCCTTTGAACCAAGCCTAA 58.756 50.000 0.00 0.00 0.00 2.69
2175 2598 0.109723 ACGCCTTTGAACCAAGCCTA 59.890 50.000 0.00 0.00 0.00 3.93
2256 2679 3.864003 GTCTGCTAAAAACTAGCCGGTAG 59.136 47.826 1.90 6.42 39.69 3.18
2322 2749 1.550524 TGCCAGCGACATCTAGTCTTT 59.449 47.619 0.00 0.00 45.32 2.52


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

AutoCloner maintained by Alex Coulton.