Multiple sequence alignment - TraesCS5D01G446200

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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 TraesCS5D01G446200 chr5D 100.000 3606 0 0 1 3606 496570632 496567027 0.000000e+00 6660
1 TraesCS5D01G446200 chr5D 88.566 516 48 10 869 1381 483325750 483326257 1.840000e-172 616
2 TraesCS5D01G446200 chr5D 86.096 187 21 3 1197 1381 511743165 511742982 2.840000e-46 196
3 TraesCS5D01G446200 chr5A 91.726 3650 158 44 1 3606 620489868 620486319 0.000000e+00 4935
4 TraesCS5D01G446200 chr5B 91.537 3675 166 52 3 3606 615143487 615147087 0.000000e+00 4929
5 TraesCS5D01G446200 chr5B 87.689 861 71 9 2715 3555 615154111 615154956 0.000000e+00 970
6 TraesCS5D01G446200 chr5B 93.684 95 6 0 3506 3600 615154934 615155028 3.750000e-30 143
7 TraesCS5D01G446200 chr6B 85.172 553 55 18 848 1381 42540104 42539560 3.170000e-150 542


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 TraesCS5D01G446200 chr5D 496567027 496570632 3605 True 6660.0 6660 100.0000 1 3606 1 chr5D.!!$R1 3605
1 TraesCS5D01G446200 chr5D 483325750 483326257 507 False 616.0 616 88.5660 869 1381 1 chr5D.!!$F1 512
2 TraesCS5D01G446200 chr5A 620486319 620489868 3549 True 4935.0 4935 91.7260 1 3606 1 chr5A.!!$R1 3605
3 TraesCS5D01G446200 chr5B 615143487 615147087 3600 False 4929.0 4929 91.5370 3 3606 1 chr5B.!!$F1 3603
4 TraesCS5D01G446200 chr5B 615154111 615155028 917 False 556.5 970 90.6865 2715 3600 2 chr5B.!!$F2 885
5 TraesCS5D01G446200 chr6B 42539560 42540104 544 True 542.0 542 85.1720 848 1381 1 chr6B.!!$R1 533

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
897 917 0.619255 TCCGCTGGACCCATTAAGGA 60.619 55.0 0.0 0.0 41.22 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2680 2776 0.110678 TCGTCTGTCAGGACTGGACT 59.889 55.0 17.04 0.0 36.26 3.85 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
30 31 2.362736 TCTGCATCTTGGTGAGATTGC 58.637 47.619 0.00 0.00 42.55 3.56
59 60 0.975135 ATCGGATGGATCCTCTGCAG 59.025 55.000 14.23 7.63 44.93 4.41
64 65 0.842635 ATGGATCCTCTGCAGTTCCC 59.157 55.000 14.67 9.61 0.00 3.97
119 125 6.042777 TCCAGTTCGATGTATCAATCTGTTC 58.957 40.000 0.00 0.00 0.00 3.18
201 212 0.887247 TCGTCAATGCCCAATGGTTG 59.113 50.000 0.00 0.00 0.00 3.77
208 219 3.683365 ATGCCCAATGGTTGAGTTTTC 57.317 42.857 0.00 0.00 0.00 2.29
215 226 6.348498 CCCAATGGTTGAGTTTTCTTTTTCT 58.652 36.000 0.00 0.00 0.00 2.52
217 228 7.041107 CCAATGGTTGAGTTTTCTTTTTCTCA 58.959 34.615 0.00 0.00 35.54 3.27
270 281 4.202253 GGATTGCTCTTGTTTTCCACCTTT 60.202 41.667 0.00 0.00 0.00 3.11
271 282 3.799281 TGCTCTTGTTTTCCACCTTTG 57.201 42.857 0.00 0.00 0.00 2.77
272 283 3.360867 TGCTCTTGTTTTCCACCTTTGA 58.639 40.909 0.00 0.00 0.00 2.69
274 285 4.202141 TGCTCTTGTTTTCCACCTTTGATG 60.202 41.667 0.00 0.00 0.00 3.07
275 286 4.202151 GCTCTTGTTTTCCACCTTTGATGT 60.202 41.667 0.00 0.00 0.00 3.06
276 287 5.682212 GCTCTTGTTTTCCACCTTTGATGTT 60.682 40.000 0.00 0.00 0.00 2.71
277 288 6.293004 TCTTGTTTTCCACCTTTGATGTTT 57.707 33.333 0.00 0.00 0.00 2.83
278 289 6.337356 TCTTGTTTTCCACCTTTGATGTTTC 58.663 36.000 0.00 0.00 0.00 2.78
286 297 4.053295 CACCTTTGATGTTTCTGCTTTGG 58.947 43.478 0.00 0.00 0.00 3.28
311 322 4.753516 TTTTAGCTGGGAATCTCGATCA 57.246 40.909 0.00 0.00 0.00 2.92
312 323 4.327982 TTTAGCTGGGAATCTCGATCAG 57.672 45.455 0.00 0.00 0.00 2.90
464 475 6.423862 CGGAATTTTCTTTCGTTCTTGTGTA 58.576 36.000 0.00 0.00 0.00 2.90
495 506 1.134367 TGATCGATCTCGTGTGTTCCC 59.866 52.381 25.02 0.00 40.80 3.97
514 525 1.431488 CGGTTCTGATGCGTCCATGG 61.431 60.000 4.97 4.97 0.00 3.66
518 529 2.802816 GTTCTGATGCGTCCATGGATAC 59.197 50.000 19.62 13.70 0.00 2.24
576 588 4.223032 TCCTGGATGAGGTGTTTACTTCTC 59.777 45.833 0.00 0.00 43.37 2.87
586 598 7.280205 TGAGGTGTTTACTTCTCTTCTGTTTTC 59.720 37.037 0.00 0.00 34.29 2.29
587 599 7.339482 AGGTGTTTACTTCTCTTCTGTTTTCT 58.661 34.615 0.00 0.00 0.00 2.52
588 600 7.829706 AGGTGTTTACTTCTCTTCTGTTTTCTT 59.170 33.333 0.00 0.00 0.00 2.52
589 601 8.459635 GGTGTTTACTTCTCTTCTGTTTTCTTT 58.540 33.333 0.00 0.00 0.00 2.52
590 602 9.841880 GTGTTTACTTCTCTTCTGTTTTCTTTT 57.158 29.630 0.00 0.00 0.00 2.27
591 603 9.840427 TGTTTACTTCTCTTCTGTTTTCTTTTG 57.160 29.630 0.00 0.00 0.00 2.44
599 611 7.594758 TCTCTTCTGTTTTCTTTTGTTGTGTTG 59.405 33.333 0.00 0.00 0.00 3.33
605 617 7.434492 TGTTTTCTTTTGTTGTGTTGAAGGTA 58.566 30.769 0.00 0.00 0.00 3.08
641 653 5.465390 TCTGTTCCTACGTTGATGAAACTTG 59.535 40.000 0.00 0.00 36.56 3.16
660 672 4.340381 ACTTGTGAATTTGAGCAGCTCTTT 59.660 37.500 23.15 13.62 0.00 2.52
709 721 4.394300 GGATCTGAATTGGTGTTGACTCTG 59.606 45.833 0.00 0.00 0.00 3.35
711 723 4.380531 TCTGAATTGGTGTTGACTCTGTC 58.619 43.478 0.00 0.00 0.00 3.51
714 726 4.141733 TGAATTGGTGTTGACTCTGTCTCA 60.142 41.667 0.00 0.00 33.15 3.27
715 727 3.904800 TTGGTGTTGACTCTGTCTCAA 57.095 42.857 0.00 0.00 33.15 3.02
716 728 4.422073 TTGGTGTTGACTCTGTCTCAAT 57.578 40.909 0.00 0.00 33.15 2.57
717 729 3.995199 TGGTGTTGACTCTGTCTCAATC 58.005 45.455 0.00 0.00 33.15 2.67
718 730 3.387699 TGGTGTTGACTCTGTCTCAATCA 59.612 43.478 0.00 0.00 33.15 2.57
738 752 4.797471 TCAAGTTTAACTGCATGCACATC 58.203 39.130 18.46 4.50 0.00 3.06
759 773 9.322773 CACATCTACACATACAATCAGAATTCT 57.677 33.333 0.88 0.88 0.00 2.40
760 774 9.896645 ACATCTACACATACAATCAGAATTCTT 57.103 29.630 4.86 0.00 0.00 2.52
782 796 9.667107 TTCTTTTTCCGTAGATCATTAGTGATT 57.333 29.630 1.86 0.00 44.96 2.57
817 832 2.113860 TTGATTGGCACTGGACTAGC 57.886 50.000 0.00 0.00 0.00 3.42
879 898 9.859427 TGATCAATCACAATTATCCTGTTTTTC 57.141 29.630 0.00 0.00 0.00 2.29
882 901 5.054390 TCACAATTATCCTGTTTTTCCGC 57.946 39.130 0.00 0.00 0.00 5.54
887 907 1.534729 ATCCTGTTTTTCCGCTGGAC 58.465 50.000 0.00 0.00 35.95 4.02
897 917 0.619255 TCCGCTGGACCCATTAAGGA 60.619 55.000 0.00 0.00 41.22 3.36
904 924 4.010349 CTGGACCCATTAAGGAAGAACAC 58.990 47.826 0.00 0.00 41.22 3.32
979 1004 4.485875 TCTTGACCTTGTTACTACCTCCA 58.514 43.478 0.00 0.00 0.00 3.86
1038 1063 0.471211 TTAGGGAGGCCGATCCGATT 60.471 55.000 5.00 0.00 40.56 3.34
1039 1064 1.185618 TAGGGAGGCCGATCCGATTG 61.186 60.000 5.00 0.00 40.56 2.67
1041 1066 2.666526 GAGGCCGATCCGATTGCC 60.667 66.667 12.71 12.71 44.35 4.52
1093 1133 1.901591 ACCAGCTGTTGTTCATCAGG 58.098 50.000 13.81 0.00 32.94 3.86
1392 1434 4.112634 TCTGAAATGAGTCGCTTATTCGG 58.887 43.478 0.00 0.00 0.00 4.30
1465 1516 8.877864 ATCCATTGTTGTTACTTAGAATTCCA 57.122 30.769 0.65 0.00 0.00 3.53
1498 1549 3.091545 ACTACCCATGAAGCAACCATTG 58.908 45.455 0.00 0.00 0.00 2.82
1545 1601 5.753721 AGGAATATGGTCTAGGCATCTTC 57.246 43.478 0.00 0.00 0.00 2.87
1868 1933 6.737254 TTTAAGGAGGAAAAATGTAGCTCG 57.263 37.500 0.00 0.00 0.00 5.03
2004 2069 6.127535 CCAAATCTCATAATTTGTCCACTGCT 60.128 38.462 8.15 0.00 42.50 4.24
2005 2070 6.446781 AATCTCATAATTTGTCCACTGCTG 57.553 37.500 0.00 0.00 0.00 4.41
2006 2071 3.691118 TCTCATAATTTGTCCACTGCTGC 59.309 43.478 0.00 0.00 0.00 5.25
2007 2072 3.419943 TCATAATTTGTCCACTGCTGCA 58.580 40.909 0.88 0.88 0.00 4.41
2008 2073 4.018490 TCATAATTTGTCCACTGCTGCAT 58.982 39.130 1.31 0.00 0.00 3.96
2049 2114 1.566018 GGCGTCACACTTTCTTCCGG 61.566 60.000 0.00 0.00 0.00 5.14
2077 2142 5.904941 TCAACAGTTGTGCAATTTCTCAAT 58.095 33.333 13.14 0.00 0.00 2.57
2104 2169 7.912056 TTTCTCACTGTTTATCCATCTTCTG 57.088 36.000 0.00 0.00 0.00 3.02
2215 2280 0.392729 CTCAGCCAAGCCAGAGAAGG 60.393 60.000 1.59 0.00 34.56 3.46
2539 2619 2.029844 GTCGCTGCTCACCAACCTC 61.030 63.158 0.00 0.00 0.00 3.85
2620 2716 3.187699 CTGAGCCCGATCCTCGTCG 62.188 68.421 0.00 0.00 38.40 5.12
2621 2717 4.632458 GAGCCCGATCCTCGTCGC 62.632 72.222 0.00 0.00 40.17 5.19
2690 2786 2.283966 CCGGTCCAGTCCAGTCCT 60.284 66.667 0.00 0.00 0.00 3.85
2782 2879 3.559238 TCGGCAAGAGAAGAATTTTGC 57.441 42.857 2.33 2.33 43.81 3.68
2805 2902 2.095415 TGTTCGTCCTGTGTAGTCGATG 60.095 50.000 0.00 0.00 31.93 3.84
2806 2903 0.450583 TCGTCCTGTGTAGTCGATGC 59.549 55.000 0.00 0.00 0.00 3.91
2807 2904 0.170339 CGTCCTGTGTAGTCGATGCA 59.830 55.000 0.00 0.00 0.00 3.96
2808 2905 1.795525 CGTCCTGTGTAGTCGATGCAG 60.796 57.143 0.00 0.00 0.00 4.41
2809 2906 0.173481 TCCTGTGTAGTCGATGCAGC 59.827 55.000 0.00 0.00 0.00 5.25
2810 2907 0.108662 CCTGTGTAGTCGATGCAGCA 60.109 55.000 1.53 0.00 0.00 4.41
2893 3007 1.621072 CCTTCCTCCAGTCCAGTAGCT 60.621 57.143 0.00 0.00 0.00 3.32
3000 3118 6.053650 TCACTGATCTGCTCCAAGATTATTG 58.946 40.000 0.00 0.00 37.03 1.90
3001 3122 4.820716 ACTGATCTGCTCCAAGATTATTGC 59.179 41.667 0.00 0.00 37.03 3.56
3025 3156 9.555727 TGCTACTTTTACTTCAAGACAGTAAAT 57.444 29.630 6.19 0.00 43.18 1.40
3086 3217 3.338126 CTTGGAGTCGACCGACCGG 62.338 68.421 17.62 6.94 45.59 5.28
3268 3412 4.774503 GCCGCTTGCCTCTGCTCT 62.775 66.667 0.00 0.00 38.71 4.09
3269 3413 2.818714 CCGCTTGCCTCTGCTCTG 60.819 66.667 0.00 0.00 38.71 3.35
3270 3414 3.497932 CGCTTGCCTCTGCTCTGC 61.498 66.667 0.00 0.00 38.71 4.26
3271 3415 2.046120 GCTTGCCTCTGCTCTGCT 60.046 61.111 0.00 0.00 38.71 4.24
3272 3416 2.107903 GCTTGCCTCTGCTCTGCTC 61.108 63.158 0.00 0.00 38.71 4.26
3273 3417 1.449956 CTTGCCTCTGCTCTGCTCC 60.450 63.158 0.00 0.00 38.71 4.70
3281 3425 0.954449 CTGCTCTGCTCCTGTGGTTG 60.954 60.000 0.00 0.00 0.00 3.77
3288 3432 1.070758 TGCTCCTGTGGTTGTCTTCTC 59.929 52.381 0.00 0.00 0.00 2.87
3290 3434 1.341531 CTCCTGTGGTTGTCTTCTCGT 59.658 52.381 0.00 0.00 0.00 4.18
3331 3475 6.706055 TTTGCTTTTGTAGACTCTGTATCG 57.294 37.500 0.00 0.00 0.00 2.92
3348 3492 4.176851 GTCGACGAGCTCCGACCC 62.177 72.222 25.89 9.75 46.54 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 2.892425 CTCGCCGGGCAATCTCAC 60.892 66.667 20.71 0.00 0.00 3.51
30 31 4.363990 CATCCGATCCTCGCCGGG 62.364 72.222 2.18 0.00 45.36 5.73
59 60 0.249911 CTCGGATTGGGATCGGGAAC 60.250 60.000 0.00 0.00 34.40 3.62
64 65 1.958205 GCAGCTCGGATTGGGATCG 60.958 63.158 0.00 0.00 32.84 3.69
119 125 1.254284 ACAAGAGCAGTCCGGAGAGG 61.254 60.000 3.06 0.00 42.97 3.69
201 212 4.202050 TGCAGCCTGAGAAAAAGAAAACTC 60.202 41.667 0.00 0.00 0.00 3.01
208 219 2.360165 ACACTTGCAGCCTGAGAAAAAG 59.640 45.455 0.00 0.00 0.00 2.27
215 226 1.228245 GGGAACACTTGCAGCCTGA 60.228 57.895 0.00 0.00 0.00 3.86
217 228 2.116125 GGGGAACACTTGCAGCCT 59.884 61.111 0.00 0.00 0.00 4.58
270 281 4.405116 AAAAGCCAAAGCAGAAACATCA 57.595 36.364 0.00 0.00 43.56 3.07
311 322 2.240414 CCTCGTTTTACCCCCAATACCT 59.760 50.000 0.00 0.00 0.00 3.08
312 323 2.239402 TCCTCGTTTTACCCCCAATACC 59.761 50.000 0.00 0.00 0.00 2.73
464 475 4.097135 ACGAGATCGATCAACAGAGAACAT 59.903 41.667 26.47 1.56 43.02 2.71
495 506 1.431488 CCATGGACGCATCAGAACCG 61.431 60.000 5.56 0.00 0.00 4.44
576 588 7.636259 TCAACACAACAAAAGAAAACAGAAG 57.364 32.000 0.00 0.00 0.00 2.85
586 598 6.142818 TGGATACCTTCAACACAACAAAAG 57.857 37.500 0.00 0.00 0.00 2.27
587 599 6.531503 TTGGATACCTTCAACACAACAAAA 57.468 33.333 0.00 0.00 0.00 2.44
588 600 6.723298 ATTGGATACCTTCAACACAACAAA 57.277 33.333 0.00 0.00 0.00 2.83
589 601 6.723298 AATTGGATACCTTCAACACAACAA 57.277 33.333 0.00 0.00 0.00 2.83
590 602 6.462207 CCAAATTGGATACCTTCAACACAACA 60.462 38.462 6.04 0.00 40.96 3.33
591 603 5.925969 CCAAATTGGATACCTTCAACACAAC 59.074 40.000 6.04 0.00 40.96 3.32
599 611 6.350194 GGAACAGAACCAAATTGGATACCTTC 60.350 42.308 20.25 11.26 40.96 3.46
605 617 4.700213 CGTAGGAACAGAACCAAATTGGAT 59.300 41.667 20.25 6.79 40.96 3.41
641 653 5.045872 ACAAAAAGAGCTGCTCAAATTCAC 58.954 37.500 29.49 2.47 32.06 3.18
660 672 2.303022 CCCTGTAGGAGCTCAGAACAAA 59.697 50.000 17.19 0.00 38.24 2.83
709 721 5.570589 GCATGCAGTTAAACTTGATTGAGAC 59.429 40.000 14.21 0.00 0.00 3.36
711 723 5.344128 GTGCATGCAGTTAAACTTGATTGAG 59.656 40.000 23.41 0.00 0.00 3.02
714 726 5.199024 TGTGCATGCAGTTAAACTTGATT 57.801 34.783 23.41 0.00 0.00 2.57
715 727 4.852134 TGTGCATGCAGTTAAACTTGAT 57.148 36.364 23.41 0.00 0.00 2.57
716 728 4.520111 AGATGTGCATGCAGTTAAACTTGA 59.480 37.500 23.41 0.00 0.00 3.02
717 729 4.801891 AGATGTGCATGCAGTTAAACTTG 58.198 39.130 23.41 0.00 0.00 3.16
718 730 5.473162 TGTAGATGTGCATGCAGTTAAACTT 59.527 36.000 23.41 6.21 0.00 2.66
759 773 8.786826 ACAATCACTAATGATCTACGGAAAAA 57.213 30.769 0.00 0.00 45.26 1.94
760 774 8.786826 AACAATCACTAATGATCTACGGAAAA 57.213 30.769 0.00 0.00 45.26 2.29
761 775 7.494625 GGAACAATCACTAATGATCTACGGAAA 59.505 37.037 0.00 0.00 45.26 3.13
765 779 6.280643 TGGGAACAATCACTAATGATCTACG 58.719 40.000 0.00 0.00 45.26 3.51
808 823 1.280421 AGCAAAAGAGGGCTAGTCCAG 59.720 52.381 17.52 0.00 38.90 3.86
817 832 6.994496 TCTGAATATGTCATAGCAAAAGAGGG 59.006 38.462 0.00 0.00 35.07 4.30
846 865 8.957466 AGGATAATTGTGATTGATCATATGCAG 58.043 33.333 0.00 0.00 39.30 4.41
879 898 0.254747 TTCCTTAATGGGTCCAGCGG 59.745 55.000 0.00 0.00 36.20 5.52
882 901 4.010349 GTGTTCTTCCTTAATGGGTCCAG 58.990 47.826 0.00 0.00 36.20 3.86
887 907 6.346096 TCTAATCGTGTTCTTCCTTAATGGG 58.654 40.000 0.00 0.00 36.20 4.00
915 935 9.346725 CAGCACTTAAAAGAAAGGACATAAATC 57.653 33.333 0.00 0.00 0.00 2.17
979 1004 4.558226 TGATTCTACTCCTGCACAATGT 57.442 40.909 0.00 0.00 0.00 2.71
1039 1064 3.866582 ATAGCCCCTCTGCACGGC 61.867 66.667 1.91 1.91 43.35 5.68
1041 1066 2.109799 CCATAGCCCCTCTGCACG 59.890 66.667 0.00 0.00 0.00 5.34
1093 1133 3.305403 CCAATGATCCATCTGCATCTTGC 60.305 47.826 0.00 0.00 45.29 4.01
1464 1515 6.161855 TCATGGGTAGTAAGTAGCAAGATG 57.838 41.667 0.00 0.00 0.00 2.90
1465 1516 6.686632 GCTTCATGGGTAGTAAGTAGCAAGAT 60.687 42.308 0.00 0.00 0.00 2.40
1498 1549 4.981794 AGTACCGAAATAACAAGCAATGC 58.018 39.130 0.00 0.00 0.00 3.56
1545 1601 2.359531 CGGCCTAGTCCTTCTACTTCTG 59.640 54.545 0.00 0.00 0.00 3.02
1741 1806 8.682936 ACTCATCAAAAGTAGTGAAATCAAGT 57.317 30.769 0.00 0.00 0.00 3.16
2077 2142 8.378565 AGAAGATGGATAAACAGTGAGAAAAGA 58.621 33.333 0.00 0.00 0.00 2.52
2104 2169 4.410400 CCCCTTCGGGTCACCTGC 62.410 72.222 0.00 0.00 45.50 4.85
2215 2280 2.045536 CTGGCCACCTGGAAGAGC 60.046 66.667 0.00 0.00 37.39 4.09
2539 2619 1.144936 GATGTTGAGGGAGAGGCGG 59.855 63.158 0.00 0.00 0.00 6.13
2680 2776 0.110678 TCGTCTGTCAGGACTGGACT 59.889 55.000 17.04 0.00 36.26 3.85
2690 2786 1.299850 CTGCGGTGTTCGTCTGTCA 60.300 57.895 0.00 0.00 41.72 3.58
2782 2879 2.031420 TCGACTACACAGGACGAACAAG 60.031 50.000 0.00 0.00 33.90 3.16
2859 2956 3.690108 GAAGGCGACGACGTACCCC 62.690 68.421 14.25 8.93 41.98 4.95
2861 2958 2.202531 GGAAGGCGACGACGTACC 60.203 66.667 9.33 5.89 41.98 3.34
2893 3007 1.075601 AGGAGAGTCAATGGCCCAAA 58.924 50.000 0.00 0.00 0.00 3.28
2974 3092 1.829849 TCTTGGAGCAGATCAGTGAGG 59.170 52.381 0.00 0.00 0.00 3.86
3018 3141 4.150897 TGATCCCCGGAGAAATTTACTG 57.849 45.455 0.73 0.00 0.00 2.74
3019 3142 4.227527 AGTTGATCCCCGGAGAAATTTACT 59.772 41.667 0.73 0.00 0.00 2.24
3025 3156 3.153919 CAAAAGTTGATCCCCGGAGAAA 58.846 45.455 0.73 0.00 0.00 2.52
3088 3219 4.435436 TGCCAGGTGCGCTAGTCG 62.435 66.667 9.73 2.71 45.60 4.18
3089 3220 1.945354 TACTGCCAGGTGCGCTAGTC 61.945 60.000 9.73 0.00 45.60 2.59
3101 3232 0.892755 ATCGAGTTTCGGTACTGCCA 59.107 50.000 0.00 0.00 40.88 4.92
3268 3412 1.070758 GAGAAGACAACCACAGGAGCA 59.929 52.381 0.00 0.00 0.00 4.26
3269 3413 1.802069 GAGAAGACAACCACAGGAGC 58.198 55.000 0.00 0.00 0.00 4.70
3270 3414 1.341531 ACGAGAAGACAACCACAGGAG 59.658 52.381 0.00 0.00 0.00 3.69
3271 3415 1.068588 CACGAGAAGACAACCACAGGA 59.931 52.381 0.00 0.00 0.00 3.86
3272 3416 1.502231 CACGAGAAGACAACCACAGG 58.498 55.000 0.00 0.00 0.00 4.00
3273 3417 0.861837 GCACGAGAAGACAACCACAG 59.138 55.000 0.00 0.00 0.00 3.66
3281 3425 2.853914 GCAACCGCACGAGAAGAC 59.146 61.111 0.00 0.00 38.36 3.01
3304 3448 4.036852 ACAGAGTCTACAAAAGCAAAAGCC 59.963 41.667 0.00 0.00 0.00 4.35
3348 3492 3.746949 CTGCCCGGAGCTAAGCCAG 62.747 68.421 0.73 0.00 44.23 4.85
3368 3512 0.811616 GCTCACCGACATCATCACCC 60.812 60.000 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.