Multiple sequence alignment - TraesCS1D01G377200

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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 TraesCS1D01G377200 chr1D 100.000 2468 0 0 1 2468 453475620 453478087 0.000000e+00 4558
1 TraesCS1D01G377200 chr1D 90.428 1964 102 39 7 1903 453404344 453406288 0.000000e+00 2507
2 TraesCS1D01G377200 chr1D 88.710 372 35 3 995 1359 453347712 453348083 4.840000e-122 448
3 TraesCS1D01G377200 chr1A 92.154 1899 74 30 8 1843 548404099 548405985 0.000000e+00 2612
4 TraesCS1D01G377200 chr1A 83.987 612 71 17 1861 2468 548407503 548408091 1.660000e-156 562
5 TraesCS1D01G377200 chr1B 90.717 1799 99 32 1 1766 623831931 623833694 0.000000e+00 2335
6 TraesCS1D01G377200 chr1B 89.676 1695 105 25 1 1662 623913991 623915648 0.000000e+00 2097
7 TraesCS1D01G377200 chr1B 84.304 790 78 14 1697 2468 623915644 623916405 0.000000e+00 730
8 TraesCS1D01G377200 chr1B 90.137 365 36 0 995 1359 623822637 623823001 2.220000e-130 475
9 TraesCS1D01G377200 chr1B 87.664 381 47 0 979 1359 623885299 623885679 6.260000e-121 444
10 TraesCS1D01G377200 chr1B 88.636 264 30 0 391 654 640820011 640820274 3.060000e-84 322
11 TraesCS1D01G377200 chr1B 87.879 264 32 0 391 654 496360319 496360056 6.630000e-81 311
12 TraesCS1D01G377200 chr4B 88.636 264 30 0 391 654 59051600 59051863 3.060000e-84 322
13 TraesCS1D01G377200 chr6B 88.258 264 31 0 391 654 106833596 106833333 1.420000e-82 316
14 TraesCS1D01G377200 chr5B 87.879 264 32 0 391 654 686123314 686123577 6.630000e-81 311
15 TraesCS1D01G377200 chr3A 77.542 236 44 8 19 250 121233640 121233870 1.540000e-27 134


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 TraesCS1D01G377200 chr1D 453475620 453478087 2467 False 4558.0 4558 100.0000 1 2468 1 chr1D.!!$F3 2467
1 TraesCS1D01G377200 chr1D 453404344 453406288 1944 False 2507.0 2507 90.4280 7 1903 1 chr1D.!!$F2 1896
2 TraesCS1D01G377200 chr1A 548404099 548408091 3992 False 1587.0 2612 88.0705 8 2468 2 chr1A.!!$F1 2460
3 TraesCS1D01G377200 chr1B 623831931 623833694 1763 False 2335.0 2335 90.7170 1 1766 1 chr1B.!!$F2 1765
4 TraesCS1D01G377200 chr1B 623913991 623916405 2414 False 1413.5 2097 86.9900 1 2468 2 chr1B.!!$F5 2467

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
409 415 0.110056 TACTCGCTTCGTCCGTGAAC 60.11 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1889 3517 0.179129 CATGATTGTTTCCAGGCCGC 60.179 55.0 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
46 47 0.247185 TTATTTCGGGCGGAACTCGT 59.753 50.000 7.02 0.00 41.72 4.18
62 63 5.163683 GGAACTCGTCTAATGTGCTACACTA 60.164 44.000 0.00 0.00 35.11 2.74
199 202 1.298713 CGTCGAGCTCCCGATGAAG 60.299 63.158 13.62 1.44 45.52 3.02
206 209 1.625818 AGCTCCCGATGAAGTGAACTT 59.374 47.619 0.00 0.00 39.23 2.66
329 333 4.238761 TCTGACCTCACTGTTTTAGACG 57.761 45.455 0.00 0.00 0.00 4.18
332 336 2.987821 GACCTCACTGTTTTAGACGAGC 59.012 50.000 0.00 0.00 32.03 5.03
347 351 3.890147 AGACGAGCTTTAATCCTACGGAT 59.110 43.478 0.00 0.00 45.46 4.18
357 361 2.754946 TCCTACGGATTCCAACACAC 57.245 50.000 3.09 0.00 0.00 3.82
358 362 2.253610 TCCTACGGATTCCAACACACT 58.746 47.619 3.09 0.00 0.00 3.55
405 411 1.945387 TATCTACTCGCTTCGTCCGT 58.055 50.000 0.00 0.00 0.00 4.69
409 415 0.110056 TACTCGCTTCGTCCGTGAAC 60.110 55.000 0.00 0.00 0.00 3.18
481 487 9.174166 GATCAACTTAATAGGGAAAAGTAGCAA 57.826 33.333 0.00 0.00 33.24 3.91
638 668 6.398918 AGAACGTAGAAGTGCACTTATTCAT 58.601 36.000 31.20 17.03 36.11 2.57
654 684 0.752658 TCATGGACGGAGGCAGTATG 59.247 55.000 0.00 0.00 40.87 2.39
656 686 1.410850 ATGGACGGAGGCAGTATGGG 61.411 60.000 0.00 0.00 35.86 4.00
657 687 1.760875 GGACGGAGGCAGTATGGGA 60.761 63.158 0.00 0.00 35.86 4.37
658 688 1.335132 GGACGGAGGCAGTATGGGAA 61.335 60.000 0.00 0.00 35.86 3.97
659 689 0.539986 GACGGAGGCAGTATGGGAAA 59.460 55.000 0.00 0.00 35.86 3.13
660 690 0.541863 ACGGAGGCAGTATGGGAAAG 59.458 55.000 0.00 0.00 35.86 2.62
661 691 0.830648 CGGAGGCAGTATGGGAAAGA 59.169 55.000 0.00 0.00 35.86 2.52
662 692 1.417890 CGGAGGCAGTATGGGAAAGAT 59.582 52.381 0.00 0.00 35.86 2.40
663 693 2.158755 CGGAGGCAGTATGGGAAAGATT 60.159 50.000 0.00 0.00 35.86 2.40
695 725 0.394216 TTCCAGCAATCACCCCATCG 60.394 55.000 0.00 0.00 0.00 3.84
755 797 4.163268 TGGTGCATAGGATTAACACTAGCA 59.837 41.667 0.00 0.00 0.00 3.49
757 799 5.588648 GGTGCATAGGATTAACACTAGCAAA 59.411 40.000 0.00 0.00 30.78 3.68
760 809 6.884295 TGCATAGGATTAACACTAGCAAACTT 59.116 34.615 0.00 0.00 0.00 2.66
967 1031 7.290658 TCCATCCATCCATCTATAGACTACT 57.709 40.000 4.10 0.00 0.00 2.57
969 1033 7.036571 TCCATCCATCCATCTATAGACTACTCA 60.037 40.741 4.10 0.00 0.00 3.41
970 1034 7.784073 CCATCCATCCATCTATAGACTACTCAT 59.216 40.741 4.10 0.00 0.00 2.90
971 1035 8.849168 CATCCATCCATCTATAGACTACTCATC 58.151 40.741 4.10 0.00 0.00 2.92
972 1036 7.350382 TCCATCCATCTATAGACTACTCATCC 58.650 42.308 4.10 0.00 0.00 3.51
976 1040 8.225863 TCCATCTATAGACTACTCATCCTTCT 57.774 38.462 4.10 0.00 0.00 2.85
977 1041 8.325787 TCCATCTATAGACTACTCATCCTTCTC 58.674 40.741 4.10 0.00 0.00 2.87
980 1044 9.905713 ATCTATAGACTACTCATCCTTCTCATC 57.094 37.037 4.10 0.00 0.00 2.92
981 1045 8.038351 TCTATAGACTACTCATCCTTCTCATCG 58.962 40.741 0.00 0.00 0.00 3.84
982 1046 4.141287 AGACTACTCATCCTTCTCATCGG 58.859 47.826 0.00 0.00 0.00 4.18
1018 1097 3.545124 ATGGCCGCACCGAAACTCA 62.545 57.895 0.00 0.00 43.94 3.41
1032 1111 3.604582 GAAACTCACCCTTCTCATCCTG 58.395 50.000 0.00 0.00 0.00 3.86
1038 1117 1.227089 CCTTCTCATCCTGGTCGCG 60.227 63.158 0.00 0.00 0.00 5.87
1165 1250 1.486310 TCACCTTCACTGTGTTCAGCT 59.514 47.619 7.79 0.00 44.77 4.24
1260 1345 0.405585 CCAAGTTCACCATCCAGGGT 59.594 55.000 0.00 0.00 43.89 4.34
1477 1562 2.409241 GATCCTCTAGCACGGCGACC 62.409 65.000 16.62 3.25 0.00 4.79
1481 1566 3.849951 CTAGCACGGCGACCCCAT 61.850 66.667 16.62 0.00 0.00 4.00
1534 1623 2.297912 GCGAGTACGTGCGTGTTGT 61.298 57.895 7.55 0.00 41.98 3.32
1536 1625 1.850640 GAGTACGTGCGTGTTGTGG 59.149 57.895 7.55 0.00 0.00 4.17
1537 1626 0.872881 GAGTACGTGCGTGTTGTGGT 60.873 55.000 7.55 0.00 0.00 4.16
1538 1627 0.385029 AGTACGTGCGTGTTGTGGTA 59.615 50.000 7.55 0.00 0.00 3.25
1539 1628 0.503961 GTACGTGCGTGTTGTGGTAC 59.496 55.000 7.55 0.00 0.00 3.34
1540 1629 0.933973 TACGTGCGTGTTGTGGTACG 60.934 55.000 7.55 0.00 45.66 3.67
1541 1630 2.932905 GTGCGTGTTGTGGTACGG 59.067 61.111 0.00 0.00 40.43 4.02
1542 1631 1.884004 GTGCGTGTTGTGGTACGGT 60.884 57.895 0.00 0.00 40.43 4.83
1543 1632 0.597118 GTGCGTGTTGTGGTACGGTA 60.597 55.000 0.00 0.00 40.43 4.02
1544 1633 0.597118 TGCGTGTTGTGGTACGGTAC 60.597 55.000 9.82 9.82 40.43 3.34
1545 1634 0.318955 GCGTGTTGTGGTACGGTACT 60.319 55.000 17.14 0.00 40.43 2.73
1546 1635 1.689959 CGTGTTGTGGTACGGTACTC 58.310 55.000 17.14 11.36 36.71 2.59
1571 1671 1.957186 GGCCGCGTGTGACTGTTTA 60.957 57.895 4.92 0.00 0.00 2.01
1617 1717 2.486191 GCTCCCATGCATAAGCTGTACT 60.486 50.000 16.55 0.00 42.74 2.73
1711 1828 2.800544 CTCGTCGTTTGTGTTTCCATCT 59.199 45.455 0.00 0.00 0.00 2.90
1776 1898 4.291249 AGACCCTGCCTTCCTGTTTAATTA 59.709 41.667 0.00 0.00 0.00 1.40
1882 3510 3.020984 GTTTGGTGTTTGGTCCTTGAGA 58.979 45.455 0.00 0.00 0.00 3.27
1889 3517 4.022849 GTGTTTGGTCCTTGAGAATCTTGG 60.023 45.833 0.00 0.00 34.92 3.61
1903 3531 2.123683 TTGGCGGCCTGGAAACAA 60.124 55.556 21.46 0.54 42.06 2.83
1906 3534 1.976474 GGCGGCCTGGAAACAATCA 60.976 57.895 12.87 0.00 42.06 2.57
1920 3548 6.865726 TGGAAACAATCATGGAAATACAAACG 59.134 34.615 0.00 0.00 37.44 3.60
2071 3702 7.753309 TTTTCGAGATTTGACCATTTTCCTA 57.247 32.000 0.00 0.00 0.00 2.94
2072 3703 7.938140 TTTCGAGATTTGACCATTTTCCTAT 57.062 32.000 0.00 0.00 0.00 2.57
2073 3704 7.553881 TTCGAGATTTGACCATTTTCCTATC 57.446 36.000 0.00 0.00 0.00 2.08
2074 3705 5.753438 TCGAGATTTGACCATTTTCCTATCG 59.247 40.000 0.00 0.00 0.00 2.92
2075 3706 5.523916 CGAGATTTGACCATTTTCCTATCGT 59.476 40.000 0.00 0.00 0.00 3.73
2076 3707 6.292381 CGAGATTTGACCATTTTCCTATCGTC 60.292 42.308 0.00 0.00 0.00 4.20
2077 3708 5.523916 AGATTTGACCATTTTCCTATCGTCG 59.476 40.000 0.00 0.00 0.00 5.12
2078 3709 3.173668 TGACCATTTTCCTATCGTCGG 57.826 47.619 0.00 0.00 0.00 4.79
2079 3710 2.159014 TGACCATTTTCCTATCGTCGGG 60.159 50.000 0.00 0.00 0.00 5.14
2080 3711 1.140252 ACCATTTTCCTATCGTCGGGG 59.860 52.381 0.00 0.00 0.00 5.73
2081 3712 1.140252 CCATTTTCCTATCGTCGGGGT 59.860 52.381 0.00 0.00 0.00 4.95
2123 3754 2.931105 TACCGCCAAGGCCCTTGA 60.931 61.111 25.16 0.89 43.42 3.02
2138 3769 2.149803 CTTGACGGTAGGGTCGCACA 62.150 60.000 0.00 0.00 39.83 4.57
2152 3783 2.417586 GTCGCACACCCTACCATAAAAC 59.582 50.000 0.00 0.00 0.00 2.43
2157 3788 5.124138 CGCACACCCTACCATAAAACAATTA 59.876 40.000 0.00 0.00 0.00 1.40
2191 3822 3.291611 CGGTTGTACCCGCCTACT 58.708 61.111 0.00 0.00 41.78 2.57
2193 3824 1.035139 CGGTTGTACCCGCCTACTAT 58.965 55.000 0.00 0.00 41.78 2.12
2205 3836 2.918712 CCTACTATCAGGCACCTTGG 57.081 55.000 0.00 0.00 0.00 3.61
2222 3853 0.978667 TGGCGGTAGGGTTGCATAGA 60.979 55.000 0.00 0.00 0.00 1.98
2233 3864 1.134788 GTTGCATAGACTACCGCCAGT 60.135 52.381 0.00 0.00 0.00 4.00
2234 3865 1.191535 TGCATAGACTACCGCCAGTT 58.808 50.000 3.84 0.00 0.00 3.16
2261 3893 1.351012 GTAGAGCTGCATTGCGCTG 59.649 57.895 25.14 11.02 42.68 5.18
2280 3912 3.741388 GCTGACGTGGATAAGTTGCCTAT 60.741 47.826 0.00 0.00 0.00 2.57
2310 3942 2.550978 CTTTGGCGGTAGACTGGTATG 58.449 52.381 0.00 0.00 0.00 2.39
2329 3961 2.343758 CCTACCGCCATGGATCCG 59.656 66.667 18.40 9.82 42.00 4.18
2332 3964 0.390340 CTACCGCCATGGATCCGATG 60.390 60.000 18.40 11.57 42.00 3.84
2409 4041 2.110011 ACACCAAATTAGGCCACCTCTT 59.890 45.455 5.01 0.00 34.61 2.85
2456 4089 4.156008 ACTGCATAAGGCCTAAAAAGTTCG 59.844 41.667 5.16 0.00 43.89 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 4.267536 ACTCGGTAGTGTAGCACATTAGA 58.732 43.478 2.01 0.00 36.74 2.10
62 63 1.871676 GGCGAAAGAAAGAAACTCGGT 59.128 47.619 0.00 0.00 0.00 4.69
199 202 6.094061 AGTTCTATGACTTCGCTAAGTTCAC 58.906 40.000 4.96 0.00 46.09 3.18
206 209 3.250280 CGCCTAGTTCTATGACTTCGCTA 59.750 47.826 0.00 0.00 0.00 4.26
214 217 3.964688 TGGGATTTCGCCTAGTTCTATGA 59.035 43.478 0.00 0.00 0.00 2.15
347 351 8.129496 TCTATTACATGTAGAGTGTGTTGGAA 57.871 34.615 5.56 0.00 0.00 3.53
398 404 1.404748 TGTACACTTGTTCACGGACGA 59.595 47.619 0.00 0.00 0.00 4.20
405 411 8.500753 ACAAAAACTAGATGTACACTTGTTCA 57.499 30.769 17.90 0.00 33.78 3.18
409 415 7.730364 AGGACAAAAACTAGATGTACACTTG 57.270 36.000 0.00 1.74 30.01 3.16
464 470 8.052748 TCATACATGTTGCTACTTTTCCCTATT 58.947 33.333 2.30 0.00 0.00 1.73
541 547 7.664082 AGTAGCATATATGACATCAAGTTGC 57.336 36.000 17.10 0.00 0.00 4.17
615 645 6.455646 CCATGAATAAGTGCACTTCTACGTTC 60.456 42.308 34.29 26.26 37.40 3.95
638 668 2.063979 CCCATACTGCCTCCGTCCA 61.064 63.158 0.00 0.00 0.00 4.02
654 684 6.369890 GGAATTTGCTTCTTTCAATCTTTCCC 59.630 38.462 0.00 0.00 34.08 3.97
656 686 7.359849 GCTGGAATTTGCTTCTTTCAATCTTTC 60.360 37.037 0.00 0.00 34.08 2.62
657 687 6.426025 GCTGGAATTTGCTTCTTTCAATCTTT 59.574 34.615 0.00 0.00 34.08 2.52
658 688 5.930569 GCTGGAATTTGCTTCTTTCAATCTT 59.069 36.000 0.00 0.00 34.08 2.40
659 689 5.011329 TGCTGGAATTTGCTTCTTTCAATCT 59.989 36.000 0.00 0.00 34.08 2.40
660 690 5.232463 TGCTGGAATTTGCTTCTTTCAATC 58.768 37.500 0.00 0.00 34.08 2.67
661 691 5.217978 TGCTGGAATTTGCTTCTTTCAAT 57.782 34.783 0.00 0.00 34.08 2.57
662 692 4.669206 TGCTGGAATTTGCTTCTTTCAA 57.331 36.364 0.00 0.00 34.08 2.69
663 693 4.669206 TTGCTGGAATTTGCTTCTTTCA 57.331 36.364 0.00 0.00 34.08 2.69
755 797 4.532834 ACTACACCACATGAACCAAGTTT 58.467 39.130 0.00 0.00 0.00 2.66
757 799 3.857157 ACTACACCACATGAACCAAGT 57.143 42.857 0.00 0.00 0.00 3.16
760 809 4.584874 CCATTACTACACCACATGAACCA 58.415 43.478 0.00 0.00 0.00 3.67
967 1031 2.079170 AGCTCCGATGAGAAGGATGA 57.921 50.000 0.00 0.00 41.42 2.92
969 1033 1.892474 GCTAGCTCCGATGAGAAGGAT 59.108 52.381 7.70 0.00 41.42 3.24
970 1034 1.323412 GCTAGCTCCGATGAGAAGGA 58.677 55.000 7.70 0.00 41.42 3.36
971 1035 0.316841 GGCTAGCTCCGATGAGAAGG 59.683 60.000 15.72 0.00 41.42 3.46
972 1036 1.035923 TGGCTAGCTCCGATGAGAAG 58.964 55.000 15.72 0.00 41.42 2.85
976 1040 1.381191 TGGTGGCTAGCTCCGATGA 60.381 57.895 15.72 0.00 0.00 2.92
977 1041 1.227380 GTGGTGGCTAGCTCCGATG 60.227 63.158 15.72 0.00 0.00 3.84
980 1044 3.449227 TCGTGGTGGCTAGCTCCG 61.449 66.667 15.72 9.78 0.00 4.63
981 1045 2.184579 GTCGTGGTGGCTAGCTCC 59.815 66.667 15.72 17.13 0.00 4.70
982 1046 1.961180 ATGGTCGTGGTGGCTAGCTC 61.961 60.000 15.72 8.23 0.00 4.09
1009 1088 2.622436 GATGAGAAGGGTGAGTTTCGG 58.378 52.381 0.00 0.00 0.00 4.30
1018 1097 1.617947 GCGACCAGGATGAGAAGGGT 61.618 60.000 0.00 0.00 39.69 4.34
1063 1142 3.573229 TTGCACCTGGCTCTGGCT 61.573 61.111 0.00 0.00 45.15 4.75
1064 1143 3.368571 GTTGCACCTGGCTCTGGC 61.369 66.667 0.00 0.00 45.15 4.85
1065 1144 1.970114 CAGTTGCACCTGGCTCTGG 60.970 63.158 2.78 0.00 45.15 3.86
1066 1145 1.228063 ACAGTTGCACCTGGCTCTG 60.228 57.895 16.28 4.86 45.15 3.35
1067 1146 1.228063 CACAGTTGCACCTGGCTCT 60.228 57.895 16.28 0.00 45.15 4.09
1068 1147 1.526917 ACACAGTTGCACCTGGCTC 60.527 57.895 16.28 0.00 45.15 4.70
1215 1300 2.261671 CCCACGTCGAACCTGGAG 59.738 66.667 0.00 0.00 0.00 3.86
1477 1562 2.353323 CGTCCTGATCATGCATATGGG 58.647 52.381 0.00 0.00 34.97 4.00
1480 1565 1.273327 TCGCGTCCTGATCATGCATAT 59.727 47.619 5.77 0.00 0.00 1.78
1481 1566 0.673437 TCGCGTCCTGATCATGCATA 59.327 50.000 5.77 0.00 0.00 3.14
1539 1628 2.377310 CGGCCACAAACGAGTACCG 61.377 63.158 2.24 2.71 45.44 4.02
1540 1629 2.674084 GCGGCCACAAACGAGTACC 61.674 63.158 2.24 0.00 0.00 3.34
1541 1630 2.858158 GCGGCCACAAACGAGTAC 59.142 61.111 2.24 0.00 0.00 2.73
1542 1631 2.735478 CGCGGCCACAAACGAGTA 60.735 61.111 2.24 0.00 0.00 2.59
1543 1632 4.903010 ACGCGGCCACAAACGAGT 62.903 61.111 12.47 0.00 38.26 4.18
1544 1633 4.368808 CACGCGGCCACAAACGAG 62.369 66.667 12.47 0.00 36.00 4.18
1546 1635 4.954680 CACACGCGGCCACAAACG 62.955 66.667 12.47 0.00 0.00 3.60
1571 1671 4.499188 GCCGGAAGAAAAGCAAACTAAACT 60.499 41.667 5.05 0.00 0.00 2.66
1617 1717 1.561076 ACACAGCTTATGCATGGGAGA 59.439 47.619 10.16 0.00 42.74 3.71
1711 1828 4.770010 AGGAAAGGAAACAAACACAACAGA 59.230 37.500 0.00 0.00 0.00 3.41
1882 3510 1.076549 TTTCCAGGCCGCCAAGATT 59.923 52.632 13.15 0.00 0.00 2.40
1889 3517 0.179129 CATGATTGTTTCCAGGCCGC 60.179 55.000 0.00 0.00 0.00 6.53
1903 3531 5.885352 TCCATGACGTTTGTATTTCCATGAT 59.115 36.000 9.02 0.00 30.75 2.45
1906 3534 5.496556 TCTCCATGACGTTTGTATTTCCAT 58.503 37.500 0.00 0.00 0.00 3.41
1920 3548 2.996249 TGGCTCTCAATCTCCATGAC 57.004 50.000 0.00 0.00 0.00 3.06
2063 3694 1.068127 CGACCCCGACGATAGGAAAAT 59.932 52.381 0.00 0.00 43.77 1.82
2071 3702 3.446570 GTCACCGACCCCGACGAT 61.447 66.667 0.00 0.00 38.22 3.73
2075 3706 4.343323 TACCGTCACCGACCCCGA 62.343 66.667 0.00 0.00 38.22 5.14
2076 3707 3.818787 CTACCGTCACCGACCCCG 61.819 72.222 0.00 0.00 35.63 5.73
2077 3708 3.455469 CCTACCGTCACCGACCCC 61.455 72.222 0.00 0.00 35.63 4.95
2078 3709 2.837031 TACCCTACCGTCACCGACCC 62.837 65.000 0.00 0.00 35.63 4.46
2079 3710 0.753111 ATACCCTACCGTCACCGACC 60.753 60.000 0.00 0.00 35.63 4.79
2080 3711 1.967319 TATACCCTACCGTCACCGAC 58.033 55.000 0.00 0.00 35.63 4.79
2081 3712 2.373169 AGATATACCCTACCGTCACCGA 59.627 50.000 0.00 0.00 35.63 4.69
2123 3754 3.688159 GGTGTGCGACCCTACCGT 61.688 66.667 0.00 0.00 39.10 4.83
2157 3788 9.101655 GGTACAACCGTTGTATTTGATACTTAT 57.898 33.333 23.49 0.00 46.73 1.73
2191 3822 2.589540 CCGCCAAGGTGCCTGATA 59.410 61.111 0.00 0.00 34.51 2.15
2203 3834 0.978667 TCTATGCAACCCTACCGCCA 60.979 55.000 0.00 0.00 0.00 5.69
2205 3836 0.464452 AGTCTATGCAACCCTACCGC 59.536 55.000 0.00 0.00 0.00 5.68
2234 3865 0.536233 TGCAGCTCTACCGCCAAAAA 60.536 50.000 0.00 0.00 0.00 1.94
2291 3923 1.406341 GCATACCAGTCTACCGCCAAA 60.406 52.381 0.00 0.00 0.00 3.28
2310 3942 2.032681 GATCCATGGCGGTAGGGC 59.967 66.667 6.96 0.00 42.69 5.19
2347 3979 2.486472 AAGCAGATCTGACCTTGGTG 57.514 50.000 27.04 0.00 0.00 4.17
2409 4041 3.871006 GTGATCGATAGTTTGGTGATGCA 59.129 43.478 0.00 0.00 37.40 3.96
2439 4071 8.851541 TCTTAATTCGAACTTTTTAGGCCTTA 57.148 30.769 12.58 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.