Multiple sequence alignment - TraesCS1B01G196400

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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 TraesCS1B01G196400 chr1B 100.000 3884 0 0 1 3884 353278212 353274329 0.000000e+00 7173
1 TraesCS1B01G196400 chr1D 92.311 2458 93 27 1471 3884 259778165 259780570 0.000000e+00 3404
2 TraesCS1B01G196400 chr1D 92.546 1355 43 16 84 1400 259776709 259778043 0.000000e+00 1890
3 TraesCS1B01G196400 chr1A 93.156 1987 71 28 1959 3884 341016399 341014417 0.000000e+00 2856
4 TraesCS1B01G196400 chr1A 89.577 662 44 14 84 734 341018649 341018002 0.000000e+00 817
5 TraesCS1B01G196400 chr1A 95.940 468 17 2 916 1382 341017657 341017191 0.000000e+00 758
6 TraesCS1B01G196400 chr1A 87.719 513 33 14 1469 1963 341017061 341016561 4.350000e-159 571
7 TraesCS1B01G196400 chr4B 79.288 309 50 11 1033 1331 646924797 646924493 1.830000e-48 204
8 TraesCS1B01G196400 chr4D 78.769 325 51 15 1038 1351 502561188 502560871 6.580000e-48 202


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 TraesCS1B01G196400 chr1B 353274329 353278212 3883 True 7173.0 7173 100.0000 1 3884 1 chr1B.!!$R1 3883
1 TraesCS1B01G196400 chr1D 259776709 259780570 3861 False 2647.0 3404 92.4285 84 3884 2 chr1D.!!$F1 3800
2 TraesCS1B01G196400 chr1A 341014417 341018649 4232 True 1250.5 2856 91.5980 84 3884 4 chr1A.!!$R1 3800

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
556 580 0.320374 GTCACCAACAGGTCCATCGA 59.68 55.0 0.00 0.0 31.84 3.59 F
1645 1905 0.039527 ATTTCAGCACCGAAAACGCC 60.04 50.0 0.87 0.0 38.33 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2013 2463 0.034767 TCAGGGGAAGAAGCATGCAG 60.035 55.0 21.98 0.0 0.0 4.41 R
3339 3825 0.184692 TGGGAACTGGCACAACATGA 59.815 50.0 0.00 0.0 38.7 3.07 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
61 62 9.743581 AATACTAAATTAGAAAACCGGAAAGGA 57.256 29.630 9.46 0.00 45.00 3.36
62 63 9.743581 ATACTAAATTAGAAAACCGGAAAGGAA 57.256 29.630 9.46 0.00 45.00 3.36
63 64 8.467963 ACTAAATTAGAAAACCGGAAAGGAAA 57.532 30.769 9.46 0.00 45.00 3.13
64 65 9.085645 ACTAAATTAGAAAACCGGAAAGGAAAT 57.914 29.630 9.46 0.00 45.00 2.17
65 66 9.923143 CTAAATTAGAAAACCGGAAAGGAAATT 57.077 29.630 9.46 4.60 45.00 1.82
70 71 7.533289 AGAAAACCGGAAAGGAAATTATTCA 57.467 32.000 9.46 0.00 45.00 2.57
71 72 8.134202 AGAAAACCGGAAAGGAAATTATTCAT 57.866 30.769 9.46 0.00 45.00 2.57
72 73 8.251026 AGAAAACCGGAAAGGAAATTATTCATC 58.749 33.333 9.46 0.00 45.00 2.92
73 74 5.751243 ACCGGAAAGGAAATTATTCATCG 57.249 39.130 9.46 0.00 45.00 3.84
74 75 4.036380 ACCGGAAAGGAAATTATTCATCGC 59.964 41.667 9.46 0.00 45.00 4.58
75 76 4.036262 CCGGAAAGGAAATTATTCATCGCA 59.964 41.667 0.00 0.00 45.00 5.10
76 77 5.449862 CCGGAAAGGAAATTATTCATCGCAA 60.450 40.000 0.00 0.00 45.00 4.85
77 78 6.033341 CGGAAAGGAAATTATTCATCGCAAA 58.967 36.000 0.00 0.00 37.29 3.68
78 79 6.529829 CGGAAAGGAAATTATTCATCGCAAAA 59.470 34.615 0.00 0.00 37.29 2.44
79 80 7.062839 CGGAAAGGAAATTATTCATCGCAAAAA 59.937 33.333 0.00 0.00 37.29 1.94
148 149 3.039011 TCCCATCTAGTCCCAGTTTAGC 58.961 50.000 0.00 0.00 0.00 3.09
223 232 3.644966 TTGAGCCGGATTTGGATAAGT 57.355 42.857 5.05 0.00 0.00 2.24
232 241 8.993424 AGCCGGATTTGGATAAGTATAGATAAT 58.007 33.333 5.05 0.00 0.00 1.28
240 249 6.670464 TGGATAAGTATAGATAATCCCGCCAA 59.330 38.462 0.00 0.00 36.14 4.52
426 449 2.748251 CCCGTGTTAATGGCGGCA 60.748 61.111 16.34 16.34 43.70 5.69
511 534 1.802365 GACATTTACGAACGTGCCCTT 59.198 47.619 10.14 0.00 0.00 3.95
526 549 2.826128 TGCCCTTCGAGATATTATCGCT 59.174 45.455 5.97 0.00 39.98 4.93
556 580 0.320374 GTCACCAACAGGTCCATCGA 59.680 55.000 0.00 0.00 31.84 3.59
606 631 5.248705 ACTTTCAGGGGGTAGAAACTAGAAG 59.751 44.000 0.00 0.00 31.11 2.85
607 632 3.721021 TCAGGGGGTAGAAACTAGAAGG 58.279 50.000 0.00 0.00 0.00 3.46
608 633 3.338824 TCAGGGGGTAGAAACTAGAAGGA 59.661 47.826 0.00 0.00 0.00 3.36
609 634 4.101856 CAGGGGGTAGAAACTAGAAGGAA 58.898 47.826 0.00 0.00 0.00 3.36
610 635 4.534897 CAGGGGGTAGAAACTAGAAGGAAA 59.465 45.833 0.00 0.00 0.00 3.13
611 636 4.535294 AGGGGGTAGAAACTAGAAGGAAAC 59.465 45.833 0.00 0.00 0.00 2.78
613 638 5.723405 GGGGGTAGAAACTAGAAGGAAACTA 59.277 44.000 0.00 0.00 42.68 2.24
614 639 6.127111 GGGGGTAGAAACTAGAAGGAAACTAG 60.127 46.154 0.00 0.00 42.68 2.57
615 640 6.666980 GGGGTAGAAACTAGAAGGAAACTAGA 59.333 42.308 0.00 0.00 42.68 2.43
616 641 7.179872 GGGGTAGAAACTAGAAGGAAACTAGAA 59.820 40.741 0.00 0.00 42.68 2.10
703 729 2.288886 GCTCGCCGTCTATTTATTCCCT 60.289 50.000 0.00 0.00 0.00 4.20
736 762 2.341176 CCGTCCTTCCGGTTCGTT 59.659 61.111 0.00 0.00 43.07 3.85
745 771 6.402442 CGTCCTTCCGGTTCGTTTATTTATTT 60.402 38.462 0.00 0.00 0.00 1.40
746 772 7.307694 GTCCTTCCGGTTCGTTTATTTATTTT 58.692 34.615 0.00 0.00 0.00 1.82
806 848 2.631580 GCGGGCGAACAAATTCCCA 61.632 57.895 0.00 0.00 38.68 4.37
853 895 1.852942 GTGATCGCGAGCTTCCATTA 58.147 50.000 26.10 0.00 0.00 1.90
992 1185 2.922503 TTGCGACTGGAGGAGGCA 60.923 61.111 0.00 0.00 0.00 4.75
1323 1516 1.292223 CAGGCCCGTCTCTTTCGAA 59.708 57.895 0.00 0.00 0.00 3.71
1414 1617 0.817634 TTTTCGTGTGCACCTCAGGG 60.818 55.000 15.69 0.00 38.88 4.45
1416 1619 3.625897 CGTGTGCACCTCAGGGGA 61.626 66.667 15.69 0.00 38.76 4.81
1425 1628 2.972713 GCACCTCAGGGGATTGTCTATA 59.027 50.000 0.00 0.00 38.76 1.31
1427 1630 4.743955 GCACCTCAGGGGATTGTCTATAAC 60.744 50.000 0.00 0.00 38.76 1.89
1428 1631 3.974642 ACCTCAGGGGATTGTCTATAACC 59.025 47.826 0.00 0.00 38.76 2.85
1429 1632 3.973973 CCTCAGGGGATTGTCTATAACCA 59.026 47.826 0.00 0.00 37.23 3.67
1430 1633 4.412199 CCTCAGGGGATTGTCTATAACCAA 59.588 45.833 0.00 0.00 37.23 3.67
1432 1635 6.410853 CCTCAGGGGATTGTCTATAACCAAAT 60.411 42.308 0.00 0.00 37.23 2.32
1433 1636 7.202186 CCTCAGGGGATTGTCTATAACCAAATA 60.202 40.741 0.00 0.00 37.23 1.40
1434 1637 7.745717 TCAGGGGATTGTCTATAACCAAATAG 58.254 38.462 0.00 0.00 0.00 1.73
1435 1638 7.349859 TCAGGGGATTGTCTATAACCAAATAGT 59.650 37.037 0.00 0.00 32.31 2.12
1464 1673 4.622740 GCTTGAATCATTGTTCTTTTCCGG 59.377 41.667 0.00 0.00 0.00 5.14
1476 1685 2.028112 TCTTTTCCGGGTCTGATGTCTG 60.028 50.000 0.00 0.00 0.00 3.51
1484 1732 3.181490 CGGGTCTGATGTCTGAATCGTTA 60.181 47.826 0.00 0.00 0.00 3.18
1487 1735 5.168569 GGTCTGATGTCTGAATCGTTACAA 58.831 41.667 0.00 0.00 0.00 2.41
1508 1756 7.770366 ACAAAGTTAATTAGTGTTAAGGGGG 57.230 36.000 0.00 0.00 0.00 5.40
1514 1762 7.239143 AGTTAATTAGTGTTAAGGGGGAGAACT 59.761 37.037 0.00 0.00 0.00 3.01
1549 1809 7.473027 TTTCTTACCGTAGCAAATAGTATGC 57.527 36.000 0.00 0.00 44.15 3.14
1569 1829 6.660887 ATGCACGTTTTGTTTTCTGAAAAT 57.339 29.167 17.63 0.00 32.22 1.82
1584 1844 6.007936 TCTGAAAATACGTCACAAATTGGG 57.992 37.500 0.00 0.00 0.00 4.12
1643 1903 2.726633 ACAATTTCAGCACCGAAAACG 58.273 42.857 0.87 0.00 38.33 3.60
1645 1905 0.039527 ATTTCAGCACCGAAAACGCC 60.040 50.000 0.87 0.00 38.33 5.68
1665 1925 4.095932 CGCCCTTGGTTCCTTTTTATCTAC 59.904 45.833 0.00 0.00 0.00 2.59
1666 1926 4.095932 GCCCTTGGTTCCTTTTTATCTACG 59.904 45.833 0.00 0.00 0.00 3.51
1667 1927 4.638865 CCCTTGGTTCCTTTTTATCTACGG 59.361 45.833 0.00 0.00 0.00 4.02
1668 1928 4.095932 CCTTGGTTCCTTTTTATCTACGGC 59.904 45.833 0.00 0.00 0.00 5.68
1908 2192 7.498900 TCAGTTTGTGTTAGAAAGATGTGATGT 59.501 33.333 0.00 0.00 0.00 3.06
2006 2456 4.694339 AGAAGATGGGAAATAGTACACGC 58.306 43.478 0.00 0.00 0.00 5.34
2013 2463 4.142093 TGGGAAATAGTACACGCCTACTTC 60.142 45.833 0.00 0.00 0.00 3.01
2065 2515 5.039333 GCATTTGAGAATTATGCACCTGTC 58.961 41.667 5.45 0.00 43.13 3.51
2082 2533 6.650390 GCACCTGTCCATTTAAACATGAAAAT 59.350 34.615 0.00 0.00 0.00 1.82
2097 2548 3.712187 TGAAAATTTTGTCCGCTGTTCC 58.288 40.909 8.47 0.00 0.00 3.62
2098 2549 2.812358 AAATTTTGTCCGCTGTTCCC 57.188 45.000 0.00 0.00 0.00 3.97
2112 2563 3.435671 GCTGTTCCCAACATACACACTAC 59.564 47.826 0.00 0.00 41.26 2.73
2184 2638 6.095300 TGGCAGACACATAAATTCAACATAGG 59.905 38.462 0.00 0.00 0.00 2.57
2185 2639 5.973565 GCAGACACATAAATTCAACATAGGC 59.026 40.000 0.00 0.00 0.00 3.93
2186 2640 6.183360 GCAGACACATAAATTCAACATAGGCT 60.183 38.462 0.00 0.00 0.00 4.58
2278 2739 9.191479 GATGGCAGTAGATATATGTACCTACTT 57.809 37.037 14.67 5.42 39.61 2.24
2285 2746 7.857404 AGATATATGTACCTACTTTGTGCCT 57.143 36.000 0.00 0.00 0.00 4.75
2286 2747 8.951614 AGATATATGTACCTACTTTGTGCCTA 57.048 34.615 0.00 0.00 0.00 3.93
2292 2753 4.862641 ACCTACTTTGTGCCTATGGAAT 57.137 40.909 0.00 0.00 0.00 3.01
2392 2856 1.386525 ATGCATGATGCCGTGTTCCC 61.387 55.000 15.70 0.00 44.23 3.97
2724 3188 1.269517 GCAGGCGATTTTGTTTCCACA 60.270 47.619 0.00 0.00 0.00 4.17
2769 3233 0.176680 AGTTCTCGATGGCGCAGATT 59.823 50.000 10.83 0.00 37.46 2.40
3103 3586 5.586243 GGTGCTAAATGAGACTTTGATGCTA 59.414 40.000 0.00 0.00 0.00 3.49
3113 3596 4.631813 AGACTTTGATGCTACGGATGAAAC 59.368 41.667 0.00 0.00 0.00 2.78
3136 3620 4.156556 CCGGTTGTGTTGAAATGAGATCAT 59.843 41.667 0.00 0.00 38.41 2.45
3152 3636 7.395190 TGAGATCATAGGTTTTGTTTCCATG 57.605 36.000 0.00 0.00 0.00 3.66
3214 3700 5.165961 TGCTGCTGTTATCCTAGTTTCTT 57.834 39.130 0.00 0.00 0.00 2.52
3320 3806 6.150976 TGCAAAATGCTACTGCTACTAATTGT 59.849 34.615 3.78 0.00 45.31 2.71
3437 3923 2.021068 ATACATGTCGCTGCCGCTCT 62.021 55.000 0.00 0.00 0.00 4.09
3598 4099 3.193691 TCTTCTCTCTTTCATCGTCACCC 59.806 47.826 0.00 0.00 0.00 4.61
3610 4111 1.605058 CGTCACCCCCACGATCTTCT 61.605 60.000 0.00 0.00 39.75 2.85
3819 4338 0.921347 CGCATGGTTGACGTAGCTAC 59.079 55.000 14.19 14.19 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 9.743581 TCCTTTCCGGTTTTCTAATTTAGTATT 57.256 29.630 0.00 0.00 0.00 1.89
36 37 9.743581 TTCCTTTCCGGTTTTCTAATTTAGTAT 57.256 29.630 0.00 0.00 0.00 2.12
37 38 9.571816 TTTCCTTTCCGGTTTTCTAATTTAGTA 57.428 29.630 0.00 0.00 0.00 1.82
38 39 8.467963 TTTCCTTTCCGGTTTTCTAATTTAGT 57.532 30.769 0.00 0.00 0.00 2.24
39 40 9.923143 AATTTCCTTTCCGGTTTTCTAATTTAG 57.077 29.630 0.00 0.00 0.00 1.85
44 45 9.080097 TGAATAATTTCCTTTCCGGTTTTCTAA 57.920 29.630 0.00 0.00 0.00 2.10
45 46 8.638629 TGAATAATTTCCTTTCCGGTTTTCTA 57.361 30.769 0.00 0.00 0.00 2.10
46 47 7.533289 TGAATAATTTCCTTTCCGGTTTTCT 57.467 32.000 0.00 0.00 0.00 2.52
47 48 7.220108 CGATGAATAATTTCCTTTCCGGTTTTC 59.780 37.037 0.00 0.00 0.00 2.29
48 49 7.033185 CGATGAATAATTTCCTTTCCGGTTTT 58.967 34.615 0.00 0.00 0.00 2.43
49 50 6.560711 CGATGAATAATTTCCTTTCCGGTTT 58.439 36.000 0.00 0.00 0.00 3.27
50 51 5.449999 GCGATGAATAATTTCCTTTCCGGTT 60.450 40.000 0.00 0.00 0.00 4.44
51 52 4.036380 GCGATGAATAATTTCCTTTCCGGT 59.964 41.667 0.00 0.00 0.00 5.28
52 53 4.036262 TGCGATGAATAATTTCCTTTCCGG 59.964 41.667 0.00 0.00 0.00 5.14
53 54 5.168526 TGCGATGAATAATTTCCTTTCCG 57.831 39.130 0.00 0.00 0.00 4.30
54 55 7.826260 TTTTGCGATGAATAATTTCCTTTCC 57.174 32.000 0.00 0.00 0.00 3.13
81 82 4.404394 ACACGGATTTCCTTTCTGGTTTTT 59.596 37.500 0.00 0.00 37.07 1.94
82 83 3.958147 ACACGGATTTCCTTTCTGGTTTT 59.042 39.130 0.00 0.00 37.07 2.43
83 84 3.317993 CACACGGATTTCCTTTCTGGTTT 59.682 43.478 0.00 0.00 37.07 3.27
84 85 2.884639 CACACGGATTTCCTTTCTGGTT 59.115 45.455 0.00 0.00 37.07 3.67
85 86 2.504367 CACACGGATTTCCTTTCTGGT 58.496 47.619 0.00 0.00 37.07 4.00
86 87 1.200020 GCACACGGATTTCCTTTCTGG 59.800 52.381 0.00 0.00 37.10 3.86
87 88 1.135972 CGCACACGGATTTCCTTTCTG 60.136 52.381 0.00 0.00 34.97 3.02
88 89 1.156736 CGCACACGGATTTCCTTTCT 58.843 50.000 0.00 0.00 34.97 2.52
89 90 1.136057 GTCGCACACGGATTTCCTTTC 60.136 52.381 0.00 0.00 40.63 2.62
223 232 4.164981 ACAGGTTGGCGGGATTATCTATA 58.835 43.478 0.00 0.00 0.00 1.31
294 304 1.448013 GCGTACAGCTGGAGGGAAC 60.448 63.158 19.88 6.21 44.04 3.62
426 449 8.006564 ACAGGTTGGATATGATGTGGATTAATT 58.993 33.333 0.00 0.00 0.00 1.40
481 504 4.374399 GTTCGTAAATGTCGGGACCATAT 58.626 43.478 0.00 0.00 0.00 1.78
511 534 1.467543 GCGCCAGCGATAATATCTCGA 60.468 52.381 17.53 0.00 42.83 4.04
542 565 0.898320 ACCTCTCGATGGACCTGTTG 59.102 55.000 11.00 0.00 0.00 3.33
556 580 5.723295 TCGGTAATTACGCTTTTTACCTCT 58.277 37.500 9.46 0.00 41.69 3.69
606 631 1.464997 CACGCTGCCTTTCTAGTTTCC 59.535 52.381 0.00 0.00 0.00 3.13
607 632 2.413837 TCACGCTGCCTTTCTAGTTTC 58.586 47.619 0.00 0.00 0.00 2.78
608 633 2.543777 TCACGCTGCCTTTCTAGTTT 57.456 45.000 0.00 0.00 0.00 2.66
609 634 2.143925 GTTCACGCTGCCTTTCTAGTT 58.856 47.619 0.00 0.00 0.00 2.24
610 635 1.344763 AGTTCACGCTGCCTTTCTAGT 59.655 47.619 0.00 0.00 0.00 2.57
611 636 1.728971 CAGTTCACGCTGCCTTTCTAG 59.271 52.381 0.00 0.00 0.00 2.43
612 637 1.795768 CAGTTCACGCTGCCTTTCTA 58.204 50.000 0.00 0.00 0.00 2.10
613 638 2.621763 CAGTTCACGCTGCCTTTCT 58.378 52.632 0.00 0.00 0.00 2.52
681 707 2.067013 GGAATAAATAGACGGCGAGCC 58.933 52.381 16.62 3.59 0.00 4.70
703 729 4.430765 GGAGGAAGCGTCGCCGAA 62.431 66.667 14.86 0.00 35.63 4.30
753 779 0.105224 TGCGTCGTTGGAGAAGGAAA 59.895 50.000 0.00 0.00 0.00 3.13
754 780 0.320374 ATGCGTCGTTGGAGAAGGAA 59.680 50.000 0.00 0.00 0.00 3.36
755 781 0.320374 AATGCGTCGTTGGAGAAGGA 59.680 50.000 0.00 0.00 0.00 3.36
806 848 0.811616 GCGCACGAATGGAATCCTCT 60.812 55.000 0.30 0.00 0.00 3.69
873 915 1.824329 GGAGCTCCTCGATCGACCA 60.824 63.158 26.25 2.16 0.00 4.02
1176 1369 2.741092 GCCTCCCACACGAAGTCA 59.259 61.111 0.00 0.00 41.61 3.41
1323 1516 1.194781 ATCTGACCTTGGTGCCGTCT 61.195 55.000 0.00 0.00 0.00 4.18
1400 1593 0.962356 CAATCCCCTGAGGTGCACAC 60.962 60.000 20.43 12.53 36.75 3.82
1401 1594 1.379916 CAATCCCCTGAGGTGCACA 59.620 57.895 20.43 0.00 36.75 4.57
1402 1595 0.678048 GACAATCCCCTGAGGTGCAC 60.678 60.000 8.80 8.80 36.75 4.57
1403 1596 0.842030 AGACAATCCCCTGAGGTGCA 60.842 55.000 0.00 0.00 36.75 4.57
1412 1615 7.287810 ACACTATTTGGTTATAGACAATCCCC 58.712 38.462 0.00 0.00 33.31 4.81
1414 1617 7.709613 ACGACACTATTTGGTTATAGACAATCC 59.290 37.037 0.00 0.00 33.31 3.01
1416 1619 7.011109 GCACGACACTATTTGGTTATAGACAAT 59.989 37.037 0.00 0.00 33.31 2.71
1425 1628 3.472652 TCAAGCACGACACTATTTGGTT 58.527 40.909 0.00 0.00 0.00 3.67
1427 1630 4.154015 TGATTCAAGCACGACACTATTTGG 59.846 41.667 0.00 0.00 0.00 3.28
1428 1631 5.281693 TGATTCAAGCACGACACTATTTG 57.718 39.130 0.00 0.00 0.00 2.32
1429 1632 6.072508 ACAATGATTCAAGCACGACACTATTT 60.073 34.615 0.00 0.00 0.00 1.40
1430 1633 5.412594 ACAATGATTCAAGCACGACACTATT 59.587 36.000 0.00 0.00 0.00 1.73
1432 1635 4.314961 ACAATGATTCAAGCACGACACTA 58.685 39.130 0.00 0.00 0.00 2.74
1433 1636 3.141398 ACAATGATTCAAGCACGACACT 58.859 40.909 0.00 0.00 0.00 3.55
1434 1637 3.542712 ACAATGATTCAAGCACGACAC 57.457 42.857 0.00 0.00 0.00 3.67
1435 1638 3.814842 AGAACAATGATTCAAGCACGACA 59.185 39.130 0.00 0.00 0.00 4.35
1464 1673 4.744570 TGTAACGATTCAGACATCAGACC 58.255 43.478 0.00 0.00 0.00 3.85
1484 1732 7.528675 TCCCCCTTAACACTAATTAACTTTGT 58.471 34.615 0.00 0.00 0.00 2.83
1487 1735 7.578458 TCTCCCCCTTAACACTAATTAACTT 57.422 36.000 0.00 0.00 0.00 2.66
1508 1756 8.169268 CGGTAAGAAAAACATACATGAGTTCTC 58.831 37.037 0.00 2.76 30.99 2.87
1514 1762 6.874664 TGCTACGGTAAGAAAAACATACATGA 59.125 34.615 0.00 0.00 0.00 3.07
1549 1809 7.007546 TGACGTATTTTCAGAAAACAAAACGTG 59.992 33.333 27.62 11.73 38.13 4.49
1569 1829 0.402504 AGGCCCCAATTTGTGACGTA 59.597 50.000 0.00 0.00 0.00 3.57
1621 1881 4.283678 CGTTTTCGGTGCTGAAATTGTTA 58.716 39.130 6.98 0.00 37.66 2.41
1629 1889 2.951475 AAGGGCGTTTTCGGTGCTGA 62.951 55.000 0.00 0.00 44.29 4.26
1643 1903 4.095932 CGTAGATAAAAAGGAACCAAGGGC 59.904 45.833 0.00 0.00 0.00 5.19
1645 1905 4.095932 GCCGTAGATAAAAAGGAACCAAGG 59.904 45.833 0.00 0.00 0.00 3.61
1665 1925 5.116882 AGCACTAAAAATAGTTCTAGGCCG 58.883 41.667 0.00 0.00 0.00 6.13
1666 1926 8.502105 TTTAGCACTAAAAATAGTTCTAGGCC 57.498 34.615 0.00 0.00 32.64 5.19
1667 1927 9.937175 CATTTAGCACTAAAAATAGTTCTAGGC 57.063 33.333 6.92 0.00 38.38 3.93
2006 2456 2.941720 GGAAGAAGCATGCAGAAGTAGG 59.058 50.000 21.98 0.00 0.00 3.18
2013 2463 0.034767 TCAGGGGAAGAAGCATGCAG 60.035 55.000 21.98 0.00 0.00 4.41
2065 2515 7.533561 GCGGACAAAATTTTCATGTTTAAATGG 59.466 33.333 0.00 0.00 0.00 3.16
2082 2533 0.741915 GTTGGGAACAGCGGACAAAA 59.258 50.000 0.00 0.00 44.54 2.44
2135 2589 2.916880 GCAGCAAGCGAATGAGCATATG 60.917 50.000 0.00 0.00 40.15 1.78
2139 2593 2.872557 GCAGCAAGCGAATGAGCA 59.127 55.556 0.00 0.00 40.15 4.26
2195 2653 6.705825 TGATAGCGCTGATAAGATAAAAGCAA 59.294 34.615 22.90 0.00 33.41 3.91
2265 2723 6.557253 TCCATAGGCACAAAGTAGGTACATAT 59.443 38.462 0.00 0.00 0.00 1.78
2278 2739 7.016563 ACAGTCTGATATATTCCATAGGCACAA 59.983 37.037 6.91 0.00 0.00 3.33
2285 2746 9.997172 AGGTATCACAGTCTGATATATTCCATA 57.003 33.333 6.91 0.00 42.68 2.74
2286 2747 8.907829 AGGTATCACAGTCTGATATATTCCAT 57.092 34.615 6.91 0.00 42.68 3.41
2292 2753 6.777580 TGCTTGAGGTATCACAGTCTGATATA 59.222 38.462 6.91 1.10 42.68 0.86
2313 2777 5.199024 TGCACAGATGTAAACATTTGCTT 57.801 34.783 18.32 1.07 40.80 3.91
2392 2856 5.056480 TGCATAGGTCAGATAACAATTCCG 58.944 41.667 0.00 0.00 0.00 4.30
2724 3188 3.661648 AGTGCCTGGCCGGGATTT 61.662 61.111 36.08 15.09 34.70 2.17
2769 3233 1.761244 CTTTCGTGTGCGTGCAGTCA 61.761 55.000 0.00 0.00 39.49 3.41
2933 3409 6.467194 CCCAACTTGATAATAGGATTGGGCTA 60.467 42.308 6.22 0.00 46.07 3.93
3113 3596 3.501828 TGATCTCATTTCAACACAACCGG 59.498 43.478 0.00 0.00 0.00 5.28
3152 3636 4.879545 TGACAAGGAACACAAACTAGGAAC 59.120 41.667 0.00 0.00 0.00 3.62
3214 3700 7.232737 TCAAGTCAGAATTGAGAGTAGTACCAA 59.767 37.037 9.25 0.00 32.98 3.67
3334 3820 3.189287 GGAACTGGCACAACATGAAGTAG 59.811 47.826 0.00 0.00 38.70 2.57
3339 3825 0.184692 TGGGAACTGGCACAACATGA 59.815 50.000 0.00 0.00 38.70 3.07
3340 3826 1.259609 ATGGGAACTGGCACAACATG 58.740 50.000 0.00 0.00 38.70 3.21
3437 3923 2.764572 GGAGAAACCTTCCAGACGGATA 59.235 50.000 0.00 0.00 42.41 2.59
3470 3956 7.639113 TTTGGCGAGACCTTATTTATTCATT 57.361 32.000 0.00 0.00 40.22 2.57
3528 4014 2.292569 GGGCATGTGACAGCTGAATATG 59.707 50.000 23.35 20.59 0.00 1.78
3610 4111 2.285756 GTGATGACCGTGAACAAACGAA 59.714 45.455 0.00 0.00 46.49 3.85
3687 4188 0.613260 CACCGTTGATTCCTCAGGGA 59.387 55.000 0.00 0.00 40.36 4.20
3717 4218 0.031721 CTGCGTATCTAACCCGGGAC 59.968 60.000 32.02 13.23 0.00 4.46
3819 4338 3.944055 TCGGGTGAAAGAGAGAAGAAG 57.056 47.619 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.