Multiple sequence alignment - TraesCS4B01G379700

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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 TraesCS4B01G379700 chr4B 100.000 2655 0 0 1 2655 660592058 660589404 0 4903
1 TraesCS4B01G379700 chrUn 87.705 2741 174 75 3 2655 110523811 110521146 0 3044
2 TraesCS4B01G379700 chr5A 86.845 2729 196 75 3 2655 700446406 700443765 0 2900


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 TraesCS4B01G379700 chr4B 660589404 660592058 2654 True 4903 4903 100.000 1 2655 1 chr4B.!!$R1 2654
1 TraesCS4B01G379700 chrUn 110521146 110523811 2665 True 3044 3044 87.705 3 2655 1 chrUn.!!$R1 2652
2 TraesCS4B01G379700 chr5A 700443765 700446406 2641 True 2900 2900 86.845 3 2655 1 chr5A.!!$R1 2652

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
964 1052 0.107848 CCCAAATAGCCCGTCGTTCT 60.108 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1886 2073 1.287739 TCCAATCCCCATTCTTGGACC 59.712 52.381 0.0 0.0 46.92 4.46 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
35 36 2.231721 AGCACCCTCTCTTTTACGACTC 59.768 50.000 0.00 0.00 0.00 3.36
42 43 5.126384 CCCTCTCTTTTACGACTCTGATTCT 59.874 44.000 0.00 0.00 0.00 2.40
196 226 6.480320 GTGAGTAGTTCAATAGGCAATACCAG 59.520 42.308 0.00 0.00 38.18 4.00
293 323 6.092259 GCAAGTAGGTTGTGTAGAGGTTAATG 59.908 42.308 0.00 0.00 38.55 1.90
333 363 2.171237 TGGATGTGGATGTAGGCAAGAG 59.829 50.000 0.00 0.00 0.00 2.85
348 378 2.819348 GCAAGAGAAATGGGGTCAGGTT 60.819 50.000 0.00 0.00 0.00 3.50
353 383 2.576648 AGAAATGGGGTCAGGTTAGGTC 59.423 50.000 0.00 0.00 0.00 3.85
354 384 2.053747 AATGGGGTCAGGTTAGGTCA 57.946 50.000 0.00 0.00 0.00 4.02
355 385 1.584724 ATGGGGTCAGGTTAGGTCAG 58.415 55.000 0.00 0.00 0.00 3.51
356 386 0.546747 TGGGGTCAGGTTAGGTCAGG 60.547 60.000 0.00 0.00 0.00 3.86
357 387 1.272554 GGGGTCAGGTTAGGTCAGGG 61.273 65.000 0.00 0.00 0.00 4.45
569 635 8.999431 TCTCATGGTAAGTAATTGAACTTGAAC 58.001 33.333 4.21 0.00 39.95 3.18
577 643 6.872920 AGTAATTGAACTTGAACCAAGCAAA 58.127 32.000 6.61 0.53 44.43 3.68
599 665 2.163509 GGGGGTTCTTTTTCTGAGCTC 58.836 52.381 6.82 6.82 0.00 4.09
611 677 3.077556 GAGCTCGAGCAAGGGGGA 61.078 66.667 36.87 0.00 45.16 4.81
619 685 2.513897 GCAAGGGGGAATCGACGG 60.514 66.667 0.00 0.00 0.00 4.79
621 687 2.687566 AAGGGGGAATCGACGGCT 60.688 61.111 0.00 0.00 0.00 5.52
752 818 2.579201 CGGAGCAGGTCGTGGATT 59.421 61.111 0.00 0.00 0.00 3.01
851 926 1.671901 GCTCCGTCCTCCCTCTTCTG 61.672 65.000 0.00 0.00 0.00 3.02
852 927 0.323908 CTCCGTCCTCCCTCTTCTGT 60.324 60.000 0.00 0.00 0.00 3.41
854 929 0.323908 CCGTCCTCCCTCTTCTGTCT 60.324 60.000 0.00 0.00 0.00 3.41
860 943 2.107366 CTCCCTCTTCTGTCTTCTCCC 58.893 57.143 0.00 0.00 0.00 4.30
880 963 1.222113 CTCCTCCTCCGGCCTTTTC 59.778 63.158 0.00 0.00 0.00 2.29
883 966 3.335729 TCCTCCGGCCTTTTCCCC 61.336 66.667 0.00 0.00 0.00 4.81
914 997 2.124403 CTGCAGGGCCCATCTGAC 60.124 66.667 27.56 10.47 34.36 3.51
923 1006 1.692042 CCCATCTGACCTGAGGCCT 60.692 63.158 3.86 3.86 0.00 5.19
932 1020 1.556911 GACCTGAGGCCTGAGATCAAA 59.443 52.381 22.21 0.00 0.00 2.69
942 1030 0.321564 TGAGATCAAACCCACCGCAG 60.322 55.000 0.00 0.00 0.00 5.18
960 1048 1.887707 GAGCCCAAATAGCCCGTCG 60.888 63.158 0.00 0.00 0.00 5.12
961 1049 2.124860 GCCCAAATAGCCCGTCGT 60.125 61.111 0.00 0.00 0.00 4.34
962 1050 1.747745 GCCCAAATAGCCCGTCGTT 60.748 57.895 0.00 0.00 0.00 3.85
964 1052 0.107848 CCCAAATAGCCCGTCGTTCT 60.108 55.000 0.00 0.00 0.00 3.01
965 1053 1.287425 CCAAATAGCCCGTCGTTCTC 58.713 55.000 0.00 0.00 0.00 2.87
966 1054 0.921347 CAAATAGCCCGTCGTTCTCG 59.079 55.000 0.00 0.00 38.55 4.04
967 1055 0.804933 AAATAGCCCGTCGTTCTCGC 60.805 55.000 0.00 0.00 36.96 5.03
968 1056 1.664321 AATAGCCCGTCGTTCTCGCT 61.664 55.000 0.00 0.00 36.96 4.93
969 1057 2.337749 ATAGCCCGTCGTTCTCGCTG 62.338 60.000 0.00 0.00 36.96 5.18
970 1058 4.719369 GCCCGTCGTTCTCGCTGT 62.719 66.667 0.00 0.00 36.96 4.40
971 1059 2.504244 CCCGTCGTTCTCGCTGTC 60.504 66.667 0.00 0.00 36.96 3.51
972 1060 2.254350 CCGTCGTTCTCGCTGTCA 59.746 61.111 0.00 0.00 36.96 3.58
973 1061 2.081212 CCGTCGTTCTCGCTGTCAC 61.081 63.158 0.00 0.00 36.96 3.67
974 1062 1.082038 CGTCGTTCTCGCTGTCACT 60.082 57.895 0.00 0.00 36.96 3.41
975 1063 1.060726 CGTCGTTCTCGCTGTCACTC 61.061 60.000 0.00 0.00 36.96 3.51
976 1064 0.238817 GTCGTTCTCGCTGTCACTCT 59.761 55.000 0.00 0.00 36.96 3.24
977 1065 0.238553 TCGTTCTCGCTGTCACTCTG 59.761 55.000 0.00 0.00 36.96 3.35
991 1079 2.036414 TCTGTCTCGCCTGCTCCT 59.964 61.111 0.00 0.00 0.00 3.69
1015 1136 3.912907 GGATGGATCCGTCGGCGT 61.913 66.667 24.57 0.00 37.19 5.68
1395 1528 1.276989 TCCACCATCTTCGGTAACCAC 59.723 52.381 0.00 0.00 37.07 4.16
1402 1535 3.672767 TCTTCGGTAACCACTTTCTCC 57.327 47.619 0.00 0.00 0.00 3.71
1437 1608 5.469373 TGATGCGCTCAATTTGTAGTTAG 57.531 39.130 9.73 0.00 0.00 2.34
1446 1617 6.578919 GCTCAATTTGTAGTTAGTTTGCTCAC 59.421 38.462 0.00 0.00 0.00 3.51
1450 1621 7.582667 ATTTGTAGTTAGTTTGCTCACCTTT 57.417 32.000 0.00 0.00 0.00 3.11
1457 1628 2.887152 AGTTTGCTCACCTTTCATCCAC 59.113 45.455 0.00 0.00 0.00 4.02
1660 1847 0.320374 TTGGTGATCACTGACGACCC 59.680 55.000 24.50 6.78 0.00 4.46
1672 1859 2.813474 CGACCCGCTCGCATCAAA 60.813 61.111 0.00 0.00 35.06 2.69
1673 1860 2.387445 CGACCCGCTCGCATCAAAA 61.387 57.895 0.00 0.00 35.06 2.44
1679 1866 1.131126 CCGCTCGCATCAAAATTCAGT 59.869 47.619 0.00 0.00 0.00 3.41
1690 1877 3.509575 TCAAAATTCAGTTCCATTCCCCG 59.490 43.478 0.00 0.00 0.00 5.73
1695 1882 2.822701 GTTCCATTCCCCGCCGTC 60.823 66.667 0.00 0.00 0.00 4.79
1721 1908 7.096763 CGCGACGATTTTTCTGTAACTATGATA 60.097 37.037 0.00 0.00 0.00 2.15
1740 1927 7.767250 ATGATAGTAGCTGATAGTGCAGTAA 57.233 36.000 5.12 0.00 38.17 2.24
1753 1940 4.392940 AGTGCAGTAATGCTGTTCTTCTT 58.607 39.130 17.03 0.00 46.64 2.52
1754 1941 4.453819 AGTGCAGTAATGCTGTTCTTCTTC 59.546 41.667 17.03 0.00 46.64 2.87
1755 1942 4.453819 GTGCAGTAATGCTGTTCTTCTTCT 59.546 41.667 17.03 0.00 46.64 2.85
1802 1989 9.691362 TTCTGTTAAAGAAATATTTGCCTTGTC 57.309 29.630 5.17 0.38 42.09 3.18
1803 1990 9.077885 TCTGTTAAAGAAATATTTGCCTTGTCT 57.922 29.630 5.17 0.00 29.54 3.41
1804 1991 9.696917 CTGTTAAAGAAATATTTGCCTTGTCTT 57.303 29.630 5.17 0.00 0.00 3.01
1820 2007 7.764443 TGCCTTGTCTTAGTATACTGTGATTTC 59.236 37.037 15.90 3.20 0.00 2.17
1851 2038 5.530543 AGAAAGTTCTTGAGCTTCTTCTTGG 59.469 40.000 0.48 0.00 32.55 3.61
1893 2080 5.421693 TGGTGGATAAATGAATTGGTCCAAG 59.578 40.000 10.72 0.00 38.25 3.61
1912 2100 6.752285 CCAAGAATGGGGATTGGAAAATAT 57.248 37.500 0.00 0.00 43.51 1.28
1913 2101 7.140522 CCAAGAATGGGGATTGGAAAATATT 57.859 36.000 0.00 0.00 43.51 1.28
1917 2105 8.496534 AGAATGGGGATTGGAAAATATTAAGG 57.503 34.615 0.00 0.00 0.00 2.69
1918 2106 8.073735 AGAATGGGGATTGGAAAATATTAAGGT 58.926 33.333 0.00 0.00 0.00 3.50
1919 2107 7.616528 ATGGGGATTGGAAAATATTAAGGTG 57.383 36.000 0.00 0.00 0.00 4.00
1920 2108 5.365314 TGGGGATTGGAAAATATTAAGGTGC 59.635 40.000 0.00 0.00 0.00 5.01
1921 2109 5.221641 GGGGATTGGAAAATATTAAGGTGCC 60.222 44.000 0.00 0.00 0.00 5.01
1922 2110 5.365314 GGGATTGGAAAATATTAAGGTGCCA 59.635 40.000 0.00 0.00 0.00 4.92
1923 2111 6.043127 GGGATTGGAAAATATTAAGGTGCCAT 59.957 38.462 0.00 0.00 0.00 4.40
2007 2195 5.136105 CCAGCCTCATCCTTATTTAGCTTT 58.864 41.667 0.00 0.00 0.00 3.51
2009 2197 4.582240 AGCCTCATCCTTATTTAGCTTTGC 59.418 41.667 0.00 0.00 0.00 3.68
2010 2198 4.582240 GCCTCATCCTTATTTAGCTTTGCT 59.418 41.667 0.00 0.00 43.41 3.91
2059 2247 8.330302 CAAGTTATTTTTGGCAAACAAGAAGAG 58.670 33.333 13.10 0.00 40.82 2.85
2079 2267 7.605691 AGAAGAGTTTCGAATCAATGAAGACAT 59.394 33.333 8.83 0.00 38.38 3.06
2103 2291 4.103103 CGACGACGCCTGCTCTCA 62.103 66.667 0.00 0.00 0.00 3.27
2234 2422 0.952497 ACCTGTGCATGTCGAAGCTG 60.952 55.000 7.20 0.00 0.00 4.24
2423 2611 2.034066 AAGGACGTGGGCATGTGG 59.966 61.111 0.00 0.00 0.00 4.17
2449 2637 3.250323 CGCGCACGACCAGATCAG 61.250 66.667 8.75 0.00 43.93 2.90
2628 2816 3.126001 TCACCAACCTCATCAAGTGAC 57.874 47.619 0.00 0.00 32.22 3.67
2629 2817 2.705658 TCACCAACCTCATCAAGTGACT 59.294 45.455 0.00 0.00 32.22 3.41
2633 2821 3.999663 CCAACCTCATCAAGTGACTTCTC 59.000 47.826 0.00 0.00 32.22 2.87
2635 2823 3.515562 ACCTCATCAAGTGACTTCTCCT 58.484 45.455 0.00 0.00 32.22 3.69
2646 2834 4.102367 AGTGACTTCTCCTTTTCTTCAGCT 59.898 41.667 0.00 0.00 0.00 4.24
2648 2836 5.992217 GTGACTTCTCCTTTTCTTCAGCTAA 59.008 40.000 0.00 0.00 0.00 3.09
2649 2837 6.147000 GTGACTTCTCCTTTTCTTCAGCTAAG 59.853 42.308 0.00 0.00 36.45 2.18
2650 2838 6.181206 ACTTCTCCTTTTCTTCAGCTAAGT 57.819 37.500 0.00 0.00 36.51 2.24
2651 2839 7.015292 TGACTTCTCCTTTTCTTCAGCTAAGTA 59.985 37.037 0.00 0.00 36.51 2.24
2652 2840 7.156000 ACTTCTCCTTTTCTTCAGCTAAGTAC 58.844 38.462 0.00 0.00 36.51 2.73
2653 2841 6.665992 TCTCCTTTTCTTCAGCTAAGTACA 57.334 37.500 0.00 0.00 36.51 2.90
2654 2842 6.692486 TCTCCTTTTCTTCAGCTAAGTACAG 58.308 40.000 0.00 0.00 36.51 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 3.238441 GCCTAAGCGACGATAGAATCAG 58.762 50.000 0.00 0.00 41.38 2.90
141 145 7.619965 TCAGAACAGTTATAACCATCATCACA 58.380 34.615 12.05 0.00 0.00 3.58
142 146 8.492673 TTCAGAACAGTTATAACCATCATCAC 57.507 34.615 12.05 0.00 0.00 3.06
149 153 7.732025 TCACTTCTTCAGAACAGTTATAACCA 58.268 34.615 12.05 0.00 0.00 3.67
230 260 2.475187 GCACAGAATCTGCGATGAACAC 60.475 50.000 10.62 0.00 34.37 3.32
233 263 2.004733 CAGCACAGAATCTGCGATGAA 58.995 47.619 10.63 0.00 39.79 2.57
307 337 2.158769 GCCTACATCCACATCCACATGA 60.159 50.000 0.00 0.00 33.72 3.07
309 339 1.845791 TGCCTACATCCACATCCACAT 59.154 47.619 0.00 0.00 0.00 3.21
310 340 1.284313 TGCCTACATCCACATCCACA 58.716 50.000 0.00 0.00 0.00 4.17
311 341 2.092968 TCTTGCCTACATCCACATCCAC 60.093 50.000 0.00 0.00 0.00 4.02
312 342 2.171237 CTCTTGCCTACATCCACATCCA 59.829 50.000 0.00 0.00 0.00 3.41
313 343 2.435805 TCTCTTGCCTACATCCACATCC 59.564 50.000 0.00 0.00 0.00 3.51
314 344 3.827008 TCTCTTGCCTACATCCACATC 57.173 47.619 0.00 0.00 0.00 3.06
333 363 2.307686 TGACCTAACCTGACCCCATTTC 59.692 50.000 0.00 0.00 0.00 2.17
348 378 2.688666 CCCTGCTGCCCTGACCTA 60.689 66.667 0.00 0.00 0.00 3.08
353 383 3.720601 TACTGCCCTGCTGCCCTG 61.721 66.667 0.00 0.00 0.00 4.45
354 384 3.721706 GTACTGCCCTGCTGCCCT 61.722 66.667 0.00 0.00 0.00 5.19
356 386 3.391665 ATCGTACTGCCCTGCTGCC 62.392 63.158 0.00 0.00 0.00 4.85
357 387 1.884926 GATCGTACTGCCCTGCTGC 60.885 63.158 0.00 0.00 0.00 5.25
427 457 1.446272 GCGTCGAGGGGTTCAAGAG 60.446 63.158 7.31 0.00 0.00 2.85
585 651 2.820059 TGCTCGAGCTCAGAAAAAGA 57.180 45.000 35.27 10.77 42.66 2.52
586 652 2.159234 CCTTGCTCGAGCTCAGAAAAAG 59.841 50.000 35.27 26.31 42.66 2.27
587 653 2.146342 CCTTGCTCGAGCTCAGAAAAA 58.854 47.619 35.27 19.46 42.66 1.94
588 654 1.609061 CCCTTGCTCGAGCTCAGAAAA 60.609 52.381 35.27 20.15 42.66 2.29
589 655 0.036952 CCCTTGCTCGAGCTCAGAAA 60.037 55.000 35.27 20.84 42.66 2.52
599 665 1.521681 GTCGATTCCCCCTTGCTCG 60.522 63.158 0.00 0.00 0.00 5.03
627 693 2.920912 CCCCTATTCCGCCGCCTA 60.921 66.667 0.00 0.00 0.00 3.93
629 695 4.620937 GACCCCTATTCCGCCGCC 62.621 72.222 0.00 0.00 0.00 6.13
630 696 4.963428 CGACCCCTATTCCGCCGC 62.963 72.222 0.00 0.00 0.00 6.53
631 697 3.495352 GACGACCCCTATTCCGCCG 62.495 68.421 0.00 0.00 0.00 6.46
740 806 2.511600 GCCGGAATCCACGACCTG 60.512 66.667 5.05 0.00 0.00 4.00
851 926 0.397957 GAGGAGGAGGGGGAGAAGAC 60.398 65.000 0.00 0.00 0.00 3.01
852 927 1.595058 GGAGGAGGAGGGGGAGAAGA 61.595 65.000 0.00 0.00 0.00 2.87
854 929 3.010226 CGGAGGAGGAGGGGGAGAA 62.010 68.421 0.00 0.00 0.00 2.87
897 980 2.124403 GTCAGATGGGCCCTGCAG 60.124 66.667 25.70 6.78 0.00 4.41
899 982 3.415087 AGGTCAGATGGGCCCTGC 61.415 66.667 25.70 15.12 0.00 4.85
914 997 1.407989 GGTTTGATCTCAGGCCTCAGG 60.408 57.143 2.83 0.00 0.00 3.86
923 1006 0.321564 CTGCGGTGGGTTTGATCTCA 60.322 55.000 0.00 0.00 0.00 3.27
942 1030 1.887707 CGACGGGCTATTTGGGCTC 60.888 63.158 0.00 0.00 0.00 4.70
960 1048 1.268352 AGACAGAGTGACAGCGAGAAC 59.732 52.381 0.00 0.00 0.00 3.01
961 1049 1.537638 GAGACAGAGTGACAGCGAGAA 59.462 52.381 0.00 0.00 0.00 2.87
962 1050 1.160989 GAGACAGAGTGACAGCGAGA 58.839 55.000 0.00 0.00 0.00 4.04
964 1052 1.869690 CGAGACAGAGTGACAGCGA 59.130 57.895 0.00 0.00 0.00 4.93
965 1053 1.799519 GCGAGACAGAGTGACAGCG 60.800 63.158 0.00 0.00 0.00 5.18
966 1054 1.445238 GGCGAGACAGAGTGACAGC 60.445 63.158 0.00 0.00 0.00 4.40
967 1055 0.109365 CAGGCGAGACAGAGTGACAG 60.109 60.000 0.00 0.00 0.00 3.51
968 1056 1.959848 CAGGCGAGACAGAGTGACA 59.040 57.895 0.00 0.00 0.00 3.58
969 1057 1.445238 GCAGGCGAGACAGAGTGAC 60.445 63.158 0.00 0.00 0.00 3.67
970 1058 1.590610 GAGCAGGCGAGACAGAGTGA 61.591 60.000 0.00 0.00 0.00 3.41
971 1059 1.153862 GAGCAGGCGAGACAGAGTG 60.154 63.158 0.00 0.00 0.00 3.51
972 1060 2.347322 GGAGCAGGCGAGACAGAGT 61.347 63.158 0.00 0.00 0.00 3.24
973 1061 2.003658 GAGGAGCAGGCGAGACAGAG 62.004 65.000 0.00 0.00 0.00 3.35
974 1062 2.036414 AGGAGCAGGCGAGACAGA 59.964 61.111 0.00 0.00 0.00 3.41
975 1063 2.282147 CTGAGGAGCAGGCGAGACAG 62.282 65.000 0.00 0.00 41.07 3.51
976 1064 2.283173 TGAGGAGCAGGCGAGACA 60.283 61.111 0.00 0.00 0.00 3.41
977 1065 1.391157 ATCTGAGGAGCAGGCGAGAC 61.391 60.000 0.00 0.00 44.98 3.36
1314 1447 1.529713 GTAGGCGAGGAGGGAGAGG 60.530 68.421 0.00 0.00 0.00 3.69
1395 1528 1.656652 ATCAATGTCGCCGGAGAAAG 58.343 50.000 10.32 0.02 0.00 2.62
1402 1535 0.655337 CGCATCAATCAATGTCGCCG 60.655 55.000 0.00 0.00 0.00 6.46
1431 1601 5.938125 GGATGAAAGGTGAGCAAACTAACTA 59.062 40.000 0.00 0.00 0.00 2.24
1432 1602 4.762251 GGATGAAAGGTGAGCAAACTAACT 59.238 41.667 0.00 0.00 0.00 2.24
1437 1608 2.887152 AGTGGATGAAAGGTGAGCAAAC 59.113 45.455 0.00 0.00 0.00 2.93
1446 1617 3.068590 AGCAACAACAAGTGGATGAAAGG 59.931 43.478 0.00 0.00 0.00 3.11
1450 1621 2.929641 TGAGCAACAACAAGTGGATGA 58.070 42.857 0.00 0.00 0.00 2.92
1457 1628 7.416154 AAATGATCAAATGAGCAACAACAAG 57.584 32.000 5.37 0.00 44.14 3.16
1526 1713 2.824041 ATCCACATGAACCGCGGC 60.824 61.111 28.58 11.02 0.00 6.53
1530 1717 3.101209 CGGCATCCACATGAACCG 58.899 61.111 0.00 0.00 39.47 4.44
1532 1719 2.106074 TCGCGGCATCCACATGAAC 61.106 57.895 6.13 0.00 30.57 3.18
1533 1720 2.106074 GTCGCGGCATCCACATGAA 61.106 57.895 5.47 0.00 30.57 2.57
1534 1721 2.511373 GTCGCGGCATCCACATGA 60.511 61.111 5.47 0.00 30.57 3.07
1535 1722 3.928769 CGTCGCGGCATCCACATG 61.929 66.667 12.89 0.00 0.00 3.21
1560 1747 3.490761 CGCTTCTTCTTCCTCCTCATCTC 60.491 52.174 0.00 0.00 0.00 2.75
1660 1847 2.532531 ACTGAATTTTGATGCGAGCG 57.467 45.000 0.00 0.00 0.00 5.03
1672 1859 1.474330 GCGGGGAATGGAACTGAATT 58.526 50.000 0.00 0.00 0.00 2.17
1673 1860 0.395724 GGCGGGGAATGGAACTGAAT 60.396 55.000 0.00 0.00 0.00 2.57
1679 1866 4.460683 CGACGGCGGGGAATGGAA 62.461 66.667 13.24 0.00 0.00 3.53
1695 1882 3.700130 AGTTACAGAAAAATCGTCGCG 57.300 42.857 0.00 0.00 0.00 5.87
1712 1899 7.450014 ACTGCACTATCAGCTACTATCATAGTT 59.550 37.037 1.69 0.00 37.62 2.24
1740 1927 4.453819 GCACTGTAAGAAGAAGAACAGCAT 59.546 41.667 1.43 0.00 42.44 3.79
1753 1940 0.670546 GGCGAGCAAGCACTGTAAGA 60.671 55.000 5.80 0.00 39.27 2.10
1754 1941 0.950555 TGGCGAGCAAGCACTGTAAG 60.951 55.000 5.80 0.00 39.27 2.34
1755 1942 0.533978 TTGGCGAGCAAGCACTGTAA 60.534 50.000 5.80 0.00 39.27 2.41
1796 1983 9.522804 GAGAAATCACAGTATACTAAGACAAGG 57.477 37.037 4.74 0.00 0.00 3.61
1802 1989 8.932945 TTGCTGAGAAATCACAGTATACTAAG 57.067 34.615 4.74 1.22 37.00 2.18
1803 1990 8.749354 TCTTGCTGAGAAATCACAGTATACTAA 58.251 33.333 4.74 0.00 37.00 2.24
1804 1991 8.293699 TCTTGCTGAGAAATCACAGTATACTA 57.706 34.615 4.74 0.00 37.00 1.82
1886 2073 1.287739 TCCAATCCCCATTCTTGGACC 59.712 52.381 0.00 0.00 46.92 4.46
1893 2080 8.150296 CACCTTAATATTTTCCAATCCCCATTC 58.850 37.037 0.00 0.00 0.00 2.67
2007 2195 5.743636 AAATTATGAGGGAAGCAAAAGCA 57.256 34.783 0.00 0.00 0.00 3.91
2009 2197 9.487790 TTGTTAAAATTATGAGGGAAGCAAAAG 57.512 29.630 0.00 0.00 0.00 2.27
2010 2198 9.487790 CTTGTTAAAATTATGAGGGAAGCAAAA 57.512 29.630 0.00 0.00 0.00 2.44
2059 2247 5.954349 GTCGATGTCTTCATTGATTCGAAAC 59.046 40.000 0.00 0.00 43.67 2.78
2330 2518 3.316573 CTCCTGGGCCTTGACGTCC 62.317 68.421 14.12 0.00 0.00 4.79
2628 2816 7.155328 TGTACTTAGCTGAAGAAAAGGAGAAG 58.845 38.462 0.00 0.00 38.65 2.85
2629 2817 7.062749 TGTACTTAGCTGAAGAAAAGGAGAA 57.937 36.000 0.00 0.00 38.65 2.87


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

AutoCloner maintained by Alex Coulton.