Multiple sequence alignment - TraesCS2B01G093900

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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 TraesCS2B01G093900 chr2B 100.000 3538 0 0 1 3538 54327217 54330754 0.000000e+00 6534.0
1 TraesCS2B01G093900 chr2D 91.828 2423 133 25 314 2711 32653091 32655473 0.000000e+00 3317.0
2 TraesCS2B01G093900 chr2D 90.327 796 45 7 2733 3528 32655831 32656594 0.000000e+00 1014.0
3 TraesCS2B01G093900 chr2D 76.887 212 42 7 3027 3234 45087597 45087389 2.890000e-21 113.0
4 TraesCS2B01G093900 chr2A 93.097 1159 60 11 1056 2205 35966684 35967831 0.000000e+00 1679.0
5 TraesCS2B01G093900 chr2A 88.846 771 46 9 8 739 35965916 35966685 0.000000e+00 911.0
6 TraesCS2B01G093900 chr2A 92.886 492 30 4 2200 2688 35967931 35968420 0.000000e+00 710.0
7 TraesCS2B01G093900 chr2A 90.264 493 36 6 2707 3196 35968398 35968881 4.980000e-178 634.0
8 TraesCS2B01G093900 chr2A 90.520 327 26 2 3193 3517 35969114 35969437 9.080000e-116 427.0
9 TraesCS2B01G093900 chr7A 85.695 1517 160 25 98 1587 696975324 696976810 0.000000e+00 1546.0
10 TraesCS2B01G093900 chr7A 84.749 918 88 26 1794 2703 696976939 696977812 0.000000e+00 872.0
11 TraesCS2B01G093900 chr7A 79.571 886 158 13 269 1146 696878932 696878062 2.330000e-171 612.0
12 TraesCS2B01G093900 chr7A 79.345 886 160 13 269 1146 696948398 696947528 5.050000e-168 601.0
13 TraesCS2B01G093900 chr7A 79.461 297 38 17 90 383 669404044 669404320 4.660000e-44 189.0
14 TraesCS2B01G093900 chr7B 84.784 1597 179 28 21 1587 689518616 689517054 0.000000e+00 1544.0
15 TraesCS2B01G093900 chr7B 85.938 1472 156 29 134 1587 688910581 688912019 0.000000e+00 1524.0
16 TraesCS2B01G093900 chr7B 84.951 917 94 28 1794 2703 689516926 689516047 0.000000e+00 889.0
17 TraesCS2B01G093900 chr7B 84.758 866 73 25 1821 2682 688912166 688912976 0.000000e+00 813.0
18 TraesCS2B01G093900 chr7B 79.235 1098 175 28 86 1146 688592185 688591104 0.000000e+00 715.0
19 TraesCS2B01G093900 chr7B 78.958 1017 177 24 152 1146 688553542 688552541 0.000000e+00 658.0
20 TraesCS2B01G093900 chr7B 84.262 305 37 7 92 388 688544360 688544059 1.610000e-73 287.0
21 TraesCS2B01G093900 chr7B 84.024 169 25 2 3351 3519 688913786 688913952 1.020000e-35 161.0
22 TraesCS2B01G093900 chr7B 95.455 44 0 1 21 62 688593043 688593000 6.340000e-08 69.4
23 TraesCS2B01G093900 chr7B 86.667 60 0 1 2852 2911 688913404 688913455 3.810000e-05 60.2
24 TraesCS2B01G093900 chr7D 84.803 1599 174 37 21 1587 605680026 605681587 0.000000e+00 1543.0
25 TraesCS2B01G093900 chr7D 84.825 916 80 26 1794 2703 605681716 605682578 0.000000e+00 867.0
26 TraesCS2B01G093900 chr7D 79.153 897 155 20 263 1139 605478140 605479024 3.040000e-165 592.0
27 TraesCS2B01G093900 chr1A 79.136 671 104 21 210 854 586912802 586913462 7.020000e-117 431.0
28 TraesCS2B01G093900 chr1A 86.111 108 14 1 1688 1795 256709347 256709453 8.030000e-22 115.0
29 TraesCS2B01G093900 chr4D 80.220 182 36 0 3053 3234 344128847 344128666 1.710000e-28 137.0
30 TraesCS2B01G093900 chr5D 90.000 100 9 1 1700 1799 315929070 315928972 1.030000e-25 128.0
31 TraesCS2B01G093900 chr3A 87.500 112 13 1 1685 1796 10305758 10305868 1.030000e-25 128.0
32 TraesCS2B01G093900 chr1B 90.000 100 9 1 1699 1798 359617485 359617583 1.030000e-25 128.0
33 TraesCS2B01G093900 chr1B 87.629 97 9 3 1683 1778 669660043 669660137 3.730000e-20 110.0
34 TraesCS2B01G093900 chr6B 87.037 108 12 2 1688 1795 53728670 53728565 1.730000e-23 121.0
35 TraesCS2B01G093900 chr6A 82.031 128 18 4 1669 1795 594250933 594251056 1.740000e-18 104.0


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 TraesCS2B01G093900 chr2B 54327217 54330754 3537 False 6534.00 6534 100.00000 1 3538 1 chr2B.!!$F1 3537
1 TraesCS2B01G093900 chr2D 32653091 32656594 3503 False 2165.50 3317 91.07750 314 3528 2 chr2D.!!$F1 3214
2 TraesCS2B01G093900 chr2A 35965916 35969437 3521 False 872.20 1679 91.12260 8 3517 5 chr2A.!!$F1 3509
3 TraesCS2B01G093900 chr7A 696975324 696977812 2488 False 1209.00 1546 85.22200 98 2703 2 chr7A.!!$F2 2605
4 TraesCS2B01G093900 chr7A 696878062 696878932 870 True 612.00 612 79.57100 269 1146 1 chr7A.!!$R1 877
5 TraesCS2B01G093900 chr7A 696947528 696948398 870 True 601.00 601 79.34500 269 1146 1 chr7A.!!$R2 877
6 TraesCS2B01G093900 chr7B 689516047 689518616 2569 True 1216.50 1544 84.86750 21 2703 2 chr7B.!!$R4 2682
7 TraesCS2B01G093900 chr7B 688552541 688553542 1001 True 658.00 658 78.95800 152 1146 1 chr7B.!!$R2 994
8 TraesCS2B01G093900 chr7B 688910581 688913952 3371 False 639.55 1524 85.34675 134 3519 4 chr7B.!!$F1 3385
9 TraesCS2B01G093900 chr7B 688591104 688593043 1939 True 392.20 715 87.34500 21 1146 2 chr7B.!!$R3 1125
10 TraesCS2B01G093900 chr7D 605680026 605682578 2552 False 1205.00 1543 84.81400 21 2703 2 chr7D.!!$F2 2682
11 TraesCS2B01G093900 chr7D 605478140 605479024 884 False 592.00 592 79.15300 263 1139 1 chr7D.!!$F1 876
12 TraesCS2B01G093900 chr1A 586912802 586913462 660 False 431.00 431 79.13600 210 854 1 chr1A.!!$F2 644

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
673 1547 0.03601 CACCGATCTGGAGCTGGTTT 60.036 55.0 10.05 0.0 42.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2552 3628 0.675083 CTGGCAACCACAGCAAATCA 59.325 50.0 0.0 0.0 0.0 2.57 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
18 19 1.006102 AGCACGTTCCCAGACTTCG 60.006 57.895 0.00 0.00 0.00 3.79
62 65 1.026718 GCCCCCAAATCGACTGAGTG 61.027 60.000 0.00 0.00 0.00 3.51
82 906 2.052690 CGACCATGACTCCGACCCT 61.053 63.158 0.00 0.00 0.00 4.34
83 907 1.605058 CGACCATGACTCCGACCCTT 61.605 60.000 0.00 0.00 0.00 3.95
84 908 0.175989 GACCATGACTCCGACCCTTC 59.824 60.000 0.00 0.00 0.00 3.46
90 914 1.687297 GACTCCGACCCTTCCCCATC 61.687 65.000 0.00 0.00 0.00 3.51
141 980 0.251354 TGTGATCTGAGGCTCTTGGC 59.749 55.000 16.72 3.73 40.90 4.52
453 1312 3.728373 GTTGAGGCCACCCCGGAT 61.728 66.667 5.01 0.00 39.21 4.18
513 1387 2.227388 CTCTGGTGTCCTGCATTTCAAC 59.773 50.000 0.00 0.00 0.00 3.18
519 1393 3.023119 TGTCCTGCATTTCAACAACAGT 58.977 40.909 0.00 0.00 0.00 3.55
520 1394 4.036262 GTGTCCTGCATTTCAACAACAGTA 59.964 41.667 0.00 0.00 0.00 2.74
617 1491 4.375405 CGTGCTCGATCTACATTACATTGC 60.375 45.833 1.00 0.00 39.71 3.56
673 1547 0.036010 CACCGATCTGGAGCTGGTTT 60.036 55.000 10.05 0.00 42.00 3.27
720 1594 0.603569 TCAGCGACCTTGTCTCTTCC 59.396 55.000 0.00 0.00 0.00 3.46
791 1668 2.637382 TGGACAAGCTCACAATCCAGTA 59.363 45.455 0.00 0.00 34.50 2.74
816 1693 7.125792 GGAATCTCTCCTACAATTGGAACTA 57.874 40.000 10.83 0.00 41.61 2.24
826 1703 6.659242 CCTACAATTGGAACTAAATGGTCTGT 59.341 38.462 10.83 0.00 31.77 3.41
827 1704 6.331369 ACAATTGGAACTAAATGGTCTGTG 57.669 37.500 10.83 0.00 31.77 3.66
828 1705 5.163513 CAATTGGAACTAAATGGTCTGTGC 58.836 41.667 0.00 0.00 31.77 4.57
849 1726 0.601558 CCTTGCAGCAGCTCAATGTT 59.398 50.000 1.76 0.00 42.74 2.71
875 1752 4.036734 TGCCTTGTCTCTGCAAAAACTAAG 59.963 41.667 0.00 0.00 30.85 2.18
879 1756 5.991328 TGTCTCTGCAAAAACTAAGAGTG 57.009 39.130 0.00 0.00 37.88 3.51
883 1765 4.199310 TCTGCAAAAACTAAGAGTGCACT 58.801 39.130 21.88 21.88 40.14 4.40
912 1794 1.937391 CGATGCTCCGGATCAAAGC 59.063 57.895 12.76 8.98 36.56 3.51
962 1844 0.524862 CTGGCTGCACTTGATTGGAC 59.475 55.000 0.50 0.00 0.00 4.02
963 1845 0.895100 TGGCTGCACTTGATTGGACC 60.895 55.000 0.50 0.00 0.00 4.46
1020 1902 1.896220 TGCCACATCTCCAACAACTC 58.104 50.000 0.00 0.00 0.00 3.01
1032 1914 0.320421 AACAACTCATCACCGGTCCG 60.320 55.000 2.59 3.60 0.00 4.79
1033 1915 1.183030 ACAACTCATCACCGGTCCGA 61.183 55.000 14.39 0.00 0.00 4.55
1066 1948 5.178096 TGGAGGAGATATGTTTTCTGCAA 57.822 39.130 0.00 0.00 34.33 4.08
1109 2005 2.644676 TCCACATCGTTTTCACCACAA 58.355 42.857 0.00 0.00 0.00 3.33
1175 2071 2.485814 GTGAGTCAATCAGGCCAAACTC 59.514 50.000 5.01 8.72 39.07 3.01
1219 2122 9.699410 TCAGGAATATGTCATTTGGAATACTTT 57.301 29.630 0.00 0.00 0.00 2.66
1227 2130 8.684386 TGTCATTTGGAATACTTTACTTGTGA 57.316 30.769 0.00 0.00 0.00 3.58
1228 2131 9.126151 TGTCATTTGGAATACTTTACTTGTGAA 57.874 29.630 0.00 0.00 0.00 3.18
1229 2132 9.959749 GTCATTTGGAATACTTTACTTGTGAAA 57.040 29.630 0.00 0.00 0.00 2.69
1230 2133 9.959749 TCATTTGGAATACTTTACTTGTGAAAC 57.040 29.630 0.00 0.00 37.35 2.78
1231 2134 9.191995 CATTTGGAATACTTTACTTGTGAAACC 57.808 33.333 0.00 0.00 34.36 3.27
1232 2135 7.883391 TTGGAATACTTTACTTGTGAAACCA 57.117 32.000 0.00 0.00 34.36 3.67
1348 2257 9.575868 TTTGTGTCCTTAATTGTCCAACTATTA 57.424 29.630 0.00 0.00 0.00 0.98
1349 2258 9.747898 TTGTGTCCTTAATTGTCCAACTATTAT 57.252 29.630 0.00 0.00 28.90 1.28
1427 2336 5.462729 CGATTCTTGATGGAAGAGATGACAG 59.537 44.000 0.00 0.00 41.86 3.51
1446 2355 7.305813 TGACAGAGTTACCTAACATTACCAA 57.694 36.000 0.00 0.00 38.62 3.67
1457 2366 4.447138 AACATTACCAACTTGGGACTGA 57.553 40.909 15.68 0.00 43.37 3.41
1527 2436 8.467598 TGTTCTCAAGATGTCTAGTGGTATAAC 58.532 37.037 0.00 0.00 0.00 1.89
1535 2444 4.645136 TGTCTAGTGGTATAACAGAGCTGG 59.355 45.833 0.00 0.00 34.19 4.85
1537 2446 2.187958 AGTGGTATAACAGAGCTGGCA 58.812 47.619 0.00 0.00 34.19 4.92
1548 2457 1.141657 AGAGCTGGCACTTCAACTTGA 59.858 47.619 0.00 0.00 0.00 3.02
1607 2570 3.202906 TGTGGCGAATCCTATTGCTTAC 58.797 45.455 0.00 0.00 35.26 2.34
1608 2571 3.118408 TGTGGCGAATCCTATTGCTTACT 60.118 43.478 0.00 0.00 35.26 2.24
1629 2592 2.704572 AGCATGTTGACCTACTCTTGC 58.295 47.619 0.00 0.00 0.00 4.01
1714 2678 5.191522 TCCCTTTGATCCATATGAGTTGTCA 59.808 40.000 3.65 0.00 37.02 3.58
1764 2728 7.576750 TTTAGCGCTAGATAATATCCGTTTG 57.423 36.000 17.98 0.00 0.00 2.93
1806 2770 1.204231 GAGGGAGTACTTGGGTTCGTC 59.796 57.143 0.00 0.00 0.00 4.20
1816 2780 3.118519 ACTTGGGTTCGTCACTTTGTAGT 60.119 43.478 0.00 0.00 34.00 2.73
1817 2781 4.099881 ACTTGGGTTCGTCACTTTGTAGTA 59.900 41.667 0.00 0.00 31.96 1.82
1818 2782 4.247267 TGGGTTCGTCACTTTGTAGTAG 57.753 45.455 0.00 0.00 31.96 2.57
1819 2783 2.991866 GGGTTCGTCACTTTGTAGTAGC 59.008 50.000 0.00 0.00 31.96 3.58
1897 2862 4.775253 GGGGTCATATTTCCACTTTTCCAA 59.225 41.667 0.00 0.00 0.00 3.53
1938 2903 7.914346 CCTCATTTGATCTTCTTCAGCAAATAC 59.086 37.037 0.00 0.00 37.14 1.89
1998 2964 6.822170 AGCATGATACATCAGCATTGGTATAG 59.178 38.462 0.00 0.00 40.64 1.31
2188 3156 9.551734 TTCATGTCTCTTATCTCAAACCATATG 57.448 33.333 0.00 0.00 0.00 1.78
2272 3345 2.288948 GCCAATCAGGTTGCATTTGTGA 60.289 45.455 0.00 0.00 40.61 3.58
2323 3396 1.878102 CGTGCTACCTTGCCTCAAAGT 60.878 52.381 0.00 0.00 0.00 2.66
2324 3397 2.230660 GTGCTACCTTGCCTCAAAGTT 58.769 47.619 0.00 0.00 0.00 2.66
2327 3400 3.068024 TGCTACCTTGCCTCAAAGTTTTG 59.932 43.478 0.00 0.00 39.48 2.44
2433 3506 3.065371 GGCAGTAATTTTCCATGACTCGG 59.935 47.826 0.00 0.00 0.00 4.63
2437 3510 3.328382 AATTTTCCATGACTCGGTCGA 57.672 42.857 0.00 0.00 34.95 4.20
2498 3571 2.847327 TCTCTAGGCCAGCAATATGC 57.153 50.000 5.01 0.00 45.46 3.14
2541 3617 2.811431 TGTTTGTCATTTGACTAGGGCG 59.189 45.455 11.67 0.00 44.99 6.13
2550 3626 0.978151 TGACTAGGGCGCCAACTTTA 59.022 50.000 30.85 10.91 0.00 1.85
2551 3627 1.348366 TGACTAGGGCGCCAACTTTAA 59.652 47.619 30.85 4.58 0.00 1.52
2552 3628 2.026636 TGACTAGGGCGCCAACTTTAAT 60.027 45.455 30.85 4.19 0.00 1.40
2561 3637 3.061161 GCGCCAACTTTAATGATTTGCTG 59.939 43.478 0.00 0.00 0.00 4.41
2568 3644 4.990426 ACTTTAATGATTTGCTGTGGTTGC 59.010 37.500 0.00 0.00 0.00 4.17
2572 3648 0.961019 GATTTGCTGTGGTTGCCAGA 59.039 50.000 0.00 0.00 32.34 3.86
2591 3675 3.077359 AGATCAGTGTGCCTACTTTTGC 58.923 45.455 0.00 0.00 0.00 3.68
2682 3770 9.444600 TCCTGTAACATGTTTAATTCTAGAACC 57.555 33.333 17.78 0.00 0.00 3.62
2688 3778 9.965824 AACATGTTTAATTCTAGAACCTGTTTG 57.034 29.630 7.48 3.76 38.24 2.93
2712 3821 3.323115 TCTCTGTGAGACTCAGCATGTTT 59.677 43.478 5.10 0.00 33.35 2.83
2714 3823 5.011023 TCTCTGTGAGACTCAGCATGTTTAA 59.989 40.000 5.10 0.00 33.35 1.52
2746 4232 0.820226 TTCCAGTCTCATCCAGCTCG 59.180 55.000 0.00 0.00 0.00 5.03
2761 4247 3.363673 CCAGCTCGGTCGTTTTAGTTTTC 60.364 47.826 0.00 0.00 0.00 2.29
2831 4318 2.809696 CAAAAATGGGAAGCAAGCCTTG 59.190 45.455 0.00 0.00 32.78 3.61
2881 4378 2.605818 TCGCTACTGTTTTGTCACACAC 59.394 45.455 0.00 0.00 0.00 3.82
3013 4513 8.814038 ATTTCAGCCTCACAAGTATTAGAAAT 57.186 30.769 0.00 0.00 0.00 2.17
3043 4543 9.527157 TTATGATATGTTGTTTTTCTCTTCCCA 57.473 29.630 0.00 0.00 0.00 4.37
3065 4565 1.449778 GCAGGGCGACTAGGGAAAC 60.450 63.158 0.00 0.00 0.00 2.78
3183 4683 4.442472 GCCTCGGCTTTGGTTAGTAGATAA 60.442 45.833 0.00 0.00 38.26 1.75
3188 4688 6.830324 TCGGCTTTGGTTAGTAGATAAGTAGA 59.170 38.462 0.00 0.00 0.00 2.59
3213 4949 2.125552 TCATTGCAGAGACGGCGG 60.126 61.111 13.24 0.00 0.00 6.13
3250 4986 2.802719 GTTTTGGGCTCCATTCCTACA 58.197 47.619 0.00 0.00 31.53 2.74
3267 5003 6.503560 TCCTACACAAGTTCTTAAAAGGGA 57.496 37.500 0.00 0.00 0.00 4.20
3304 5040 1.168714 GCATCTCCAACACTTCACCC 58.831 55.000 0.00 0.00 0.00 4.61
3321 5057 0.774908 CCCAAAACACTCCCCCAGTA 59.225 55.000 0.00 0.00 32.21 2.74
3322 5058 1.146152 CCCAAAACACTCCCCCAGTAA 59.854 52.381 0.00 0.00 32.21 2.24
3323 5059 2.235891 CCAAAACACTCCCCCAGTAAC 58.764 52.381 0.00 0.00 32.21 2.50
3382 5120 1.737793 GGGGCTCGTGAATAACACTTG 59.262 52.381 0.00 0.00 46.24 3.16
3425 5163 4.972568 TGCTCCAGTAGTTCCCCAATAATA 59.027 41.667 0.00 0.00 0.00 0.98
3432 5170 8.217799 CCAGTAGTTCCCCAATAATAAATCTCA 58.782 37.037 0.00 0.00 0.00 3.27
3484 5222 4.429522 ATGGCATGGCGGTGCTCA 62.430 61.111 15.27 10.25 44.45 4.26
3498 5236 0.972471 TGCTCAGGCGGATCTTCAGA 60.972 55.000 0.00 0.00 42.25 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.006102 CGAAGTCTGGGAACGTGCT 60.006 57.895 0.00 0.00 0.00 4.40
1 2 2.027625 CCGAAGTCTGGGAACGTGC 61.028 63.158 0.00 0.00 0.00 5.34
3 4 0.531200 GATCCGAAGTCTGGGAACGT 59.469 55.000 0.00 0.00 35.60 3.99
4 5 0.179108 GGATCCGAAGTCTGGGAACG 60.179 60.000 0.00 0.00 35.60 3.95
5 6 0.178301 GGGATCCGAAGTCTGGGAAC 59.822 60.000 5.45 0.00 35.60 3.62
6 7 0.981277 GGGGATCCGAAGTCTGGGAA 60.981 60.000 5.45 0.00 35.60 3.97
7 8 1.382695 GGGGATCCGAAGTCTGGGA 60.383 63.158 5.45 0.00 36.61 4.37
8 9 1.271840 TTGGGGATCCGAAGTCTGGG 61.272 60.000 5.45 0.00 35.24 4.45
9 10 0.839946 ATTGGGGATCCGAAGTCTGG 59.160 55.000 5.45 0.00 35.24 3.86
11 12 1.132500 GGATTGGGGATCCGAAGTCT 58.868 55.000 5.45 0.00 44.73 3.24
12 13 3.708013 GGATTGGGGATCCGAAGTC 57.292 57.895 5.45 2.54 44.73 3.01
62 65 2.202756 GTCGGAGTCATGGTCGGC 60.203 66.667 0.00 0.00 0.00 5.54
82 906 2.370963 GGGGATGGGGATGGGGAA 60.371 66.667 0.00 0.00 0.00 3.97
83 907 3.728081 TGGGGATGGGGATGGGGA 61.728 66.667 0.00 0.00 0.00 4.81
84 908 3.188161 CTGGGGATGGGGATGGGG 61.188 72.222 0.00 0.00 0.00 4.96
141 980 0.464013 CTCCATGGAAGCAGCAGGAG 60.464 60.000 17.00 0.00 36.98 3.69
436 1289 3.282374 AATCCGGGGTGGCCTCAAC 62.282 63.158 3.32 0.00 37.80 3.18
513 1387 4.194640 CCTCATTCATGTCCCTACTGTTG 58.805 47.826 0.00 0.00 0.00 3.33
519 1393 2.050144 GAGGCCTCATTCATGTCCCTA 58.950 52.381 28.43 0.00 0.00 3.53
520 1394 0.842635 GAGGCCTCATTCATGTCCCT 59.157 55.000 28.43 0.00 0.00 4.20
611 1485 2.036256 GCAGGGTGAGGGCAATGT 59.964 61.111 0.00 0.00 0.00 2.71
720 1594 1.219124 CAGAGATGGACACCGTGGG 59.781 63.158 3.03 0.00 0.00 4.61
764 1638 1.053835 TGTGAGCTTGTCCAGACCCA 61.054 55.000 0.00 0.00 0.00 4.51
816 1693 0.675633 GCAAGGTGCACAGACCATTT 59.324 50.000 20.43 0.00 44.26 2.32
827 1704 1.874345 ATTGAGCTGCTGCAAGGTGC 61.874 55.000 18.42 3.39 45.29 5.01
828 1705 0.109272 CATTGAGCTGCTGCAAGGTG 60.109 55.000 18.42 7.40 42.74 4.00
849 1726 1.761449 TTTGCAGAGACAAGGCAACA 58.239 45.000 0.00 0.00 46.15 3.33
883 1765 0.955428 GGAGCATCGGTGAAGCAACA 60.955 55.000 0.00 0.00 34.37 3.33
904 1786 1.615392 AGCAACTGGTTGGCTTTGATC 59.385 47.619 14.17 0.00 40.74 2.92
912 1794 1.808945 GAGATGTCAGCAACTGGTTGG 59.191 52.381 14.17 0.53 40.74 3.77
948 1830 1.608055 CACTGGTCCAATCAAGTGCA 58.392 50.000 0.00 0.00 0.00 4.57
962 1844 3.306641 GGAGCTAGGATCATAAGCACTGG 60.307 52.174 13.59 0.00 38.75 4.00
963 1845 3.613671 CGGAGCTAGGATCATAAGCACTG 60.614 52.174 13.59 9.44 38.75 3.66
1020 1902 2.833794 ACAATAATCGGACCGGTGATG 58.166 47.619 14.63 9.64 0.00 3.07
1066 1948 1.736126 CATCAAGCTGTGACGATTGCT 59.264 47.619 0.00 0.00 39.72 3.91
1097 1993 3.584834 AGTTTGCTGTTGTGGTGAAAAC 58.415 40.909 0.00 0.00 0.00 2.43
1109 2005 6.479884 AGAAGGATGAGAATAAGTTTGCTGT 58.520 36.000 0.00 0.00 0.00 4.40
1165 2061 1.622811 CTCTCAGTCAGAGTTTGGCCT 59.377 52.381 3.32 0.00 43.61 5.19
1220 2123 9.442047 TTCAATTTTTGTATTGGTTTCACAAGT 57.558 25.926 0.00 0.00 36.41 3.16
1251 2154 4.071423 ACTTGTGTGCATGCATAGTTGTA 58.929 39.130 25.64 5.23 0.00 2.41
1353 2262 0.107508 TAGGAAGTCATGCAGCAGGC 60.108 55.000 0.97 0.00 45.13 4.85
1427 2336 6.373495 CCCAAGTTGGTAATGTTAGGTAACTC 59.627 42.308 20.54 0.00 41.21 3.01
1446 2355 2.420129 GCCAATACGATCAGTCCCAAGT 60.420 50.000 0.00 0.00 0.00 3.16
1457 2366 0.908910 TGTCCACAGGCCAATACGAT 59.091 50.000 5.01 0.00 0.00 3.73
1527 2436 1.266175 CAAGTTGAAGTGCCAGCTCTG 59.734 52.381 0.00 0.00 0.00 3.35
1535 2444 1.261619 CCGAGTGTCAAGTTGAAGTGC 59.738 52.381 7.25 0.00 0.00 4.40
1537 2446 2.803492 GCTCCGAGTGTCAAGTTGAAGT 60.803 50.000 7.25 1.37 0.00 3.01
1607 2570 3.868077 GCAAGAGTAGGTCAACATGCTAG 59.132 47.826 0.00 0.00 0.00 3.42
1608 2571 3.515502 AGCAAGAGTAGGTCAACATGCTA 59.484 43.478 0.00 0.00 0.00 3.49
1629 2592 4.081862 TCAGTATCTAACCCGAACCAACAG 60.082 45.833 0.00 0.00 0.00 3.16
1695 2659 6.298441 TCAGTGACAACTCATATGGATCAA 57.702 37.500 2.13 0.00 32.98 2.57
1696 2660 5.937975 TCAGTGACAACTCATATGGATCA 57.062 39.130 2.13 0.00 32.98 2.92
1714 2678 6.716934 ATGTCTAGATACATCCGTTTCAGT 57.283 37.500 0.00 0.00 35.08 3.41
1754 2718 3.247006 AGTTGTCGCTCAAACGGATAT 57.753 42.857 0.00 0.00 37.81 1.63
1755 2719 2.736144 AGTTGTCGCTCAAACGGATA 57.264 45.000 0.00 0.00 37.81 2.59
1764 2728 3.001330 CCGATCCAAATTAGTTGTCGCTC 59.999 47.826 0.98 0.00 35.48 5.03
1897 2862 7.552050 TCAAATGAGGGTTCCAATTTTATGT 57.448 32.000 0.00 0.00 0.00 2.29
1998 2964 3.356290 ACAGCCAACAGATTATCAACCC 58.644 45.455 0.00 0.00 0.00 4.11
2064 3030 6.549364 ACACAGACAAATTAATCTGGAACCAA 59.451 34.615 18.36 0.00 45.55 3.67
2272 3345 2.827921 GTTTCCCAGTTTGATGGCTCAT 59.172 45.455 0.00 0.00 39.17 2.90
2323 3396 4.151121 TCTCAGGTCATTGATTGCCAAAA 58.849 39.130 0.00 0.00 38.43 2.44
2324 3397 3.760151 CTCTCAGGTCATTGATTGCCAAA 59.240 43.478 0.00 0.00 38.43 3.28
2327 3400 2.092753 TCCTCTCAGGTCATTGATTGCC 60.093 50.000 0.00 0.00 36.53 4.52
2433 3506 3.494626 TCTTCACAGTTGCTTTCATCGAC 59.505 43.478 0.00 0.00 0.00 4.20
2437 3510 5.179045 CAACTCTTCACAGTTGCTTTCAT 57.821 39.130 0.61 0.00 45.13 2.57
2541 3617 4.389687 CCACAGCAAATCATTAAAGTTGGC 59.610 41.667 0.00 0.00 0.00 4.52
2550 3626 1.693062 TGGCAACCACAGCAAATCATT 59.307 42.857 0.00 0.00 0.00 2.57
2551 3627 1.274167 CTGGCAACCACAGCAAATCAT 59.726 47.619 0.00 0.00 0.00 2.45
2552 3628 0.675083 CTGGCAACCACAGCAAATCA 59.325 50.000 0.00 0.00 0.00 2.57
2561 3637 0.877071 CACACTGATCTGGCAACCAC 59.123 55.000 4.49 0.00 0.00 4.16
2568 3644 3.340814 AAAGTAGGCACACTGATCTGG 57.659 47.619 4.49 0.00 0.00 3.86
2572 3648 1.806542 CGCAAAAGTAGGCACACTGAT 59.193 47.619 0.00 0.00 0.00 2.90
2591 3675 4.809426 ACAAGTTACCAAAGTTCAGTCTCG 59.191 41.667 0.00 0.00 0.00 4.04
2691 3781 3.316071 AACATGCTGAGTCTCACAGAG 57.684 47.619 0.00 3.13 37.54 3.35
2746 4232 6.068473 ACTGAATGGAAAACTAAAACGACC 57.932 37.500 0.00 0.00 0.00 4.79
2761 4247 3.341823 CACAGAGGGAAGAACTGAATGG 58.658 50.000 0.00 0.00 35.85 3.16
2799 4285 4.829064 TCCCATTTTTGTCTTTCTCACG 57.171 40.909 0.00 0.00 0.00 4.35
2831 4318 5.854431 TCCTGCAAAAACAAAGAAAACAC 57.146 34.783 0.00 0.00 0.00 3.32
2881 4378 4.177026 CTCAACTACTTGATTCCGGTCTG 58.823 47.826 0.00 0.00 35.78 3.51
2940 4437 5.759963 AGTTTACACGAGACTCAACTAGTG 58.240 41.667 0.00 4.73 44.69 2.74
3024 4524 4.275936 CGAGTGGGAAGAGAAAAACAACAT 59.724 41.667 0.00 0.00 0.00 2.71
3065 4565 1.135960 GAGATTGAGGGGAGGAAGGG 58.864 60.000 0.00 0.00 0.00 3.95
3141 4641 1.064463 GCATCAGAAATCACCTCCCCA 60.064 52.381 0.00 0.00 0.00 4.96
3183 4683 7.276658 CGTCTCTGCAATGACTAAAATTCTACT 59.723 37.037 14.27 0.00 0.00 2.57
3188 4688 4.142600 GCCGTCTCTGCAATGACTAAAATT 60.143 41.667 14.27 0.00 0.00 1.82
3213 4949 0.460284 AACGCCATCATCCGTCTGAC 60.460 55.000 0.00 0.00 36.56 3.51
3250 4986 4.532834 TGCTGTCCCTTTTAAGAACTTGT 58.467 39.130 0.00 0.00 0.00 3.16
3304 5040 2.938838 TGTTACTGGGGGAGTGTTTTG 58.061 47.619 0.00 0.00 35.96 2.44
3382 5120 4.042187 AGCATCCATCCCTAATAACCAGAC 59.958 45.833 0.00 0.00 0.00 3.51
3425 5163 7.177878 AGTGGGTCATCTTTATGTTGAGATTT 58.822 34.615 0.00 0.00 34.50 2.17
3432 5170 5.630121 TGACAAGTGGGTCATCTTTATGTT 58.370 37.500 0.00 0.00 42.56 2.71
3484 5222 1.668101 GACCGTCTGAAGATCCGCCT 61.668 60.000 0.00 0.00 0.00 5.52
3490 5228 4.217983 AGTTTCGTTAGACCGTCTGAAGAT 59.782 41.667 11.52 0.00 0.00 2.40
3492 5230 3.898529 AGTTTCGTTAGACCGTCTGAAG 58.101 45.455 11.52 5.64 0.00 3.02


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

AutoCloner maintained by Alex Coulton.