Multiple sequence alignment - TraesCS6B01G393300

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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 TraesCS6B01G393300 chr6B 100.000 2351 0 0 1 2351 668244257 668246607 0.000000e+00 4342.0
1 TraesCS6B01G393300 chr6D 92.323 1003 50 19 819 1804 443844396 443845388 0.000000e+00 1400.0
2 TraesCS6B01G393300 chr6D 86.239 545 38 9 1821 2330 443845499 443846041 7.340000e-155 556.0
3 TraesCS6B01G393300 chr6A 91.922 978 66 11 821 1793 591427835 591428804 0.000000e+00 1356.0
4 TraesCS6B01G393300 chr6A 86.604 530 41 11 1822 2330 591428932 591429452 2.040000e-155 558.0
5 TraesCS6B01G393300 chr6A 92.647 68 5 0 730 797 591427701 591427768 5.350000e-17 99.0
6 TraesCS6B01G393300 chr2B 97.798 545 11 1 165 708 697555765 697556309 0.000000e+00 939.0
7 TraesCS6B01G393300 chr2B 98.383 371 5 1 165 535 79655632 79655263 0.000000e+00 651.0
8 TraesCS6B01G393300 chr2B 97.561 164 4 0 1 164 697555510 697555673 4.950000e-72 281.0
9 TraesCS6B01G393300 chr2B 94.915 177 7 2 1 175 79655887 79655711 2.300000e-70 276.0
10 TraesCS6B01G393300 chr2B 91.176 68 0 2 618 685 79655261 79655200 1.160000e-13 87.9
11 TraesCS6B01G393300 chr2B 85.526 76 6 3 38 113 705692504 705692574 9.010000e-10 75.0
12 TraesCS6B01G393300 chr7B 96.881 545 17 0 165 709 144299643 144300187 0.000000e+00 913.0
13 TraesCS6B01G393300 chr7B 87.425 334 28 8 2023 2351 620326624 620326300 2.850000e-99 372.0
14 TraesCS6B01G393300 chr7B 97.279 147 3 1 18 164 144299406 144299551 5.020000e-62 248.0
15 TraesCS6B01G393300 chr7B 95.161 124 6 0 1099 1222 47620197 47620074 1.840000e-46 196.0
16 TraesCS6B01G393300 chr7B 94.915 59 2 1 1298 1356 47619975 47619918 8.950000e-15 91.6
17 TraesCS6B01G393300 chr7A 86.248 509 40 10 171 670 108544324 108544811 2.070000e-145 525.0
18 TraesCS6B01G393300 chr7A 81.992 261 32 14 1096 1350 97251562 97251311 8.520000e-50 207.0
19 TraesCS6B01G393300 chr5B 87.725 334 27 8 2023 2351 633625862 633625538 6.130000e-101 377.0
20 TraesCS6B01G393300 chr5B 85.465 172 14 6 5 166 426654730 426654560 4.020000e-38 169.0
21 TraesCS6B01G393300 chr7D 90.972 144 10 3 1096 1236 93938190 93938047 8.580000e-45 191.0
22 TraesCS6B01G393300 chr7D 93.333 60 3 1 1291 1350 93937966 93937908 1.160000e-13 87.9
23 TraesCS6B01G393300 chr5D 88.550 131 11 1 1 127 556147078 556147208 3.130000e-34 156.0


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 TraesCS6B01G393300 chr6B 668244257 668246607 2350 False 4342.0 4342 100.000000 1 2351 1 chr6B.!!$F1 2350
1 TraesCS6B01G393300 chr6D 443844396 443846041 1645 False 978.0 1400 89.281000 819 2330 2 chr6D.!!$F1 1511
2 TraesCS6B01G393300 chr6A 591427701 591429452 1751 False 671.0 1356 90.391000 730 2330 3 chr6A.!!$F1 1600
3 TraesCS6B01G393300 chr2B 697555510 697556309 799 False 610.0 939 97.679500 1 708 2 chr2B.!!$F2 707
4 TraesCS6B01G393300 chr2B 79655200 79655887 687 True 338.3 651 94.824667 1 685 3 chr2B.!!$R1 684
5 TraesCS6B01G393300 chr7B 144299406 144300187 781 False 580.5 913 97.080000 18 709 2 chr7B.!!$F1 691

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
748 923 0.326264 AGCAAAGAGAGCCGTCCAAT 59.674 50.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2207 2586 1.215673 AGAACCTCTGGCGATCCTCTA 59.784 52.381 0.0 0.0 0.0 2.43 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
34 35 0.611896 CGACCAAAAGGGCCAAGGAT 60.612 55.000 6.18 0.00 42.05 3.24
169 261 0.893270 TATGCCCGTTTGCTTGCTGT 60.893 50.000 0.00 0.00 0.00 4.40
235 327 1.204941 GTCACTATCCACGGACAAGCT 59.795 52.381 0.00 0.00 0.00 3.74
449 543 3.685836 AACCAGTAACAAAGTCAACGC 57.314 42.857 0.00 0.00 0.00 4.84
535 629 2.161609 GCTGTATGTTTAAGCCAGCGTT 59.838 45.455 3.95 0.00 39.13 4.84
595 689 1.490490 TCAAAGCCACAGGTCTCAACT 59.510 47.619 0.00 0.00 0.00 3.16
604 698 0.545309 AGGTCTCAACTAGCCCTGCA 60.545 55.000 0.00 0.00 0.00 4.41
605 699 0.543749 GGTCTCAACTAGCCCTGCAT 59.456 55.000 0.00 0.00 0.00 3.96
692 867 6.452242 TCTGAAGCAAAATTACAGTCGACTA 58.548 36.000 19.57 2.81 0.00 2.59
709 884 4.880120 TCGACTAGTGGATAGATTTGTCGT 59.120 41.667 0.00 0.00 43.98 4.34
710 885 5.356190 TCGACTAGTGGATAGATTTGTCGTT 59.644 40.000 0.00 0.00 43.98 3.85
711 886 5.681982 CGACTAGTGGATAGATTTGTCGTTC 59.318 44.000 0.00 0.00 40.40 3.95
712 887 6.458478 CGACTAGTGGATAGATTTGTCGTTCT 60.458 42.308 0.00 0.00 40.40 3.01
713 888 7.171630 ACTAGTGGATAGATTTGTCGTTCTT 57.828 36.000 0.00 0.00 35.30 2.52
714 889 7.612677 ACTAGTGGATAGATTTGTCGTTCTTT 58.387 34.615 0.00 0.00 35.30 2.52
715 890 8.746530 ACTAGTGGATAGATTTGTCGTTCTTTA 58.253 33.333 0.00 0.00 35.30 1.85
716 891 9.582431 CTAGTGGATAGATTTGTCGTTCTTTAA 57.418 33.333 0.00 0.00 32.76 1.52
718 893 9.449719 AGTGGATAGATTTGTCGTTCTTTAATT 57.550 29.630 0.00 0.00 0.00 1.40
728 903 9.588774 TTTGTCGTTCTTTAATTAGTGATTTCG 57.411 29.630 0.00 0.00 0.00 3.46
741 916 2.095053 GTGATTTCGAGCAAAGAGAGCC 59.905 50.000 0.00 0.00 0.00 4.70
745 920 1.807573 CGAGCAAAGAGAGCCGTCC 60.808 63.158 0.00 0.00 0.00 4.79
748 923 0.326264 AGCAAAGAGAGCCGTCCAAT 59.674 50.000 0.00 0.00 0.00 3.16
782 957 2.897271 TGAACATATGGGCCACAGTT 57.103 45.000 9.28 14.32 0.00 3.16
799 1007 3.010584 ACAGTTGGATTTACTCATGGGCT 59.989 43.478 0.00 0.00 0.00 5.19
806 1014 2.128771 TTACTCATGGGCTCCTTTGC 57.871 50.000 0.00 0.00 0.00 3.68
818 1026 2.668945 GCTCCTTTGCTTCTCTAACGTC 59.331 50.000 0.00 0.00 0.00 4.34
819 1027 3.254892 CTCCTTTGCTTCTCTAACGTCC 58.745 50.000 0.00 0.00 0.00 4.79
820 1028 2.631062 TCCTTTGCTTCTCTAACGTCCA 59.369 45.455 0.00 0.00 0.00 4.02
821 1029 3.070446 TCCTTTGCTTCTCTAACGTCCAA 59.930 43.478 0.00 0.00 0.00 3.53
822 1030 3.813166 CCTTTGCTTCTCTAACGTCCAAA 59.187 43.478 0.00 0.00 0.00 3.28
823 1031 4.083802 CCTTTGCTTCTCTAACGTCCAAAG 60.084 45.833 0.00 0.00 38.11 2.77
843 1062 6.258068 CCAAAGGACTATACCGATCAAAAGAC 59.742 42.308 0.00 0.00 34.73 3.01
1017 1245 1.797211 CGATGGTACGCTCTCCTCCC 61.797 65.000 0.00 0.00 0.00 4.30
1047 1275 1.700985 GAGTCCCACCCTCTCCTCT 59.299 63.158 0.00 0.00 0.00 3.69
1049 1277 0.632294 AGTCCCACCCTCTCCTCTAC 59.368 60.000 0.00 0.00 0.00 2.59
1054 1282 1.104630 CACCCTCTCCTCTACCGTTC 58.895 60.000 0.00 0.00 0.00 3.95
1085 1314 1.079612 GACCCGATTTCCCGTTCGT 60.080 57.895 0.00 0.00 33.60 3.85
1086 1315 1.079612 ACCCGATTTCCCGTTCGTC 60.080 57.895 0.00 0.00 33.60 4.20
1097 1326 4.493747 GTTCGTCTCTCGCCCCCG 62.494 72.222 0.00 0.00 39.67 5.73
1237 1466 3.148279 CCGTCCCTCCTCCTTCCG 61.148 72.222 0.00 0.00 0.00 4.30
1242 1473 4.806339 CCTCCTCCTTCCGCCCCT 62.806 72.222 0.00 0.00 0.00 4.79
1281 1512 2.665000 CGTGAGCTGACCCACCAT 59.335 61.111 0.00 0.00 0.00 3.55
1283 1514 1.300971 CGTGAGCTGACCCACCATTG 61.301 60.000 0.00 0.00 0.00 2.82
1284 1515 1.303561 TGAGCTGACCCACCATTGC 60.304 57.895 0.00 0.00 0.00 3.56
1356 1587 0.106619 AGCTCGGGTTCTAGATCCGT 60.107 55.000 24.85 10.97 43.75 4.69
1357 1588 0.030908 GCTCGGGTTCTAGATCCGTG 59.969 60.000 24.85 23.46 43.75 4.94
1360 1591 1.392710 CGGGTTCTAGATCCGTGCCT 61.393 60.000 20.49 0.00 39.04 4.75
1390 1621 2.043953 GTGGGGGAGCCATGGTTC 60.044 66.667 19.69 19.69 0.00 3.62
1396 1627 0.681243 GGGAGCCATGGTTCCAAGAC 60.681 60.000 38.93 23.36 45.63 3.01
1425 1656 6.758886 TCTGCATTTTGTTTTATGGACGTTTT 59.241 30.769 0.00 0.00 0.00 2.43
1464 1697 2.725221 AGGAAGTGATTCCAGGATGC 57.275 50.000 9.55 0.00 43.54 3.91
1465 1698 2.203584 AGGAAGTGATTCCAGGATGCT 58.796 47.619 9.55 0.00 43.54 3.79
1466 1699 2.092538 AGGAAGTGATTCCAGGATGCTG 60.093 50.000 7.35 7.35 43.54 4.41
1487 1720 5.578727 GCTGTCTCTGTTATCAATTTCGTCT 59.421 40.000 0.00 0.00 0.00 4.18
1488 1721 6.752351 GCTGTCTCTGTTATCAATTTCGTCTA 59.248 38.462 0.00 0.00 0.00 2.59
1489 1722 7.436673 GCTGTCTCTGTTATCAATTTCGTCTAT 59.563 37.037 0.00 0.00 0.00 1.98
1490 1723 8.634475 TGTCTCTGTTATCAATTTCGTCTATG 57.366 34.615 0.00 0.00 0.00 2.23
1492 1725 8.747666 GTCTCTGTTATCAATTTCGTCTATGTC 58.252 37.037 0.00 0.00 0.00 3.06
1493 1726 8.466798 TCTCTGTTATCAATTTCGTCTATGTCA 58.533 33.333 0.00 0.00 0.00 3.58
1494 1727 9.254133 CTCTGTTATCAATTTCGTCTATGTCAT 57.746 33.333 0.00 0.00 0.00 3.06
1495 1728 9.034544 TCTGTTATCAATTTCGTCTATGTCATG 57.965 33.333 0.00 0.00 0.00 3.07
1496 1729 8.940768 TGTTATCAATTTCGTCTATGTCATGA 57.059 30.769 0.00 0.00 0.00 3.07
1498 1731 8.491152 GTTATCAATTTCGTCTATGTCATGAGG 58.509 37.037 0.00 0.00 0.00 3.86
1604 1839 5.047377 GTCTCCATGGCTTAATTTTGGTTCA 60.047 40.000 6.96 0.00 0.00 3.18
1642 1877 4.358851 TGTGCTGTTGTTTATTTCTGTGC 58.641 39.130 0.00 0.00 0.00 4.57
1644 1879 4.442073 GTGCTGTTGTTTATTTCTGTGCAG 59.558 41.667 0.00 0.00 0.00 4.41
1661 1896 1.472480 GCAGGTCTGTTTGTGTTGTGT 59.528 47.619 0.00 0.00 0.00 3.72
1725 1960 5.866633 GGCTGCTAGTTATGCTATCTAGTTG 59.133 44.000 0.00 0.00 35.14 3.16
1739 1974 7.064609 TGCTATCTAGTTGATGTTTGTGTTAGC 59.935 37.037 0.00 0.00 36.65 3.09
1746 1981 3.951037 TGATGTTTGTGTTAGCTGTGGTT 59.049 39.130 0.00 0.00 0.00 3.67
1773 2008 3.273434 TCTGGAGATATGTTGTTGCAGC 58.727 45.455 0.00 0.00 0.00 5.25
1788 2023 2.536066 TGCAGCCCACTTAGTAGAGAA 58.464 47.619 0.00 0.00 0.00 2.87
1796 2037 5.585820 CCACTTAGTAGAGAAAGAGGGAC 57.414 47.826 0.00 0.00 31.92 4.46
1804 2045 4.195225 AGAGAAAGAGGGACGTGATTTC 57.805 45.455 0.00 0.00 0.00 2.17
1806 2047 3.665190 AGAAAGAGGGACGTGATTTCAC 58.335 45.455 0.00 0.46 43.15 3.18
1807 2048 3.071023 AGAAAGAGGGACGTGATTTCACA 59.929 43.478 11.02 0.00 46.75 3.58
1809 2050 2.248248 AGAGGGACGTGATTTCACAGA 58.752 47.619 11.02 0.00 46.75 3.41
1811 2052 4.023980 AGAGGGACGTGATTTCACAGATA 58.976 43.478 11.02 0.00 46.75 1.98
1812 2053 4.098654 AGAGGGACGTGATTTCACAGATAG 59.901 45.833 11.02 0.00 46.75 2.08
1814 2055 4.954202 AGGGACGTGATTTCACAGATAGTA 59.046 41.667 11.02 0.00 46.75 1.82
1815 2056 5.421056 AGGGACGTGATTTCACAGATAGTAA 59.579 40.000 11.02 0.00 46.75 2.24
1817 2058 5.519206 GGACGTGATTTCACAGATAGTAACC 59.481 44.000 11.02 0.00 46.75 2.85
1818 2059 5.416947 ACGTGATTTCACAGATAGTAACCC 58.583 41.667 11.02 0.00 46.75 4.11
1819 2060 5.187186 ACGTGATTTCACAGATAGTAACCCT 59.813 40.000 11.02 0.00 46.75 4.34
1903 2246 6.989169 ACAGATAGTTTATCCATGCTTCAGAC 59.011 38.462 0.00 0.00 35.79 3.51
1911 2254 1.170442 CATGCTTCAGACACATGGCA 58.830 50.000 0.00 0.00 37.99 4.92
1912 2255 1.135489 CATGCTTCAGACACATGGCAC 60.135 52.381 0.00 0.00 37.99 5.01
1919 2262 2.758423 TCAGACACATGGCACGTAGTAT 59.242 45.455 0.00 0.00 41.61 2.12
1977 2320 3.821033 ACTTGCCAGTTACCAACTCAATC 59.179 43.478 0.00 0.00 40.46 2.67
1986 2329 7.257722 CAGTTACCAACTCAATCACAGTTTTT 58.742 34.615 0.00 0.00 40.46 1.94
1989 2332 8.403236 GTTACCAACTCAATCACAGTTTTTAGT 58.597 33.333 0.00 0.00 31.40 2.24
1990 2333 9.616156 TTACCAACTCAATCACAGTTTTTAGTA 57.384 29.630 0.00 0.00 31.40 1.82
1991 2334 7.927048 ACCAACTCAATCACAGTTTTTAGTAC 58.073 34.615 0.00 0.00 31.40 2.73
1992 2335 7.773690 ACCAACTCAATCACAGTTTTTAGTACT 59.226 33.333 0.00 0.00 31.40 2.73
1993 2336 8.070171 CCAACTCAATCACAGTTTTTAGTACTG 58.930 37.037 5.39 0.00 46.56 2.74
2044 2407 8.732746 ACGGATTAGTTATAGTTTTGCTGATT 57.267 30.769 0.00 0.00 0.00 2.57
2081 2444 1.007721 AGGAGTACCTCAGAGCCATGT 59.992 52.381 0.00 0.00 44.13 3.21
2098 2461 3.945921 CCATGTCTCTGTCTAGTCGGTAA 59.054 47.826 0.00 0.00 0.00 2.85
2099 2462 4.035792 CCATGTCTCTGTCTAGTCGGTAAG 59.964 50.000 0.00 0.00 0.00 2.34
2137 2503 8.105829 CCCTATAGGAGCTGATGTATTTTCAAT 58.894 37.037 21.07 0.00 38.24 2.57
2174 2540 3.088532 TGGCTGGTGACCAAAATATGAC 58.911 45.455 5.53 0.00 33.12 3.06
2212 2591 1.334243 CGGTCTTCCTAGCGTTAGAGG 59.666 57.143 8.00 0.00 35.72 3.69
2220 2599 4.327885 GCGTTAGAGGATCGCCAG 57.672 61.111 0.00 0.00 43.41 4.85
2235 2614 1.802069 GCCAGAGGTTCTGTGAGTTC 58.198 55.000 5.46 0.00 42.80 3.01
2246 2625 4.327982 TCTGTGAGTTCTGGTTTCTGAG 57.672 45.455 0.00 0.00 0.00 3.35
2277 2656 4.892934 TGAGCCAACTGATTTTGTTTAGGT 59.107 37.500 0.00 0.00 0.00 3.08
2280 2659 6.649155 AGCCAACTGATTTTGTTTAGGTTTT 58.351 32.000 0.00 0.00 0.00 2.43
2340 2723 2.566952 GCCTTTGCGCTATGTTGAAT 57.433 45.000 9.73 0.00 0.00 2.57
2341 2724 2.454055 GCCTTTGCGCTATGTTGAATC 58.546 47.619 9.73 0.00 0.00 2.52
2342 2725 2.159393 GCCTTTGCGCTATGTTGAATCA 60.159 45.455 9.73 0.00 0.00 2.57
2343 2726 3.489738 GCCTTTGCGCTATGTTGAATCAT 60.490 43.478 9.73 0.00 0.00 2.45
2344 2727 4.285292 CCTTTGCGCTATGTTGAATCATC 58.715 43.478 9.73 0.00 0.00 2.92
2345 2728 4.201940 CCTTTGCGCTATGTTGAATCATCA 60.202 41.667 9.73 0.00 0.00 3.07
2346 2729 3.950087 TGCGCTATGTTGAATCATCAC 57.050 42.857 9.73 0.00 34.61 3.06
2347 2730 3.534554 TGCGCTATGTTGAATCATCACT 58.465 40.909 9.73 0.00 34.61 3.41
2348 2731 3.310501 TGCGCTATGTTGAATCATCACTG 59.689 43.478 9.73 0.00 34.61 3.66
2349 2732 3.557185 GCGCTATGTTGAATCATCACTGA 59.443 43.478 0.00 0.00 34.61 3.41
2350 2733 4.212847 GCGCTATGTTGAATCATCACTGAT 59.787 41.667 0.00 0.00 44.14 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.595929 GCCCTTTTGGTCGTCGACA 60.596 57.895 25.64 10.15 38.10 4.35
20 21 4.764143 CCGATCCTTGGCCCTTTT 57.236 55.556 0.00 0.00 0.00 2.27
34 35 2.154798 CTTCACCACTTCCTCGCCGA 62.155 60.000 0.00 0.00 0.00 5.54
169 261 4.023291 TCCACAGCCGCATATCTCATATA 58.977 43.478 0.00 0.00 0.00 0.86
595 689 3.476740 GCAGTTACATGCAGGGCTA 57.523 52.632 2.31 0.00 45.77 3.93
604 698 2.269940 AGGTTCTCCTGGCAGTTACAT 58.730 47.619 14.43 0.54 43.33 2.29
605 699 1.729586 AGGTTCTCCTGGCAGTTACA 58.270 50.000 14.43 0.00 43.33 2.41
692 867 9.449719 AATTAAAGAACGACAAATCTATCCACT 57.550 29.630 0.00 0.00 0.00 4.00
709 884 9.825972 CTTTGCTCGAAATCACTAATTAAAGAA 57.174 29.630 0.00 0.00 0.00 2.52
710 885 9.214957 TCTTTGCTCGAAATCACTAATTAAAGA 57.785 29.630 0.00 0.00 28.79 2.52
711 886 9.483062 CTCTTTGCTCGAAATCACTAATTAAAG 57.517 33.333 0.00 0.00 0.00 1.85
712 887 9.214957 TCTCTTTGCTCGAAATCACTAATTAAA 57.785 29.630 0.00 0.00 0.00 1.52
713 888 8.771920 TCTCTTTGCTCGAAATCACTAATTAA 57.228 30.769 0.00 0.00 0.00 1.40
714 889 7.010552 GCTCTCTTTGCTCGAAATCACTAATTA 59.989 37.037 0.00 0.00 0.00 1.40
715 890 6.183360 GCTCTCTTTGCTCGAAATCACTAATT 60.183 38.462 0.00 0.00 0.00 1.40
716 891 5.293079 GCTCTCTTTGCTCGAAATCACTAAT 59.707 40.000 0.00 0.00 0.00 1.73
717 892 4.627467 GCTCTCTTTGCTCGAAATCACTAA 59.373 41.667 0.00 0.00 0.00 2.24
718 893 4.177026 GCTCTCTTTGCTCGAAATCACTA 58.823 43.478 0.00 0.00 0.00 2.74
719 894 2.999355 GCTCTCTTTGCTCGAAATCACT 59.001 45.455 0.00 0.00 0.00 3.41
720 895 2.095053 GGCTCTCTTTGCTCGAAATCAC 59.905 50.000 0.00 0.00 0.00 3.06
721 896 2.350522 GGCTCTCTTTGCTCGAAATCA 58.649 47.619 0.00 0.00 0.00 2.57
722 897 1.325943 CGGCTCTCTTTGCTCGAAATC 59.674 52.381 0.00 0.00 0.00 2.17
723 898 1.338200 ACGGCTCTCTTTGCTCGAAAT 60.338 47.619 0.00 0.00 0.00 2.17
724 899 0.033504 ACGGCTCTCTTTGCTCGAAA 59.966 50.000 0.00 0.00 0.00 3.46
725 900 0.388649 GACGGCTCTCTTTGCTCGAA 60.389 55.000 0.00 0.00 0.00 3.71
726 901 1.213013 GACGGCTCTCTTTGCTCGA 59.787 57.895 0.00 0.00 0.00 4.04
727 902 1.807573 GGACGGCTCTCTTTGCTCG 60.808 63.158 0.00 0.00 0.00 5.03
728 903 0.320771 TTGGACGGCTCTCTTTGCTC 60.321 55.000 0.00 0.00 0.00 4.26
782 957 2.492025 AGGAGCCCATGAGTAAATCCA 58.508 47.619 0.00 0.00 0.00 3.41
790 965 1.101331 GAAGCAAAGGAGCCCATGAG 58.899 55.000 0.00 0.00 34.23 2.90
799 1007 2.631062 TGGACGTTAGAGAAGCAAAGGA 59.369 45.455 0.00 0.00 0.00 3.36
818 1026 6.258068 GTCTTTTGATCGGTATAGTCCTTTGG 59.742 42.308 0.00 0.00 0.00 3.28
819 1027 6.816640 TGTCTTTTGATCGGTATAGTCCTTTG 59.183 38.462 0.00 0.00 0.00 2.77
820 1028 6.942976 TGTCTTTTGATCGGTATAGTCCTTT 58.057 36.000 0.00 0.00 0.00 3.11
821 1029 6.540438 TGTCTTTTGATCGGTATAGTCCTT 57.460 37.500 0.00 0.00 0.00 3.36
822 1030 6.407074 CCTTGTCTTTTGATCGGTATAGTCCT 60.407 42.308 0.00 0.00 0.00 3.85
823 1031 5.753921 CCTTGTCTTTTGATCGGTATAGTCC 59.246 44.000 0.00 0.00 0.00 3.85
831 1050 1.826385 AGGCCTTGTCTTTTGATCGG 58.174 50.000 0.00 0.00 0.00 4.18
973 1201 4.415332 GGAGACGAAGACGCGGCA 62.415 66.667 17.71 0.00 43.13 5.69
1017 1245 1.065126 GTGGGACTCCATGGAAAGAGG 60.065 57.143 17.00 6.12 46.09 3.69
1047 1275 2.946346 GCGGGAGGTTGGAACGGTA 61.946 63.158 0.00 0.00 0.00 4.02
1049 1277 4.016706 AGCGGGAGGTTGGAACGG 62.017 66.667 0.00 0.00 37.18 4.44
1054 1282 4.410400 GGGTCAGCGGGAGGTTGG 62.410 72.222 0.00 0.00 39.46 3.77
1237 1466 2.110006 GCTGGATCGAAGAGGGGC 59.890 66.667 0.00 0.00 43.63 5.80
1242 1473 2.735772 GCCTGGGCTGGATCGAAGA 61.736 63.158 4.12 0.00 38.72 2.87
1268 1499 0.610232 GAAGCAATGGTGGGTCAGCT 60.610 55.000 0.00 0.00 32.61 4.24
1276 1507 0.957395 ACGGCAGAGAAGCAATGGTG 60.957 55.000 0.00 0.00 35.83 4.17
1281 1512 1.669115 GAGCACGGCAGAGAAGCAA 60.669 57.895 0.00 0.00 35.83 3.91
1283 1514 2.047844 TGAGCACGGCAGAGAAGC 60.048 61.111 0.00 0.00 0.00 3.86
1284 1515 1.447489 CCTGAGCACGGCAGAGAAG 60.447 63.158 0.00 0.00 35.39 2.85
1388 1619 6.899393 ACAAAATGCAGATAAGTCTTGGAA 57.101 33.333 0.00 0.00 30.42 3.53
1390 1621 7.951530 AAAACAAAATGCAGATAAGTCTTGG 57.048 32.000 0.00 0.00 30.42 3.61
1396 1627 7.754924 ACGTCCATAAAACAAAATGCAGATAAG 59.245 33.333 0.00 0.00 0.00 1.73
1425 1656 5.800296 TCCTAGCTTGCATAACAAACACTA 58.200 37.500 0.00 0.00 37.96 2.74
1464 1697 8.750416 CATAGACGAAATTGATAACAGAGACAG 58.250 37.037 0.00 0.00 0.00 3.51
1465 1698 8.251026 ACATAGACGAAATTGATAACAGAGACA 58.749 33.333 0.00 0.00 0.00 3.41
1466 1699 8.635877 ACATAGACGAAATTGATAACAGAGAC 57.364 34.615 0.00 0.00 0.00 3.36
1487 1720 6.098838 AGAGTACAAGCAATCCTCATGACATA 59.901 38.462 0.00 0.00 0.00 2.29
1488 1721 5.104610 AGAGTACAAGCAATCCTCATGACAT 60.105 40.000 0.00 0.00 0.00 3.06
1489 1722 4.223700 AGAGTACAAGCAATCCTCATGACA 59.776 41.667 0.00 0.00 0.00 3.58
1490 1723 4.569966 CAGAGTACAAGCAATCCTCATGAC 59.430 45.833 0.00 0.00 0.00 3.06
1492 1725 3.875727 CCAGAGTACAAGCAATCCTCATG 59.124 47.826 0.00 0.00 0.00 3.07
1493 1726 3.521126 ACCAGAGTACAAGCAATCCTCAT 59.479 43.478 0.00 0.00 0.00 2.90
1494 1727 2.906389 ACCAGAGTACAAGCAATCCTCA 59.094 45.455 0.00 0.00 0.00 3.86
1495 1728 3.265791 CACCAGAGTACAAGCAATCCTC 58.734 50.000 0.00 0.00 0.00 3.71
1496 1729 2.639839 ACACCAGAGTACAAGCAATCCT 59.360 45.455 0.00 0.00 0.00 3.24
1498 1731 4.822026 AGTACACCAGAGTACAAGCAATC 58.178 43.478 7.89 0.00 45.25 2.67
1604 1839 5.560724 ACAGCACAATACAGTAGACCATTT 58.439 37.500 0.00 0.00 0.00 2.32
1642 1877 2.746904 TGACACAACACAAACAGACCTG 59.253 45.455 0.00 0.00 0.00 4.00
1644 1879 4.104776 CAATGACACAACACAAACAGACC 58.895 43.478 0.00 0.00 0.00 3.85
1725 1960 4.568152 AACCACAGCTAACACAAACATC 57.432 40.909 0.00 0.00 0.00 3.06
1804 2045 9.391006 TGCTTATAAAAAGGGTTACTATCTGTG 57.609 33.333 0.00 0.00 0.00 3.66
1806 2047 9.057089 CCTGCTTATAAAAAGGGTTACTATCTG 57.943 37.037 5.52 0.00 0.00 2.90
1807 2048 8.218488 CCCTGCTTATAAAAAGGGTTACTATCT 58.782 37.037 18.37 0.00 43.86 1.98
1817 2058 6.530019 AACATGACCCTGCTTATAAAAAGG 57.470 37.500 0.00 6.24 0.00 3.11
1818 2059 7.872483 ACAAAACATGACCCTGCTTATAAAAAG 59.128 33.333 0.00 0.00 0.00 2.27
1819 2060 7.731054 ACAAAACATGACCCTGCTTATAAAAA 58.269 30.769 0.00 0.00 0.00 1.94
1824 2163 5.185056 GGTTACAAAACATGACCCTGCTTAT 59.815 40.000 0.00 0.00 37.34 1.73
1837 2176 8.968969 ACTACATGTAAAAAGGGTTACAAAACA 58.031 29.630 7.06 0.00 44.80 2.83
1851 2190 6.707290 ACTCACAGCCATACTACATGTAAAA 58.293 36.000 7.06 0.00 34.45 1.52
1903 2246 5.579119 TCAAAACTATACTACGTGCCATGTG 59.421 40.000 0.00 0.00 0.00 3.21
1911 2254 8.574737 AGAAGTGAACTCAAAACTATACTACGT 58.425 33.333 0.00 0.00 0.00 3.57
1912 2255 8.851416 CAGAAGTGAACTCAAAACTATACTACG 58.149 37.037 0.00 0.00 0.00 3.51
1919 2262 8.671028 GTTAAACCAGAAGTGAACTCAAAACTA 58.329 33.333 0.00 0.00 0.00 2.24
1996 2339 8.661257 CCGTATGTCAATTTGTACAAGTCATAA 58.339 33.333 8.56 0.00 0.00 1.90
2081 2444 5.163281 AGTTCTTACCGACTAGACAGAGA 57.837 43.478 0.00 0.00 0.00 3.10
2098 2461 5.544562 GCTCCTATAGGGGAAATGTAGTTCT 59.455 44.000 23.74 0.00 38.16 3.01
2099 2462 5.544562 AGCTCCTATAGGGGAAATGTAGTTC 59.455 44.000 23.74 0.00 38.16 3.01
2153 2519 3.088532 GTCATATTTTGGTCACCAGCCA 58.911 45.455 0.00 0.00 33.81 4.75
2174 2540 5.825507 AGACCGTATTTAAGTTACTAGCGG 58.174 41.667 11.32 11.32 41.99 5.52
2207 2586 1.215673 AGAACCTCTGGCGATCCTCTA 59.784 52.381 0.00 0.00 0.00 2.43
2220 2599 3.477210 AACCAGAACTCACAGAACCTC 57.523 47.619 0.00 0.00 0.00 3.85
2235 2614 3.325870 TCAACGTATGCTCAGAAACCAG 58.674 45.455 0.00 0.00 0.00 4.00
2277 2656 6.999272 TGCACAATAACTAGGTAACCAGAAAA 59.001 34.615 0.00 0.00 37.17 2.29
2280 2659 5.748670 TGCACAATAACTAGGTAACCAGA 57.251 39.130 0.00 0.00 37.17 3.86


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

AutoCloner maintained by Alex Coulton.