Multiple sequence alignment - TraesCS5B01G357800

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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 TraesCS5B01G357800 chr5B 100.000 2288 0 0 1 2288 537527630 537529917 0.000000e+00 4226.0
1 TraesCS5B01G357800 chr5D 87.651 1571 140 23 741 2288 441352560 441354099 0.000000e+00 1777.0
2 TraesCS5B01G357800 chr5D 84.430 456 23 14 206 627 441351881 441352322 2.740000e-109 405.0
3 TraesCS5B01G357800 chr5D 91.515 165 14 0 44 208 441351581 441351745 6.360000e-56 228.0
4 TraesCS5B01G357800 chr5D 95.238 42 2 0 2 43 441345334 441345375 1.470000e-07 67.6
5 TraesCS5B01G357800 chr5A 89.837 1102 79 7 963 2055 558140153 558141230 0.000000e+00 1384.0
6 TraesCS5B01G357800 chr5A 84.600 987 75 30 28 973 558137984 558138934 0.000000e+00 909.0
7 TraesCS5B01G357800 chr5A 83.772 228 15 5 2062 2288 558142501 558142707 1.790000e-46 196.0


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 TraesCS5B01G357800 chr5B 537527630 537529917 2287 False 4226.000000 4226 100.000000 1 2288 1 chr5B.!!$F1 2287
1 TraesCS5B01G357800 chr5D 441351581 441354099 2518 False 803.333333 1777 87.865333 44 2288 3 chr5D.!!$F2 2244
2 TraesCS5B01G357800 chr5A 558137984 558142707 4723 False 829.666667 1384 86.069667 28 2288 3 chr5A.!!$F1 2260

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
532 703 0.107508 GCTCCTCTGCCATGCTGTTA 60.108 55.0 0.0 0.0 0.0 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1487 3042 0.380378 GACCTCAAACAGCAACGCAA 59.62 50.0 0.0 0.0 0.0 4.85 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 1.810532 ACTACGCCACAGCTCTAGC 59.189 57.895 0.00 0.00 42.49 3.42
36 37 0.667792 GCGCGACCACTTTTCTCTCT 60.668 55.000 12.10 0.00 0.00 3.10
38 39 1.335964 CGCGACCACTTTTCTCTCTGA 60.336 52.381 0.00 0.00 0.00 3.27
41 42 3.570559 CGACCACTTTTCTCTCTGAGAC 58.429 50.000 2.58 0.00 38.51 3.36
196 197 1.626621 AGGTACCATCTCCCCTCTCT 58.373 55.000 15.94 0.00 0.00 3.10
253 398 0.252239 AGCCCTTGAACCCCCAAATC 60.252 55.000 0.00 0.00 0.00 2.17
312 459 3.261039 TTCCCGCTTGATTCGGCCA 62.261 57.895 2.24 0.00 45.19 5.36
350 497 2.902846 CGACGGCGAGGGATCTCT 60.903 66.667 16.62 0.00 40.82 3.10
352 499 3.492311 GACGGCGAGGGATCTCTGC 62.492 68.421 16.62 3.96 37.86 4.26
424 595 1.589716 GCATTGCTGCCGTTCCTTCT 61.590 55.000 0.16 0.00 42.88 2.85
426 597 1.021390 ATTGCTGCCGTTCCTTCTCG 61.021 55.000 0.00 0.00 0.00 4.04
486 657 3.436704 TGCTGTTACTGCTTTGCTATGAC 59.563 43.478 14.81 0.00 0.00 3.06
532 703 0.107508 GCTCCTCTGCCATGCTGTTA 60.108 55.000 0.00 0.00 0.00 2.41
539 710 2.027285 TCTGCCATGCTGTTACTGCTTA 60.027 45.455 14.81 0.00 0.00 3.09
541 712 2.290260 TGCCATGCTGTTACTGCTTACT 60.290 45.455 14.81 0.00 0.00 2.24
542 713 2.096496 GCCATGCTGTTACTGCTTACTG 59.904 50.000 14.81 7.47 0.00 2.74
547 718 2.158449 GCTGTTACTGCTTACTGTGCTG 59.842 50.000 6.98 0.00 35.85 4.41
553 724 0.179048 TGCTTACTGTGCTGTGCTGT 60.179 50.000 0.00 0.00 0.00 4.40
554 725 0.236711 GCTTACTGTGCTGTGCTGTG 59.763 55.000 0.00 0.00 0.00 3.66
555 726 0.236711 CTTACTGTGCTGTGCTGTGC 59.763 55.000 0.00 0.00 0.00 4.57
630 813 7.759886 TGTCTTAAATGTACATGTCTACTGCTC 59.240 37.037 9.63 0.00 0.00 4.26
631 814 7.759886 GTCTTAAATGTACATGTCTACTGCTCA 59.240 37.037 9.63 0.00 0.00 4.26
635 818 7.744087 AATGTACATGTCTACTGCTCAAAAA 57.256 32.000 9.63 0.00 0.00 1.94
703 934 1.649321 TGCTGGGAGCCTAGGATATG 58.351 55.000 14.75 0.00 41.51 1.78
733 1047 2.483014 TAGCTATGTTTGGGCGTTGT 57.517 45.000 0.00 0.00 0.00 3.32
745 1059 1.353076 GGCGTTGTCCCTAGTTAACG 58.647 55.000 0.00 0.00 46.07 3.18
761 1075 4.569564 AGTTAACGCACCGATTAATTCTCC 59.430 41.667 0.00 0.00 0.00 3.71
766 1080 2.545946 GCACCGATTAATTCTCCAGAGC 59.454 50.000 0.00 0.00 0.00 4.09
783 1097 9.857656 TCTCCAGAGCTTAATTCATTCAATTAT 57.142 29.630 0.00 0.00 36.91 1.28
789 1103 7.576236 AGCTTAATTCATTCAATTATCCGACG 58.424 34.615 0.00 0.00 36.91 5.12
801 1115 2.209690 ATCCGACGAAAACCCCAAAT 57.790 45.000 0.00 0.00 0.00 2.32
815 1129 4.077108 ACCCCAAATTTCTTCGGTTCTAC 58.923 43.478 0.00 0.00 0.00 2.59
820 1137 6.016610 CCCAAATTTCTTCGGTTCTACTTCAA 60.017 38.462 0.00 0.00 0.00 2.69
843 1160 3.565482 TGCGATATTTCCATTTCTGAGGC 59.435 43.478 0.00 0.00 0.00 4.70
844 1161 3.565482 GCGATATTTCCATTTCTGAGGCA 59.435 43.478 0.00 0.00 0.00 4.75
885 1202 1.271054 GCTGAGACCTGTGGTGATGTT 60.271 52.381 0.00 0.00 35.25 2.71
921 1238 7.229506 AGACTTGTTTATTTCTCAGAACCTTGG 59.770 37.037 0.00 0.00 0.00 3.61
934 1251 5.885912 TCAGAACCTTGGGATATTACTTTGC 59.114 40.000 0.00 0.00 0.00 3.68
944 1261 2.435685 ATTACTTTGCGCGATTGACG 57.564 45.000 12.10 0.00 45.66 4.35
984 2532 1.544825 GGTACAGGTGCTCTGAGGCA 61.545 60.000 6.83 2.37 46.18 4.75
1035 2583 2.559440 GAGATGTGGGCAGCTAAAGAG 58.441 52.381 0.00 0.00 42.00 2.85
1042 2590 1.375098 GGCAGCTAAAGAGGCAGCAG 61.375 60.000 0.00 0.00 42.58 4.24
1083 2631 4.063689 ACGAGTCGAAGAAGTACAAGAGA 58.936 43.478 21.50 0.00 39.69 3.10
1127 2675 1.213733 CTGTCGATCAGCGCCATCTG 61.214 60.000 2.29 0.00 40.61 2.90
1135 2683 2.110627 GCGCCATCTGCATCCTCT 59.889 61.111 0.00 0.00 41.33 3.69
1136 2684 1.960250 GCGCCATCTGCATCCTCTC 60.960 63.158 0.00 0.00 41.33 3.20
1146 2694 0.463620 GCATCCTCTCGAGCTTCCTT 59.536 55.000 7.81 0.00 0.00 3.36
1170 2718 1.755783 GGGGATTTCCTGGCAGCAG 60.756 63.158 9.56 0.00 35.95 4.24
1255 2803 0.321671 CCTGAGGAACTTTCGCTGGA 59.678 55.000 0.00 0.00 41.55 3.86
1256 2804 1.270839 CCTGAGGAACTTTCGCTGGAA 60.271 52.381 0.00 0.00 41.55 3.53
1268 2816 0.670546 CGCTGGAACGTCCACAAGAT 60.671 55.000 3.02 0.00 42.67 2.40
1274 2822 2.251893 GAACGTCCACAAGATCGAGTC 58.748 52.381 0.00 0.00 0.00 3.36
1383 2938 6.057533 GGTGTGTAATGATCATGGATTCAGA 58.942 40.000 9.46 0.97 0.00 3.27
1412 2967 2.766828 TCCCTAGTTGCTCTAAGCCTTC 59.233 50.000 0.00 0.00 41.51 3.46
1413 2968 2.501723 CCCTAGTTGCTCTAAGCCTTCA 59.498 50.000 0.00 0.00 41.51 3.02
1423 2978 5.470098 TGCTCTAAGCCTTCAACTTTTGTAG 59.530 40.000 0.00 0.00 41.51 2.74
1444 2999 9.832445 TTGTAGTTTGTTAGATGAGGATTATCC 57.168 33.333 2.40 2.40 36.58 2.59
1461 3016 6.013984 GGATTATCCGGGTTTAAGATGGTCTA 60.014 42.308 0.00 0.00 0.00 2.59
1487 3042 1.281199 TGTGGCTGCCCAGGTATGAT 61.281 55.000 17.53 0.00 43.18 2.45
1538 3093 0.550914 AACACTTGGGAGTTGGAGCA 59.449 50.000 0.00 0.00 32.54 4.26
1541 3096 2.290323 ACACTTGGGAGTTGGAGCATAC 60.290 50.000 0.00 0.00 32.54 2.39
1562 3118 7.968246 CATACTATGCTCTGTTATGTTATGCC 58.032 38.462 0.00 0.00 0.00 4.40
1588 3144 9.836076 CATGAATATTGTGATTAGCTTGGTATG 57.164 33.333 0.00 0.00 0.00 2.39
1599 3155 4.082665 AGCTTGGTATGATGGATCAGTG 57.917 45.455 0.00 0.00 40.64 3.66
1647 3203 6.543465 TGCAAACTCACTCTCATTATTATGGG 59.457 38.462 0.00 0.00 33.23 4.00
1691 3247 9.138596 TGAAATACTAGCAGGTACATATGTGTA 57.861 33.333 18.81 9.37 39.77 2.90
1741 3302 6.502136 AGCTTAAGTCTATTGCAGAAAACC 57.498 37.500 4.02 0.00 34.17 3.27
1785 3350 1.660104 CACTTTGGCAAACACAAGCAC 59.340 47.619 8.93 0.00 0.00 4.40
1787 3352 2.093553 ACTTTGGCAAACACAAGCACAT 60.094 40.909 8.93 0.00 0.00 3.21
1798 3363 4.310769 ACACAAGCACATCTCTTCTACAC 58.689 43.478 0.00 0.00 0.00 2.90
1803 3368 4.011023 AGCACATCTCTTCTACACGTACT 58.989 43.478 0.00 0.00 0.00 2.73
1808 3373 3.917988 TCTCTTCTACACGTACTGTCGA 58.082 45.455 0.00 0.00 33.91 4.20
1915 3480 7.617723 AGAATATATAGCTCCCTTACAGACCAG 59.382 40.741 0.00 0.00 0.00 4.00
1939 3504 2.014010 TTTCCTTGGCCAATCTGCTT 57.986 45.000 20.85 0.00 0.00 3.91
1941 3506 2.897271 TCCTTGGCCAATCTGCTTAA 57.103 45.000 20.85 0.00 0.00 1.85
1973 3541 5.324409 ACATGCTTCCTGTGAATTTCCTTA 58.676 37.500 0.00 0.00 0.00 2.69
1985 3553 6.097554 TGTGAATTTCCTTAAACAGCCTCAAA 59.902 34.615 0.00 0.00 0.00 2.69
1995 3563 4.373156 AACAGCCTCAAATTCTACCAGT 57.627 40.909 0.00 0.00 0.00 4.00
2013 3581 5.376625 ACCAGTGAAAACAAGATTCTAGCA 58.623 37.500 0.00 0.00 0.00 3.49
2025 3593 7.743749 ACAAGATTCTAGCATGACCAGATAAT 58.256 34.615 0.00 0.00 0.00 1.28
2026 3594 7.660617 ACAAGATTCTAGCATGACCAGATAATG 59.339 37.037 0.00 0.00 0.00 1.90
2027 3595 6.171921 AGATTCTAGCATGACCAGATAATGC 58.828 40.000 0.00 0.00 45.62 3.56
2060 4892 1.075542 TTGCGCTGTCGATACTTTGG 58.924 50.000 9.73 0.00 38.10 3.28
2063 4895 1.933853 GCGCTGTCGATACTTTGGAAT 59.066 47.619 0.00 0.00 38.10 3.01
2069 4901 6.464834 CGCTGTCGATACTTTGGAATAAAAAC 59.535 38.462 0.00 0.00 38.10 2.43
2070 4902 7.302524 GCTGTCGATACTTTGGAATAAAAACA 58.697 34.615 0.00 0.00 0.00 2.83
2150 4985 1.396815 GCAGTACGTTCAAGCGTTGTC 60.397 52.381 0.00 0.00 43.04 3.18
2172 5007 7.167535 TGTCACATAATTTCACTGGATCAGAA 58.832 34.615 1.59 0.00 35.18 3.02
2193 5028 4.708726 ATGCAGTTATGAAACCTCTTGC 57.291 40.909 0.00 0.00 36.15 4.01
2197 5032 4.787598 CAGTTATGAAACCTCTTGCACAC 58.212 43.478 0.00 0.00 36.15 3.82
2217 5052 4.814234 ACACGCACTGTCAAAGAAGAAATA 59.186 37.500 0.00 0.00 0.00 1.40
2227 5062 9.618890 CTGTCAAAGAAGAAATAATCCCAGATA 57.381 33.333 0.00 0.00 0.00 1.98
2241 5076 3.199727 TCCCAGATATTGCACAGCACTTA 59.800 43.478 0.00 0.00 38.71 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.298713 CGCTAGAGCTGTGGCGTAG 60.299 63.158 29.55 5.85 44.37 3.51
2 3 2.798689 CGCTAGAGCTGTGGCGTA 59.201 61.111 29.55 0.00 44.37 4.42
5 6 4.498520 TCGCGCTAGAGCTGTGGC 62.499 66.667 16.69 9.35 39.32 5.01
6 7 2.580867 GTCGCGCTAGAGCTGTGG 60.581 66.667 16.69 0.81 39.32 4.17
7 8 2.580867 GGTCGCGCTAGAGCTGTG 60.581 66.667 16.69 1.19 39.32 3.66
9 10 2.549611 AAGTGGTCGCGCTAGAGCTG 62.550 60.000 16.69 10.01 39.21 4.24
10 11 1.878656 AAAGTGGTCGCGCTAGAGCT 61.879 55.000 16.69 0.00 39.21 4.09
11 12 1.014564 AAAAGTGGTCGCGCTAGAGC 61.015 55.000 8.60 8.60 38.95 4.09
12 13 0.992802 GAAAAGTGGTCGCGCTAGAG 59.007 55.000 5.56 0.00 0.00 2.43
13 14 0.601558 AGAAAAGTGGTCGCGCTAGA 59.398 50.000 5.56 0.00 0.00 2.43
14 15 0.992802 GAGAAAAGTGGTCGCGCTAG 59.007 55.000 5.56 0.00 0.00 3.42
15 16 0.601558 AGAGAAAAGTGGTCGCGCTA 59.398 50.000 5.56 0.00 0.00 4.26
16 17 0.667792 GAGAGAAAAGTGGTCGCGCT 60.668 55.000 5.56 0.00 0.00 5.92
17 18 0.667792 AGAGAGAAAAGTGGTCGCGC 60.668 55.000 0.00 0.00 0.00 6.86
18 19 1.063806 CAGAGAGAAAAGTGGTCGCG 58.936 55.000 0.00 0.00 0.00 5.87
19 20 2.029828 TCTCAGAGAGAAAAGTGGTCGC 60.030 50.000 0.00 0.00 35.59 5.19
20 21 3.254657 AGTCTCAGAGAGAAAAGTGGTCG 59.745 47.826 0.00 0.00 40.59 4.79
21 22 4.864704 AGTCTCAGAGAGAAAAGTGGTC 57.135 45.455 0.00 0.00 40.59 4.02
22 23 6.732896 TTTAGTCTCAGAGAGAAAAGTGGT 57.267 37.500 0.00 0.00 40.59 4.16
50 51 1.409427 GAGGTGGTCGCACTATAGCTT 59.591 52.381 0.00 0.00 0.00 3.74
174 175 1.132500 GAGGGGAGATGGTACCTTGG 58.868 60.000 14.36 0.00 32.42 3.61
196 197 0.608640 GTCCGGAGCAAAAGAGGAGA 59.391 55.000 3.06 0.00 0.00 3.71
253 398 2.671396 CGAATGTCCAAAACCCTAGTCG 59.329 50.000 0.00 0.00 0.00 4.18
367 514 4.802051 GGGGCAGAGATGGCGCAA 62.802 66.667 10.83 0.00 45.03 4.85
393 564 2.034179 GCAGCAATGCAGCATATCTTCA 59.966 45.455 17.68 0.00 40.73 3.02
424 595 1.679305 GCAGAGGACAGGAGGACGA 60.679 63.158 0.00 0.00 0.00 4.20
426 597 0.980423 AAAGCAGAGGACAGGAGGAC 59.020 55.000 0.00 0.00 0.00 3.85
486 657 3.807538 GCAGCAGCATCACCACCG 61.808 66.667 0.00 0.00 41.58 4.94
532 703 0.107456 AGCACAGCACAGTAAGCAGT 59.893 50.000 0.00 0.00 31.51 4.40
539 710 2.184830 CAGCACAGCACAGCACAGT 61.185 57.895 0.00 0.00 0.00 3.55
541 712 3.588906 GCAGCACAGCACAGCACA 61.589 61.111 0.00 0.00 0.00 4.57
542 713 3.285215 AGCAGCACAGCACAGCAC 61.285 61.111 0.00 0.00 36.85 4.40
547 718 4.702081 GCAGCAGCAGCACAGCAC 62.702 66.667 4.63 0.00 45.49 4.40
553 724 3.320014 AGAGGAGCAGCAGCAGCA 61.320 61.111 12.92 0.00 45.49 4.41
554 725 2.820479 CAGAGGAGCAGCAGCAGC 60.820 66.667 3.17 0.46 45.49 5.25
555 726 1.957765 TAGCAGAGGAGCAGCAGCAG 61.958 60.000 3.17 0.00 45.49 4.24
644 827 4.051922 CTGCTCTCTGTACGTCTGTTTTT 58.948 43.478 0.00 0.00 0.00 1.94
645 828 3.068307 ACTGCTCTCTGTACGTCTGTTTT 59.932 43.478 0.00 0.00 0.00 2.43
646 829 2.623889 ACTGCTCTCTGTACGTCTGTTT 59.376 45.455 0.00 0.00 0.00 2.83
647 830 2.231529 ACTGCTCTCTGTACGTCTGTT 58.768 47.619 0.00 0.00 0.00 3.16
648 831 1.898902 ACTGCTCTCTGTACGTCTGT 58.101 50.000 0.00 0.00 0.00 3.41
649 832 4.421033 TTTACTGCTCTCTGTACGTCTG 57.579 45.455 0.00 0.00 0.00 3.51
650 833 5.403246 CATTTTACTGCTCTCTGTACGTCT 58.597 41.667 0.00 0.00 0.00 4.18
651 834 4.031878 GCATTTTACTGCTCTCTGTACGTC 59.968 45.833 0.00 0.00 39.12 4.34
652 835 3.927142 GCATTTTACTGCTCTCTGTACGT 59.073 43.478 0.00 0.00 39.12 3.57
653 836 3.926527 TGCATTTTACTGCTCTCTGTACG 59.073 43.478 0.00 0.00 42.75 3.67
654 837 4.331168 CCTGCATTTTACTGCTCTCTGTAC 59.669 45.833 0.00 0.00 42.75 2.90
703 934 6.587608 GCCCAAACATAGCTATATTTTGATGC 59.412 38.462 26.90 24.24 29.87 3.91
733 1047 1.477553 ATCGGTGCGTTAACTAGGGA 58.522 50.000 3.71 0.00 0.00 4.20
745 1059 2.545946 GCTCTGGAGAATTAATCGGTGC 59.454 50.000 1.35 0.00 0.00 5.01
761 1075 8.777413 TCGGATAATTGAATGAATTAAGCTCTG 58.223 33.333 0.00 0.00 39.46 3.35
766 1080 9.929722 TTTCGTCGGATAATTGAATGAATTAAG 57.070 29.630 0.00 0.00 39.46 1.85
783 1097 1.984066 AATTTGGGGTTTTCGTCGGA 58.016 45.000 0.00 0.00 0.00 4.55
789 1103 4.330944 ACCGAAGAAATTTGGGGTTTTC 57.669 40.909 0.00 0.00 33.08 2.29
801 1115 4.151689 CGCATTGAAGTAGAACCGAAGAAA 59.848 41.667 0.00 0.00 0.00 2.52
815 1129 7.420002 TCAGAAATGGAAATATCGCATTGAAG 58.580 34.615 0.00 0.00 31.23 3.02
820 1137 4.217118 GCCTCAGAAATGGAAATATCGCAT 59.783 41.667 0.00 0.00 0.00 4.73
857 1174 2.027745 CCACAGGTCTCAGCAATGTACT 60.028 50.000 0.00 0.00 0.00 2.73
885 1202 9.950680 GAGAAATAAACAAGTCTTTCACAATCA 57.049 29.630 0.00 0.00 31.55 2.57
921 1238 4.455124 GTCAATCGCGCAAAGTAATATCC 58.545 43.478 8.75 0.00 0.00 2.59
934 1251 0.179161 AGGAGAGAACGTCAATCGCG 60.179 55.000 0.00 0.00 44.19 5.87
944 1261 6.043854 ACCAAGATAAGACAAGGAGAGAAC 57.956 41.667 0.00 0.00 0.00 3.01
997 2545 1.207089 CTCGTTCTTGGCCACCATCTA 59.793 52.381 3.88 0.00 31.53 1.98
1083 2631 0.179100 CACCGATCTCCACAAGCGAT 60.179 55.000 0.00 0.00 0.00 4.58
1127 2675 0.463620 AAGGAAGCTCGAGAGGATGC 59.536 55.000 18.75 0.00 0.00 3.91
1135 2683 2.048222 CGGCACAAGGAAGCTCGA 60.048 61.111 0.00 0.00 0.00 4.04
1136 2684 3.121030 CCGGCACAAGGAAGCTCG 61.121 66.667 0.00 0.00 0.00 5.03
1146 2694 2.354729 CAGGAAATCCCCGGCACA 59.645 61.111 0.00 0.00 36.42 4.57
1170 2718 0.746923 TCTGCCAGCACATGATCTGC 60.747 55.000 0.00 0.00 34.63 4.26
1255 2803 1.401148 CGACTCGATCTTGTGGACGTT 60.401 52.381 0.00 0.00 0.00 3.99
1256 2804 0.168348 CGACTCGATCTTGTGGACGT 59.832 55.000 0.00 0.00 0.00 4.34
1274 2822 2.327200 CCCCCTTTAAACTAGAGGCG 57.673 55.000 0.00 0.00 0.00 5.52
1294 2842 3.480133 CCACCGATGGTCCCTCCC 61.480 72.222 0.00 0.00 41.64 4.30
1383 2938 7.285629 GGCTTAGAGCAACTAGGGATAAAATTT 59.714 37.037 2.04 0.00 44.75 1.82
1423 2978 5.701290 CCCGGATAATCCTCATCTAACAAAC 59.299 44.000 0.73 0.00 33.30 2.93
1443 2998 3.135895 ACCATAGACCATCTTAAACCCGG 59.864 47.826 0.00 0.00 0.00 5.73
1444 2999 4.417426 ACCATAGACCATCTTAAACCCG 57.583 45.455 0.00 0.00 0.00 5.28
1461 3016 0.396139 CTGGGCAGCCACATTACCAT 60.396 55.000 15.19 0.00 0.00 3.55
1487 3042 0.380378 GACCTCAAACAGCAACGCAA 59.620 50.000 0.00 0.00 0.00 4.85
1513 3068 4.141287 TCCAACTCCCAAGTGTTGTTATG 58.859 43.478 0.00 0.00 43.01 1.90
1538 3093 7.679783 TGGCATAACATAACAGAGCATAGTAT 58.320 34.615 0.00 0.00 0.00 2.12
1541 3096 6.652062 TCATGGCATAACATAACAGAGCATAG 59.348 38.462 0.00 0.00 0.00 2.23
1562 3118 9.836076 CATACCAAGCTAATCACAATATTCATG 57.164 33.333 0.00 0.00 0.00 3.07
1588 3144 2.098607 CACAACCATGCACTGATCCATC 59.901 50.000 0.00 0.00 0.00 3.51
1599 3155 2.738314 GGAAGCAATTTCACAACCATGC 59.262 45.455 0.00 0.00 37.54 4.06
1647 3203 9.341899 AGTATTTCAAATAAGTCAATTTCACGC 57.658 29.630 0.00 0.00 0.00 5.34
1708 3264 8.092068 TGCAATAGACTTAAGCTTGTACAGTAA 58.908 33.333 9.86 0.00 0.00 2.24
1715 3271 7.363431 GTTTTCTGCAATAGACTTAAGCTTGT 58.637 34.615 9.86 0.00 34.43 3.16
1741 3302 7.640240 GTGTTGGCGAAAATAGCTCTTTTATAG 59.360 37.037 9.56 6.28 34.52 1.31
1785 3350 4.329256 TCGACAGTACGTGTAGAAGAGATG 59.671 45.833 0.00 0.00 40.56 2.90
1787 3352 3.917988 TCGACAGTACGTGTAGAAGAGA 58.082 45.455 0.00 0.00 40.56 3.10
1866 3431 9.567776 TTCTGTTTCCTGAACTATACATTTCAA 57.432 29.630 0.00 0.00 39.08 2.69
1882 3447 7.880265 AAGGGAGCTATATATTCTGTTTCCT 57.120 36.000 0.00 0.00 0.00 3.36
1915 3480 3.067320 GCAGATTGGCCAAGGAAATACTC 59.933 47.826 24.94 13.52 0.00 2.59
1939 3504 4.263727 ACAGGAAGCATGTAATGGGTGTTA 60.264 41.667 0.00 0.00 46.86 2.41
1941 3506 2.041620 ACAGGAAGCATGTAATGGGTGT 59.958 45.455 0.00 0.00 46.86 4.16
1973 3541 4.520492 CACTGGTAGAATTTGAGGCTGTTT 59.480 41.667 0.00 0.00 0.00 2.83
1985 3553 9.442047 CTAGAATCTTGTTTTCACTGGTAGAAT 57.558 33.333 0.00 0.00 0.00 2.40
1995 3563 6.003326 TGGTCATGCTAGAATCTTGTTTTCA 58.997 36.000 0.00 0.00 0.00 2.69
2013 3581 4.142609 AGAACACGCATTATCTGGTCAT 57.857 40.909 0.00 0.00 0.00 3.06
2025 3593 2.727607 GCGCAAATTGATAGAACACGCA 60.728 45.455 0.30 0.00 43.03 5.24
2026 3594 1.840141 GCGCAAATTGATAGAACACGC 59.160 47.619 0.30 0.00 36.82 5.34
2027 3595 3.093574 CAGCGCAAATTGATAGAACACG 58.906 45.455 11.47 0.00 0.00 4.49
2150 4985 6.916387 GCATTCTGATCCAGTGAAATTATGTG 59.084 38.462 0.00 0.00 32.61 3.21
2172 5007 4.081406 TGCAAGAGGTTTCATAACTGCAT 58.919 39.130 0.00 0.00 37.03 3.96
2193 5028 1.933181 TCTTCTTTGACAGTGCGTGTG 59.067 47.619 0.00 0.00 40.56 3.82
2197 5032 6.024049 GGATTATTTCTTCTTTGACAGTGCG 58.976 40.000 0.00 0.00 0.00 5.34
2217 5052 2.954318 GTGCTGTGCAATATCTGGGATT 59.046 45.455 0.00 0.00 41.47 3.01
2227 5062 1.619654 TTGCCTAAGTGCTGTGCAAT 58.380 45.000 0.00 0.00 41.47 3.56
2241 5076 4.670896 ACTGCAATGTTTTAGTTTGCCT 57.329 36.364 4.60 0.00 43.91 4.75


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

AutoCloner maintained by Alex Coulton.