Multiple sequence alignment - TraesCS2B01G427600

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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 TraesCS2B01G427600 chr2B 100.000 3579 0 0 1 3579 614900216 614903794 0.000000e+00 6610.0
1 TraesCS2B01G427600 chr2B 89.450 1981 170 26 790 2752 227251920 227249961 0.000000e+00 2464.0
2 TraesCS2B01G427600 chr2B 90.090 111 11 0 2901 3011 227249905 227249795 1.040000e-30 145.0
3 TraesCS2B01G427600 chr2B 100.000 39 0 0 2760 2798 614902866 614902904 4.960000e-09 73.1
4 TraesCS2B01G427600 chr2B 100.000 39 0 0 2651 2689 614902975 614903013 4.960000e-09 73.1
5 TraesCS2B01G427600 chr2B 97.561 41 1 0 2758 2798 227250064 227250024 1.780000e-08 71.3
6 TraesCS2B01G427600 chr2B 100.000 28 0 0 2735 2762 265428428 265428455 6.000000e-03 52.8
7 TraesCS2B01G427600 chr2A 94.035 2649 123 11 785 3418 666553737 666556365 0.000000e+00 3984.0
8 TraesCS2B01G427600 chr2A 89.134 589 52 7 212 788 666552870 666553458 0.000000e+00 723.0
9 TraesCS2B01G427600 chr2A 95.833 168 7 0 3412 3579 666556416 666556583 4.550000e-69 272.0
10 TraesCS2B01G427600 chr2A 100.000 39 0 0 2760 2798 666555597 666555635 4.960000e-09 73.1
11 TraesCS2B01G427600 chr2D 88.703 1434 130 11 1351 2762 520651253 520649830 0.000000e+00 1722.0
12 TraesCS2B01G427600 chr2D 87.205 1399 96 27 785 2146 520652600 520651248 0.000000e+00 1515.0
13 TraesCS2B01G427600 chr2D 89.788 803 63 13 1 788 520653872 520653074 0.000000e+00 1011.0
14 TraesCS2B01G427600 chr2D 85.938 256 14 9 2808 3063 520649814 520649581 1.650000e-63 254.0
15 TraesCS2B01G427600 chr2D 100.000 28 0 0 2735 2762 213702940 213702967 6.000000e-03 52.8
16 TraesCS2B01G427600 chr6B 100.000 29 0 0 2734 2762 44462318 44462346 2.000000e-03 54.7
17 TraesCS2B01G427600 chr6A 100.000 29 0 0 2734 2762 479409173 479409201 2.000000e-03 54.7
18 TraesCS2B01G427600 chr3A 100.000 29 0 0 2734 2762 121330341 121330369 2.000000e-03 54.7
19 TraesCS2B01G427600 chr1B 94.286 35 2 0 2734 2768 645555419 645555385 2.000000e-03 54.7
20 TraesCS2B01G427600 chr5D 100.000 28 0 0 2735 2762 7503902 7503929 6.000000e-03 52.8


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 TraesCS2B01G427600 chr2B 614900216 614903794 3578 False 2252.066667 6610 100.0000 1 3579 3 chr2B.!!$F2 3578
1 TraesCS2B01G427600 chr2B 227249795 227251920 2125 True 893.433333 2464 92.3670 790 3011 3 chr2B.!!$R1 2221
2 TraesCS2B01G427600 chr2A 666552870 666556583 3713 False 1263.025000 3984 94.7505 212 3579 4 chr2A.!!$F1 3367
3 TraesCS2B01G427600 chr2D 520649581 520653872 4291 True 1125.500000 1722 87.9085 1 3063 4 chr2D.!!$R1 3062

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
67 69 0.900182 CCAGAAGGGAAAGTTGGGCC 60.900 60.0 0.0 0.0 40.01 5.8 F
1315 1825 0.321034 AGGGTTTCCGGTTAGTTCGC 60.321 55.0 0.0 0.0 38.33 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1399 1910 0.392193 CCAAGCCCTGACTAGCAGTG 60.392 60.0 11.57 3.7 43.33 3.66 R
2895 4212 0.179200 GTGACCAAAATAGCCGCACG 60.179 55.0 0.00 0.0 0.00 5.34 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
20 22 2.380064 AACTTCAATGTTGCCTCCCA 57.620 45.000 0.00 0.00 0.00 4.37
67 69 0.900182 CCAGAAGGGAAAGTTGGGCC 60.900 60.000 0.00 0.00 40.01 5.80
83 85 1.628846 GGGCCGATTATATGTGTCCCT 59.371 52.381 0.00 0.00 0.00 4.20
84 86 2.835764 GGGCCGATTATATGTGTCCCTA 59.164 50.000 0.00 0.00 0.00 3.53
85 87 3.262405 GGGCCGATTATATGTGTCCCTAA 59.738 47.826 0.00 0.00 0.00 2.69
86 88 4.080526 GGGCCGATTATATGTGTCCCTAAT 60.081 45.833 0.00 0.00 0.00 1.73
87 89 5.497474 GGCCGATTATATGTGTCCCTAATT 58.503 41.667 0.00 0.00 0.00 1.40
117 119 4.523813 CGTTTACGAACTGTTGAAGCAAT 58.476 39.130 0.00 0.00 43.02 3.56
118 120 4.607235 CGTTTACGAACTGTTGAAGCAATC 59.393 41.667 0.00 0.00 43.02 2.67
119 121 5.558273 CGTTTACGAACTGTTGAAGCAATCT 60.558 40.000 0.00 0.00 43.02 2.40
120 122 6.199393 GTTTACGAACTGTTGAAGCAATCTT 58.801 36.000 0.00 0.00 32.91 2.40
121 123 4.900635 ACGAACTGTTGAAGCAATCTTT 57.099 36.364 0.00 0.00 31.48 2.52
123 125 5.650543 ACGAACTGTTGAAGCAATCTTTTT 58.349 33.333 0.00 0.00 31.48 1.94
180 182 1.177401 GGGGAACTTGTTGGAGATGC 58.823 55.000 0.00 0.00 0.00 3.91
187 189 4.623932 ACTTGTTGGAGATGCTCTACAA 57.376 40.909 6.71 6.71 44.60 2.41
215 217 7.687941 ATGTCTACCAGAATGTTGTTTTAGG 57.312 36.000 0.00 0.00 0.00 2.69
280 282 9.773328 ATATGTGAATACAATCTTGTTCAAACG 57.227 29.630 0.20 0.00 42.35 3.60
281 283 7.022055 TGTGAATACAATCTTGTTCAAACGT 57.978 32.000 0.20 0.00 42.35 3.99
287 289 3.982576 ATCTTGTTCAAACGTTGTCCC 57.017 42.857 0.00 0.00 0.00 4.46
353 356 1.064654 GCGGTCATGATCTTCAAAGCC 59.935 52.381 4.09 0.00 0.00 4.35
394 398 8.574251 TTCAAAGCTAAAAGGCATCTTACATA 57.426 30.769 0.00 0.00 32.01 2.29
514 525 1.001048 TCTTCCGATTATACGCCACCG 60.001 52.381 0.00 0.00 41.14 4.94
573 586 1.401539 GGACGTCTGCAAATGCTTTCC 60.402 52.381 16.46 2.03 42.66 3.13
584 597 5.361571 TGCAAATGCTTTCCTCATATCATGT 59.638 36.000 6.97 0.00 42.66 3.21
613 626 2.308570 ACAACAATAGCCACTCATCCCA 59.691 45.455 0.00 0.00 0.00 4.37
634 650 5.104776 CCCAGGATGAGATTTAGAAGTCACA 60.105 44.000 0.00 0.00 39.69 3.58
642 658 7.957002 TGAGATTTAGAAGTCACAGAAGAAGT 58.043 34.615 0.00 0.00 0.00 3.01
655 671 4.245660 CAGAAGAAGTATCGGTTGAAGCA 58.754 43.478 0.00 0.00 0.00 3.91
656 672 4.690748 CAGAAGAAGTATCGGTTGAAGCAA 59.309 41.667 0.00 0.00 0.00 3.91
702 718 5.454187 GCAATCCATCATCATTGGTCCAAAT 60.454 40.000 8.75 0.00 35.64 2.32
707 723 5.363292 CCATCATCATTGGTCCAAATGGTTA 59.637 40.000 18.60 4.61 37.98 2.85
710 726 6.934056 TCATCATTGGTCCAAATGGTTAAAG 58.066 36.000 8.75 0.00 37.98 1.85
715 731 8.435982 TCATTGGTCCAAATGGTTAAAGAAATT 58.564 29.630 8.75 0.00 37.98 1.82
717 733 6.529220 TGGTCCAAATGGTTAAAGAAATTGG 58.471 36.000 0.00 0.00 37.71 3.16
725 741 8.664669 AATGGTTAAAGAAATTGGACCATACT 57.335 30.769 6.28 0.00 43.10 2.12
735 751 4.314740 TTGGACCATACTGCAAAACAAC 57.685 40.909 0.00 0.00 0.00 3.32
738 754 3.296628 GACCATACTGCAAAACAACACG 58.703 45.455 0.00 0.00 0.00 4.49
740 756 2.292016 CCATACTGCAAAACAACACGGA 59.708 45.455 0.00 0.00 0.00 4.69
773 790 2.831333 AGTCATCGCATCAATGGTCTC 58.169 47.619 0.00 0.00 0.00 3.36
835 1330 4.904241 TCCGCCCAATTTCATTTGAATTT 58.096 34.783 0.00 0.00 33.54 1.82
919 1424 3.097162 GGGTCCCACCTCCCATCC 61.097 72.222 1.78 0.00 42.95 3.51
934 1439 2.034124 CCATCCGCCCAAATTGAATCT 58.966 47.619 0.00 0.00 0.00 2.40
959 1464 3.441290 CGCCTCTCCTTCGTCCGT 61.441 66.667 0.00 0.00 0.00 4.69
1158 1665 1.306568 GGAGCTGGAGAGGGAGGTT 60.307 63.158 0.00 0.00 0.00 3.50
1221 1728 2.107141 GCCCGCTTCATAGACGCT 59.893 61.111 0.00 0.00 0.00 5.07
1310 1820 2.099756 CGGTACTAGGGTTTCCGGTTAG 59.900 54.545 0.00 0.00 37.73 2.34
1315 1825 0.321034 AGGGTTTCCGGTTAGTTCGC 60.321 55.000 0.00 0.00 38.33 4.70
1383 1894 9.226345 GTGCTTGAAGTATACATAGAAAAATGC 57.774 33.333 5.50 0.00 0.00 3.56
1458 2756 3.604875 AAAGCCAGCATTTTGGATCTG 57.395 42.857 0.00 0.00 40.87 2.90
1465 2763 4.081862 CCAGCATTTTGGATCTGTGTTGAT 60.082 41.667 0.00 0.00 40.87 2.57
1478 2776 7.334421 GGATCTGTGTTGATACTTTTGAGCTAA 59.666 37.037 0.00 0.00 0.00 3.09
1519 2817 4.633565 GGGATTTGTTTCTGTTTGCACAAA 59.366 37.500 0.00 0.00 41.93 2.83
1603 2901 7.370383 CCACTTGTAGTTGACAATATTTGCTT 58.630 34.615 0.00 0.00 46.95 3.91
1653 2952 1.937223 TGTGTTGTGCGGAACTAACTG 59.063 47.619 0.00 0.00 0.00 3.16
1788 3087 5.179555 GCGTGAAACAGAACCTAGAAATTCT 59.820 40.000 0.00 0.00 35.74 2.40
1881 3180 4.819630 TGACCTTACAGGATTGTTGTGTTC 59.180 41.667 0.00 0.00 37.67 3.18
1957 3256 8.987890 AGAAAACATGTTGCATGGTTATTTTAC 58.012 29.630 12.82 5.51 0.00 2.01
2054 3371 4.202245 TGCTGAGATAACTGTAACCCAC 57.798 45.455 0.00 0.00 0.00 4.61
2147 3464 8.170553 CCTTTGCAAATTCAACTAAATATGTGC 58.829 33.333 13.23 0.00 0.00 4.57
2240 3557 3.239861 GCTCAGGCTGCTACTTTGT 57.760 52.632 10.34 0.00 35.22 2.83
2380 3697 1.069636 GCAGAAGTTCCAGTTGAAGCG 60.070 52.381 0.00 0.00 32.37 4.68
2389 3706 0.239082 CAGTTGAAGCGCAATCTGCA 59.761 50.000 11.47 0.00 45.36 4.41
2420 3737 1.205064 CACGCCGAAGCTGAACAAG 59.795 57.895 0.00 0.00 36.60 3.16
2503 3820 5.067023 GCCCAATCTACTGGAGAAAATGAAG 59.933 44.000 0.00 0.00 38.96 3.02
2504 3821 5.067023 CCCAATCTACTGGAGAAAATGAAGC 59.933 44.000 0.00 0.00 38.96 3.86
2537 3854 1.457346 CATGGAGAAGGTGGAGCAAC 58.543 55.000 0.00 0.00 0.00 4.17
2560 3877 8.340443 CAACTGAATGTGAATATACATCCTGTG 58.660 37.037 0.00 0.00 40.24 3.66
2563 3880 8.806429 TGAATGTGAATATACATCCTGTGTTT 57.194 30.769 0.00 0.00 40.24 2.83
2695 4012 5.395324 GCCTGATTCAAGTAGTACTTAGGCA 60.395 44.000 31.37 19.67 46.53 4.75
2881 4198 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
2883 4200 2.277247 GTGTGTGTGTGTGTGCGC 60.277 61.111 0.00 0.00 0.00 6.09
2989 4316 1.903860 ACAAGGCGGTACATGTTCCTA 59.096 47.619 18.18 0.00 0.00 2.94
3007 4334 5.231702 TCCTATTTTGTCACCCGTAGTTT 57.768 39.130 0.00 0.00 0.00 2.66
3069 4396 3.334691 TGTGAAGCCTGTGTAATAGCAC 58.665 45.455 0.00 0.00 39.65 4.40
3107 4434 3.873952 CCTGCTAGCTGTTTTCTCATACC 59.126 47.826 17.23 0.00 0.00 2.73
3110 4437 5.500234 TGCTAGCTGTTTTCTCATACCATT 58.500 37.500 17.23 0.00 0.00 3.16
3139 4466 3.627577 GTGGTCAGCATTCGGAACATTAT 59.372 43.478 0.00 0.00 36.55 1.28
3140 4467 3.627123 TGGTCAGCATTCGGAACATTATG 59.373 43.478 0.00 0.00 29.19 1.90
3141 4468 3.876914 GGTCAGCATTCGGAACATTATGA 59.123 43.478 0.00 0.00 0.00 2.15
3142 4469 4.516698 GGTCAGCATTCGGAACATTATGAT 59.483 41.667 0.00 0.00 0.00 2.45
3143 4470 5.446709 GTCAGCATTCGGAACATTATGATG 58.553 41.667 0.00 0.00 36.14 3.07
3144 4471 4.023792 TCAGCATTCGGAACATTATGATGC 60.024 41.667 0.00 2.76 35.13 3.91
3145 4472 4.023450 CAGCATTCGGAACATTATGATGCT 60.023 41.667 9.91 9.91 42.69 3.79
3146 4473 4.581824 AGCATTCGGAACATTATGATGCTT 59.418 37.500 9.91 0.00 39.47 3.91
3147 4474 5.764686 AGCATTCGGAACATTATGATGCTTA 59.235 36.000 9.91 0.00 39.47 3.09
3148 4475 6.432162 AGCATTCGGAACATTATGATGCTTAT 59.568 34.615 9.91 0.00 39.47 1.73
3159 4486 9.457436 ACATTATGATGCTTATGATGCTCATAA 57.543 29.630 14.10 14.10 40.21 1.90
3186 4513 9.950496 ATTAAGCAGAAGTTATCGGATATCAAT 57.050 29.630 4.83 0.22 0.00 2.57
3298 4625 8.778358 ACTGTGATTATCAGTCTTTTCAGTTTC 58.222 33.333 0.00 0.00 41.52 2.78
3300 4627 9.119418 TGTGATTATCAGTCTTTTCAGTTTCAA 57.881 29.630 0.00 0.00 0.00 2.69
3410 4737 5.055265 TCAAACTTAAACAGGATGGGTCA 57.945 39.130 0.00 0.00 43.62 4.02
3421 4805 1.406539 GGATGGGTCATGTTGTGCATC 59.593 52.381 0.00 0.00 35.19 3.91
3458 4842 6.202570 TGCACATGGTTAAGAAAGAAAATTGC 59.797 34.615 0.00 0.00 0.00 3.56
3498 4882 3.215568 CACACTGTTGCGCCCCAA 61.216 61.111 4.18 0.00 0.00 4.12
3517 4901 1.959042 ATGGCCGTTTGCATAGAGAG 58.041 50.000 0.00 0.00 43.89 3.20
3573 4957 4.699637 TGTCTTTTATATACCGCCACAGG 58.300 43.478 0.00 0.00 37.30 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 22 5.473273 AGAAAACCTTCCCCTAAAATTGGT 58.527 37.500 0.00 0.00 31.28 3.67
49 51 1.244019 CGGCCCAACTTTCCCTTCTG 61.244 60.000 0.00 0.00 0.00 3.02
58 60 4.134563 GACACATATAATCGGCCCAACTT 58.865 43.478 0.00 0.00 0.00 2.66
59 61 3.496160 GGACACATATAATCGGCCCAACT 60.496 47.826 0.00 0.00 0.00 3.16
108 110 6.866480 AGTTGAGACAAAAAGATTGCTTCAA 58.134 32.000 0.00 0.00 31.82 2.69
117 119 3.013921 ACGCCAAGTTGAGACAAAAAGA 58.986 40.909 3.87 0.00 0.00 2.52
118 120 3.420839 ACGCCAAGTTGAGACAAAAAG 57.579 42.857 3.87 0.00 0.00 2.27
119 121 4.966965 TTACGCCAAGTTGAGACAAAAA 57.033 36.364 3.87 0.00 0.00 1.94
120 122 4.576873 TGATTACGCCAAGTTGAGACAAAA 59.423 37.500 3.87 0.00 0.00 2.44
121 123 4.130857 TGATTACGCCAAGTTGAGACAAA 58.869 39.130 3.87 0.00 0.00 2.83
123 125 3.394674 TGATTACGCCAAGTTGAGACA 57.605 42.857 3.87 0.00 0.00 3.41
189 191 9.396022 CCTAAAACAACATTCTGGTAGACATAT 57.604 33.333 0.00 0.00 0.00 1.78
190 192 7.335924 GCCTAAAACAACATTCTGGTAGACATA 59.664 37.037 0.00 0.00 0.00 2.29
215 217 6.400621 GGAATGTAAGGCGTATTTTGTTTTGC 60.401 38.462 0.00 0.00 0.00 3.68
280 282 4.202070 TGAAAATGGAAGAAACGGGACAAC 60.202 41.667 0.00 0.00 0.00 3.32
281 283 3.954904 TGAAAATGGAAGAAACGGGACAA 59.045 39.130 0.00 0.00 0.00 3.18
353 356 7.455331 AGCTTTGAAAAAGAAAAATCTGACG 57.545 32.000 3.95 0.00 0.00 4.35
514 525 4.857037 GGTGTAATTTTTCAACCTGCGATC 59.143 41.667 0.00 0.00 0.00 3.69
584 597 7.101652 TGAGTGGCTATTGTTGTTTGTAAAA 57.898 32.000 0.00 0.00 0.00 1.52
613 626 7.398618 TCTTCTGTGACTTCTAAATCTCATCCT 59.601 37.037 0.00 0.00 0.00 3.24
634 650 4.537135 TGCTTCAACCGATACTTCTTCT 57.463 40.909 0.00 0.00 0.00 2.85
642 658 1.612199 GGGGTGTTGCTTCAACCGATA 60.612 52.381 7.17 0.00 45.34 2.92
655 671 1.474855 GCTTGTTTTGCATGGGGTGTT 60.475 47.619 0.00 0.00 0.00 3.32
656 672 0.106521 GCTTGTTTTGCATGGGGTGT 59.893 50.000 0.00 0.00 0.00 4.16
702 718 6.071616 GCAGTATGGTCCAATTTCTTTAACCA 60.072 38.462 0.00 0.00 36.98 3.67
707 723 6.418057 TTTGCAGTATGGTCCAATTTCTTT 57.582 33.333 0.00 0.00 35.86 2.52
710 726 5.537188 TGTTTTGCAGTATGGTCCAATTTC 58.463 37.500 0.00 0.00 35.86 2.17
715 731 3.067461 GTGTTGTTTTGCAGTATGGTCCA 59.933 43.478 0.00 0.00 35.86 4.02
717 733 3.296628 CGTGTTGTTTTGCAGTATGGTC 58.703 45.455 0.00 0.00 35.86 4.02
762 779 5.507637 AGAGCAATTTGAGAGACCATTGAT 58.492 37.500 0.00 0.00 0.00 2.57
773 790 4.488126 TTTGAACGGAGAGCAATTTGAG 57.512 40.909 0.00 0.00 0.00 3.02
835 1330 3.251484 AGGGGTCACTTCTGAAATCTCA 58.749 45.455 0.00 0.00 0.00 3.27
919 1424 3.539604 AGAGAGAGATTCAATTTGGGCG 58.460 45.455 0.00 0.00 0.00 6.13
923 1428 3.559242 GGCGGAGAGAGAGATTCAATTTG 59.441 47.826 0.00 0.00 0.00 2.32
934 1439 0.106918 GAAGGAGAGGCGGAGAGAGA 60.107 60.000 0.00 0.00 0.00 3.10
959 1464 2.573869 CGGAGGCGAGCAGAGAAA 59.426 61.111 0.00 0.00 0.00 2.52
1221 1728 4.129757 TCGAGGCGCGATACTGTA 57.870 55.556 12.10 0.00 45.59 2.74
1329 1839 2.417239 TCGACGGGCAAATCATACAAAC 59.583 45.455 0.00 0.00 0.00 2.93
1399 1910 0.392193 CCAAGCCCTGACTAGCAGTG 60.392 60.000 11.57 3.70 43.33 3.66
1458 2756 8.256611 TCTCATTAGCTCAAAAGTATCAACAC 57.743 34.615 0.00 0.00 0.00 3.32
1465 2763 6.590292 CCGTTTCTCTCATTAGCTCAAAAGTA 59.410 38.462 0.00 0.00 0.00 2.24
1478 2776 1.490574 CCTCCCTCCGTTTCTCTCAT 58.509 55.000 0.00 0.00 0.00 2.90
1788 3087 8.807948 AGCTTACCATAAGAAGAAATAAGCAA 57.192 30.769 13.73 0.00 43.42 3.91
1811 3110 7.042925 TCGTTTCTTAACTGAACTAAGTTGAGC 60.043 37.037 4.49 0.00 41.29 4.26
1881 3180 1.254026 TTCCCCGTCACTCACAGTAG 58.746 55.000 0.00 0.00 0.00 2.57
1957 3256 3.429141 CTGCCAGCTCACGCCTTG 61.429 66.667 0.00 0.00 36.60 3.61
2054 3371 5.350914 TCGCATTTGAAAGGGCAAATAATTG 59.649 36.000 0.00 0.00 44.30 2.32
2089 3406 2.742053 GCGAGAAAAATAGCAGTCCACA 59.258 45.455 0.00 0.00 0.00 4.17
2147 3464 4.102035 TCTGAGTTCTGATGATGTGACG 57.898 45.455 0.00 0.00 0.00 4.35
2380 3697 2.772691 GGCTCCAGCTGCAGATTGC 61.773 63.158 20.43 14.97 40.03 3.56
2440 3757 3.056107 CCTCGGTCTTGGACTTGAACATA 60.056 47.826 0.00 0.00 32.47 2.29
2485 3802 6.149973 CACATTGCTTCATTTTCTCCAGTAGA 59.850 38.462 0.00 0.00 0.00 2.59
2486 3803 6.072286 ACACATTGCTTCATTTTCTCCAGTAG 60.072 38.462 0.00 0.00 0.00 2.57
2504 3821 0.522626 TCCATGCGAGCAACACATTG 59.477 50.000 0.57 0.00 38.99 2.82
2518 3835 1.004044 AGTTGCTCCACCTTCTCCATG 59.996 52.381 0.00 0.00 0.00 3.66
2695 4012 4.623932 TGCTTTGTCAGTAACAGATCCT 57.376 40.909 0.00 0.00 39.58 3.24
2806 4123 5.391736 CCTCTGTCTCAAAATGCAAGACATC 60.392 44.000 16.42 0.00 45.99 3.06
2814 4131 3.064900 ACTCCCTCTGTCTCAAAATGC 57.935 47.619 0.00 0.00 0.00 3.56
2893 4210 2.277247 CCAAAATAGCCGCACGCG 60.277 61.111 3.53 3.53 44.76 6.01
2895 4212 0.179200 GTGACCAAAATAGCCGCACG 60.179 55.000 0.00 0.00 0.00 5.34
2899 4216 2.678336 GGAGAAGTGACCAAAATAGCCG 59.322 50.000 0.00 0.00 0.00 5.52
3014 4341 7.479980 GCAATGTTAGCCTATCACACATTAAA 58.520 34.615 0.47 0.00 36.21 1.52
3046 4373 3.751175 TGCTATTACACAGGCTTCACAAC 59.249 43.478 0.00 0.00 0.00 3.32
3069 4396 8.243426 CAGCTAGCAGGAGAATTAAGAGTATAG 58.757 40.741 18.83 0.00 0.00 1.31
3107 4434 4.794762 CGAATGCTGACCACATTGTAAATG 59.205 41.667 0.00 0.00 37.85 2.32
3110 4437 2.746904 CCGAATGCTGACCACATTGTAA 59.253 45.455 0.00 0.00 37.85 2.41
3159 4486 9.778741 TTGATATCCGATAACTTCTGCTTAATT 57.221 29.630 0.00 0.00 0.00 1.40
3254 4581 5.184479 TCACAGTGCTAGAAATACTACCGTT 59.816 40.000 0.00 0.00 0.00 4.44
3256 4583 5.244785 TCACAGTGCTAGAAATACTACCG 57.755 43.478 0.00 0.00 0.00 4.02
3298 4625 7.365741 AGCTCTGAAAAGTATTCATGTTGTTG 58.634 34.615 0.00 0.00 0.00 3.33
3300 4627 8.621532 TTAGCTCTGAAAAGTATTCATGTTGT 57.378 30.769 0.00 0.00 0.00 3.32
3384 4711 6.607019 ACCCATCCTGTTTAAGTTTGAACTA 58.393 36.000 0.00 0.00 38.57 2.24
3410 4737 6.665465 CAATGAGATTATCGATGCACAACAT 58.335 36.000 8.54 4.34 43.54 2.71
3421 4805 5.428496 AACCATGTGCAATGAGATTATCG 57.572 39.130 9.56 0.00 0.00 2.92
3498 4882 1.475751 CCTCTCTATGCAAACGGCCAT 60.476 52.381 2.24 0.00 43.89 4.40
3517 4901 5.278169 CCTCAATACACATTTGCATAGAGCC 60.278 44.000 0.00 0.00 44.83 4.70


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

AutoCloner maintained by Alex Coulton.