Multiple sequence alignment - TraesCS7B01G112000

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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 TraesCS7B01G112000 chr7B 100.000 3355 0 0 1 3355 128447480 128444126 0.000000e+00 6196
1 TraesCS7B01G112000 chr7D 91.498 2670 101 42 696 3318 165154859 165152269 0.000000e+00 3557
2 TraesCS7B01G112000 chr7D 85.232 711 75 16 5 686 165155609 165154900 0.000000e+00 704
3 TraesCS7B01G112000 chr7A 96.131 1835 52 14 696 2523 166989161 166987339 0.000000e+00 2977
4 TraesCS7B01G112000 chr7A 87.040 625 43 13 2434 3036 166987387 166986779 0.000000e+00 671
5 TraesCS7B01G112000 chr7A 84.564 447 44 6 6 428 166989932 166989487 1.440000e-113 420
6 TraesCS7B01G112000 chr7A 84.324 185 18 5 3181 3355 166986733 166986550 1.600000e-38 171
7 TraesCS7B01G112000 chr7A 88.350 103 9 2 586 686 166989325 166989224 1.630000e-23 121
8 TraesCS7B01G112000 chr5B 88.303 436 50 1 1721 2156 254501350 254501784 3.840000e-144 521
9 TraesCS7B01G112000 chr1A 90.955 199 18 0 1721 1919 277625470 277625272 5.520000e-68 268
10 TraesCS7B01G112000 chr1A 91.099 191 17 0 1723 1913 277622954 277622764 3.320000e-65 259
11 TraesCS7B01G112000 chr1A 90.576 191 18 0 1723 1913 277617006 277616816 1.540000e-63 254
12 TraesCS7B01G112000 chr1A 90.576 191 18 0 1723 1913 277618988 277618798 1.540000e-63 254
13 TraesCS7B01G112000 chr1A 90.576 191 18 0 1723 1913 277620971 277620781 1.540000e-63 254
14 TraesCS7B01G112000 chr1A 90.576 191 18 0 1723 1913 277625015 277624825 1.540000e-63 254
15 TraesCS7B01G112000 chr4A 93.684 95 6 0 1898 1992 494075117 494075211 3.490000e-30 143


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 TraesCS7B01G112000 chr7B 128444126 128447480 3354 True 6196.000000 6196 100.000000 1 3355 1 chr7B.!!$R1 3354
1 TraesCS7B01G112000 chr7D 165152269 165155609 3340 True 2130.500000 3557 88.365000 5 3318 2 chr7D.!!$R1 3313
2 TraesCS7B01G112000 chr7A 166986550 166989932 3382 True 872.000000 2977 88.081800 6 3355 5 chr7A.!!$R1 3349
3 TraesCS7B01G112000 chr1A 277616816 277625470 8654 True 257.166667 268 90.726333 1721 1919 6 chr1A.!!$R1 198

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
556 583 0.172578 CTCTGCGGATGGTGAACGTA 59.827 55.0 0.00 0.0 0.0 3.57 F
783 921 0.389948 CACGCGAAACCTAGCTTCCT 60.390 55.0 15.93 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1796 0.105778 CCGAGAAGAAGATGCCCTCC 59.894 60.0 0.00 0.0 0.00 4.30 R
2587 10848 0.533755 CAATCGGGCCACAGAGGATC 60.534 60.0 4.39 0.0 41.22 3.36 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 21 1.562575 CGCCGTTTTGCTACGAACCT 61.563 55.000 7.91 0.00 43.99 3.50
35 36 1.953686 GAACCTGCCAACACTTTGCTA 59.046 47.619 0.00 0.00 0.00 3.49
40 42 2.880890 CTGCCAACACTTTGCTAGAACT 59.119 45.455 0.00 0.00 0.00 3.01
95 97 2.527123 TGGAACCGGTGCCCACTA 60.527 61.111 29.84 7.30 0.00 2.74
133 135 3.680786 CCTCACCTGCGACGTGGA 61.681 66.667 14.26 0.00 0.00 4.02
139 141 1.154225 CCTGCGACGTGGATTTTGC 60.154 57.895 0.11 0.00 0.00 3.68
261 287 6.903419 AGATTTCTGTTCGTTGATTTCTTCC 58.097 36.000 0.00 0.00 0.00 3.46
262 288 5.432885 TTTCTGTTCGTTGATTTCTTCCC 57.567 39.130 0.00 0.00 0.00 3.97
344 370 1.371337 GCAAGCATGACGATCCAGCA 61.371 55.000 0.00 0.00 0.00 4.41
357 383 3.429141 CAGCACTGGAGCAAGCCG 61.429 66.667 0.00 0.00 36.85 5.52
366 392 1.277842 TGGAGCAAGCCGTCATTAGAA 59.722 47.619 0.00 0.00 0.00 2.10
391 417 0.598419 TCCATGATGATCGTGCGCTC 60.598 55.000 9.73 3.51 32.19 5.03
488 515 1.747355 CGACAACGGGGTAGACACTAT 59.253 52.381 0.00 0.00 35.72 2.12
508 535 6.479990 CACTATCTTTTGATGTATGGAAGCGA 59.520 38.462 0.00 0.00 39.88 4.93
516 543 0.463833 GTATGGAAGCGACAAGGGGG 60.464 60.000 0.00 0.00 0.00 5.40
552 579 1.375908 GTGCTCTGCGGATGGTGAA 60.376 57.895 0.00 0.00 0.00 3.18
556 583 0.172578 CTCTGCGGATGGTGAACGTA 59.827 55.000 0.00 0.00 0.00 3.57
574 606 4.142790 ACGTAGAAGAAGACACAAGGAGA 58.857 43.478 0.00 0.00 0.00 3.71
583 615 0.898320 ACACAAGGAGAGATGACCCG 59.102 55.000 0.00 0.00 0.00 5.28
598 677 2.342650 CCCGGTCCAATGGTTGCAG 61.343 63.158 0.00 0.00 0.00 4.41
601 680 1.607467 GGTCCAATGGTTGCAGGCT 60.607 57.895 0.00 0.00 0.00 4.58
664 745 1.969862 CCCTTCTTGCTTTGGGCTG 59.030 57.895 0.00 0.00 42.39 4.85
689 770 3.716195 CCCGGGCCACATCAGTCA 61.716 66.667 8.08 0.00 0.00 3.41
691 772 2.040544 CCGGGCCACATCAGTCAAC 61.041 63.158 4.39 0.00 0.00 3.18
692 773 1.003355 CGGGCCACATCAGTCAACT 60.003 57.895 4.39 0.00 0.00 3.16
694 775 1.134401 CGGGCCACATCAGTCAACTAT 60.134 52.381 4.39 0.00 0.00 2.12
731 869 1.944024 AGTCTCGAGATACTTCCAGCG 59.056 52.381 19.90 0.00 0.00 5.18
749 887 1.942127 GCGCCCCCATTTTTACCAAAC 60.942 52.381 0.00 0.00 0.00 2.93
751 889 1.338294 GCCCCCATTTTTACCAAACCG 60.338 52.381 0.00 0.00 0.00 4.44
783 921 0.389948 CACGCGAAACCTAGCTTCCT 60.390 55.000 15.93 0.00 0.00 3.36
846 984 1.394151 CCTCCACCTCTCCCTCCTT 59.606 63.158 0.00 0.00 0.00 3.36
882 1020 2.432510 ACTTCAAATCACCCGGCAAAAA 59.567 40.909 0.00 0.00 0.00 1.94
885 1023 1.991965 CAAATCACCCGGCAAAAATCG 59.008 47.619 0.00 0.00 0.00 3.34
1015 1153 2.631268 CCCACCCTATAAACCTCCTCCA 60.631 54.545 0.00 0.00 0.00 3.86
1016 1154 3.120108 CCACCCTATAAACCTCCTCCAA 58.880 50.000 0.00 0.00 0.00 3.53
1041 1179 1.304282 CTCCATTCCCCCACACCAG 59.696 63.158 0.00 0.00 0.00 4.00
1074 1212 2.106684 GTCCCATCTCCCAAATCCCTAC 59.893 54.545 0.00 0.00 0.00 3.18
1092 1231 0.400213 ACGCAGAAATCCTTCCCACA 59.600 50.000 0.00 0.00 31.28 4.17
1567 1706 2.279186 CGCGCCATCGACACCATA 60.279 61.111 0.00 0.00 38.10 2.74
1615 1754 4.498520 CTGCGCTGGATCGACGGT 62.499 66.667 9.73 0.00 0.00 4.83
1825 1964 2.343758 GGCAAGCTGGACGAGTCA 59.656 61.111 5.55 0.00 0.00 3.41
2152 10370 2.109425 TCGACGAGGACTTCTGATCA 57.891 50.000 0.00 0.00 0.00 2.92
2171 10389 6.700352 TGATCAGTCCGATGATAATATGCAA 58.300 36.000 0.00 0.00 40.02 4.08
2395 10615 1.970640 GCCCCTGTTTGAGGAATTGTT 59.029 47.619 0.00 0.00 46.33 2.83
2420 10641 3.866379 AAGCATGCCAACCTGCGGA 62.866 57.895 15.66 0.00 43.17 5.54
2554 10815 3.244457 CGGATAGGGTTCCCAAGGATTAC 60.244 52.174 10.73 0.00 31.61 1.89
2579 10840 1.339342 GGTTTTAGTTAGGGGCGCAGA 60.339 52.381 10.83 0.00 0.00 4.26
2736 11017 3.378427 AGAGACGCTTGGATTTATTTGGC 59.622 43.478 0.00 0.00 0.00 4.52
2771 11052 5.510861 CGGAGGAATCTACCGTATGGAAAAT 60.511 44.000 8.33 0.00 41.47 1.82
2784 11065 2.368439 TGGAAAATGAGATCTTGGGCG 58.632 47.619 0.00 0.00 0.00 6.13
2793 11074 3.244770 TGAGATCTTGGGCGGTAACTTTT 60.245 43.478 0.00 0.00 0.00 2.27
2794 11075 3.756963 GAGATCTTGGGCGGTAACTTTTT 59.243 43.478 0.00 0.00 0.00 1.94
2800 11081 1.465200 GGCGGTAACTTTTTGGGCCA 61.465 55.000 0.00 0.00 38.88 5.36
2842 11125 3.240302 GTGATATGGGCTGGGTAGTACT 58.760 50.000 0.00 0.00 0.00 2.73
2843 11126 4.413760 GTGATATGGGCTGGGTAGTACTA 58.586 47.826 0.00 0.00 0.00 1.82
2844 11127 4.220163 GTGATATGGGCTGGGTAGTACTAC 59.780 50.000 22.53 22.53 35.40 2.73
2846 11129 2.154567 TGGGCTGGGTAGTACTACTG 57.845 55.000 27.71 19.60 36.36 2.74
2847 11130 1.360162 TGGGCTGGGTAGTACTACTGT 59.640 52.381 27.71 0.00 36.36 3.55
2848 11131 2.582172 TGGGCTGGGTAGTACTACTGTA 59.418 50.000 27.71 15.50 36.36 2.74
2866 11159 4.624024 ACTGTACGGTACATCAAAATGTCG 59.376 41.667 20.35 8.10 42.59 4.35
2908 11201 2.626582 AGCTGACTGACAAGCAAGC 58.373 52.632 0.71 0.00 0.00 4.01
2909 11202 1.206072 GCTGACTGACAAGCAAGCG 59.794 57.895 0.00 0.00 0.00 4.68
2910 11203 1.224069 GCTGACTGACAAGCAAGCGA 61.224 55.000 0.00 0.00 0.00 4.93
2911 11204 1.436600 CTGACTGACAAGCAAGCGAT 58.563 50.000 0.00 0.00 0.00 4.58
2912 11205 1.392853 CTGACTGACAAGCAAGCGATC 59.607 52.381 0.00 0.00 0.00 3.69
2913 11206 1.001293 TGACTGACAAGCAAGCGATCT 59.999 47.619 0.00 0.00 0.00 2.75
2943 11236 1.205064 CTTTGTTGTGAGCGAGGCG 59.795 57.895 0.00 0.00 0.00 5.52
2998 11291 2.732094 CACGTCGACGGTGAACCC 60.732 66.667 37.89 0.00 44.95 4.11
3005 11298 1.079336 GACGGTGAACCCTACTGCC 60.079 63.158 0.00 0.00 0.00 4.85
3009 11302 4.077184 TGAACCCTACTGCCGCGG 62.077 66.667 24.05 24.05 0.00 6.46
3036 11329 1.008538 CAACGTCCAAACTGCCTGC 60.009 57.895 0.00 0.00 0.00 4.85
3037 11330 2.193536 AACGTCCAAACTGCCTGCC 61.194 57.895 0.00 0.00 0.00 4.85
3038 11331 2.281761 CGTCCAAACTGCCTGCCT 60.282 61.111 0.00 0.00 0.00 4.75
3039 11332 2.620112 CGTCCAAACTGCCTGCCTG 61.620 63.158 0.00 0.00 0.00 4.85
3040 11333 1.529244 GTCCAAACTGCCTGCCTGT 60.529 57.895 0.00 0.00 0.00 4.00
3041 11334 1.228245 TCCAAACTGCCTGCCTGTC 60.228 57.895 0.00 0.00 0.00 3.51
3044 11337 3.850098 AAACTGCCTGCCTGTCCCG 62.850 63.158 0.00 0.00 0.00 5.14
3049 11342 2.671070 CCTGCCTGTCCCGTTCAT 59.329 61.111 0.00 0.00 0.00 2.57
3050 11343 1.002134 CCTGCCTGTCCCGTTCATT 60.002 57.895 0.00 0.00 0.00 2.57
3051 11344 1.026718 CCTGCCTGTCCCGTTCATTC 61.027 60.000 0.00 0.00 0.00 2.67
3052 11345 0.321564 CTGCCTGTCCCGTTCATTCA 60.322 55.000 0.00 0.00 0.00 2.57
3053 11346 0.321564 TGCCTGTCCCGTTCATTCAG 60.322 55.000 0.00 0.00 0.00 3.02
3054 11347 0.321653 GCCTGTCCCGTTCATTCAGT 60.322 55.000 0.00 0.00 0.00 3.41
3055 11348 1.882352 GCCTGTCCCGTTCATTCAGTT 60.882 52.381 0.00 0.00 0.00 3.16
3056 11349 2.504367 CCTGTCCCGTTCATTCAGTTT 58.496 47.619 0.00 0.00 0.00 2.66
3081 11374 2.629051 GGTTATGGCTGTACGAAGCTT 58.371 47.619 0.00 0.00 43.06 3.74
3099 11392 0.463654 TTGCAGCGTCCAAGTGTCTT 60.464 50.000 0.00 0.00 0.00 3.01
3105 11398 1.194772 GCGTCCAAGTGTCTTTGTAGC 59.805 52.381 0.00 0.00 0.00 3.58
3106 11399 2.479837 CGTCCAAGTGTCTTTGTAGCA 58.520 47.619 0.00 0.00 0.00 3.49
3108 11401 2.224314 GTCCAAGTGTCTTTGTAGCAGC 59.776 50.000 0.00 0.00 0.00 5.25
3109 11402 2.158827 TCCAAGTGTCTTTGTAGCAGCA 60.159 45.455 0.00 0.00 0.00 4.41
3110 11403 2.031682 CCAAGTGTCTTTGTAGCAGCAC 60.032 50.000 0.00 0.00 0.00 4.40
3157 11463 1.068083 ACACCAGACACAGAGCACG 59.932 57.895 0.00 0.00 0.00 5.34
3166 11472 3.726517 CAGAGCACGCCCAAACCG 61.727 66.667 0.00 0.00 0.00 4.44
3171 11477 4.676586 CACGCCCAAACCGAACGC 62.677 66.667 0.00 0.00 0.00 4.84
3211 11517 0.948623 GGTGGCGCCAAAATGGTTTC 60.949 55.000 34.66 15.51 40.46 2.78
3212 11518 1.006805 TGGCGCCAAAATGGTTTCG 60.007 52.632 30.74 0.00 40.46 3.46
3213 11519 1.287503 GGCGCCAAAATGGTTTCGA 59.712 52.632 24.80 0.00 40.46 3.71
3214 11520 0.108851 GGCGCCAAAATGGTTTCGAT 60.109 50.000 24.80 0.00 40.46 3.59
3215 11521 1.268265 GCGCCAAAATGGTTTCGATC 58.732 50.000 0.00 0.00 40.46 3.69
3216 11522 1.534028 CGCCAAAATGGTTTCGATCG 58.466 50.000 9.36 9.36 40.46 3.69
3217 11523 1.129624 CGCCAAAATGGTTTCGATCGA 59.870 47.619 15.15 15.15 40.46 3.59
3218 11524 2.223249 CGCCAAAATGGTTTCGATCGAT 60.223 45.455 20.18 0.00 40.46 3.59
3219 11525 3.363178 GCCAAAATGGTTTCGATCGATC 58.637 45.455 20.18 15.68 40.46 3.69
3220 11526 3.607439 CCAAAATGGTTTCGATCGATCG 58.393 45.455 35.91 35.91 41.20 3.69
3221 11527 3.308595 CCAAAATGGTTTCGATCGATCGA 59.691 43.478 38.89 38.89 44.14 3.59
3295 11622 0.248336 TATGTTCGGCGTAGTGCTCG 60.248 55.000 6.85 0.00 45.43 5.03
3298 11625 1.509463 TTCGGCGTAGTGCTCGAAT 59.491 52.632 6.85 0.00 45.09 3.34
3320 11648 9.893305 CGAATACTTTCTGGACTTGTTATTTTT 57.107 29.630 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.559149 GGTTCGTAGCAAAACGGCGA 61.559 55.000 16.62 0.00 43.05 5.54
1 2 1.154543 GGTTCGTAGCAAAACGGCG 60.155 57.895 4.80 4.80 43.05 6.46
2 3 0.110373 CAGGTTCGTAGCAAAACGGC 60.110 55.000 6.45 0.00 43.05 5.68
3 4 0.110373 GCAGGTTCGTAGCAAAACGG 60.110 55.000 6.45 0.00 43.05 4.44
20 21 2.618241 CAGTTCTAGCAAAGTGTTGGCA 59.382 45.455 0.00 0.00 35.10 4.92
35 36 1.299541 CAAACGCTGACACCAGTTCT 58.700 50.000 0.00 0.00 42.35 3.01
66 68 3.112709 GTTCCAGCACGTCGCCTC 61.113 66.667 6.39 0.00 44.04 4.70
95 97 2.388232 GCGTTTCGATTCCGGCACT 61.388 57.895 0.00 0.00 36.24 4.40
133 135 1.463674 CTAGCCGGTTCCAGCAAAAT 58.536 50.000 1.90 0.00 0.00 1.82
139 141 0.250513 AAAGAGCTAGCCGGTTCCAG 59.749 55.000 12.13 0.00 0.00 3.86
235 261 7.095017 GGAAGAAATCAACGAACAGAAATCTCT 60.095 37.037 0.00 0.00 0.00 3.10
254 280 0.536460 GCCGTGTTCCAGGGAAGAAA 60.536 55.000 0.00 0.00 41.36 2.52
303 329 1.803519 CTCTCTCGCGTCACAAGCC 60.804 63.158 5.77 0.00 0.00 4.35
306 332 2.258591 GCCTCTCTCGCGTCACAA 59.741 61.111 5.77 0.00 0.00 3.33
340 366 3.429141 CGGCTTGCTCCAGTGCTG 61.429 66.667 0.00 0.00 0.00 4.41
344 370 0.613260 TAATGACGGCTTGCTCCAGT 59.387 50.000 0.00 0.00 0.00 4.00
350 376 1.202076 GCAGTTCTAATGACGGCTTGC 60.202 52.381 0.00 0.00 0.00 4.01
357 383 5.761726 TCATCATGGATGCAGTTCTAATGAC 59.238 40.000 0.00 0.00 39.63 3.06
366 392 2.490991 CACGATCATCATGGATGCAGT 58.509 47.619 0.00 0.00 39.63 4.40
458 484 3.345808 CGTTGTCGTGGCTGTGGG 61.346 66.667 0.00 0.00 0.00 4.61
464 490 2.433664 CTACCCCGTTGTCGTGGC 60.434 66.667 0.00 0.00 38.11 5.01
466 492 0.665369 GTGTCTACCCCGTTGTCGTG 60.665 60.000 0.00 0.00 35.01 4.35
472 498 4.529377 TCAAAAGATAGTGTCTACCCCGTT 59.471 41.667 0.00 0.00 35.67 4.44
488 515 4.574892 TGTCGCTTCCATACATCAAAAGA 58.425 39.130 0.00 0.00 0.00 2.52
552 579 4.142790 TCTCCTTGTGTCTTCTTCTACGT 58.857 43.478 0.00 0.00 0.00 3.57
556 583 5.047377 GTCATCTCTCCTTGTGTCTTCTTCT 60.047 44.000 0.00 0.00 0.00 2.85
574 606 0.914417 ACCATTGGACCGGGTCATCT 60.914 55.000 27.32 8.94 33.68 2.90
583 615 0.323360 TAGCCTGCAACCATTGGACC 60.323 55.000 10.37 0.00 0.00 4.46
598 677 2.119029 GCCACCCGATTTGGTAGCC 61.119 63.158 0.00 0.00 37.09 3.93
601 680 1.377987 GCAGCCACCCGATTTGGTA 60.378 57.895 0.00 0.00 36.67 3.25
686 767 3.181506 GCTTGGTGCTTGCTATAGTTGAC 60.182 47.826 0.84 0.00 38.95 3.18
687 768 3.009723 GCTTGGTGCTTGCTATAGTTGA 58.990 45.455 0.84 0.00 38.95 3.18
689 770 2.369394 GGCTTGGTGCTTGCTATAGTT 58.631 47.619 0.84 0.00 42.39 2.24
691 772 1.312815 GGGCTTGGTGCTTGCTATAG 58.687 55.000 0.00 0.00 42.39 1.31
692 773 0.623194 TGGGCTTGGTGCTTGCTATA 59.377 50.000 0.00 0.00 42.39 1.31
694 775 1.303561 CTGGGCTTGGTGCTTGCTA 60.304 57.895 0.00 0.00 42.39 3.49
715 853 1.734137 GGCGCTGGAAGTATCTCGA 59.266 57.895 7.64 0.00 35.30 4.04
731 869 1.338294 CGGTTTGGTAAAAATGGGGGC 60.338 52.381 0.00 0.00 0.00 5.80
783 921 5.972382 GGTTGCTCACGTGTTGTTTATTTTA 59.028 36.000 16.51 0.00 0.00 1.52
882 1020 4.462834 GGAAGATTGGGGAAAAGTTTCGAT 59.537 41.667 0.00 0.00 38.06 3.59
885 1023 3.614150 GCGGAAGATTGGGGAAAAGTTTC 60.614 47.826 0.00 0.00 36.46 2.78
1015 1153 3.739613 GGGAATGGAGCGGGGGTT 61.740 66.667 0.00 0.00 0.00 4.11
1041 1179 3.268103 ATGGGACTGGCGGTGGTTC 62.268 63.158 2.25 0.00 0.00 3.62
1074 1212 1.672881 GATGTGGGAAGGATTTCTGCG 59.327 52.381 0.00 0.00 33.68 5.18
1126 1265 4.052518 AGGGCGGCAGGCATCTTT 62.053 61.111 12.47 0.00 46.16 2.52
1657 1796 0.105778 CCGAGAAGAAGATGCCCTCC 59.894 60.000 0.00 0.00 0.00 4.30
1825 1964 1.060622 GACGATCTCGAAGACGCGT 59.939 57.895 13.85 13.85 39.97 6.01
2152 10370 6.070596 TGGAGATTGCATATTATCATCGGACT 60.071 38.462 0.00 0.00 0.00 3.85
2420 10641 3.172575 CGAACATCGTCTGCGCGT 61.173 61.111 8.43 0.00 38.14 6.01
2426 10684 1.654105 GCATTTCGTCGAACATCGTCT 59.346 47.619 7.29 0.00 41.35 4.18
2429 10687 0.914996 GCGCATTTCGTCGAACATCG 60.915 55.000 7.29 11.59 41.07 3.84
2431 10689 1.058748 CGCGCATTTCGTCGAACAT 59.941 52.632 8.75 2.28 39.02 2.71
2470 10728 1.708027 CATTTCGTCGAACGCCCTC 59.292 57.895 7.29 0.00 42.21 4.30
2524 10782 4.541648 ACCCTATCCGCCGAGGCT 62.542 66.667 12.70 0.00 40.77 4.58
2525 10783 3.516866 GAACCCTATCCGCCGAGGC 62.517 68.421 3.59 3.59 40.77 4.70
2526 10784 2.735237 GAACCCTATCCGCCGAGG 59.265 66.667 0.00 0.00 42.97 4.63
2527 10785 2.735237 GGAACCCTATCCGCCGAG 59.265 66.667 0.00 0.00 0.00 4.63
2554 10815 2.739609 CGCCCCTAACTAAAACCCTACG 60.740 54.545 0.00 0.00 0.00 3.51
2579 10840 1.381872 CACAGAGGATCGGTCCCCT 60.382 63.158 12.23 0.33 40.21 4.79
2587 10848 0.533755 CAATCGGGCCACAGAGGATC 60.534 60.000 4.39 0.00 41.22 3.36
2642 10904 3.665745 AGCCAAGATTTCGTGCAAAAT 57.334 38.095 0.00 0.00 0.00 1.82
2712 10974 4.635765 CCAAATAAATCCAAGCGTCTCTGA 59.364 41.667 0.00 0.00 0.00 3.27
2736 11017 2.358267 AGATTCCTCCGCTACGTAACAG 59.642 50.000 0.00 0.00 0.00 3.16
2771 11052 1.568504 AGTTACCGCCCAAGATCTCA 58.431 50.000 0.00 0.00 0.00 3.27
2793 11074 1.347378 GGATCTTGCTTTTTGGCCCAA 59.653 47.619 0.00 0.00 0.00 4.12
2794 11075 0.975887 GGATCTTGCTTTTTGGCCCA 59.024 50.000 0.00 0.00 0.00 5.36
2842 11125 5.801444 CGACATTTTGATGTACCGTACAGTA 59.199 40.000 16.25 5.70 42.77 2.74
2843 11126 4.624024 CGACATTTTGATGTACCGTACAGT 59.376 41.667 16.25 7.25 42.77 3.55
2844 11127 4.624024 ACGACATTTTGATGTACCGTACAG 59.376 41.667 16.25 4.31 42.77 2.74
2846 11129 4.386652 ACACGACATTTTGATGTACCGTAC 59.613 41.667 1.40 1.40 34.62 3.67
2847 11130 4.558178 ACACGACATTTTGATGTACCGTA 58.442 39.130 6.12 0.00 34.62 4.02
2848 11131 3.395639 ACACGACATTTTGATGTACCGT 58.604 40.909 0.00 1.87 36.06 4.83
2908 11201 2.960957 AAGTGCCCGATCGCAGATCG 62.961 60.000 24.40 24.40 45.12 3.69
2909 11202 0.811616 AAAGTGCCCGATCGCAGATC 60.812 55.000 10.32 8.05 45.12 2.75
2910 11203 1.091771 CAAAGTGCCCGATCGCAGAT 61.092 55.000 10.32 0.00 45.12 2.90
2911 11204 1.741401 CAAAGTGCCCGATCGCAGA 60.741 57.895 10.32 0.00 40.05 4.26
2912 11205 1.577328 AACAAAGTGCCCGATCGCAG 61.577 55.000 10.32 4.13 40.05 5.18
2913 11206 1.599518 AACAAAGTGCCCGATCGCA 60.600 52.632 10.32 0.00 36.08 5.10
2943 11236 2.036346 AGAAACATGAGGCCACTTTTGC 59.964 45.455 5.01 0.00 0.00 3.68
3005 11298 4.214383 CGTTGCAGATCAGCCGCG 62.214 66.667 7.72 0.00 0.00 6.46
3009 11302 0.874390 TTTGGACGTTGCAGATCAGC 59.126 50.000 2.62 2.62 0.00 4.26
3036 11329 2.185004 AACTGAATGAACGGGACAGG 57.815 50.000 0.00 0.00 33.57 4.00
3037 11330 3.403038 AGAAACTGAATGAACGGGACAG 58.597 45.455 0.00 0.00 35.14 3.51
3038 11331 3.485463 AGAAACTGAATGAACGGGACA 57.515 42.857 0.00 0.00 0.00 4.02
3039 11332 3.120649 CGAAGAAACTGAATGAACGGGAC 60.121 47.826 0.00 0.00 0.00 4.46
3040 11333 3.064207 CGAAGAAACTGAATGAACGGGA 58.936 45.455 0.00 0.00 0.00 5.14
3041 11334 2.159627 CCGAAGAAACTGAATGAACGGG 59.840 50.000 0.00 0.00 35.24 5.28
3044 11337 6.314784 CCATAACCGAAGAAACTGAATGAAC 58.685 40.000 0.00 0.00 0.00 3.18
3049 11342 3.751175 CAGCCATAACCGAAGAAACTGAA 59.249 43.478 0.00 0.00 0.00 3.02
3050 11343 3.244422 ACAGCCATAACCGAAGAAACTGA 60.244 43.478 0.00 0.00 0.00 3.41
3051 11344 3.074412 ACAGCCATAACCGAAGAAACTG 58.926 45.455 0.00 0.00 0.00 3.16
3052 11345 3.418684 ACAGCCATAACCGAAGAAACT 57.581 42.857 0.00 0.00 0.00 2.66
3053 11346 3.061697 CGTACAGCCATAACCGAAGAAAC 59.938 47.826 0.00 0.00 0.00 2.78
3054 11347 3.056678 TCGTACAGCCATAACCGAAGAAA 60.057 43.478 0.00 0.00 0.00 2.52
3055 11348 2.492881 TCGTACAGCCATAACCGAAGAA 59.507 45.455 0.00 0.00 0.00 2.52
3056 11349 2.093890 TCGTACAGCCATAACCGAAGA 58.906 47.619 0.00 0.00 0.00 2.87
3081 11374 0.463654 AAAGACACTTGGACGCTGCA 60.464 50.000 0.00 0.00 0.00 4.41
3114 11420 1.211818 GCTGATTCTCCGTAGCAGCG 61.212 60.000 0.00 0.00 36.24 5.18
3148 11454 2.594592 GGTTTGGGCGTGCTCTGT 60.595 61.111 0.00 0.00 0.00 3.41
3149 11455 3.726517 CGGTTTGGGCGTGCTCTG 61.727 66.667 0.00 0.00 0.00 3.35
3212 11518 4.097071 CGCGCGCTTCGATCGATC 62.097 66.667 30.48 15.68 41.67 3.69
3256 11581 2.687805 GCTCCGCTTTCCCCGTTTC 61.688 63.158 0.00 0.00 0.00 2.78
3268 11593 2.939022 GCCGAACATATGCTCCGC 59.061 61.111 1.58 3.11 0.00 5.54
3269 11594 0.318360 TACGCCGAACATATGCTCCG 60.318 55.000 1.58 3.10 0.00 4.63
3277 11604 1.516386 CGAGCACTACGCCGAACAT 60.516 57.895 0.00 0.00 44.04 2.71


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

AutoCloner maintained by Alex Coulton.