Multiple sequence alignment - TraesCS7D01G344900

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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 TraesCS7D01G344900 chr7D 100.000 3278 0 0 1 3278 442305430 442308707 0.000000e+00 6054.0
1 TraesCS7D01G344900 chr7D 82.178 101 14 2 39 139 559455098 559455002 2.100000e-12 84.2
2 TraesCS7D01G344900 chr7B 92.930 2928 97 35 302 3186 458988762 458991622 0.000000e+00 4159.0
3 TraesCS7D01G344900 chr7B 90.456 241 18 1 1 241 458982921 458983156 2.460000e-81 313.0
4 TraesCS7D01G344900 chr7B 95.146 103 5 0 3176 3278 458992317 458992419 2.620000e-36 163.0
5 TraesCS7D01G344900 chr7B 93.182 88 2 2 226 309 458983172 458983259 3.430000e-25 126.0
6 TraesCS7D01G344900 chr7A 91.056 2538 109 57 201 2675 493355374 493357856 0.000000e+00 3321.0
7 TraesCS7D01G344900 chr7A 80.628 382 49 13 2771 3149 493359035 493359394 4.170000e-69 272.0
8 TraesCS7D01G344900 chr7A 82.273 220 29 5 1 215 493355019 493355233 7.230000e-42 182.0
9 TraesCS7D01G344900 chr2D 90.633 395 26 8 1938 2322 627324645 627325038 6.270000e-142 514.0
10 TraesCS7D01G344900 chr2D 96.098 205 8 0 1938 2142 425214339 425214543 5.240000e-88 335.0
11 TraesCS7D01G344900 chr2D 91.304 46 2 1 96 139 323544347 323544392 9.820000e-06 62.1
12 TraesCS7D01G344900 chrUn 91.795 195 16 0 2087 2281 1831948 1832142 4.170000e-69 272.0
13 TraesCS7D01G344900 chr3A 82.474 97 13 2 39 135 57966236 57966328 7.540000e-12 82.4
14 TraesCS7D01G344900 chr6B 91.304 46 3 1 91 135 198404669 198404624 9.820000e-06 62.1
15 TraesCS7D01G344900 chr2A 83.824 68 7 2 72 139 406973681 406973618 9.820000e-06 62.1
16 TraesCS7D01G344900 chr2A 83.824 68 7 2 72 139 407102438 407102375 9.820000e-06 62.1
17 TraesCS7D01G344900 chr2B 79.121 91 15 2 40 130 615331561 615331647 3.530000e-05 60.2


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 TraesCS7D01G344900 chr7D 442305430 442308707 3277 False 6054.000000 6054 100.000000 1 3278 1 chr7D.!!$F1 3277
1 TraesCS7D01G344900 chr7B 458988762 458992419 3657 False 2161.000000 4159 94.038000 302 3278 2 chr7B.!!$F2 2976
2 TraesCS7D01G344900 chr7A 493355019 493359394 4375 False 1258.333333 3321 84.652333 1 3149 3 chr7A.!!$F1 3148

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
879 1093 0.034059 CCACCACACACTCCTCTCAC 59.966 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2515 2769 0.107831 CTCCCAAACCGGTGAGTGAA 59.892 55.0 8.52 0.0 31.08 3.18 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
32 33 1.725641 TGCACAACGTGAGGATGATC 58.274 50.000 0.00 0.00 35.23 2.92
34 35 2.495669 TGCACAACGTGAGGATGATCTA 59.504 45.455 0.00 0.00 35.23 1.98
37 38 4.210120 GCACAACGTGAGGATGATCTAATC 59.790 45.833 0.00 0.00 35.23 1.75
51 52 5.427378 TGATCTAATCGAGCATTTGTGGAA 58.573 37.500 0.00 0.00 32.10 3.53
52 53 5.525012 TGATCTAATCGAGCATTTGTGGAAG 59.475 40.000 0.00 0.00 32.10 3.46
58 59 3.629855 TCGAGCATTTGTGGAAGTTTCAA 59.370 39.130 0.00 0.00 0.00 2.69
85 86 7.047891 TGGATAATTAGAACAAGTGCTCGAAT 58.952 34.615 0.00 0.00 0.00 3.34
86 87 8.201464 TGGATAATTAGAACAAGTGCTCGAATA 58.799 33.333 0.00 0.00 0.00 1.75
87 88 9.042008 GGATAATTAGAACAAGTGCTCGAATAA 57.958 33.333 0.00 0.00 0.00 1.40
155 158 2.159430 TCGGAACATTTGATTGCTGTCG 59.841 45.455 0.00 0.00 0.00 4.35
210 216 8.669946 TGCACCGTGATATTTATCTTTCATTA 57.330 30.769 1.65 0.00 33.88 1.90
252 414 8.704668 TCCTATGATTCAGTTAGACAAGCATTA 58.295 33.333 0.00 0.00 0.00 1.90
253 415 8.986847 CCTATGATTCAGTTAGACAAGCATTAG 58.013 37.037 0.00 0.00 0.00 1.73
254 416 9.539825 CTATGATTCAGTTAGACAAGCATTAGT 57.460 33.333 0.00 0.00 0.00 2.24
255 417 8.798859 ATGATTCAGTTAGACAAGCATTAGTT 57.201 30.769 0.00 0.00 0.00 2.24
256 418 9.890629 ATGATTCAGTTAGACAAGCATTAGTTA 57.109 29.630 0.00 0.00 0.00 2.24
262 424 8.988934 CAGTTAGACAAGCATTAGTTAGAACAA 58.011 33.333 0.00 0.00 0.00 2.83
283 445 7.611213 ACAAGTAAAATCCCGTAGAAATCAG 57.389 36.000 0.00 0.00 0.00 2.90
284 446 7.166167 ACAAGTAAAATCCCGTAGAAATCAGT 58.834 34.615 0.00 0.00 0.00 3.41
286 448 9.158233 CAAGTAAAATCCCGTAGAAATCAGTTA 57.842 33.333 0.00 0.00 0.00 2.24
287 449 8.943909 AGTAAAATCCCGTAGAAATCAGTTAG 57.056 34.615 0.00 0.00 0.00 2.34
288 450 6.679327 AAAATCCCGTAGAAATCAGTTAGC 57.321 37.500 0.00 0.00 0.00 3.09
289 451 5.615925 AATCCCGTAGAAATCAGTTAGCT 57.384 39.130 0.00 0.00 0.00 3.32
291 453 4.755411 TCCCGTAGAAATCAGTTAGCTTG 58.245 43.478 0.00 0.00 0.00 4.01
292 454 4.464951 TCCCGTAGAAATCAGTTAGCTTGA 59.535 41.667 0.00 0.00 0.00 3.02
293 455 4.567159 CCCGTAGAAATCAGTTAGCTTGAC 59.433 45.833 0.00 0.00 0.00 3.18
294 456 4.265556 CCGTAGAAATCAGTTAGCTTGACG 59.734 45.833 0.00 0.00 0.00 4.35
296 458 5.345202 CGTAGAAATCAGTTAGCTTGACGTT 59.655 40.000 0.00 0.00 0.00 3.99
297 459 5.597813 AGAAATCAGTTAGCTTGACGTTG 57.402 39.130 0.00 0.00 0.00 4.10
298 460 3.813529 AATCAGTTAGCTTGACGTTGC 57.186 42.857 0.00 0.00 0.00 4.17
299 461 2.232756 TCAGTTAGCTTGACGTTGCA 57.767 45.000 10.77 0.00 0.00 4.08
300 462 2.766313 TCAGTTAGCTTGACGTTGCAT 58.234 42.857 10.77 1.12 0.00 3.96
303 465 3.908382 CAGTTAGCTTGACGTTGCATTTC 59.092 43.478 10.77 0.00 0.00 2.17
304 466 3.815401 AGTTAGCTTGACGTTGCATTTCT 59.185 39.130 10.77 2.77 0.00 2.52
324 507 8.517878 CATTTCTATGTTCAATTCTGTGTTCCT 58.482 33.333 0.00 0.00 0.00 3.36
351 534 0.043053 CGAACGTGGCTATGAATGCG 60.043 55.000 0.00 0.00 0.00 4.73
434 617 5.625311 GCCACGCTAAATAATTGATTACTGC 59.375 40.000 0.00 0.00 0.00 4.40
436 619 6.852853 CCACGCTAAATAATTGATTACTGCTG 59.147 38.462 0.00 0.00 0.00 4.41
479 674 4.028383 CGGAATACTTTGCAAATACGCAG 58.972 43.478 13.23 1.82 44.14 5.18
664 869 2.047844 CGGTCACAGCTCACAGGG 60.048 66.667 0.00 0.00 0.00 4.45
701 906 0.463833 CTTTATCCCACCCTGACCGC 60.464 60.000 0.00 0.00 0.00 5.68
776 981 5.163395 TGTTCATTCTTAAACCCAACCCAAC 60.163 40.000 0.00 0.00 0.00 3.77
777 982 3.898741 TCATTCTTAAACCCAACCCAACC 59.101 43.478 0.00 0.00 0.00 3.77
778 983 2.385135 TCTTAAACCCAACCCAACCC 57.615 50.000 0.00 0.00 0.00 4.11
779 984 1.133104 TCTTAAACCCAACCCAACCCC 60.133 52.381 0.00 0.00 0.00 4.95
780 985 0.640495 TTAAACCCAACCCAACCCCA 59.360 50.000 0.00 0.00 0.00 4.96
781 986 0.640495 TAAACCCAACCCAACCCCAA 59.360 50.000 0.00 0.00 0.00 4.12
809 1014 3.781770 CTGATCCCACTCGCTCGCC 62.782 68.421 0.00 0.00 0.00 5.54
826 1031 4.180946 CGCCGTGTCCTCTCCTCG 62.181 72.222 0.00 0.00 0.00 4.63
845 1050 4.087892 CGTGCTCTCCCCCACCAG 62.088 72.222 0.00 0.00 0.00 4.00
846 1051 3.721706 GTGCTCTCCCCCACCAGG 61.722 72.222 0.00 0.00 0.00 4.45
856 1061 4.974721 CCACCAGGCCACCACCAC 62.975 72.222 5.01 0.00 0.00 4.16
857 1062 4.974721 CACCAGGCCACCACCACC 62.975 72.222 5.01 0.00 0.00 4.61
859 1064 3.983420 CCAGGCCACCACCACCAT 61.983 66.667 5.01 0.00 0.00 3.55
878 1092 0.105709 TCCACCACACACTCCTCTCA 60.106 55.000 0.00 0.00 0.00 3.27
879 1093 0.034059 CCACCACACACTCCTCTCAC 59.966 60.000 0.00 0.00 0.00 3.51
880 1094 1.043816 CACCACACACTCCTCTCACT 58.956 55.000 0.00 0.00 0.00 3.41
896 1110 0.946221 CACTCTCGCTTCGCCAGTTT 60.946 55.000 0.00 0.00 0.00 2.66
922 1136 1.882989 GCTTCGCCTCACTCCACTCT 61.883 60.000 0.00 0.00 0.00 3.24
1015 1242 3.797353 ACATGGCGCTACCCCCTG 61.797 66.667 7.64 0.00 37.83 4.45
1040 1267 1.230650 TCCTCCTCCTCCTCCTCCA 60.231 63.158 0.00 0.00 0.00 3.86
1041 1268 1.232792 CCTCCTCCTCCTCCTCCAG 59.767 68.421 0.00 0.00 0.00 3.86
1044 1271 1.761667 CCTCCTCCTCCTCCAGCTG 60.762 68.421 6.78 6.78 0.00 4.24
1046 1273 2.365370 CCTCCTCCTCCAGCTGCT 60.365 66.667 8.66 0.00 0.00 4.24
1047 1274 2.433994 CCTCCTCCTCCAGCTGCTC 61.434 68.421 8.66 0.00 0.00 4.26
1048 1275 1.381599 CTCCTCCTCCAGCTGCTCT 60.382 63.158 8.66 0.00 0.00 4.09
1049 1276 1.678598 CTCCTCCTCCAGCTGCTCTG 61.679 65.000 8.66 0.00 42.49 3.35
1050 1277 2.187424 CTCCTCCAGCTGCTCTGC 59.813 66.667 8.66 0.00 41.50 4.26
1051 1278 3.388703 CTCCTCCAGCTGCTCTGCC 62.389 68.421 8.66 0.00 41.50 4.85
1052 1279 3.400928 CCTCCAGCTGCTCTGCCT 61.401 66.667 8.66 0.00 41.50 4.75
1053 1280 2.187424 CTCCAGCTGCTCTGCCTC 59.813 66.667 8.66 0.00 41.50 4.70
1054 1281 2.284478 TCCAGCTGCTCTGCCTCT 60.284 61.111 8.66 0.00 41.50 3.69
1055 1282 1.901654 CTCCAGCTGCTCTGCCTCTT 61.902 60.000 8.66 0.00 41.50 2.85
1398 1625 3.728373 GAGGGCATTGGGTCGGGT 61.728 66.667 0.00 0.00 0.00 5.28
1710 1937 1.134401 ACGATCCGGTACTTCTCCGTA 60.134 52.381 0.00 0.00 45.63 4.02
2438 2686 9.703892 ATGTGATTTTGGTTTGAATTTATTCGA 57.296 25.926 0.00 0.00 39.62 3.71
2485 2737 0.464916 ACGAGGTTGGGTTGGTGTTC 60.465 55.000 0.00 0.00 0.00 3.18
2493 2747 2.466140 GGTTGGTGTTCGTGCGTGT 61.466 57.895 0.00 0.00 0.00 4.49
2494 2748 1.297304 GTTGGTGTTCGTGCGTGTG 60.297 57.895 0.00 0.00 0.00 3.82
2495 2749 3.102107 TTGGTGTTCGTGCGTGTGC 62.102 57.895 0.00 0.00 43.20 4.57
2515 2769 0.586319 GTGTGCGTGTGTGCTGTTAT 59.414 50.000 0.00 0.00 35.36 1.89
2694 3004 3.813724 GCCCTAGTTTTTCTCAGACGTTT 59.186 43.478 0.00 0.00 0.00 3.60
2740 3050 4.701651 TCTTTCAATAGGTTCTGTGCCATG 59.298 41.667 0.00 0.00 0.00 3.66
2790 4141 6.071447 TGCAATTGGCTATAGCTTTCTTTTGA 60.071 34.615 23.53 7.59 45.15 2.69
2877 4232 3.754965 CTCAAAATGACCCCTCTGACAA 58.245 45.455 0.00 0.00 0.00 3.18
2911 4266 0.036952 AGATGACTGTGTGGCCTTCG 60.037 55.000 3.32 0.00 0.00 3.79
2912 4267 1.639298 GATGACTGTGTGGCCTTCGC 61.639 60.000 3.32 4.62 0.00 4.70
2922 4277 2.811317 GCCTTCGCCGACTCACTG 60.811 66.667 0.00 0.00 0.00 3.66
2930 4285 2.029739 TCGCCGACTCACTGATGTTTAA 60.030 45.455 0.00 0.00 0.00 1.52
2967 4322 2.482721 AGATCTTTTACCGTTTGGCGTG 59.517 45.455 0.00 0.00 39.70 5.34
2983 4338 3.252215 TGGCGTGTTGAATTTTACAGGAG 59.748 43.478 14.13 3.64 33.27 3.69
3063 4418 6.839454 TCCTAGTACTAAGAGGAGGTGTATG 58.161 44.000 8.56 0.00 34.36 2.39
3164 4519 8.425577 ACAAGGTCATTGAAAGATTCGTATAG 57.574 34.615 3.86 0.00 41.83 1.31
3187 4542 7.118496 AGATTGTAATCCAACAAACCAAACA 57.882 32.000 1.16 0.00 42.33 2.83
3191 4546 6.511416 TGTAATCCAACAAACCAAACATGAG 58.489 36.000 0.00 0.00 0.00 2.90
3192 4547 4.605640 ATCCAACAAACCAAACATGAGG 57.394 40.909 0.00 0.35 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.511617 TGCTCGATTAGATCATCCTCAC 57.488 45.455 0.00 0.00 0.00 3.51
32 33 5.551760 AACTTCCACAAATGCTCGATTAG 57.448 39.130 0.00 0.00 0.00 1.73
34 35 4.278170 TGAAACTTCCACAAATGCTCGATT 59.722 37.500 0.00 0.00 0.00 3.34
37 38 3.624326 TGAAACTTCCACAAATGCTCG 57.376 42.857 0.00 0.00 0.00 5.03
45 46 9.527157 TCTAATTATCCATTTGAAACTTCCACA 57.473 29.630 0.00 0.00 0.00 4.17
58 59 7.047891 TCGAGCACTTGTTCTAATTATCCATT 58.952 34.615 0.00 0.00 0.00 3.16
131 132 3.317711 ACAGCAATCAAATGTTCCGAACA 59.682 39.130 16.15 16.15 46.94 3.18
133 134 3.364864 CGACAGCAATCAAATGTTCCGAA 60.365 43.478 0.00 0.00 0.00 4.30
135 136 2.508867 CGACAGCAATCAAATGTTCCG 58.491 47.619 0.00 0.00 0.00 4.30
136 137 2.253603 GCGACAGCAATCAAATGTTCC 58.746 47.619 0.00 0.00 44.35 3.62
223 384 7.882791 TGCTTGTCTAACTGAATCATAGGAAAA 59.117 33.333 0.00 0.00 0.00 2.29
229 390 9.890629 AACTAATGCTTGTCTAACTGAATCATA 57.109 29.630 0.00 0.00 0.00 2.15
231 392 9.371136 CTAACTAATGCTTGTCTAACTGAATCA 57.629 33.333 0.00 0.00 0.00 2.57
252 414 7.899973 TCTACGGGATTTTACTTGTTCTAACT 58.100 34.615 0.00 0.00 0.00 2.24
253 415 8.538409 TTCTACGGGATTTTACTTGTTCTAAC 57.462 34.615 0.00 0.00 0.00 2.34
254 416 9.729281 ATTTCTACGGGATTTTACTTGTTCTAA 57.271 29.630 0.00 0.00 0.00 2.10
255 417 9.374838 GATTTCTACGGGATTTTACTTGTTCTA 57.625 33.333 0.00 0.00 0.00 2.10
256 418 7.881232 TGATTTCTACGGGATTTTACTTGTTCT 59.119 33.333 0.00 0.00 0.00 3.01
262 424 7.494952 GCTAACTGATTTCTACGGGATTTTACT 59.505 37.037 0.00 0.00 0.00 2.24
283 445 4.147219 AGAAATGCAACGTCAAGCTAAC 57.853 40.909 8.70 0.00 0.00 2.34
284 446 5.411361 ACATAGAAATGCAACGTCAAGCTAA 59.589 36.000 8.70 0.00 36.50 3.09
286 448 3.753272 ACATAGAAATGCAACGTCAAGCT 59.247 39.130 8.70 0.00 36.50 3.74
287 449 4.083581 ACATAGAAATGCAACGTCAAGC 57.916 40.909 0.00 0.00 36.50 4.01
288 450 5.688823 TGAACATAGAAATGCAACGTCAAG 58.311 37.500 0.00 0.00 36.50 3.02
289 451 5.681337 TGAACATAGAAATGCAACGTCAA 57.319 34.783 0.00 0.00 36.50 3.18
291 453 7.007725 CAGAATTGAACATAGAAATGCAACGTC 59.992 37.037 0.00 0.00 36.50 4.34
292 454 6.803320 CAGAATTGAACATAGAAATGCAACGT 59.197 34.615 0.00 0.00 36.50 3.99
293 455 6.803320 ACAGAATTGAACATAGAAATGCAACG 59.197 34.615 0.00 0.00 36.50 4.10
294 456 7.596248 ACACAGAATTGAACATAGAAATGCAAC 59.404 33.333 0.00 0.00 36.50 4.17
296 458 7.218228 ACACAGAATTGAACATAGAAATGCA 57.782 32.000 0.00 0.00 36.50 3.96
297 459 7.274250 GGAACACAGAATTGAACATAGAAATGC 59.726 37.037 0.00 0.00 36.50 3.56
298 460 8.517878 AGGAACACAGAATTGAACATAGAAATG 58.482 33.333 0.00 0.00 39.17 2.32
299 461 8.517878 CAGGAACACAGAATTGAACATAGAAAT 58.482 33.333 0.00 0.00 0.00 2.17
300 462 7.719193 TCAGGAACACAGAATTGAACATAGAAA 59.281 33.333 0.00 0.00 0.00 2.52
303 465 6.652481 ACTCAGGAACACAGAATTGAACATAG 59.348 38.462 0.00 0.00 0.00 2.23
304 466 6.533730 ACTCAGGAACACAGAATTGAACATA 58.466 36.000 0.00 0.00 0.00 2.29
324 507 0.607217 TAGCCACGTTCGAGGACTCA 60.607 55.000 12.32 0.00 0.00 3.41
351 534 3.357079 CGTGCTTCCACAGTGCCC 61.357 66.667 0.00 0.00 42.17 5.36
436 619 2.671177 CCTGCTGTGCGCACTGTAC 61.671 63.158 37.00 26.09 45.47 2.90
479 674 1.944676 CTCGCTCGTATGCCGGTTC 60.945 63.158 1.90 0.00 37.11 3.62
526 721 2.607750 TCTGGGTCTGGGTCTGGC 60.608 66.667 0.00 0.00 0.00 4.85
675 880 2.518587 GTGGGATAAAGGCCGGCC 60.519 66.667 39.29 39.29 0.00 6.13
676 881 2.518587 GGTGGGATAAAGGCCGGC 60.519 66.667 21.18 21.18 0.00 6.13
677 882 2.194868 GGGTGGGATAAAGGCCGG 59.805 66.667 0.00 0.00 0.00 6.13
678 883 1.152963 CAGGGTGGGATAAAGGCCG 60.153 63.158 0.00 0.00 0.00 6.13
776 981 0.995675 ATCAGGATCTGGGGTTGGGG 60.996 60.000 0.00 0.00 31.51 4.96
777 982 0.475906 GATCAGGATCTGGGGTTGGG 59.524 60.000 2.05 0.00 35.04 4.12
778 983 0.475906 GGATCAGGATCTGGGGTTGG 59.524 60.000 9.01 0.00 37.92 3.77
779 984 0.475906 GGGATCAGGATCTGGGGTTG 59.524 60.000 9.01 0.00 37.92 3.77
780 985 0.046242 TGGGATCAGGATCTGGGGTT 59.954 55.000 9.01 0.00 37.92 4.11
781 986 0.695803 GTGGGATCAGGATCTGGGGT 60.696 60.000 9.01 0.00 37.92 4.95
809 1014 4.180946 CGAGGAGAGGACACGGCG 62.181 72.222 4.80 4.80 0.00 6.46
826 1031 4.083862 GGTGGGGGAGAGCACGAC 62.084 72.222 0.00 0.00 0.00 4.34
845 1050 3.978193 TGGATGGTGGTGGTGGCC 61.978 66.667 0.00 0.00 0.00 5.36
846 1051 2.676471 GTGGATGGTGGTGGTGGC 60.676 66.667 0.00 0.00 0.00 5.01
852 1057 1.150536 GTGTGTGGTGGATGGTGGT 59.849 57.895 0.00 0.00 0.00 4.16
854 1059 0.606401 GGAGTGTGTGGTGGATGGTG 60.606 60.000 0.00 0.00 0.00 4.17
855 1060 0.768221 AGGAGTGTGTGGTGGATGGT 60.768 55.000 0.00 0.00 0.00 3.55
856 1061 0.036010 GAGGAGTGTGTGGTGGATGG 60.036 60.000 0.00 0.00 0.00 3.51
857 1062 0.979665 AGAGGAGTGTGTGGTGGATG 59.020 55.000 0.00 0.00 0.00 3.51
858 1063 1.270907 GAGAGGAGTGTGTGGTGGAT 58.729 55.000 0.00 0.00 0.00 3.41
859 1064 0.105709 TGAGAGGAGTGTGTGGTGGA 60.106 55.000 0.00 0.00 0.00 4.02
922 1136 0.991920 GGGAAATGGAGTCCACTGGA 59.008 55.000 15.86 0.00 35.80 3.86
1015 1242 2.123033 GAGGAGGAGGAGGAGGGC 60.123 72.222 0.00 0.00 0.00 5.19
1040 1267 2.046120 GCAAGAGGCAGAGCAGCT 60.046 61.111 0.00 0.00 43.97 4.24
1385 1612 2.124695 GGAGACCCGACCCAATGC 60.125 66.667 0.00 0.00 0.00 3.56
1599 1826 1.087501 GAAACTGGTCGGGAATCTGC 58.912 55.000 0.00 0.00 0.00 4.26
1710 1937 2.363795 TCCATCGAGTTCCCGGCT 60.364 61.111 0.00 0.00 0.00 5.52
1935 2162 2.842462 TGGCTGACGTCCACCACT 60.842 61.111 19.57 0.00 0.00 4.00
2494 2748 4.943591 CAGCACACACGCACACGC 62.944 66.667 0.00 0.00 45.53 5.34
2496 2750 0.586319 ATAACAGCACACACGCACAC 59.414 50.000 0.00 0.00 0.00 3.82
2497 2751 1.262950 GAATAACAGCACACACGCACA 59.737 47.619 0.00 0.00 0.00 4.57
2498 2752 1.262950 TGAATAACAGCACACACGCAC 59.737 47.619 0.00 0.00 0.00 5.34
2499 2753 1.262950 GTGAATAACAGCACACACGCA 59.737 47.619 0.00 0.00 35.19 5.24
2500 2754 1.531149 AGTGAATAACAGCACACACGC 59.469 47.619 0.00 0.00 37.48 5.34
2515 2769 0.107831 CTCCCAAACCGGTGAGTGAA 59.892 55.000 8.52 0.00 31.08 3.18
2640 2899 1.299541 ATACATAGCAGCAACGCCAC 58.700 50.000 0.00 0.00 0.00 5.01
2669 2928 3.555168 CGTCTGAGAAAAACTAGGGCAGT 60.555 47.826 0.00 0.00 40.05 4.40
2694 3004 7.531716 AGAAAACACAACAACATTTCGACTTA 58.468 30.769 0.00 0.00 35.66 2.24
2740 3050 6.034256 ACGTCAACAAATAATAGTACGACTGC 59.966 38.462 0.00 0.00 33.59 4.40
2790 4141 0.539438 ATGGTGCCACGTTTGTCCAT 60.539 50.000 6.35 6.35 0.00 3.41
2877 4232 3.389329 AGTCATCTTGAAGGGTCGCATAT 59.611 43.478 0.00 0.00 0.00 1.78
2911 4266 3.326747 ACTTAAACATCAGTGAGTCGGC 58.673 45.455 0.00 0.00 0.00 5.54
2912 4267 4.556233 TGACTTAAACATCAGTGAGTCGG 58.444 43.478 0.00 0.00 36.54 4.79
2922 4277 2.092323 GTGGCCCCTGACTTAAACATC 58.908 52.381 0.00 0.00 0.00 3.06
2930 4285 2.483329 ATCTCCTGTGGCCCCTGACT 62.483 60.000 0.00 0.00 0.00 3.41
2967 4322 3.193479 CCCAGGCTCCTGTAAAATTCAAC 59.807 47.826 14.27 0.00 42.15 3.18
2983 4338 2.755103 CCAAACAGTTTCTATCCCAGGC 59.245 50.000 0.00 0.00 0.00 4.85
3033 4388 9.369672 CACCTCCTCTTAGTACTAGGATTTTAT 57.630 37.037 14.47 0.00 38.70 1.40
3034 4389 8.342270 ACACCTCCTCTTAGTACTAGGATTTTA 58.658 37.037 14.47 1.59 38.70 1.52
3092 4447 8.970859 AAAATACATTGAGTCTAATCTCTGGG 57.029 34.615 0.00 0.00 35.68 4.45
3164 4519 7.655328 TCATGTTTGGTTTGTTGGATTACAATC 59.345 33.333 0.00 0.00 41.95 2.67
3237 5297 7.010091 ACGACTTGTTTGGTTCAAATGAATTTC 59.990 33.333 0.00 0.00 35.74 2.17


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

AutoCloner maintained by Alex Coulton.