Multiple sequence alignment - TraesCS7D01G206800

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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 TraesCS7D01G206800 chr7D 100.000 6187 0 0 1 6187 164405651 164411837 0.000000e+00 11426
1 TraesCS7D01G206800 chr7D 72.697 3029 739 79 979 3959 99462192 99465180 0.000000e+00 931
2 TraesCS7D01G206800 chr7B 94.613 4641 179 34 510 5124 126735567 126740162 0.000000e+00 7119
3 TraesCS7D01G206800 chr7B 92.251 1084 36 9 5128 6187 126740202 126741261 0.000000e+00 1493
4 TraesCS7D01G206800 chr7B 72.854 2947 708 81 1062 3959 54725233 54728136 0.000000e+00 926
5 TraesCS7D01G206800 chr7B 88.701 177 11 2 113 280 126735126 126735302 2.260000e-49 207
6 TraesCS7D01G206800 chr7B 92.174 115 6 2 1 113 126732581 126732694 6.420000e-35 159
7 TraesCS7D01G206800 chr7B 89.655 87 5 4 399 482 126735418 126735503 2.360000e-19 108
8 TraesCS7D01G206800 chr7A 93.837 4040 187 23 332 4357 165902685 165906676 0.000000e+00 6024
9 TraesCS7D01G206800 chr7A 92.757 994 58 7 4406 5388 165906689 165907679 0.000000e+00 1424
10 TraesCS7D01G206800 chr7A 89.791 382 16 7 5382 5761 165909577 165909937 9.390000e-128 468
11 TraesCS7D01G206800 chr7A 96.124 129 4 1 5965 6092 165923603 165923731 6.280000e-50 209
12 TraesCS7D01G206800 chr7A 97.222 72 2 0 1 72 165900435 165900506 8.420000e-24 122


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 TraesCS7D01G206800 chr7D 164405651 164411837 6186 False 11426.0 11426 100.00000 1 6187 1 chr7D.!!$F2 6186
1 TraesCS7D01G206800 chr7D 99462192 99465180 2988 False 931.0 931 72.69700 979 3959 1 chr7D.!!$F1 2980
2 TraesCS7D01G206800 chr7B 126732581 126741261 8680 False 1817.2 7119 91.47880 1 6187 5 chr7B.!!$F2 6186
3 TraesCS7D01G206800 chr7B 54725233 54728136 2903 False 926.0 926 72.85400 1062 3959 1 chr7B.!!$F1 2897
4 TraesCS7D01G206800 chr7A 165900435 165909937 9502 False 2009.5 6024 93.40175 1 5761 4 chr7A.!!$F2 5760

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
697 4822 1.067776 ACAGTAGCTACGCTTGACACC 60.068 52.381 17.99 0.0 40.44 4.16 F
1022 5149 0.313043 GGGCTGATTTCATGGCATCG 59.687 55.000 0.00 0.0 0.00 3.84 F
2896 7026 0.621571 TGGGGGTCATCTCCCTTCAG 60.622 60.000 4.73 0.0 46.27 3.02 F
3703 7845 0.325933 TGTTCTGCATGGGACTGAGG 59.674 55.000 0.00 0.0 0.00 3.86 F
4489 8652 0.801251 ACGTGTACAGCTACGGAGTC 59.199 55.000 11.18 0.0 43.93 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2388 6518 0.393077 AGCTAGCAACAGTGAACGGT 59.607 50.000 18.83 0.00 0.00 4.83 R
2981 7111 1.074405 AGCTTGCAAGATCCACCAAGA 59.926 47.619 30.39 0.00 37.46 3.02 R
4789 8952 0.398318 AGGAACTGCTGGAACCAGAC 59.602 55.000 22.96 14.54 45.15 3.51 R
5183 9393 2.275318 CAGAGGATTCGGAAACTCAGC 58.725 52.381 20.67 3.00 32.52 4.26 R
5992 12130 0.106819 GCCTGGTGATGAGATGCCTT 60.107 55.000 0.00 0.00 0.00 4.35 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
57 60 4.397103 CCTTACTACTACGTCATGTGTCCA 59.603 45.833 0.00 0.00 0.00 4.02
127 2636 9.678941 TGCACAACACGTAAATATTAATTTGAA 57.321 25.926 0.00 0.00 36.02 2.69
215 2724 8.980610 TGTTTATCGGACGGTATATATTTTGTG 58.019 33.333 0.00 0.00 0.00 3.33
217 2726 8.746922 TTATCGGACGGTATATATTTTGTGAC 57.253 34.615 0.00 0.00 0.00 3.67
272 2790 8.934507 TTAAAAACAACTAAAACACATGAGGG 57.065 30.769 0.00 0.00 0.00 4.30
273 2791 5.529581 AAACAACTAAAACACATGAGGGG 57.470 39.130 0.00 0.00 0.00 4.79
368 4412 5.247337 AGGAAAAGGAAAGGACAACACAAAA 59.753 36.000 0.00 0.00 0.00 2.44
467 4542 4.623932 TCATGTAGTCCAGCCCATTATC 57.376 45.455 0.00 0.00 0.00 1.75
479 4554 2.443255 GCCCATTATCTTTCAGAGGGGA 59.557 50.000 0.00 0.00 36.40 4.81
480 4555 3.748989 GCCCATTATCTTTCAGAGGGGAC 60.749 52.174 0.00 0.00 36.40 4.46
692 4817 1.272781 GCAGACAGTAGCTACGCTTG 58.727 55.000 17.99 13.33 40.44 4.01
693 4818 1.135373 GCAGACAGTAGCTACGCTTGA 60.135 52.381 17.99 0.00 40.44 3.02
694 4819 2.520979 CAGACAGTAGCTACGCTTGAC 58.479 52.381 17.99 11.27 40.44 3.18
695 4820 2.095212 CAGACAGTAGCTACGCTTGACA 60.095 50.000 17.99 0.00 40.44 3.58
696 4821 2.095161 AGACAGTAGCTACGCTTGACAC 60.095 50.000 17.99 8.52 40.44 3.67
697 4822 1.067776 ACAGTAGCTACGCTTGACACC 60.068 52.381 17.99 0.00 40.44 4.16
698 4823 1.067846 CAGTAGCTACGCTTGACACCA 60.068 52.381 17.99 0.00 40.44 4.17
699 4824 1.616865 AGTAGCTACGCTTGACACCAA 59.383 47.619 17.99 0.00 40.44 3.67
700 4825 2.233922 AGTAGCTACGCTTGACACCAAT 59.766 45.455 17.99 0.00 40.44 3.16
784 4909 2.293318 TTCATCCTCCAGCTGCGGT 61.293 57.895 8.66 0.00 0.00 5.68
823 4948 2.125552 TCGTCCATTGCCTCTGCG 60.126 61.111 0.00 0.00 41.78 5.18
984 5111 4.580167 TGCTGACCTATCCAATGTTTATGC 59.420 41.667 0.00 0.00 0.00 3.14
1008 5135 1.631405 TTCAGGAACAAATGGGGCTG 58.369 50.000 0.00 0.00 0.00 4.85
1022 5149 0.313043 GGGCTGATTTCATGGCATCG 59.687 55.000 0.00 0.00 0.00 3.84
1056 5183 1.178276 CCAACCTAGTCTCGCTCTGT 58.822 55.000 0.00 0.00 0.00 3.41
1220 5350 7.563556 TGTGGTTCACCTCAATCTATCATACTA 59.436 37.037 0.00 0.00 36.66 1.82
1245 5375 3.230976 AGTTTCTGGTTCAATTGGTCCC 58.769 45.455 5.42 3.96 0.00 4.46
1350 5480 2.854963 TGTGTTCTGCTTGATCTGCTT 58.145 42.857 11.38 0.00 0.00 3.91
1413 5543 4.289672 TCCCTCATGAACCTAAAGAAGCTT 59.710 41.667 0.00 0.00 0.00 3.74
1560 5690 5.762218 AGTTGGTGAAATGAAGAGTCTGAAG 59.238 40.000 0.00 0.00 0.00 3.02
1713 5843 4.379174 GGGCTCGTGCTCTTTGAA 57.621 55.556 9.61 0.00 36.57 2.69
2275 6405 5.069119 GGATTTGGGATTAACAGCCCTTTAG 59.931 44.000 10.31 0.00 44.96 1.85
2351 6481 3.500680 TGTTCGGGTAAAAGATTGACAGC 59.499 43.478 0.00 0.00 0.00 4.40
2388 6518 7.232534 GGGCATAATTTTCTCAATGGTACCATA 59.767 37.037 27.58 12.36 35.31 2.74
2405 6535 2.930040 CCATACCGTTCACTGTTGCTAG 59.070 50.000 0.00 0.00 0.00 3.42
2578 6708 5.109903 ACATTACAGCGATAAACTGGTCTC 58.890 41.667 0.00 0.00 39.55 3.36
2896 7026 0.621571 TGGGGGTCATCTCCCTTCAG 60.622 60.000 4.73 0.00 46.27 3.02
2981 7111 4.036027 CAGCATTCCATCTCAATTACGCTT 59.964 41.667 0.00 0.00 0.00 4.68
3081 7211 7.015226 TGCATTGTATACCTTGAATCTTTCG 57.985 36.000 0.00 0.00 0.00 3.46
3261 7394 0.530870 GAAGAGGAGTACATGGCCGC 60.531 60.000 0.00 0.00 0.00 6.53
3703 7845 0.325933 TGTTCTGCATGGGACTGAGG 59.674 55.000 0.00 0.00 0.00 3.86
3971 8113 7.872483 CCCAGGTATGAATGTTAAAAATATGGC 59.128 37.037 0.00 0.00 0.00 4.40
3986 8128 0.889994 ATGGCGCATGCTTTTCTTGA 59.110 45.000 17.13 0.00 42.25 3.02
4046 8193 9.690913 ATTCTTTTGAACATCCTGAATCTGATA 57.309 29.630 0.00 0.00 41.77 2.15
4055 8202 9.499479 AACATCCTGAATCTGATATCATGTTAC 57.501 33.333 5.72 0.00 29.33 2.50
4102 8249 7.009179 TCAGAACCTTGATCTGTTTCTACAT 57.991 36.000 3.72 0.00 43.77 2.29
4134 8281 9.581289 TTATCCAGTTCCTTGTGAAAATTTAGA 57.419 29.630 0.00 0.00 33.94 2.10
4223 8370 8.655970 CATCGTTTGACAAATAGTAGAACATGA 58.344 33.333 3.49 0.00 0.00 3.07
4232 8379 8.936864 ACAAATAGTAGAACATGAAGTACAAGC 58.063 33.333 0.00 0.00 0.00 4.01
4233 8380 7.757097 AATAGTAGAACATGAAGTACAAGCG 57.243 36.000 0.00 0.00 0.00 4.68
4335 8492 9.926158 AATATGTGCACATTGAAAAACTAATGA 57.074 25.926 35.45 14.07 37.63 2.57
4336 8493 9.926158 ATATGTGCACATTGAAAAACTAATGAA 57.074 25.926 35.45 13.42 37.63 2.57
4372 8533 7.365741 CACAACTTCTGCTCATACTTTTGAAT 58.634 34.615 0.00 0.00 0.00 2.57
4376 8537 5.902613 TCTGCTCATACTTTTGAATTGGG 57.097 39.130 0.00 0.00 0.00 4.12
4377 8538 5.569355 TCTGCTCATACTTTTGAATTGGGA 58.431 37.500 0.00 0.00 0.00 4.37
4379 8540 6.664816 TCTGCTCATACTTTTGAATTGGGAAT 59.335 34.615 0.00 0.00 0.00 3.01
4381 8542 8.359875 TGCTCATACTTTTGAATTGGGAATTA 57.640 30.769 0.00 0.00 0.00 1.40
4398 8559 8.588290 TGGGAATTAAGTTGCATTGTATTACT 57.412 30.769 0.00 0.00 0.00 2.24
4399 8560 9.030452 TGGGAATTAAGTTGCATTGTATTACTT 57.970 29.630 3.42 3.42 33.89 2.24
4489 8652 0.801251 ACGTGTACAGCTACGGAGTC 59.199 55.000 11.18 0.00 43.93 3.36
4758 8921 2.048222 GCTGACACGTGCTAGGCA 60.048 61.111 17.22 5.52 35.60 4.75
4871 9034 2.298729 GCAAGGGCTTGTTTGGTTCATA 59.701 45.455 0.00 0.00 42.31 2.15
4872 9035 3.055891 GCAAGGGCTTGTTTGGTTCATAT 60.056 43.478 0.00 0.00 42.31 1.78
4954 9117 9.452287 CATTCATTTGGTTCAAAGGGAAAATAT 57.548 29.630 11.46 0.00 36.76 1.28
5019 9185 5.682943 TTTTACAATCCAGTTGAACCTCG 57.317 39.130 0.00 0.00 40.37 4.63
5125 9299 5.101628 TGACTTTGATTTGACTGTGTTTGC 58.898 37.500 0.00 0.00 0.00 3.68
5148 9358 7.398829 TGCTAGTAGGATTTATGTGGTTTTCA 58.601 34.615 0.00 0.00 0.00 2.69
5194 9404 6.842163 AGTTTACATAATTGCTGAGTTTCCG 58.158 36.000 0.00 0.00 0.00 4.30
5206 9416 3.926616 TGAGTTTCCGAATCCTCTGTTC 58.073 45.455 8.83 0.00 0.00 3.18
5291 9501 3.131396 GACGCCCCAATAAGACATACAG 58.869 50.000 0.00 0.00 0.00 2.74
5438 11552 0.253327 CAAGGTACTCAAGGAGGCCC 59.747 60.000 0.00 0.00 38.49 5.80
5824 11940 0.250467 CACCCTTCCCAGTCACAGTG 60.250 60.000 0.00 0.00 0.00 3.66
5843 11959 1.805428 GCCCCTTGTCGCAAACATGT 61.805 55.000 0.00 0.00 37.82 3.21
5845 11961 1.238439 CCCTTGTCGCAAACATGTCT 58.762 50.000 0.00 0.00 37.82 3.41
5874 11990 2.669364 ACAAGGTGATACGAACGACAC 58.331 47.619 0.14 7.98 0.00 3.67
5875 11991 2.034939 ACAAGGTGATACGAACGACACA 59.965 45.455 17.64 6.91 35.33 3.72
5880 11996 3.430895 GGTGATACGAACGACACACAAAT 59.569 43.478 17.64 0.00 35.33 2.32
5882 11998 4.384846 GTGATACGAACGACACACAAATCT 59.615 41.667 0.14 0.00 34.05 2.40
5988 12126 3.119096 GCCGAAGCAAGGTCGACC 61.119 66.667 27.67 27.67 41.02 4.79
5992 12130 3.876589 GAAGCAAGGTCGACCGCCA 62.877 63.158 28.26 0.00 42.08 5.69
5996 12134 4.699522 AAGGTCGACCGCCAAGGC 62.700 66.667 28.26 0.00 46.52 4.35
6006 12144 1.442526 CCGCCAAGGCATCTCATCAC 61.443 60.000 12.19 0.00 42.06 3.06
6026 12164 3.787001 GGCTCCTCCAAGGACGGG 61.787 72.222 0.00 0.00 40.06 5.28
6067 12205 1.448013 CGAGGGAAGGCGTCCTTTC 60.448 63.158 18.95 14.92 44.82 2.62
6080 12218 2.683867 CGTCCTTTCGAGTAGGAGACAT 59.316 50.000 16.21 0.00 42.31 3.06
6131 12269 7.015487 AGGATTCAAAATTTCTGACATGAACCA 59.985 33.333 0.00 0.00 30.46 3.67
6148 12286 4.513692 TGAACCAGGTTGAATTACTTCACG 59.486 41.667 10.47 0.00 41.05 4.35
6149 12287 4.345859 ACCAGGTTGAATTACTTCACGA 57.654 40.909 0.00 0.00 41.05 4.35
6150 12288 4.315803 ACCAGGTTGAATTACTTCACGAG 58.684 43.478 0.00 0.00 41.05 4.18
6157 12295 5.462530 TGAATTACTTCACGAGGAGTCAA 57.537 39.130 0.00 0.00 36.46 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 60 2.312348 CGTTTTAGAAAATTGGCGCGT 58.688 42.857 8.43 0.00 0.00 6.01
248 2766 7.493367 CCCCTCATGTGTTTTAGTTGTTTTTA 58.507 34.615 0.00 0.00 0.00 1.52
254 2772 2.231235 GGCCCCTCATGTGTTTTAGTTG 59.769 50.000 0.00 0.00 0.00 3.16
272 2790 0.323957 GTATACCCTCCATTCGGGCC 59.676 60.000 0.00 0.00 46.04 5.80
273 2791 0.323957 GGTATACCCTCCATTCGGGC 59.676 60.000 11.17 0.00 46.04 6.13
298 2816 3.724374 TCCTCACTTTAGTTTGTCACGG 58.276 45.455 0.00 0.00 0.00 4.94
421 4496 1.740718 GCCCACGGATTCTCTCAAGAC 60.741 57.143 0.00 0.00 0.00 3.01
434 4509 0.744414 CTACATGAACTGGCCCACGG 60.744 60.000 0.00 0.00 0.00 4.94
467 4542 0.322906 GCCCAAGTCCCCTCTGAAAG 60.323 60.000 0.00 0.00 0.00 2.62
479 4554 2.125106 GCTCGAATCGGCCCAAGT 60.125 61.111 1.76 0.00 0.00 3.16
480 4555 2.897350 GGCTCGAATCGGCCCAAG 60.897 66.667 19.61 4.22 42.30 3.61
693 4818 3.049674 CTGCGGCGACATTGGTGT 61.050 61.111 12.98 0.00 42.49 4.16
694 4819 2.741985 TCTGCGGCGACATTGGTG 60.742 61.111 12.98 0.00 0.00 4.17
695 4820 2.434884 CTCTGCGGCGACATTGGT 60.435 61.111 12.98 0.00 0.00 3.67
696 4821 2.434884 ACTCTGCGGCGACATTGG 60.435 61.111 12.98 4.23 0.00 3.16
697 4822 2.792290 CGACTCTGCGGCGACATTG 61.792 63.158 12.98 6.62 0.00 2.82
698 4823 2.507102 CGACTCTGCGGCGACATT 60.507 61.111 12.98 0.00 0.00 2.71
737 4862 1.402968 CCTCCGAATCACCTGCATTTG 59.597 52.381 0.00 0.00 0.00 2.32
784 4909 1.005867 GTTACTTCCCGCGTGGACA 60.006 57.895 18.79 0.00 45.11 4.02
840 4965 1.305930 GCAACTGATTCGGTGACCCC 61.306 60.000 0.00 0.00 0.00 4.95
968 5095 8.133627 CCTGAAAAGAGCATAAACATTGGATAG 58.866 37.037 0.00 0.00 0.00 2.08
969 5096 7.833682 TCCTGAAAAGAGCATAAACATTGGATA 59.166 33.333 0.00 0.00 0.00 2.59
976 5103 6.707440 TTGTTCCTGAAAAGAGCATAAACA 57.293 33.333 0.00 0.00 0.00 2.83
984 5111 3.306294 GCCCCATTTGTTCCTGAAAAGAG 60.306 47.826 0.00 0.00 0.00 2.85
1022 5149 3.481453 AGGTTGGAGAAGAGAAGCAAAC 58.519 45.455 0.00 0.00 0.00 2.93
1056 5183 1.879380 CCATCTGAACTCAAACCGCAA 59.121 47.619 0.00 0.00 0.00 4.85
1220 5350 5.395214 GGACCAATTGAACCAGAAACTTTGT 60.395 40.000 7.12 0.00 0.00 2.83
1245 5375 1.030457 ACTTCATACGCCCTACCTCG 58.970 55.000 0.00 0.00 0.00 4.63
1413 5543 2.479837 CTGTACAAACCGAGCTGTGAA 58.520 47.619 0.00 0.00 0.00 3.18
1560 5690 4.913784 TGTTCCCATCCAACCTAAAGTAC 58.086 43.478 0.00 0.00 0.00 2.73
1647 5777 5.671493 AGACTCCCATTCAGTTTATTACCG 58.329 41.667 0.00 0.00 0.00 4.02
1649 5779 6.258068 CGGAAGACTCCCATTCAGTTTATTAC 59.742 42.308 0.00 0.00 38.71 1.89
1713 5843 4.381505 CCTGTAAAACTGTTGTTGTTGGCT 60.382 41.667 0.00 0.00 36.39 4.75
2028 6158 1.017387 GATTAGCCAGCTGTTTCGGG 58.983 55.000 13.81 0.00 0.00 5.14
2351 6481 6.417258 AGAAAATTATGCCCCAAATTCCAAG 58.583 36.000 0.00 0.00 0.00 3.61
2388 6518 0.393077 AGCTAGCAACAGTGAACGGT 59.607 50.000 18.83 0.00 0.00 4.83
2405 6535 1.464997 CTCGTTCTAAACTTGGGCAGC 59.535 52.381 0.00 0.00 0.00 5.25
2578 6708 1.480137 TGGACCACCAAGCTTGTTTTG 59.520 47.619 24.35 17.04 43.91 2.44
2794 6924 6.466470 GGAATGCCTCCACTTAATCTATTCCT 60.466 42.308 0.00 0.00 44.67 3.36
2896 7026 8.084684 ACTCAATCTTTTCAAAGTTCCTAATGC 58.915 33.333 0.00 0.00 37.31 3.56
2981 7111 1.074405 AGCTTGCAAGATCCACCAAGA 59.926 47.619 30.39 0.00 37.46 3.02
3024 7154 1.201429 ACGGAGCAAGATCCCCACTT 61.201 55.000 0.00 0.00 35.82 3.16
3081 7211 1.604278 GGCCCGCTGAATCTGTTATTC 59.396 52.381 0.00 0.00 0.00 1.75
3129 7262 4.991776 TGAATGGACTTGGTGTGGAATTA 58.008 39.130 0.00 0.00 0.00 1.40
3261 7394 7.487509 CCAAGACATATCATAGCTATCTTGACG 59.512 40.741 23.34 10.62 42.60 4.35
3703 7845 1.134848 CCACTCTAGAACTGGAGCTGC 60.135 57.143 13.61 0.00 41.25 5.25
3971 8113 2.287788 ACCAAGTCAAGAAAAGCATGCG 60.288 45.455 13.01 0.00 0.00 4.73
4030 8177 7.816513 CGTAACATGATATCAGATTCAGGATGT 59.183 37.037 11.78 4.42 37.40 3.06
4038 8185 8.492673 ACAAACACGTAACATGATATCAGATT 57.507 30.769 11.78 10.02 0.00 2.40
4039 8186 8.492673 AACAAACACGTAACATGATATCAGAT 57.507 30.769 11.78 2.54 0.00 2.90
4040 8187 7.899178 AACAAACACGTAACATGATATCAGA 57.101 32.000 11.78 0.00 0.00 3.27
4055 8202 9.318041 CTGATGTTCTTATCTTTAACAAACACG 57.682 33.333 0.00 0.00 36.75 4.49
4068 8215 7.768120 ACAGATCAAGGTTCTGATGTTCTTATC 59.232 37.037 7.63 0.00 42.63 1.75
4073 8220 6.429385 AGAAACAGATCAAGGTTCTGATGTTC 59.571 38.462 15.23 7.65 42.63 3.18
4074 8221 6.302269 AGAAACAGATCAAGGTTCTGATGTT 58.698 36.000 15.23 1.60 42.63 2.71
4145 8292 9.495572 TGAAACAACCAAAATTACTGTTTTCTT 57.504 25.926 0.00 0.00 39.61 2.52
4194 8341 6.887376 TCTACTATTTGTCAAACGATGAGC 57.113 37.500 0.00 0.00 39.19 4.26
4232 8379 5.545658 TTACAGATTTAGCAAGCCTTTCG 57.454 39.130 0.00 0.00 0.00 3.46
4233 8380 8.458843 TGTATTTACAGATTTAGCAAGCCTTTC 58.541 33.333 0.00 0.00 0.00 2.62
4304 8461 9.195411 AGTTTTTCAATGTGCACATATTTACAG 57.805 29.630 31.55 15.21 35.10 2.74
4313 8470 7.038048 TGTTCATTAGTTTTTCAATGTGCACA 58.962 30.769 24.08 24.08 34.45 4.57
4335 8492 4.396166 GCAGAAGTTGTGGCTGTATATGTT 59.604 41.667 1.77 0.00 32.39 2.71
4336 8493 3.941483 GCAGAAGTTGTGGCTGTATATGT 59.059 43.478 1.77 0.00 32.39 2.29
4372 8533 9.030452 AGTAATACAATGCAACTTAATTCCCAA 57.970 29.630 0.00 0.00 0.00 4.12
4398 8559 7.018149 ACCATAAGGCCCATTAGATACATGTAA 59.982 37.037 10.14 0.00 39.06 2.41
4399 8560 6.503924 ACCATAAGGCCCATTAGATACATGTA 59.496 38.462 8.27 8.27 39.06 2.29
4502 8665 3.269381 AGGGCCATCTTTCTGGTAATCAA 59.731 43.478 6.18 0.00 38.63 2.57
4758 8921 4.299155 CTTCGGTAGCGATACAACATCAT 58.701 43.478 18.87 0.00 0.00 2.45
4787 8950 1.230324 GAACTGCTGGAACCAGACAC 58.770 55.000 22.96 7.40 46.30 3.67
4789 8952 0.398318 AGGAACTGCTGGAACCAGAC 59.602 55.000 22.96 14.54 45.15 3.51
4851 9014 4.806640 ATATGAACCAAACAAGCCCTTG 57.193 40.909 6.48 6.48 45.58 3.61
5183 9393 2.275318 CAGAGGATTCGGAAACTCAGC 58.725 52.381 20.67 3.00 32.52 4.26
5194 9404 8.303876 GTGATAGGAATAGAGAACAGAGGATTC 58.696 40.741 0.00 0.00 0.00 2.52
5206 9416 6.106648 TGCAGGATTGTGATAGGAATAGAG 57.893 41.667 0.00 0.00 0.00 2.43
5291 9501 3.440522 GGAGCAGAACCCAAGATTGTTAC 59.559 47.826 0.00 0.00 0.00 2.50
5656 11772 4.199432 TCAGCTCCTCTCATTTCTGTTC 57.801 45.455 0.00 0.00 0.00 3.18
5692 11808 9.740710 AGCTCCTAGTCAACTGTTATTTATTTT 57.259 29.630 0.00 0.00 0.00 1.82
5695 11811 9.988815 CATAGCTCCTAGTCAACTGTTATTTAT 57.011 33.333 0.00 0.00 0.00 1.40
5696 11812 8.421784 CCATAGCTCCTAGTCAACTGTTATTTA 58.578 37.037 0.00 0.00 0.00 1.40
5697 11813 7.125811 TCCATAGCTCCTAGTCAACTGTTATTT 59.874 37.037 0.00 0.00 0.00 1.40
5698 11814 6.611642 TCCATAGCTCCTAGTCAACTGTTATT 59.388 38.462 0.00 0.00 0.00 1.40
5699 11815 6.136857 TCCATAGCTCCTAGTCAACTGTTAT 58.863 40.000 0.00 0.00 0.00 1.89
5700 11816 5.516044 TCCATAGCTCCTAGTCAACTGTTA 58.484 41.667 0.00 0.00 0.00 2.41
5701 11817 4.353777 TCCATAGCTCCTAGTCAACTGTT 58.646 43.478 0.00 0.00 0.00 3.16
5824 11940 1.080569 CATGTTTGCGACAAGGGGC 60.081 57.895 0.00 0.00 42.62 5.80
5874 11990 1.331756 GGGAGTATGCGCAGATTTGTG 59.668 52.381 18.32 0.00 37.87 3.33
5875 11991 1.668419 GGGAGTATGCGCAGATTTGT 58.332 50.000 18.32 0.00 0.00 2.83
5988 12126 1.442526 GGTGATGAGATGCCTTGGCG 61.443 60.000 7.18 0.00 0.00 5.69
5992 12130 0.106819 GCCTGGTGATGAGATGCCTT 60.107 55.000 0.00 0.00 0.00 4.35
5996 12134 1.070445 GAGGAGCCTGGTGATGAGATG 59.930 57.143 0.00 0.00 0.00 2.90
6006 12144 2.993853 GTCCTTGGAGGAGCCTGG 59.006 66.667 0.00 0.00 46.90 4.45
6026 12164 0.736325 CCCTTCGTGTCCACATCGAC 60.736 60.000 0.00 0.00 32.37 4.20
6063 12201 2.482142 GCCCATGTCTCCTACTCGAAAG 60.482 54.545 0.00 0.00 0.00 2.62
6065 12203 1.112113 GCCCATGTCTCCTACTCGAA 58.888 55.000 0.00 0.00 0.00 3.71
6067 12205 1.043116 TGGCCCATGTCTCCTACTCG 61.043 60.000 0.00 0.00 0.00 4.18
6080 12218 2.745308 CGGGATGTCTCATGGCCCA 61.745 63.158 0.00 0.00 38.75 5.36
6126 12264 4.753107 TCGTGAAGTAATTCAACCTGGTTC 59.247 41.667 9.62 0.00 32.04 3.62
6131 12269 4.283722 ACTCCTCGTGAAGTAATTCAACCT 59.716 41.667 7.26 0.00 32.04 3.50
6148 12286 6.348868 GGTTGATGTCAGAAATTTGACTCCTC 60.349 42.308 10.75 6.52 46.00 3.71
6149 12287 5.474876 GGTTGATGTCAGAAATTTGACTCCT 59.525 40.000 10.75 0.00 46.00 3.69
6150 12288 5.617751 CGGTTGATGTCAGAAATTTGACTCC 60.618 44.000 10.75 4.48 46.00 3.85
6157 12295 7.201821 GGATTAATCCGGTTGATGTCAGAAATT 60.202 37.037 18.61 0.00 37.19 1.82


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

AutoCloner maintained by Alex Coulton.