Multiple sequence alignment - TraesCS6D01G158100

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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 TraesCS6D01G158100 chr6D 100.000 2784 0 0 1 2784 134681578 134684361 0.000000e+00 5142.0
1 TraesCS6D01G158100 chr6D 98.023 1922 34 3 864 2784 134279228 134281146 0.000000e+00 3336.0
2 TraesCS6D01G158100 chr6D 86.782 870 89 22 965 1818 134676377 134677236 0.000000e+00 946.0
3 TraesCS6D01G158100 chr6D 84.316 1001 94 28 1039 2022 134241177 134242131 0.000000e+00 920.0
4 TraesCS6D01G158100 chr6D 80.366 601 88 14 1104 1680 134688911 134689505 1.980000e-116 429.0
5 TraesCS6D01G158100 chr6D 86.525 141 15 3 1878 2017 134677258 134677395 4.800000e-33 152.0
6 TraesCS6D01G158100 chr6D 91.139 79 7 0 112 190 134279097 134279175 1.050000e-19 108.0
7 TraesCS6D01G158100 chr6B 91.723 2054 83 21 122 2139 233012930 233014932 0.000000e+00 2771.0
8 TraesCS6D01G158100 chr6B 83.083 798 96 21 1043 1818 233010435 233011215 0.000000e+00 689.0
9 TraesCS6D01G158100 chr6B 80.630 635 85 28 1104 1711 233023692 233024315 9.090000e-125 457.0
10 TraesCS6D01G158100 chr6B 91.875 160 13 0 2454 2613 233015249 233015408 1.000000e-54 224.0
11 TraesCS6D01G158100 chr6B 91.367 139 8 2 2650 2784 233020684 233020822 1.320000e-43 187.0
12 TraesCS6D01G158100 chr6A 90.312 1249 76 16 719 1926 175621527 175622771 0.000000e+00 1594.0
13 TraesCS6D01G158100 chr6A 86.159 867 79 29 965 1818 175560601 175561439 0.000000e+00 898.0
14 TraesCS6D01G158100 chr6A 83.399 506 63 15 1104 1591 175629364 175629866 1.520000e-122 449.0
15 TraesCS6D01G158100 chr6A 88.987 227 12 3 1923 2136 175623074 175623300 4.570000e-68 268.0
16 TraesCS6D01G158100 chr6A 90.698 172 12 3 71 239 175597409 175597579 2.790000e-55 226.0
17 TraesCS6D01G158100 chr6A 83.665 251 29 9 428 678 175597527 175597765 2.790000e-55 226.0
18 TraesCS6D01G158100 chr6A 81.679 262 25 8 2538 2784 175623822 175624075 2.190000e-46 196.0
19 TraesCS6D01G158100 chr6A 87.500 88 11 0 2454 2541 175623430 175623517 4.910000e-18 102.0
20 TraesCS6D01G158100 chr3B 87.671 73 9 0 3 75 62792821 62792749 4.940000e-13 86.1
21 TraesCS6D01G158100 chr1B 87.500 72 5 4 3 72 622044308 622044239 2.300000e-11 80.5
22 TraesCS6D01G158100 chr3A 86.111 72 10 0 1 72 674667250 674667321 8.270000e-11 78.7
23 TraesCS6D01G158100 chr3D 81.818 66 12 0 5 70 447975400 447975335 3.870000e-04 56.5


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 TraesCS6D01G158100 chr6D 134681578 134684361 2783 False 5142 5142 100.000000 1 2784 1 chr6D.!!$F2 2783
1 TraesCS6D01G158100 chr6D 134279097 134281146 2049 False 1722 3336 94.581000 112 2784 2 chr6D.!!$F4 2672
2 TraesCS6D01G158100 chr6D 134241177 134242131 954 False 920 920 84.316000 1039 2022 1 chr6D.!!$F1 983
3 TraesCS6D01G158100 chr6D 134676377 134677395 1018 False 549 946 86.653500 965 2017 2 chr6D.!!$F5 1052
4 TraesCS6D01G158100 chr6D 134688911 134689505 594 False 429 429 80.366000 1104 1680 1 chr6D.!!$F3 576
5 TraesCS6D01G158100 chr6B 233010435 233015408 4973 False 1228 2771 88.893667 122 2613 3 chr6B.!!$F1 2491
6 TraesCS6D01G158100 chr6B 233020684 233024315 3631 False 322 457 85.998500 1104 2784 2 chr6B.!!$F2 1680
7 TraesCS6D01G158100 chr6A 175560601 175561439 838 False 898 898 86.159000 965 1818 1 chr6A.!!$F1 853
8 TraesCS6D01G158100 chr6A 175621527 175624075 2548 False 540 1594 87.119500 719 2784 4 chr6A.!!$F4 2065
9 TraesCS6D01G158100 chr6A 175629364 175629866 502 False 449 449 83.399000 1104 1591 1 chr6A.!!$F2 487

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
69 70 0.035458 CGGTCCTTTGGAGTTGCTCT 59.965 55.0 0.00 0.0 29.39 4.09 F
301 2679 0.101399 AGTTAGTCATGAGCTCGCCG 59.899 55.0 9.64 0.0 0.00 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1518 5796 1.251527 ACGTCCTCGCAGTCTTCCAT 61.252 55.000 0.00 0.0 41.18 3.41 R
2169 6823 1.444895 GCTTGGCATCCACGCTTTG 60.445 57.895 7.03 0.0 44.01 2.77 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 1.278637 GTCACTTTTGTCCACGCCG 59.721 57.895 0.00 0.00 0.00 6.46
21 22 1.890510 ACTTTTGTCCACGCCGACC 60.891 57.895 0.00 0.00 31.35 4.79
23 24 3.402095 TTTTGTCCACGCCGACCCA 62.402 57.895 0.00 0.00 31.35 4.51
26 27 3.351416 GTCCACGCCGACCCAAAC 61.351 66.667 0.00 0.00 0.00 2.93
30 31 2.968697 ACGCCGACCCAAACGAAC 60.969 61.111 0.00 0.00 0.00 3.95
31 32 4.067016 CGCCGACCCAAACGAACG 62.067 66.667 0.00 0.00 0.00 3.95
32 33 4.379143 GCCGACCCAAACGAACGC 62.379 66.667 0.00 0.00 0.00 4.84
33 34 2.968156 CCGACCCAAACGAACGCA 60.968 61.111 0.00 0.00 0.00 5.24
34 35 2.549282 CGACCCAAACGAACGCAG 59.451 61.111 0.00 0.00 0.00 5.18
37 38 2.113131 GACCCAAACGAACGCAGGTG 62.113 60.000 0.00 0.00 0.00 4.00
38 39 2.637025 CCAAACGAACGCAGGTGG 59.363 61.111 0.00 0.00 0.00 4.61
39 40 1.890041 CCAAACGAACGCAGGTGGA 60.890 57.895 0.00 0.00 0.00 4.02
41 42 0.110238 CAAACGAACGCAGGTGGATG 60.110 55.000 0.00 0.00 0.00 3.51
43 44 0.250124 AACGAACGCAGGTGGATGAA 60.250 50.000 0.00 0.00 0.00 2.57
44 45 0.250124 ACGAACGCAGGTGGATGAAA 60.250 50.000 0.00 0.00 0.00 2.69
46 47 1.234821 GAACGCAGGTGGATGAAACA 58.765 50.000 0.00 0.00 0.00 2.83
48 49 0.396435 ACGCAGGTGGATGAAACAGA 59.604 50.000 0.00 0.00 0.00 3.41
51 52 1.667724 GCAGGTGGATGAAACAGATCG 59.332 52.381 0.00 0.00 0.00 3.69
54 55 2.093447 AGGTGGATGAAACAGATCGGTC 60.093 50.000 0.00 0.00 0.00 4.79
55 56 2.280628 GTGGATGAAACAGATCGGTCC 58.719 52.381 0.00 0.00 0.00 4.46
56 57 2.093447 GTGGATGAAACAGATCGGTCCT 60.093 50.000 0.00 0.00 31.55 3.85
57 58 2.571653 TGGATGAAACAGATCGGTCCTT 59.428 45.455 0.00 0.00 31.55 3.36
58 59 3.009033 TGGATGAAACAGATCGGTCCTTT 59.991 43.478 0.00 0.00 31.55 3.11
59 60 3.375299 GGATGAAACAGATCGGTCCTTTG 59.625 47.826 0.00 0.00 0.00 2.77
60 61 2.778299 TGAAACAGATCGGTCCTTTGG 58.222 47.619 0.00 0.00 0.00 3.28
62 63 2.770164 AACAGATCGGTCCTTTGGAG 57.230 50.000 0.00 0.00 29.39 3.86
63 64 1.645710 ACAGATCGGTCCTTTGGAGT 58.354 50.000 0.00 0.00 29.39 3.85
64 65 1.978580 ACAGATCGGTCCTTTGGAGTT 59.021 47.619 0.00 0.00 29.39 3.01
65 66 2.289694 ACAGATCGGTCCTTTGGAGTTG 60.290 50.000 0.00 0.00 29.39 3.16
67 68 0.693049 ATCGGTCCTTTGGAGTTGCT 59.307 50.000 0.00 0.00 29.39 3.91
69 70 0.035458 CGGTCCTTTGGAGTTGCTCT 59.965 55.000 0.00 0.00 29.39 4.09
70 71 1.275291 CGGTCCTTTGGAGTTGCTCTA 59.725 52.381 0.00 0.00 29.39 2.43
71 72 2.289444 CGGTCCTTTGGAGTTGCTCTAA 60.289 50.000 0.00 0.00 29.39 2.10
73 74 3.244596 GGTCCTTTGGAGTTGCTCTAAGT 60.245 47.826 0.00 0.00 32.87 2.24
75 76 3.646162 TCCTTTGGAGTTGCTCTAAGTCA 59.354 43.478 0.00 0.00 39.94 3.41
78 79 1.961394 TGGAGTTGCTCTAAGTCACGT 59.039 47.619 0.00 0.00 39.94 4.49
80 81 3.570975 TGGAGTTGCTCTAAGTCACGTAA 59.429 43.478 0.00 0.00 39.94 3.18
81 82 4.038282 TGGAGTTGCTCTAAGTCACGTAAA 59.962 41.667 0.00 0.00 39.94 2.01
82 83 4.986659 GGAGTTGCTCTAAGTCACGTAAAA 59.013 41.667 0.00 0.00 39.94 1.52
83 84 5.464389 GGAGTTGCTCTAAGTCACGTAAAAA 59.536 40.000 0.00 0.00 39.94 1.94
87 88 7.441458 AGTTGCTCTAAGTCACGTAAAAATCTT 59.559 33.333 0.00 0.00 0.00 2.40
88 89 7.347508 TGCTCTAAGTCACGTAAAAATCTTC 57.652 36.000 0.00 0.00 0.00 2.87
89 90 6.926826 TGCTCTAAGTCACGTAAAAATCTTCA 59.073 34.615 0.00 0.00 0.00 3.02
91 92 9.084164 GCTCTAAGTCACGTAAAAATCTTCATA 57.916 33.333 0.00 0.00 0.00 2.15
98 99 9.136952 GTCACGTAAAAATCTTCATAGTACAGT 57.863 33.333 0.00 0.00 0.00 3.55
209 2587 1.278127 ACGGTTCTACTTCACCATGGG 59.722 52.381 18.09 5.22 31.84 4.00
226 2604 2.563427 GCAAGTCGCTTTGGCTCC 59.437 61.111 1.78 0.00 37.77 4.70
227 2605 1.968540 GCAAGTCGCTTTGGCTCCT 60.969 57.895 1.78 0.00 37.77 3.69
235 2613 1.378250 CTTTGGCTCCTGGGCTCAG 60.378 63.158 6.61 6.61 41.48 3.35
250 2628 2.328319 GCTCAGATGGAAGGGAGATCT 58.672 52.381 0.00 0.00 0.00 2.75
301 2679 0.101399 AGTTAGTCATGAGCTCGCCG 59.899 55.000 9.64 0.00 0.00 6.46
302 2680 0.179134 GTTAGTCATGAGCTCGCCGT 60.179 55.000 9.64 0.00 0.00 5.68
303 2681 1.065102 GTTAGTCATGAGCTCGCCGTA 59.935 52.381 9.64 0.00 0.00 4.02
335 2713 3.185797 AGCATCTTTCGTACCGTTGTTTC 59.814 43.478 0.00 0.00 0.00 2.78
340 2718 0.576328 TCGTACCGTTGTTTCGTTGC 59.424 50.000 0.00 0.00 0.00 4.17
361 2739 3.887716 GCACTCGGGGTTAGACTCTATTA 59.112 47.826 0.00 0.00 0.00 0.98
371 2749 8.712103 GGGGTTAGACTCTATTATAAACTTGGT 58.288 37.037 0.00 0.00 0.00 3.67
377 2755 8.957466 AGACTCTATTATAAACTTGGTTTTGGC 58.043 33.333 0.99 0.00 37.01 4.52
400 2778 4.759782 TGAGAAGCCTCTGTTAGTAATGC 58.240 43.478 0.00 0.00 40.10 3.56
415 2793 8.946085 TGTTAGTAATGCGAATCTCTTTTTCAT 58.054 29.630 0.00 0.00 0.00 2.57
460 2841 2.069273 CTTCACCATGGACAAGTCGTC 58.931 52.381 21.47 0.00 44.57 4.20
472 2853 0.754472 AAGTCGTCTTGGTTTCCGGA 59.246 50.000 0.00 0.00 32.09 5.14
478 2859 0.685097 TCTTGGTTTCCGGACTCAGG 59.315 55.000 1.83 3.51 0.00 3.86
545 2926 7.422465 TCAAAATAAATCTGATTTGGGAGGG 57.578 36.000 22.47 9.88 34.39 4.30
546 2927 6.383726 TCAAAATAAATCTGATTTGGGAGGGG 59.616 38.462 22.47 8.59 34.39 4.79
547 2928 2.854736 AAATCTGATTTGGGAGGGGG 57.145 50.000 14.47 0.00 0.00 5.40
548 2929 2.000290 AATCTGATTTGGGAGGGGGA 58.000 50.000 0.00 0.00 0.00 4.81
549 2930 1.527457 ATCTGATTTGGGAGGGGGAG 58.473 55.000 0.00 0.00 0.00 4.30
550 2931 0.624500 TCTGATTTGGGAGGGGGAGG 60.625 60.000 0.00 0.00 0.00 4.30
551 2932 1.622442 TGATTTGGGAGGGGGAGGG 60.622 63.158 0.00 0.00 0.00 4.30
552 2933 2.287975 ATTTGGGAGGGGGAGGGG 60.288 66.667 0.00 0.00 0.00 4.79
564 2945 1.406860 GGGAGGGGAGATGACTGAGC 61.407 65.000 0.00 0.00 0.00 4.26
575 2956 2.299993 TGACTGAGCGAATGATGTCC 57.700 50.000 0.00 0.00 0.00 4.02
579 2960 1.083806 TGAGCGAATGATGTCCGTGC 61.084 55.000 0.00 0.00 0.00 5.34
588 2969 3.296322 TGATGTCCGTGCCAAAATTTC 57.704 42.857 0.00 0.00 0.00 2.17
666 3047 6.034044 TGTGAAAAAGTTTACGATTTGTGCAC 59.966 34.615 10.75 10.75 0.00 4.57
667 3048 5.228220 TGAAAAAGTTTACGATTTGTGCACG 59.772 36.000 13.13 1.70 0.00 5.34
673 3054 0.816018 ACGATTTGTGCACGGGTTGA 60.816 50.000 13.13 0.00 0.00 3.18
816 3209 5.380900 TCACTAGATGTAGATGAGTCCAGG 58.619 45.833 3.49 0.00 0.00 4.45
836 3229 6.041409 TCCAGGCTCAGAACTGAATATTCTAG 59.959 42.308 16.24 13.33 39.39 2.43
846 3248 8.718656 AGAACTGAATATTCTAGGGCAAGTTAT 58.281 33.333 16.24 9.69 34.59 1.89
1093 3519 0.667487 ATCTCACACTTCCACGCACG 60.667 55.000 0.00 0.00 0.00 5.34
1713 6009 6.428385 AGCATTTCTACAAGATAGTGTTGC 57.572 37.500 0.00 0.00 32.75 4.17
1756 6059 8.654997 TCAATTTTGGAACCATTCTTAATTCCA 58.345 29.630 2.48 2.48 46.92 3.53
1766 6069 5.364735 CCATTCTTAATTCCAGAGGCCAAAT 59.635 40.000 5.01 0.00 0.00 2.32
1818 6148 8.770010 TTTTTGTAGATTTAGGTGGGAAAGAA 57.230 30.769 0.00 0.00 0.00 2.52
1819 6149 7.754851 TTTGTAGATTTAGGTGGGAAAGAAC 57.245 36.000 0.00 0.00 0.00 3.01
1820 6150 6.442541 TGTAGATTTAGGTGGGAAAGAACA 57.557 37.500 0.00 0.00 0.00 3.18
1821 6151 6.843752 TGTAGATTTAGGTGGGAAAGAACAA 58.156 36.000 0.00 0.00 0.00 2.83
1822 6152 7.291566 TGTAGATTTAGGTGGGAAAGAACAAA 58.708 34.615 0.00 0.00 0.00 2.83
1823 6153 7.780745 TGTAGATTTAGGTGGGAAAGAACAAAA 59.219 33.333 0.00 0.00 0.00 2.44
1824 6154 7.669089 AGATTTAGGTGGGAAAGAACAAAAA 57.331 32.000 0.00 0.00 0.00 1.94
1901 6231 5.550290 CAAAACTACCAGGAATGCCAAAAT 58.450 37.500 0.00 0.00 36.29 1.82
2017 6655 6.955963 GCTACGATGAAAGTAGTCAAAATGTG 59.044 38.462 0.00 0.00 42.49 3.21
2169 6823 3.232213 TCAACCAGTCAGCGATAGAAC 57.768 47.619 0.00 0.00 39.76 3.01
2436 7281 4.752879 TACGGAGGGCGTGCTTGC 62.753 66.667 0.00 0.00 0.00 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.155424 TCGGCGTGGACAAAAGTGAC 61.155 55.000 6.85 0.00 0.00 3.67
2 3 1.278637 GTCGGCGTGGACAAAAGTG 59.721 57.895 6.85 0.00 36.91 3.16
3 4 1.890510 GGTCGGCGTGGACAAAAGT 60.891 57.895 6.85 0.00 38.70 2.66
8 9 3.862991 TTTGGGTCGGCGTGGACA 61.863 61.111 6.85 0.00 38.70 4.02
11 12 4.973055 TCGTTTGGGTCGGCGTGG 62.973 66.667 6.85 0.00 0.00 4.94
14 15 4.067016 CGTTCGTTTGGGTCGGCG 62.067 66.667 0.00 0.00 0.00 6.46
15 16 4.379143 GCGTTCGTTTGGGTCGGC 62.379 66.667 0.00 0.00 0.00 5.54
18 19 1.890510 ACCTGCGTTCGTTTGGGTC 60.891 57.895 0.00 0.00 0.00 4.46
21 22 1.234615 ATCCACCTGCGTTCGTTTGG 61.235 55.000 0.00 0.00 0.00 3.28
23 24 0.250124 TCATCCACCTGCGTTCGTTT 60.250 50.000 0.00 0.00 0.00 3.60
26 27 0.165944 GTTTCATCCACCTGCGTTCG 59.834 55.000 0.00 0.00 0.00 3.95
30 31 1.667724 GATCTGTTTCATCCACCTGCG 59.332 52.381 0.00 0.00 0.00 5.18
31 32 1.667724 CGATCTGTTTCATCCACCTGC 59.332 52.381 0.00 0.00 0.00 4.85
32 33 2.283298 CCGATCTGTTTCATCCACCTG 58.717 52.381 0.00 0.00 0.00 4.00
33 34 1.909302 ACCGATCTGTTTCATCCACCT 59.091 47.619 0.00 0.00 0.00 4.00
34 35 2.280628 GACCGATCTGTTTCATCCACC 58.719 52.381 0.00 0.00 0.00 4.61
37 38 2.990066 AGGACCGATCTGTTTCATCC 57.010 50.000 0.00 0.00 0.00 3.51
38 39 3.375299 CCAAAGGACCGATCTGTTTCATC 59.625 47.826 0.00 0.00 0.00 2.92
39 40 3.009033 TCCAAAGGACCGATCTGTTTCAT 59.991 43.478 0.00 0.00 0.00 2.57
41 42 3.003480 CTCCAAAGGACCGATCTGTTTC 58.997 50.000 0.00 0.00 0.00 2.78
43 44 1.978580 ACTCCAAAGGACCGATCTGTT 59.021 47.619 0.00 0.00 0.00 3.16
44 45 1.645710 ACTCCAAAGGACCGATCTGT 58.354 50.000 0.00 0.00 0.00 3.41
46 47 1.339151 GCAACTCCAAAGGACCGATCT 60.339 52.381 0.00 0.00 0.00 2.75
48 49 0.693049 AGCAACTCCAAAGGACCGAT 59.307 50.000 0.00 0.00 0.00 4.18
51 52 3.244596 ACTTAGAGCAACTCCAAAGGACC 60.245 47.826 10.37 0.00 32.03 4.46
54 55 3.748568 GTGACTTAGAGCAACTCCAAAGG 59.251 47.826 10.37 0.00 32.03 3.11
55 56 3.430218 CGTGACTTAGAGCAACTCCAAAG 59.570 47.826 6.00 6.00 33.19 2.77
56 57 3.181469 ACGTGACTTAGAGCAACTCCAAA 60.181 43.478 0.00 0.00 0.00 3.28
57 58 2.364324 ACGTGACTTAGAGCAACTCCAA 59.636 45.455 0.00 0.00 0.00 3.53
58 59 1.961394 ACGTGACTTAGAGCAACTCCA 59.039 47.619 0.00 0.00 0.00 3.86
59 60 2.726832 ACGTGACTTAGAGCAACTCC 57.273 50.000 0.00 0.00 0.00 3.85
60 61 6.520792 TTTTTACGTGACTTAGAGCAACTC 57.479 37.500 0.00 0.00 0.00 3.01
62 63 7.118422 AGATTTTTACGTGACTTAGAGCAAC 57.882 36.000 0.00 0.00 0.00 4.17
63 64 7.439955 TGAAGATTTTTACGTGACTTAGAGCAA 59.560 33.333 0.00 0.00 0.00 3.91
64 65 6.926826 TGAAGATTTTTACGTGACTTAGAGCA 59.073 34.615 0.00 0.00 0.00 4.26
65 66 7.347508 TGAAGATTTTTACGTGACTTAGAGC 57.652 36.000 0.00 0.00 0.00 4.09
70 71 9.701098 TGTACTATGAAGATTTTTACGTGACTT 57.299 29.630 0.00 0.00 0.00 3.01
71 72 9.355215 CTGTACTATGAAGATTTTTACGTGACT 57.645 33.333 0.00 0.00 0.00 3.41
209 2587 1.968540 AGGAGCCAAAGCGACTTGC 60.969 57.895 0.00 0.00 46.67 4.01
226 2604 0.984961 TCCCTTCCATCTGAGCCCAG 60.985 60.000 0.00 0.00 41.74 4.45
227 2605 0.984961 CTCCCTTCCATCTGAGCCCA 60.985 60.000 0.00 0.00 0.00 5.36
267 2645 3.518590 ACTAACTTTATTCTGCGACCGG 58.481 45.455 0.00 0.00 0.00 5.28
270 2648 6.508721 GCTCATGACTAACTTTATTCTGCGAC 60.509 42.308 0.00 0.00 0.00 5.19
271 2649 5.520288 GCTCATGACTAACTTTATTCTGCGA 59.480 40.000 0.00 0.00 0.00 5.10
301 2679 3.123621 CGAAAGATGCTTCGCCCATATAC 59.876 47.826 0.00 0.00 41.46 1.47
302 2680 3.325870 CGAAAGATGCTTCGCCCATATA 58.674 45.455 0.00 0.00 41.46 0.86
303 2681 2.146342 CGAAAGATGCTTCGCCCATAT 58.854 47.619 0.00 0.00 41.46 1.78
323 2701 1.328374 AGTGCAACGAAACAACGGTAC 59.672 47.619 0.00 0.00 45.86 3.34
327 2705 0.653323 CCGAGTGCAACGAAACAACG 60.653 55.000 14.63 0.00 45.86 4.10
335 2713 1.012486 GTCTAACCCCGAGTGCAACG 61.012 60.000 7.45 7.45 45.86 4.10
340 2718 7.756395 TTATAATAGAGTCTAACCCCGAGTG 57.244 40.000 3.45 0.00 0.00 3.51
361 2739 5.509670 GCTTCTCAGCCAAAACCAAGTTTAT 60.510 40.000 0.00 0.00 40.61 1.40
377 2755 4.808364 GCATTACTAACAGAGGCTTCTCAG 59.192 45.833 0.00 0.00 39.91 3.35
388 2766 8.443160 TGAAAAAGAGATTCGCATTACTAACAG 58.557 33.333 0.00 0.00 0.00 3.16
392 2770 7.042725 CGGATGAAAAAGAGATTCGCATTACTA 60.043 37.037 0.00 0.00 0.00 1.82
426 2807 2.559668 TGGTGAAGTCGAACCGTATCTT 59.440 45.455 0.00 0.00 39.47 2.40
438 2819 2.069273 CGACTTGTCCATGGTGAAGTC 58.931 52.381 29.76 29.76 40.54 3.01
460 2841 0.396811 ACCTGAGTCCGGAAACCAAG 59.603 55.000 5.23 0.58 0.00 3.61
465 2846 0.395312 GGTTCACCTGAGTCCGGAAA 59.605 55.000 5.23 0.00 0.00 3.13
467 2848 1.155390 AGGTTCACCTGAGTCCGGA 59.845 57.895 7.70 0.00 46.55 5.14
529 2910 1.855599 CTCCCCCTCCCAAATCAGATT 59.144 52.381 0.00 0.00 0.00 2.40
530 2911 1.527457 CTCCCCCTCCCAAATCAGAT 58.473 55.000 0.00 0.00 0.00 2.90
531 2912 0.624500 CCTCCCCCTCCCAAATCAGA 60.625 60.000 0.00 0.00 0.00 3.27
532 2913 1.649271 CCCTCCCCCTCCCAAATCAG 61.649 65.000 0.00 0.00 0.00 2.90
533 2914 1.622442 CCCTCCCCCTCCCAAATCA 60.622 63.158 0.00 0.00 0.00 2.57
534 2915 2.395353 CCCCTCCCCCTCCCAAATC 61.395 68.421 0.00 0.00 0.00 2.17
535 2916 2.287975 CCCCTCCCCCTCCCAAAT 60.288 66.667 0.00 0.00 0.00 2.32
536 2917 3.558124 TCCCCTCCCCCTCCCAAA 61.558 66.667 0.00 0.00 0.00 3.28
537 2918 4.038804 CTCCCCTCCCCCTCCCAA 62.039 72.222 0.00 0.00 0.00 4.12
539 2920 3.462501 ATCTCCCCTCCCCCTCCC 61.463 72.222 0.00 0.00 0.00 4.30
540 2921 2.122189 CATCTCCCCTCCCCCTCC 60.122 72.222 0.00 0.00 0.00 4.30
541 2922 1.460497 GTCATCTCCCCTCCCCCTC 60.460 68.421 0.00 0.00 0.00 4.30
542 2923 1.949449 AGTCATCTCCCCTCCCCCT 60.949 63.158 0.00 0.00 0.00 4.79
543 2924 1.768077 CAGTCATCTCCCCTCCCCC 60.768 68.421 0.00 0.00 0.00 5.40
544 2925 0.762461 CTCAGTCATCTCCCCTCCCC 60.762 65.000 0.00 0.00 0.00 4.81
545 2926 1.406860 GCTCAGTCATCTCCCCTCCC 61.407 65.000 0.00 0.00 0.00 4.30
546 2927 1.743321 CGCTCAGTCATCTCCCCTCC 61.743 65.000 0.00 0.00 0.00 4.30
547 2928 0.753479 TCGCTCAGTCATCTCCCCTC 60.753 60.000 0.00 0.00 0.00 4.30
548 2929 0.324738 TTCGCTCAGTCATCTCCCCT 60.325 55.000 0.00 0.00 0.00 4.79
549 2930 0.755686 ATTCGCTCAGTCATCTCCCC 59.244 55.000 0.00 0.00 0.00 4.81
550 2931 1.410517 TCATTCGCTCAGTCATCTCCC 59.589 52.381 0.00 0.00 0.00 4.30
551 2932 2.879002 TCATTCGCTCAGTCATCTCC 57.121 50.000 0.00 0.00 0.00 3.71
552 2933 3.715495 ACATCATTCGCTCAGTCATCTC 58.285 45.455 0.00 0.00 0.00 2.75
564 2945 0.801872 TTTGGCACGGACATCATTCG 59.198 50.000 0.00 0.00 0.00 3.34
575 2956 2.420628 TGCTCTGAAATTTTGGCACG 57.579 45.000 0.00 0.00 0.00 5.34
579 2960 5.935789 ACATCCAAATGCTCTGAAATTTTGG 59.064 36.000 14.20 14.20 44.88 3.28
588 2969 5.277876 GCTATTCAGACATCCAAATGCTCTG 60.278 44.000 9.66 9.66 39.64 3.35
631 3012 9.688592 TCGTAAACTTTTTCACAAACCTTAAAA 57.311 25.926 0.00 0.00 0.00 1.52
632 3013 9.857957 ATCGTAAACTTTTTCACAAACCTTAAA 57.142 25.926 0.00 0.00 0.00 1.52
730 3112 8.206867 AGCTATTTTAGTACTTGAGATGCATGA 58.793 33.333 2.46 0.00 0.00 3.07
816 3209 4.994217 GCCCTAGAATATTCAGTTCTGAGC 59.006 45.833 17.56 5.61 36.63 4.26
821 3214 8.910351 ATAACTTGCCCTAGAATATTCAGTTC 57.090 34.615 17.56 3.57 0.00 3.01
836 3229 5.475564 TGTGAAGAGGTTTTATAACTTGCCC 59.524 40.000 0.00 0.00 34.59 5.36
1093 3519 3.297134 TGGAATCTTTGGAGGTATGCC 57.703 47.619 0.00 0.00 0.00 4.40
1333 5560 3.134792 GGAGCAGCTCGTCGGAGA 61.135 66.667 16.47 0.00 43.27 3.71
1518 5796 1.251527 ACGTCCTCGCAGTCTTCCAT 61.252 55.000 0.00 0.00 41.18 3.41
1642 5920 3.306595 CTCAGAGCCCGCTTCAGCA 62.307 63.158 0.00 0.00 42.21 4.41
1668 5952 2.379972 GAGTCAGTTAGCAGCCTCCTA 58.620 52.381 0.00 0.00 0.00 2.94
1680 5964 4.521130 TGTAGAAATGCTCGAGTCAGTT 57.479 40.909 17.90 17.90 0.00 3.16
1821 6151 7.839680 ATTTACAGTCTCTGTCCCAATTTTT 57.160 32.000 5.66 0.00 41.21 1.94
1822 6152 9.178758 GATATTTACAGTCTCTGTCCCAATTTT 57.821 33.333 5.66 0.00 41.21 1.82
1823 6153 8.552296 AGATATTTACAGTCTCTGTCCCAATTT 58.448 33.333 5.66 0.64 41.21 1.82
1824 6154 8.095452 AGATATTTACAGTCTCTGTCCCAATT 57.905 34.615 5.66 0.00 41.21 2.32
1825 6155 7.202047 GGAGATATTTACAGTCTCTGTCCCAAT 60.202 40.741 5.66 6.45 41.21 3.16
1826 6156 6.098409 GGAGATATTTACAGTCTCTGTCCCAA 59.902 42.308 5.66 0.00 41.21 4.12
1827 6157 5.598830 GGAGATATTTACAGTCTCTGTCCCA 59.401 44.000 5.66 0.00 41.21 4.37
1828 6158 5.011227 GGGAGATATTTACAGTCTCTGTCCC 59.989 48.000 5.66 4.82 41.21 4.46
1829 6159 5.598830 TGGGAGATATTTACAGTCTCTGTCC 59.401 44.000 5.66 0.00 41.21 4.02
1830 6160 6.322712 ACTGGGAGATATTTACAGTCTCTGTC 59.677 42.308 5.66 0.00 41.21 3.51
1832 6162 6.097554 ACACTGGGAGATATTTACAGTCTCTG 59.902 42.308 0.00 0.00 40.14 3.35
1833 6163 6.097554 CACACTGGGAGATATTTACAGTCTCT 59.902 42.308 0.00 0.00 40.14 3.10
1834 6164 6.127310 ACACACTGGGAGATATTTACAGTCTC 60.127 42.308 0.00 0.00 40.14 3.36
1835 6165 5.721960 ACACACTGGGAGATATTTACAGTCT 59.278 40.000 0.00 0.00 40.14 3.24
2017 6655 4.557205 ACATTTAGAGACAGTTCGGTCAC 58.443 43.478 5.97 0.12 40.29 3.67
2169 6823 1.444895 GCTTGGCATCCACGCTTTG 60.445 57.895 7.03 0.00 44.01 2.77


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

AutoCloner maintained by Alex Coulton.