Multiple sequence alignment - TraesCS2D01G163300

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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 TraesCS2D01G163300 chr2D 100.000 2877 0 0 1 2877 107695762 107692886 0.000000e+00 5313.0
1 TraesCS2D01G163300 chr2D 85.670 970 109 18 935 1881 107576094 107575132 0.000000e+00 994.0
2 TraesCS2D01G163300 chr2B 92.827 1673 67 23 601 2248 157736453 157734809 0.000000e+00 2375.0
3 TraesCS2D01G163300 chr2B 95.146 412 18 2 209 618 157737180 157736769 0.000000e+00 649.0
4 TraesCS2D01G163300 chr2B 89.765 469 32 3 2268 2736 157734479 157734027 1.150000e-163 586.0
5 TraesCS2D01G163300 chr2B 94.615 130 6 1 79 208 157738257 157738129 1.750000e-47 200.0
6 TraesCS2D01G163300 chr2B 97.500 40 1 0 1 40 157738289 157738250 5.140000e-08 69.4
7 TraesCS2D01G163300 chr2A 96.569 1370 33 9 880 2238 104028439 104027073 0.000000e+00 2257.0
8 TraesCS2D01G163300 chr2A 89.610 693 43 16 206 883 104029152 104028474 0.000000e+00 854.0
9 TraesCS2D01G163300 chr2A 84.423 719 89 14 1013 1709 103985626 103984909 0.000000e+00 686.0
10 TraesCS2D01G163300 chr2A 88.511 470 32 4 2418 2877 104024576 104024119 1.510000e-152 549.0
11 TraesCS2D01G163300 chr2A 90.278 216 5 9 3 208 104040925 104040716 4.730000e-68 268.0
12 TraesCS2D01G163300 chr2A 94.558 147 8 0 2268 2414 104026681 104026535 8.020000e-56 228.0
13 TraesCS2D01G163300 chr2A 94.340 53 3 0 1829 1881 103912693 103912641 6.610000e-12 82.4
14 TraesCS2D01G163300 chr3D 78.808 151 30 2 2672 2822 183893596 183893448 1.820000e-17 100.0


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 TraesCS2D01G163300 chr2D 107692886 107695762 2876 True 5313.00 5313 100.0000 1 2877 1 chr2D.!!$R2 2876
1 TraesCS2D01G163300 chr2D 107575132 107576094 962 True 994.00 994 85.6700 935 1881 1 chr2D.!!$R1 946
2 TraesCS2D01G163300 chr2B 157734027 157738289 4262 True 775.88 2375 93.9706 1 2736 5 chr2B.!!$R1 2735
3 TraesCS2D01G163300 chr2A 104024119 104029152 5033 True 972.00 2257 92.3120 206 2877 4 chr2A.!!$R4 2671
4 TraesCS2D01G163300 chr2A 103984909 103985626 717 True 686.00 686 84.4230 1013 1709 1 chr2A.!!$R2 696

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
189 190 0.037326 TGTGACCGACCATGCTTCTC 60.037 55.0 0.0 0.0 0.00 2.87 F
199 200 0.251742 CATGCTTCTCCAAACCCCCA 60.252 55.0 0.0 0.0 0.00 4.96 F
1056 2409 1.232621 TTTCTCTCGTCGCCGTCTCA 61.233 55.0 0.0 0.0 35.01 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1669 3069 2.451490 CTGCTGAGGAAGTAGGTCTCA 58.549 52.381 0.00 0.0 35.13 3.27 R
1709 3109 4.388499 CGTGAACCCGGTCCCCTG 62.388 72.222 0.00 0.0 0.00 4.45 R
2788 6725 0.250038 CGGATCCAGCCATCGAATGT 60.250 55.000 13.41 0.0 0.00 2.71 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
55 56 9.842775 AATGATTTGCAATATAGAGACTTCAGA 57.157 29.630 0.00 0.00 0.00 3.27
56 57 9.842775 ATGATTTGCAATATAGAGACTTCAGAA 57.157 29.630 0.00 0.00 0.00 3.02
57 58 9.322773 TGATTTGCAATATAGAGACTTCAGAAG 57.677 33.333 8.77 8.77 0.00 2.85
58 59 8.674263 ATTTGCAATATAGAGACTTCAGAAGG 57.326 34.615 14.90 0.00 0.00 3.46
59 60 6.166984 TGCAATATAGAGACTTCAGAAGGG 57.833 41.667 14.90 0.00 0.00 3.95
60 61 5.899547 TGCAATATAGAGACTTCAGAAGGGA 59.100 40.000 14.90 0.00 0.00 4.20
61 62 6.041409 TGCAATATAGAGACTTCAGAAGGGAG 59.959 42.308 14.90 0.00 0.00 4.30
62 63 6.518200 GCAATATAGAGACTTCAGAAGGGAGG 60.518 46.154 14.90 0.00 0.00 4.30
63 64 1.567357 AGAGACTTCAGAAGGGAGGC 58.433 55.000 14.90 0.00 0.00 4.70
64 65 0.174617 GAGACTTCAGAAGGGAGGCG 59.825 60.000 14.90 0.00 0.00 5.52
65 66 0.543174 AGACTTCAGAAGGGAGGCGT 60.543 55.000 14.90 0.00 0.00 5.68
66 67 1.183549 GACTTCAGAAGGGAGGCGTA 58.816 55.000 14.90 0.00 0.00 4.42
67 68 1.549170 GACTTCAGAAGGGAGGCGTAA 59.451 52.381 14.90 0.00 0.00 3.18
68 69 2.168728 GACTTCAGAAGGGAGGCGTAAT 59.831 50.000 14.90 0.00 0.00 1.89
69 70 2.093447 ACTTCAGAAGGGAGGCGTAATG 60.093 50.000 14.90 0.00 0.00 1.90
70 71 0.830648 TCAGAAGGGAGGCGTAATGG 59.169 55.000 0.00 0.00 0.00 3.16
71 72 0.815615 CAGAAGGGAGGCGTAATGGC 60.816 60.000 0.00 0.00 45.27 4.40
79 80 2.539003 GGCGTAATGGCATATGCGA 58.461 52.632 21.04 18.18 44.08 5.10
80 81 1.086696 GGCGTAATGGCATATGCGAT 58.913 50.000 21.04 19.69 44.08 4.58
82 83 2.508867 GCGTAATGGCATATGCGATTG 58.491 47.619 34.75 24.65 46.41 2.67
115 116 1.708551 CCTCCTTTGGTTCCCACCTTA 59.291 52.381 0.00 0.00 44.61 2.69
142 143 5.396772 CCAATCTTCCTAGCCACATCTACAA 60.397 44.000 0.00 0.00 0.00 2.41
189 190 0.037326 TGTGACCGACCATGCTTCTC 60.037 55.000 0.00 0.00 0.00 2.87
193 194 0.400213 ACCGACCATGCTTCTCCAAA 59.600 50.000 0.00 0.00 0.00 3.28
194 195 0.804989 CCGACCATGCTTCTCCAAAC 59.195 55.000 0.00 0.00 0.00 2.93
199 200 0.251742 CATGCTTCTCCAAACCCCCA 60.252 55.000 0.00 0.00 0.00 4.96
216 1165 4.264172 ACCCCCAATATGTTAACTCTTGCA 60.264 41.667 7.22 0.00 0.00 4.08
262 1211 5.220912 CCGATGCATTGAAATTCAGAAGCTA 60.221 40.000 15.98 5.20 0.00 3.32
264 1213 4.973396 TGCATTGAAATTCAGAAGCTACG 58.027 39.130 14.18 0.00 0.00 3.51
292 1241 3.160585 CCAGCTCTTGTCCCACCA 58.839 61.111 0.00 0.00 0.00 4.17
296 1245 3.160585 CTCTTGTCCCACCAGCCA 58.839 61.111 0.00 0.00 0.00 4.75
351 1301 3.157087 CCTTGGTTGGAACTAAGTGCAT 58.843 45.455 12.85 0.00 43.47 3.96
477 1429 5.988561 GTCCTCCTGACTCACATTGATAATC 59.011 44.000 0.00 0.00 41.03 1.75
610 1567 1.406887 GCGACCCATCAACCACTATGT 60.407 52.381 0.00 0.00 0.00 2.29
631 1921 7.873739 ATGTTGAAATTTCTGACGATTTTCC 57.126 32.000 18.64 0.00 0.00 3.13
632 1922 6.800543 TGTTGAAATTTCTGACGATTTTCCA 58.199 32.000 18.64 0.00 0.00 3.53
634 1924 7.381948 TGTTGAAATTTCTGACGATTTTCCATG 59.618 33.333 18.64 0.00 0.00 3.66
655 1952 8.961634 TCCATGATAACAAATTTCCAACGATTA 58.038 29.630 0.00 0.00 0.00 1.75
665 1962 4.996062 TTCCAACGATTACTCCGAAAAC 57.004 40.909 0.00 0.00 0.00 2.43
900 2238 7.949962 CCATATATAATACTTTGTCGCGTGTTG 59.050 37.037 5.77 0.00 0.00 3.33
921 2259 4.717991 TGCATGAAGTTGTTACATTACGC 58.282 39.130 0.00 0.00 0.00 4.42
1056 2409 1.232621 TTTCTCTCGTCGCCGTCTCA 61.233 55.000 0.00 0.00 35.01 3.27
1126 2483 3.808728 ACCACTACCAAATCGATGATGG 58.191 45.455 22.55 22.55 40.16 3.51
1333 2733 3.078196 TTCGGCATCCACGGGCTA 61.078 61.111 0.00 0.00 0.00 3.93
1669 3069 3.338126 GATCGTGCCGTCGGACAGT 62.338 63.158 17.49 2.05 0.00 3.55
1709 3109 1.153086 ATCAGGGACGCCATCAAGC 60.153 57.895 0.00 0.00 0.00 4.01
1913 3313 1.228003 ATTGAACACCCGTTGCCGA 60.228 52.632 0.00 0.00 34.75 5.54
2239 3642 3.189080 TGTTTTGATGAGATGACCTTGCG 59.811 43.478 0.00 0.00 0.00 4.85
2240 3643 2.768253 TTGATGAGATGACCTTGCGT 57.232 45.000 0.00 0.00 0.00 5.24
2242 3645 2.349590 TGATGAGATGACCTTGCGTTG 58.650 47.619 0.00 0.00 0.00 4.10
2243 3646 1.063174 GATGAGATGACCTTGCGTTGC 59.937 52.381 0.00 0.00 0.00 4.17
2245 3648 1.005037 AGATGACCTTGCGTTGCGA 60.005 52.632 0.00 0.00 0.00 5.10
2246 3649 0.391661 AGATGACCTTGCGTTGCGAT 60.392 50.000 0.00 0.00 0.00 4.58
2248 3651 1.663643 GATGACCTTGCGTTGCGATTA 59.336 47.619 0.00 0.00 0.00 1.75
2249 3652 1.514003 TGACCTTGCGTTGCGATTAA 58.486 45.000 0.00 0.00 0.00 1.40
2251 3654 1.730064 GACCTTGCGTTGCGATTAAGA 59.270 47.619 0.00 0.00 0.00 2.10
2252 3655 2.351726 GACCTTGCGTTGCGATTAAGAT 59.648 45.455 0.00 0.00 0.00 2.40
2253 3656 3.527533 ACCTTGCGTTGCGATTAAGATA 58.472 40.909 0.00 0.00 0.00 1.98
2254 3657 3.936453 ACCTTGCGTTGCGATTAAGATAA 59.064 39.130 0.00 0.00 0.00 1.75
2257 3660 3.872354 TGCGTTGCGATTAAGATAATGC 58.128 40.909 0.00 0.00 34.70 3.56
2259 3662 3.469629 CGTTGCGATTAAGATAATGCCG 58.530 45.455 0.00 0.00 0.00 5.69
2260 3663 3.664276 CGTTGCGATTAAGATAATGCCGG 60.664 47.826 0.00 0.00 0.00 6.13
2261 3664 3.394674 TGCGATTAAGATAATGCCGGA 57.605 42.857 5.05 0.00 0.00 5.14
2264 3667 4.154015 TGCGATTAAGATAATGCCGGATTG 59.846 41.667 5.05 0.00 0.00 2.67
2265 3668 4.154195 GCGATTAAGATAATGCCGGATTGT 59.846 41.667 5.05 0.00 0.00 2.71
2266 3669 5.621422 CGATTAAGATAATGCCGGATTGTG 58.379 41.667 5.05 0.00 0.00 3.33
2305 4285 4.626081 GCGGTGCCACCTCACACT 62.626 66.667 12.94 0.00 38.66 3.55
2384 4364 5.064579 CGACATCTTACATGTGCATGGTAAA 59.935 40.000 9.11 6.84 42.91 2.01
2394 4374 1.755959 TGCATGGTAAATGGATGCCAC 59.244 47.619 0.00 0.00 41.54 5.01
2458 6393 0.597568 CATGGTGGTGTCGTTTGCAT 59.402 50.000 0.00 0.00 0.00 3.96
2577 6512 1.531739 GCTGTTGGGATGGCGGAAAA 61.532 55.000 0.00 0.00 0.00 2.29
2604 6539 2.443387 CGGCAACACATGATGAATTCG 58.557 47.619 0.00 0.00 0.00 3.34
2624 6560 2.665519 CGATTTGTGGTGCTTTTCGAGG 60.666 50.000 0.00 0.00 0.00 4.63
2643 6579 1.613925 GGACCTTTGGTTTTGAGCTCC 59.386 52.381 12.15 0.00 35.25 4.70
2667 6603 3.882444 GGTGAATACCCTAGGTTTGACC 58.118 50.000 8.29 8.42 41.36 4.02
2668 6604 3.264964 GGTGAATACCCTAGGTTTGACCA 59.735 47.826 15.50 2.71 40.04 4.02
2669 6605 4.263594 GGTGAATACCCTAGGTTTGACCAA 60.264 45.833 15.50 0.00 40.04 3.67
2670 6606 4.698780 GTGAATACCCTAGGTTTGACCAAC 59.301 45.833 8.29 0.00 41.95 3.77
2671 6607 3.622166 ATACCCTAGGTTTGACCAACG 57.378 47.619 8.29 0.00 41.95 4.10
2672 6608 0.399075 ACCCTAGGTTTGACCAACGG 59.601 55.000 8.29 0.00 41.95 4.44
2673 6609 0.399075 CCCTAGGTTTGACCAACGGT 59.601 55.000 8.29 0.00 41.95 4.83
2715 6652 3.181491 CCTGACAATGACGGTGTTTTTGT 60.181 43.478 0.00 0.00 33.47 2.83
2730 6667 4.575236 TGTTTTTGTGTCGTTACCATGCTA 59.425 37.500 0.00 0.00 0.00 3.49
2757 6694 0.036732 TGCTTGGAGTTTGCTCGGAT 59.963 50.000 0.00 0.00 42.53 4.18
2766 6703 6.591935 TGGAGTTTGCTCGGATATAATCTTT 58.408 36.000 0.00 0.00 42.53 2.52
2768 6705 8.208224 TGGAGTTTGCTCGGATATAATCTTTAA 58.792 33.333 0.00 0.00 42.53 1.52
2773 6710 6.464222 TGCTCGGATATAATCTTTAAGGTGG 58.536 40.000 0.00 0.00 0.00 4.61
2788 6725 2.278245 AGGTGGAAACCCATGATCTGA 58.722 47.619 0.00 0.00 35.89 3.27
2794 6731 3.313526 GGAAACCCATGATCTGACATTCG 59.686 47.826 0.00 0.00 0.00 3.34
2799 6736 2.483106 CCATGATCTGACATTCGATGGC 59.517 50.000 0.00 0.00 39.32 4.40
2812 6749 1.227674 GATGGCTGGATCCGGTGAC 60.228 63.158 21.88 12.80 0.00 3.67
2840 6777 1.582610 TTGCGCATCGTTTCCTTCCC 61.583 55.000 12.75 0.00 0.00 3.97
2858 6804 3.367321 TCCCGGTTTTGGAGAACTTTTT 58.633 40.909 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 9.842775 TCTGAAGTCTCTATATTGCAAATCATT 57.157 29.630 1.71 0.00 0.00 2.57
37 38 6.412362 TCCCTTCTGAAGTCTCTATATTGC 57.588 41.667 15.72 0.00 0.00 3.56
38 39 6.518200 GCCTCCCTTCTGAAGTCTCTATATTG 60.518 46.154 15.72 0.00 0.00 1.90
39 40 5.542251 GCCTCCCTTCTGAAGTCTCTATATT 59.458 44.000 15.72 0.00 0.00 1.28
40 41 5.083821 GCCTCCCTTCTGAAGTCTCTATAT 58.916 45.833 15.72 0.00 0.00 0.86
41 42 4.475345 GCCTCCCTTCTGAAGTCTCTATA 58.525 47.826 15.72 0.00 0.00 1.31
42 43 3.304829 GCCTCCCTTCTGAAGTCTCTAT 58.695 50.000 15.72 0.00 0.00 1.98
43 44 2.741145 GCCTCCCTTCTGAAGTCTCTA 58.259 52.381 15.72 0.00 0.00 2.43
44 45 1.567357 GCCTCCCTTCTGAAGTCTCT 58.433 55.000 15.72 0.00 0.00 3.10
45 46 0.174617 CGCCTCCCTTCTGAAGTCTC 59.825 60.000 15.72 0.73 0.00 3.36
46 47 0.543174 ACGCCTCCCTTCTGAAGTCT 60.543 55.000 15.72 0.00 0.00 3.24
47 48 1.183549 TACGCCTCCCTTCTGAAGTC 58.816 55.000 15.72 0.11 0.00 3.01
48 49 1.640917 TTACGCCTCCCTTCTGAAGT 58.359 50.000 15.72 0.00 0.00 3.01
49 50 2.555199 CATTACGCCTCCCTTCTGAAG 58.445 52.381 10.46 10.46 0.00 3.02
50 51 1.209504 CCATTACGCCTCCCTTCTGAA 59.790 52.381 0.00 0.00 0.00 3.02
51 52 0.830648 CCATTACGCCTCCCTTCTGA 59.169 55.000 0.00 0.00 0.00 3.27
52 53 0.815615 GCCATTACGCCTCCCTTCTG 60.816 60.000 0.00 0.00 0.00 3.02
53 54 1.271840 TGCCATTACGCCTCCCTTCT 61.272 55.000 0.00 0.00 0.00 2.85
54 55 0.179018 ATGCCATTACGCCTCCCTTC 60.179 55.000 0.00 0.00 0.00 3.46
55 56 1.136828 TATGCCATTACGCCTCCCTT 58.863 50.000 0.00 0.00 0.00 3.95
56 57 1.003580 CATATGCCATTACGCCTCCCT 59.996 52.381 0.00 0.00 0.00 4.20
57 58 1.453155 CATATGCCATTACGCCTCCC 58.547 55.000 0.00 0.00 0.00 4.30
58 59 0.804989 GCATATGCCATTACGCCTCC 59.195 55.000 17.26 0.00 34.31 4.30
59 60 0.443869 CGCATATGCCATTACGCCTC 59.556 55.000 21.77 0.00 37.91 4.70
60 61 0.034756 TCGCATATGCCATTACGCCT 59.965 50.000 21.77 0.00 37.91 5.52
61 62 1.086696 ATCGCATATGCCATTACGCC 58.913 50.000 21.77 0.00 37.91 5.68
62 63 2.508867 CAATCGCATATGCCATTACGC 58.491 47.619 21.77 0.00 37.91 4.42
63 64 2.728846 GCCAATCGCATATGCCATTACG 60.729 50.000 21.77 14.15 37.91 3.18
64 65 2.228582 TGCCAATCGCATATGCCATTAC 59.771 45.455 21.77 15.45 44.64 1.89
65 66 2.512705 TGCCAATCGCATATGCCATTA 58.487 42.857 21.77 3.65 44.64 1.90
66 67 1.330234 TGCCAATCGCATATGCCATT 58.670 45.000 21.77 17.73 44.64 3.16
67 68 3.039452 TGCCAATCGCATATGCCAT 57.961 47.368 21.77 12.25 44.64 4.40
68 69 4.575180 TGCCAATCGCATATGCCA 57.425 50.000 21.77 10.11 44.64 4.92
76 77 1.469079 GGTTACCATTGTGCCAATCGC 60.469 52.381 0.00 0.00 38.31 4.58
77 78 2.091541 AGGTTACCATTGTGCCAATCG 58.908 47.619 3.51 0.00 0.00 3.34
78 79 2.427095 GGAGGTTACCATTGTGCCAATC 59.573 50.000 3.51 0.00 0.00 2.67
79 80 2.042979 AGGAGGTTACCATTGTGCCAAT 59.957 45.455 3.51 0.00 0.00 3.16
80 81 1.427368 AGGAGGTTACCATTGTGCCAA 59.573 47.619 3.51 0.00 0.00 4.52
81 82 1.072266 AGGAGGTTACCATTGTGCCA 58.928 50.000 3.51 0.00 0.00 4.92
82 83 2.215942 AAGGAGGTTACCATTGTGCC 57.784 50.000 3.51 0.00 0.00 5.01
115 116 4.910304 AGATGTGGCTAGGAAGATTGGTAT 59.090 41.667 0.00 0.00 0.00 2.73
189 190 5.269189 AGAGTTAACATATTGGGGGTTTGG 58.731 41.667 8.61 0.00 0.00 3.28
193 194 4.264172 TGCAAGAGTTAACATATTGGGGGT 60.264 41.667 8.61 0.00 0.00 4.95
194 195 4.277476 TGCAAGAGTTAACATATTGGGGG 58.723 43.478 8.61 0.00 0.00 5.40
264 1213 2.514824 GAGCTGGCCGGATCAACC 60.515 66.667 25.00 0.13 0.00 3.77
292 1241 4.539083 TCAACACCGCGTGTGGCT 62.539 61.111 24.76 13.10 46.79 4.75
431 1381 1.595093 GGTTTCAATGGAGCCGTGGG 61.595 60.000 0.00 0.00 0.00 4.61
434 1384 0.673644 CGAGGTTTCAATGGAGCCGT 60.674 55.000 0.00 0.00 0.00 5.68
436 1386 1.087501 GACGAGGTTTCAATGGAGCC 58.912 55.000 0.00 0.00 0.00 4.70
477 1429 8.455903 TGGCATTATTAGATGGAAAGAAAGAG 57.544 34.615 0.00 0.00 0.00 2.85
500 1452 2.035632 TGGGTTTTTAGGTGCAACTGG 58.964 47.619 16.44 0.00 36.74 4.00
517 1469 8.338259 GCTAATAATAATGCTGTCGATTATGGG 58.662 37.037 0.00 0.00 0.00 4.00
610 1567 7.656412 TCATGGAAAATCGTCAGAAATTTCAA 58.344 30.769 19.99 5.16 37.69 2.69
620 1910 9.352784 GAAATTTGTTATCATGGAAAATCGTCA 57.647 29.630 0.00 0.00 0.00 4.35
631 1921 9.787532 AGTAATCGTTGGAAATTTGTTATCATG 57.212 29.630 0.00 0.00 0.00 3.07
634 1924 7.638683 CGGAGTAATCGTTGGAAATTTGTTATC 59.361 37.037 0.00 0.00 0.00 1.75
900 2238 4.095610 GGCGTAATGTAACAACTTCATGC 58.904 43.478 0.00 0.00 0.00 4.06
933 2274 7.698130 ACTTATAGGACGACGTAATGTAACAAC 59.302 37.037 0.00 0.00 0.00 3.32
1669 3069 2.451490 CTGCTGAGGAAGTAGGTCTCA 58.549 52.381 0.00 0.00 35.13 3.27
1709 3109 4.388499 CGTGAACCCGGTCCCCTG 62.388 72.222 0.00 0.00 0.00 4.45
1992 3392 5.319626 GGTACATCCATCACGTAATCCACG 61.320 50.000 0.00 0.00 45.46 4.94
2158 3561 7.872483 ACTGTGTTTCATCTTTTGACTTTGTTT 59.128 29.630 0.00 0.00 32.84 2.83
2239 3642 3.496884 TCCGGCATTATCTTAATCGCAAC 59.503 43.478 0.00 0.00 0.00 4.17
2240 3643 3.734463 TCCGGCATTATCTTAATCGCAA 58.266 40.909 0.00 0.00 0.00 4.85
2242 3645 4.154195 ACAATCCGGCATTATCTTAATCGC 59.846 41.667 0.00 0.00 0.00 4.58
2243 3646 5.408299 TCACAATCCGGCATTATCTTAATCG 59.592 40.000 0.00 0.00 0.00 3.34
2245 3648 8.862325 TTATCACAATCCGGCATTATCTTAAT 57.138 30.769 0.00 0.00 0.00 1.40
2246 3649 7.936847 ACTTATCACAATCCGGCATTATCTTAA 59.063 33.333 0.00 0.00 0.00 1.85
2248 3651 6.205464 CACTTATCACAATCCGGCATTATCTT 59.795 38.462 0.00 0.00 0.00 2.40
2249 3652 5.702670 CACTTATCACAATCCGGCATTATCT 59.297 40.000 0.00 0.00 0.00 1.98
2251 3654 4.216257 GCACTTATCACAATCCGGCATTAT 59.784 41.667 0.00 0.00 0.00 1.28
2252 3655 3.563808 GCACTTATCACAATCCGGCATTA 59.436 43.478 0.00 0.00 0.00 1.90
2253 3656 2.358898 GCACTTATCACAATCCGGCATT 59.641 45.455 0.00 0.00 0.00 3.56
2254 3657 1.949525 GCACTTATCACAATCCGGCAT 59.050 47.619 0.00 0.00 0.00 4.40
2257 3660 2.905075 TGAGCACTTATCACAATCCGG 58.095 47.619 0.00 0.00 0.00 5.14
2259 3662 4.265073 AGGTTGAGCACTTATCACAATCC 58.735 43.478 0.00 0.00 0.00 3.01
2260 3663 5.634896 CAAGGTTGAGCACTTATCACAATC 58.365 41.667 0.00 0.00 0.00 2.67
2261 3664 4.082571 GCAAGGTTGAGCACTTATCACAAT 60.083 41.667 0.00 0.00 0.00 2.71
2264 3667 2.813754 TGCAAGGTTGAGCACTTATCAC 59.186 45.455 0.00 0.00 35.51 3.06
2265 3668 3.076621 CTGCAAGGTTGAGCACTTATCA 58.923 45.455 0.00 0.00 36.62 2.15
2266 3669 3.077359 ACTGCAAGGTTGAGCACTTATC 58.923 45.455 0.00 0.00 39.30 1.75
2305 4285 1.144716 CGGCCATGAAGAGCAGCTA 59.855 57.895 2.24 0.00 0.00 3.32
2362 4342 6.183360 CCATTTACCATGCACATGTAAGATGT 60.183 38.462 9.63 0.00 37.11 3.06
2374 4354 1.755959 GTGGCATCCATTTACCATGCA 59.244 47.619 5.55 0.00 44.04 3.96
2384 4364 0.753262 GGACTAGTCGTGGCATCCAT 59.247 55.000 16.56 0.00 35.28 3.41
2394 4374 4.035792 CCTCATCAACTACAGGACTAGTCG 59.964 50.000 16.56 6.52 0.00 4.18
2477 6412 3.982372 CTCGCGCCGTCCTAGCAAA 62.982 63.158 0.00 0.00 0.00 3.68
2577 6512 2.048023 CATGTGTTGCCGCCTCCAT 61.048 57.895 0.00 0.00 0.00 3.41
2604 6539 2.552315 TCCTCGAAAAGCACCACAAATC 59.448 45.455 0.00 0.00 0.00 2.17
2624 6560 1.266989 CGGAGCTCAAAACCAAAGGTC 59.733 52.381 17.19 0.00 33.12 3.85
2628 6564 0.825840 CCCCGGAGCTCAAAACCAAA 60.826 55.000 17.19 0.00 0.00 3.28
2661 6597 1.104630 GGGTCAAACCGTTGGTCAAA 58.895 50.000 0.00 0.00 39.83 2.69
2662 6598 0.256464 AGGGTCAAACCGTTGGTCAA 59.744 50.000 0.00 0.00 39.83 3.18
2663 6599 1.071071 CTAGGGTCAAACCGTTGGTCA 59.929 52.381 0.00 0.00 39.83 4.02
2664 6600 1.071228 ACTAGGGTCAAACCGTTGGTC 59.929 52.381 0.00 0.00 39.83 4.02
2665 6601 1.134228 ACTAGGGTCAAACCGTTGGT 58.866 50.000 0.00 0.00 39.83 3.67
2666 6602 1.877443 CAACTAGGGTCAAACCGTTGG 59.123 52.381 0.00 0.00 39.83 3.77
2667 6603 1.877443 CCAACTAGGGTCAAACCGTTG 59.123 52.381 0.00 7.84 39.83 4.10
2668 6604 1.491754 ACCAACTAGGGTCAAACCGTT 59.508 47.619 0.00 0.00 43.89 4.44
2669 6605 1.134228 ACCAACTAGGGTCAAACCGT 58.866 50.000 0.00 0.00 43.89 4.83
2715 6652 2.352388 GCCTTTAGCATGGTAACGACA 58.648 47.619 19.40 4.95 42.97 4.35
2730 6667 2.807837 GCAAACTCCAAGCAATGCCTTT 60.808 45.455 0.00 0.00 0.00 3.11
2773 6710 4.191544 TCGAATGTCAGATCATGGGTTTC 58.808 43.478 0.00 0.00 0.00 2.78
2788 6725 0.250038 CGGATCCAGCCATCGAATGT 60.250 55.000 13.41 0.00 0.00 2.71
2794 6731 1.227674 GTCACCGGATCCAGCCATC 60.228 63.158 9.46 0.00 0.00 3.51
2827 6764 1.883926 CAAAACCGGGAAGGAAACGAT 59.116 47.619 6.32 0.00 45.00 3.73
2829 6766 0.312729 CCAAAACCGGGAAGGAAACG 59.687 55.000 6.32 0.00 45.00 3.60


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

AutoCloner maintained by Alex Coulton.