Multiple sequence alignment - TraesCS6B01G256900

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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 TraesCS6B01G256900 chr6B 100.000 3206 0 0 1 3206 461332392 461335597 0.000000e+00 5921.0
1 TraesCS6B01G256900 chr6B 90.323 124 11 1 1084 1207 182642703 182642581 9.200000e-36 161.0
2 TraesCS6B01G256900 chr6B 86.301 73 9 1 2615 2687 207967308 207967237 9.540000e-11 78.7
3 TraesCS6B01G256900 chr6A 92.600 1892 104 21 671 2536 421755094 421753213 0.000000e+00 2686.0
4 TraesCS6B01G256900 chr6D 92.342 1815 92 21 746 2536 296195572 296193781 0.000000e+00 2538.0
5 TraesCS6B01G256900 chr6D 94.286 70 2 1 2555 2622 296193729 296193660 4.370000e-19 106.0
6 TraesCS6B01G256900 chr5B 95.084 651 22 4 1 645 57515280 57515926 0.000000e+00 1016.0
7 TraesCS6B01G256900 chr3B 94.931 651 23 4 1 645 101924721 101924075 0.000000e+00 1011.0
8 TraesCS6B01G256900 chr3A 94.931 651 23 6 1 645 105557112 105557758 0.000000e+00 1011.0
9 TraesCS6B01G256900 chrUn 94.470 651 26 5 1 645 445187953 445187307 0.000000e+00 994.0
10 TraesCS6B01G256900 chrUn 96.333 409 11 1 1 405 455659733 455659325 0.000000e+00 669.0
11 TraesCS6B01G256900 chr7B 94.470 651 26 5 1 645 662755189 662755835 0.000000e+00 994.0
12 TraesCS6B01G256900 chr7B 88.186 237 13 7 2664 2892 658032431 658032660 5.270000e-68 268.0
13 TraesCS6B01G256900 chr7B 88.976 127 14 0 2893 3019 161322834 161322960 1.190000e-34 158.0
14 TraesCS6B01G256900 chr7B 77.931 290 36 22 2617 2888 161322455 161322734 4.280000e-34 156.0
15 TraesCS6B01G256900 chr5D 94.470 651 25 4 1 645 299972662 299973307 0.000000e+00 992.0
16 TraesCS6B01G256900 chr5D 94.064 657 27 4 1 645 6253429 6254085 0.000000e+00 987.0
17 TraesCS6B01G256900 chr1D 94.308 650 32 4 1 645 51832114 51832763 0.000000e+00 990.0
18 TraesCS6B01G256900 chr1D 94.163 651 28 5 1 645 254459261 254458615 0.000000e+00 983.0
19 TraesCS6B01G256900 chr1A 94.603 630 26 4 21 645 554482083 554481457 0.000000e+00 968.0
20 TraesCS6B01G256900 chr1A 88.968 281 22 6 2620 2892 127355929 127356208 3.960000e-89 339.0
21 TraesCS6B01G256900 chr1A 87.544 281 25 7 2620 2892 469779078 469779356 1.860000e-82 316.0
22 TraesCS6B01G256900 chr1A 98.473 131 2 0 2889 3019 127356304 127356434 6.920000e-57 231.0
23 TraesCS6B01G256900 chr1A 96.947 131 4 0 2889 3019 469779452 469779582 1.500000e-53 220.0
24 TraesCS6B01G256900 chr1A 95.000 140 6 1 3018 3156 127356615 127356754 5.380000e-53 219.0
25 TraesCS6B01G256900 chr1A 96.923 130 4 0 3027 3156 469779741 469779870 5.380000e-53 219.0
26 TraesCS6B01G256900 chr4D 93.772 289 15 3 359 645 19889898 19889611 6.350000e-117 431.0
27 TraesCS6B01G256900 chr7D 97.391 230 4 2 417 645 614829754 614829526 1.080000e-104 390.0
28 TraesCS6B01G256900 chr7D 96.957 230 5 2 417 645 614768839 614768611 5.020000e-103 385.0
29 TraesCS6B01G256900 chr7D 91.803 61 3 2 2618 2677 454076073 454076132 2.050000e-12 84.2
30 TraesCS6B01G256900 chr7A 87.544 281 25 7 2620 2892 138040820 138040542 1.860000e-82 316.0
31 TraesCS6B01G256900 chr7A 97.037 135 4 0 3022 3156 138040130 138039996 8.950000e-56 228.0
32 TraesCS6B01G256900 chr7A 95.420 131 6 0 2889 3019 138040446 138040316 3.240000e-50 209.0
33 TraesCS6B01G256900 chr7A 86.486 148 16 4 1063 1207 611767789 611767935 3.310000e-35 159.0
34 TraesCS6B01G256900 chr7A 87.179 78 8 2 2607 2682 585352407 585352484 1.580000e-13 87.9
35 TraesCS6B01G256900 chr2B 80.000 345 53 13 1734 2072 569018726 569019060 1.150000e-59 241.0
36 TraesCS6B01G256900 chr2B 94.531 128 6 1 1080 1207 569017237 569017363 2.520000e-46 196.0
37 TraesCS6B01G256900 chr2B 94.318 88 4 1 1736 1823 519692106 519692020 2.010000e-27 134.0
38 TraesCS6B01G256900 chr2D 91.176 136 12 0 1734 1869 484329058 484329193 5.460000e-43 185.0
39 TraesCS6B01G256900 chr2D 90.625 128 11 1 1080 1207 484326976 484327102 5.500000e-38 169.0
40 TraesCS6B01G256900 chr2A 92.969 128 8 1 1080 1207 628582616 628582742 5.460000e-43 185.0
41 TraesCS6B01G256900 chr2A 91.176 136 12 0 1734 1869 628584207 628584342 5.460000e-43 185.0
42 TraesCS6B01G256900 chr2A 87.162 148 15 4 1063 1207 115430431 115430577 7.120000e-37 165.0
43 TraesCS6B01G256900 chr1B 87.838 148 14 4 1063 1207 93950351 93950497 1.530000e-38 171.0
44 TraesCS6B01G256900 chr1B 89.062 64 7 0 2624 2687 83944207 83944270 2.650000e-11 80.5
45 TraesCS6B01G256900 chr3D 77.622 286 40 16 2620 2891 345121829 345121554 5.540000e-33 152.0
46 TraesCS6B01G256900 chr3D 82.482 137 24 0 3024 3160 345121139 345121003 1.560000e-23 121.0


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 TraesCS6B01G256900 chr6B 461332392 461335597 3205 False 5921.000000 5921 100.000000 1 3206 1 chr6B.!!$F1 3205
1 TraesCS6B01G256900 chr6A 421753213 421755094 1881 True 2686.000000 2686 92.600000 671 2536 1 chr6A.!!$R1 1865
2 TraesCS6B01G256900 chr6D 296193660 296195572 1912 True 1322.000000 2538 93.314000 746 2622 2 chr6D.!!$R1 1876
3 TraesCS6B01G256900 chr5B 57515280 57515926 646 False 1016.000000 1016 95.084000 1 645 1 chr5B.!!$F1 644
4 TraesCS6B01G256900 chr3B 101924075 101924721 646 True 1011.000000 1011 94.931000 1 645 1 chr3B.!!$R1 644
5 TraesCS6B01G256900 chr3A 105557112 105557758 646 False 1011.000000 1011 94.931000 1 645 1 chr3A.!!$F1 644
6 TraesCS6B01G256900 chrUn 445187307 445187953 646 True 994.000000 994 94.470000 1 645 1 chrUn.!!$R1 644
7 TraesCS6B01G256900 chr7B 662755189 662755835 646 False 994.000000 994 94.470000 1 645 1 chr7B.!!$F2 644
8 TraesCS6B01G256900 chr5D 299972662 299973307 645 False 992.000000 992 94.470000 1 645 1 chr5D.!!$F2 644
9 TraesCS6B01G256900 chr5D 6253429 6254085 656 False 987.000000 987 94.064000 1 645 1 chr5D.!!$F1 644
10 TraesCS6B01G256900 chr1D 51832114 51832763 649 False 990.000000 990 94.308000 1 645 1 chr1D.!!$F1 644
11 TraesCS6B01G256900 chr1D 254458615 254459261 646 True 983.000000 983 94.163000 1 645 1 chr1D.!!$R1 644
12 TraesCS6B01G256900 chr1A 554481457 554482083 626 True 968.000000 968 94.603000 21 645 1 chr1A.!!$R1 624
13 TraesCS6B01G256900 chr1A 127355929 127356754 825 False 263.000000 339 94.147000 2620 3156 3 chr1A.!!$F1 536
14 TraesCS6B01G256900 chr1A 469779078 469779870 792 False 251.666667 316 93.804667 2620 3156 3 chr1A.!!$F2 536
15 TraesCS6B01G256900 chr7A 138039996 138040820 824 True 251.000000 316 93.333667 2620 3156 3 chr7A.!!$R1 536
16 TraesCS6B01G256900 chr2B 569017237 569019060 1823 False 218.500000 241 87.265500 1080 2072 2 chr2B.!!$F1 992

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
718 733 0.698238 ACTGCTACTTCATGGGCCAA 59.302 50.0 11.89 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2707 3797 1.181741 TCCTCTTGCGCTGAGTGTCT 61.182 55.0 22.47 0.0 0.0 3.41 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
97 98 2.550855 CCTTCTACAGCTTGTCCTGCAA 60.551 50.000 0.00 0.00 36.29 4.08
169 170 2.229543 CCAGCAGCAATAACAGAAGCAA 59.770 45.455 0.00 0.00 0.00 3.91
172 173 3.318839 AGCAGCAATAACAGAAGCAACAA 59.681 39.130 0.00 0.00 0.00 2.83
190 191 6.209192 AGCAACAACAATTAGTGGATTCATGA 59.791 34.615 0.00 0.00 0.00 3.07
209 210 2.753452 TGATGAGTAGTTCCTCGTGTCC 59.247 50.000 0.00 0.00 34.04 4.02
213 218 3.385433 TGAGTAGTTCCTCGTGTCCAAAA 59.615 43.478 0.00 0.00 34.04 2.44
345 350 5.810587 TGAATTGTCCGAACTACATAGAAGC 59.189 40.000 0.00 0.00 0.00 3.86
366 371 8.543774 AGAAGCGAATTCCATATCCATATAACT 58.456 33.333 0.00 0.00 38.84 2.24
515 527 3.697166 AGTGGAAACCCGCATAAAAGAT 58.303 40.909 0.00 0.00 36.68 2.40
568 581 6.401537 AGTATAGATCTAGCCTGACTCCAT 57.598 41.667 8.70 0.00 0.00 3.41
645 658 5.626142 TCTCTCCTACAACTCTAGGCTATG 58.374 45.833 0.00 0.00 34.25 2.23
646 659 4.145807 TCTCCTACAACTCTAGGCTATGC 58.854 47.826 0.00 0.00 34.25 3.14
647 660 3.891977 CTCCTACAACTCTAGGCTATGCA 59.108 47.826 0.00 0.00 34.25 3.96
648 661 4.483950 TCCTACAACTCTAGGCTATGCAT 58.516 43.478 3.79 3.79 34.25 3.96
649 662 4.281941 TCCTACAACTCTAGGCTATGCATG 59.718 45.833 10.16 0.26 34.25 4.06
650 663 4.281941 CCTACAACTCTAGGCTATGCATGA 59.718 45.833 10.16 0.00 0.00 3.07
651 664 4.970860 ACAACTCTAGGCTATGCATGAT 57.029 40.909 10.16 0.00 0.00 2.45
652 665 5.301835 ACAACTCTAGGCTATGCATGATT 57.698 39.130 10.16 0.00 0.00 2.57
653 666 5.688807 ACAACTCTAGGCTATGCATGATTT 58.311 37.500 10.16 0.00 0.00 2.17
654 667 6.125029 ACAACTCTAGGCTATGCATGATTTT 58.875 36.000 10.16 0.00 0.00 1.82
655 668 6.604795 ACAACTCTAGGCTATGCATGATTTTT 59.395 34.615 10.16 0.00 0.00 1.94
718 733 0.698238 ACTGCTACTTCATGGGCCAA 59.302 50.000 11.89 0.00 0.00 4.52
743 758 6.833416 AGCCTAATTTGGATAGTTTGCACATA 59.167 34.615 10.34 0.00 0.00 2.29
754 769 3.701040 AGTTTGCACATAAGCCCAATAGG 59.299 43.478 0.00 0.00 39.47 2.57
789 813 1.497223 CGACGACTCTACTAGGCCCG 61.497 65.000 0.00 0.00 0.00 6.13
916 949 2.610727 GCCTTTATAATCCGCTCTCGCT 60.611 50.000 0.00 0.00 0.00 4.93
1009 1051 1.713830 GCCGCAAAGATGGTACGTC 59.286 57.895 0.00 0.00 0.00 4.34
1013 1055 1.924524 CGCAAAGATGGTACGTCGATT 59.075 47.619 0.00 0.00 0.00 3.34
1016 1058 3.259064 CAAAGATGGTACGTCGATTGGT 58.741 45.455 0.00 0.00 0.00 3.67
1046 1088 2.820037 GTGCTGCTCCGGTAAGGC 60.820 66.667 0.00 3.22 40.77 4.35
1087 1129 0.462789 ACGAGGTTCGGTGTCTTTGT 59.537 50.000 3.37 0.00 45.59 2.83
1091 1133 3.460103 GAGGTTCGGTGTCTTTGTGTTA 58.540 45.455 0.00 0.00 0.00 2.41
1247 1379 0.884704 TTCCGAAGCACTCTTGTGGC 60.885 55.000 0.00 0.00 43.97 5.01
1332 1652 4.884668 TGTTCTCCGGAAGAAATGTAGT 57.115 40.909 5.23 0.00 45.50 2.73
1333 1653 5.223449 TGTTCTCCGGAAGAAATGTAGTT 57.777 39.130 5.23 0.00 45.50 2.24
1342 1662 7.881232 TCCGGAAGAAATGTAGTTATCTGTTTT 59.119 33.333 0.00 0.00 0.00 2.43
1422 1748 4.946784 ACAAATGGAATTCTACGAGTGC 57.053 40.909 5.23 0.00 33.67 4.40
1556 1883 6.037830 GCTGTTTACCGTGATAATGGTTGTAT 59.962 38.462 0.00 0.00 39.70 2.29
1605 2048 7.593644 CGGGTTTATTTCTGTTTACCTTGAAAG 59.406 37.037 0.00 0.00 32.91 2.62
1613 2058 7.496529 TCTGTTTACCTTGAAAGATGTTCTG 57.503 36.000 0.00 0.00 0.00 3.02
1620 2353 6.182627 ACCTTGAAAGATGTTCTGCATATGA 58.817 36.000 6.97 0.00 38.06 2.15
1641 2374 9.851686 ATATGATTGTTACTGGTTATCATGTGT 57.148 29.630 0.00 0.00 36.79 3.72
1651 2384 6.015180 ACTGGTTATCATGTGTTCTTGCAATT 60.015 34.615 0.00 0.00 0.00 2.32
2110 3160 4.204012 TGGTTTATTAGTGTAGGGCATGC 58.796 43.478 9.90 9.90 0.00 4.06
2212 3265 4.068599 GGAGGTTGCTGCTTAGAATATCC 58.931 47.826 0.00 0.00 0.00 2.59
2232 3285 2.092753 CCTAGTGGATGGCATGTTGAGT 60.093 50.000 3.81 0.00 34.57 3.41
2544 3619 3.502211 GTGGTACCTTCATTGTTGGTCAG 59.498 47.826 14.36 0.00 35.48 3.51
2622 3712 8.405531 TGAAGGCTGTAGCACATAAAATATTTC 58.594 33.333 0.10 0.00 44.36 2.17
2669 3759 6.434965 TGCCAAATTCATTGATCAGAAGAGAA 59.565 34.615 0.00 0.00 41.85 2.87
2684 3774 9.793259 ATCAGAAGAGAATAACAAGGTACAAAA 57.207 29.630 0.00 0.00 0.00 2.44
2686 3776 9.273016 CAGAAGAGAATAACAAGGTACAAAAGA 57.727 33.333 0.00 0.00 0.00 2.52
2688 3778 8.622948 AAGAGAATAACAAGGTACAAAAGAGG 57.377 34.615 0.00 0.00 0.00 3.69
2689 3779 7.746703 AGAGAATAACAAGGTACAAAAGAGGT 58.253 34.615 0.00 0.00 0.00 3.85
2701 3791 3.202906 CAAAAGAGGTCAAGTGTCCGAA 58.797 45.455 0.00 0.00 0.00 4.30
2707 3797 3.349022 AGGTCAAGTGTCCGAAAAACAA 58.651 40.909 0.00 0.00 0.00 2.83
2724 3814 0.788995 CAAGACACTCAGCGCAAGAG 59.211 55.000 23.16 23.16 43.02 2.85
2748 3838 7.535738 AGGAAGGGAAAATAAGGAGAAAGAAA 58.464 34.615 0.00 0.00 0.00 2.52
2761 3851 5.543790 AGGAGAAAGAAAAGAGAAGAGAGCT 59.456 40.000 0.00 0.00 0.00 4.09
2762 3852 5.639082 GGAGAAAGAAAAGAGAAGAGAGCTG 59.361 44.000 0.00 0.00 0.00 4.24
2766 3856 0.617935 AAAGAGAAGAGAGCTGGGGC 59.382 55.000 0.00 0.00 39.06 5.80
2811 3908 2.159101 ATCCCAGCACCTGCCACAAT 62.159 55.000 0.00 0.00 43.38 2.71
2835 3932 4.458397 TGATCTCGTCCCTAATCTTACGT 58.542 43.478 0.00 0.00 36.73 3.57
2849 3946 4.330944 TCTTACGTCTGAAGCTTTCCAA 57.669 40.909 0.00 0.00 0.00 3.53
2857 3954 3.885297 TCTGAAGCTTTCCAAAGTCAAGG 59.115 43.478 0.00 0.00 38.28 3.61
2865 3962 5.565637 GCTTTCCAAAGTCAAGGATTCCTTC 60.566 44.000 15.24 5.56 38.83 3.46
2898 4094 3.065095 GTCGATTCCGCTACTTAGTGTCT 59.935 47.826 0.00 0.00 35.37 3.41
2904 4100 2.492484 CCGCTACTTAGTGTCTCCTGTT 59.508 50.000 0.00 0.00 32.08 3.16
3019 4215 2.987232 GGGTTTCTAAACTCCGCTCAT 58.013 47.619 5.62 0.00 38.89 2.90
3020 4216 2.678336 GGGTTTCTAAACTCCGCTCATG 59.322 50.000 5.62 0.00 38.89 3.07
3030 4409 0.535335 TCCGCTCATGGTTGTACTCC 59.465 55.000 0.00 0.00 0.00 3.85
3039 4418 2.303175 TGGTTGTACTCCTGGTTTTGC 58.697 47.619 8.61 0.00 0.00 3.68
3081 4460 2.116125 GCTTGGCCCTCAACCAGT 59.884 61.111 0.00 0.00 38.73 4.00
3156 4535 2.640826 AGAGAGTCCCCTAGATAGGTCG 59.359 54.545 5.21 0.00 42.03 4.79
3157 4536 1.074244 AGAGTCCCCTAGATAGGTCGC 59.926 57.143 5.21 0.00 42.03 5.19
3158 4537 0.250814 AGTCCCCTAGATAGGTCGCG 60.251 60.000 0.00 0.00 42.03 5.87
3159 4538 1.602888 TCCCCTAGATAGGTCGCGC 60.603 63.158 0.00 0.00 42.03 6.86
3160 4539 2.561885 CCCTAGATAGGTCGCGCG 59.438 66.667 26.76 26.76 42.03 6.86
3161 4540 1.964891 CCCTAGATAGGTCGCGCGA 60.965 63.158 31.40 31.40 42.03 5.87
3162 4541 1.207085 CCTAGATAGGTCGCGCGAC 59.793 63.158 45.60 45.60 43.87 5.19
3175 4554 3.464628 GCGACTGAGCGGTTCTTC 58.535 61.111 0.00 0.00 0.00 2.87
3176 4555 2.095252 GCGACTGAGCGGTTCTTCC 61.095 63.158 0.00 0.00 0.00 3.46
3185 4564 2.564975 GGTTCTTCCGCGTCGAGA 59.435 61.111 4.92 1.94 0.00 4.04
3186 4565 1.800713 GGTTCTTCCGCGTCGAGAC 60.801 63.158 4.92 0.00 0.00 3.36
3187 4566 1.800713 GTTCTTCCGCGTCGAGACC 60.801 63.158 4.92 0.00 0.00 3.85
3188 4567 1.970114 TTCTTCCGCGTCGAGACCT 60.970 57.895 4.92 0.00 0.00 3.85
3189 4568 2.196382 TTCTTCCGCGTCGAGACCTG 62.196 60.000 4.92 0.00 0.00 4.00
3190 4569 3.685214 CTTCCGCGTCGAGACCTGG 62.685 68.421 4.92 0.00 0.00 4.45
3191 4570 4.710167 TCCGCGTCGAGACCTGGA 62.710 66.667 4.92 6.92 0.00 3.86
3192 4571 3.744719 CCGCGTCGAGACCTGGAA 61.745 66.667 4.92 0.00 0.00 3.53
3193 4572 2.490217 CGCGTCGAGACCTGGAAT 59.510 61.111 0.00 0.00 0.00 3.01
3194 4573 1.721664 CCGCGTCGAGACCTGGAATA 61.722 60.000 4.92 0.00 0.00 1.75
3195 4574 0.317103 CGCGTCGAGACCTGGAATAG 60.317 60.000 0.00 0.00 0.00 1.73
3205 4584 1.444933 CCTGGAATAGGTATGGGGCA 58.555 55.000 0.00 0.00 42.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
97 98 3.775316 CCTGGAGTTGGTCAAGGTACTAT 59.225 47.826 0.00 0.00 41.29 2.12
169 170 7.613022 ACTCATCATGAATCCACTAATTGTTGT 59.387 33.333 0.00 0.00 0.00 3.32
172 173 8.489489 ACTACTCATCATGAATCCACTAATTGT 58.511 33.333 0.00 0.00 0.00 2.71
190 191 2.803956 TGGACACGAGGAACTACTCAT 58.196 47.619 0.00 0.00 41.55 2.90
412 417 2.038659 AGAAACAAATGTGTGTGGGGG 58.961 47.619 0.00 0.00 38.27 5.40
413 418 3.384467 AGAAGAAACAAATGTGTGTGGGG 59.616 43.478 0.00 0.00 38.27 4.96
414 419 4.654091 AGAAGAAACAAATGTGTGTGGG 57.346 40.909 0.00 0.00 38.27 4.61
415 420 8.542132 CAAAATAGAAGAAACAAATGTGTGTGG 58.458 33.333 0.00 0.00 38.27 4.17
416 421 9.086336 ACAAAATAGAAGAAACAAATGTGTGTG 57.914 29.630 0.00 0.00 38.27 3.82
417 422 9.651913 AACAAAATAGAAGAAACAAATGTGTGT 57.348 25.926 0.00 0.00 38.27 3.72
420 425 9.424659 GCAAACAAAATAGAAGAAACAAATGTG 57.575 29.630 0.00 0.00 0.00 3.21
614 627 9.362151 CCTAGAGTTGTAGGAGAGAGAATAAAT 57.638 37.037 0.00 0.00 42.18 1.40
616 629 6.773685 GCCTAGAGTTGTAGGAGAGAGAATAA 59.226 42.308 6.53 0.00 42.18 1.40
656 669 5.123820 CCTCAATCGCTATTCACCTCAAAAA 59.876 40.000 0.00 0.00 0.00 1.94
657 670 4.635765 CCTCAATCGCTATTCACCTCAAAA 59.364 41.667 0.00 0.00 0.00 2.44
658 671 4.081142 TCCTCAATCGCTATTCACCTCAAA 60.081 41.667 0.00 0.00 0.00 2.69
659 672 3.450817 TCCTCAATCGCTATTCACCTCAA 59.549 43.478 0.00 0.00 0.00 3.02
660 673 3.031013 TCCTCAATCGCTATTCACCTCA 58.969 45.455 0.00 0.00 0.00 3.86
661 674 3.735237 TCCTCAATCGCTATTCACCTC 57.265 47.619 0.00 0.00 0.00 3.85
662 675 4.696479 AATCCTCAATCGCTATTCACCT 57.304 40.909 0.00 0.00 0.00 4.00
663 676 4.023707 CCAAATCCTCAATCGCTATTCACC 60.024 45.833 0.00 0.00 0.00 4.02
664 677 4.576463 ACCAAATCCTCAATCGCTATTCAC 59.424 41.667 0.00 0.00 0.00 3.18
665 678 4.780815 ACCAAATCCTCAATCGCTATTCA 58.219 39.130 0.00 0.00 0.00 2.57
666 679 4.214332 GGACCAAATCCTCAATCGCTATTC 59.786 45.833 0.00 0.00 45.22 1.75
667 680 4.137543 GGACCAAATCCTCAATCGCTATT 58.862 43.478 0.00 0.00 45.22 1.73
668 681 3.744660 GGACCAAATCCTCAATCGCTAT 58.255 45.455 0.00 0.00 45.22 2.97
669 682 3.194005 GGACCAAATCCTCAATCGCTA 57.806 47.619 0.00 0.00 45.22 4.26
718 733 5.016173 TGTGCAAACTATCCAAATTAGGCT 58.984 37.500 0.00 0.00 0.00 4.58
732 747 3.701040 CCTATTGGGCTTATGTGCAAACT 59.299 43.478 0.00 0.00 34.04 2.66
754 769 1.395608 CGTCGTTCACTCTCTCTCTCC 59.604 57.143 0.00 0.00 0.00 3.71
755 770 2.093152 GTCGTCGTTCACTCTCTCTCTC 59.907 54.545 0.00 0.00 0.00 3.20
756 771 2.070783 GTCGTCGTTCACTCTCTCTCT 58.929 52.381 0.00 0.00 0.00 3.10
757 772 2.070783 AGTCGTCGTTCACTCTCTCTC 58.929 52.381 0.00 0.00 0.00 3.20
758 773 2.070783 GAGTCGTCGTTCACTCTCTCT 58.929 52.381 5.55 0.00 36.80 3.10
759 774 2.070783 AGAGTCGTCGTTCACTCTCTC 58.929 52.381 8.79 0.00 45.16 3.20
764 779 3.260740 CCTAGTAGAGTCGTCGTTCACT 58.739 50.000 0.00 0.00 0.00 3.41
789 813 5.659440 TTCTGGGCTTTGGAATGAATAAC 57.341 39.130 0.00 0.00 0.00 1.89
821 845 1.751351 CCGATGCAGGTCAGAGAGTTA 59.249 52.381 0.00 0.00 0.00 2.24
916 949 2.038975 AGGAGCTAGGGTTCGGCA 59.961 61.111 0.00 0.00 0.00 5.69
1013 1055 1.444119 GCACAGAACCAAAGCGACCA 61.444 55.000 0.00 0.00 0.00 4.02
1016 1058 1.785041 GCAGCACAGAACCAAAGCGA 61.785 55.000 0.00 0.00 0.00 4.93
1046 1088 0.315869 AAACACGCGTCGCTGAAAAG 60.316 50.000 9.86 0.00 0.00 2.27
1247 1379 8.252417 TGGCTATAGAACTCTAGATCTACTACG 58.748 40.741 3.21 0.00 33.25 3.51
1388 1714 8.591072 AGAATTCCATTTGTTGTTTCATCATCT 58.409 29.630 0.65 0.00 0.00 2.90
1389 1715 8.767478 AGAATTCCATTTGTTGTTTCATCATC 57.233 30.769 0.65 0.00 0.00 2.92
1390 1716 9.643693 GTAGAATTCCATTTGTTGTTTCATCAT 57.356 29.630 0.65 0.00 0.00 2.45
1422 1748 8.478877 ACTAACAGAACAACTTCTAGGATATGG 58.521 37.037 0.00 0.00 34.74 2.74
1516 1843 3.769739 AACAGCACTGTCAGATAACCA 57.230 42.857 6.91 0.00 44.13 3.67
1579 1906 6.563222 TCAAGGTAAACAGAAATAAACCCG 57.437 37.500 0.00 0.00 0.00 5.28
1605 2048 7.012704 ACCAGTAACAATCATATGCAGAACATC 59.987 37.037 0.00 0.00 40.38 3.06
1613 2058 8.786898 ACATGATAACCAGTAACAATCATATGC 58.213 33.333 0.00 0.00 35.61 3.14
1620 2353 8.514594 CAAGAACACATGATAACCAGTAACAAT 58.485 33.333 0.00 0.00 0.00 2.71
1641 2374 6.936900 AGACAGCTAAACTCTAATTGCAAGAA 59.063 34.615 4.94 0.00 0.00 2.52
1908 2954 7.649306 ACTCAAATAAGCATCAACAGAACAAAC 59.351 33.333 0.00 0.00 0.00 2.93
2212 3265 3.272574 ACTCAACATGCCATCCACTAG 57.727 47.619 0.00 0.00 0.00 2.57
2507 3562 5.570320 AGGTACCACAGCACTTCATTTTAT 58.430 37.500 15.94 0.00 0.00 1.40
2508 3563 4.980573 AGGTACCACAGCACTTCATTTTA 58.019 39.130 15.94 0.00 0.00 1.52
2514 3569 2.543777 TGAAGGTACCACAGCACTTC 57.456 50.000 15.94 7.73 38.36 3.01
2521 3576 3.117851 TGACCAACAATGAAGGTACCACA 60.118 43.478 15.94 14.13 35.36 4.17
2544 3619 6.422400 GTCTAGGCTATCAAATACAGAGCAAC 59.578 42.308 0.00 0.00 34.76 4.17
2669 3759 7.228706 CACTTGACCTCTTTTGTACCTTGTTAT 59.771 37.037 0.00 0.00 0.00 1.89
2684 3774 3.203716 GTTTTTCGGACACTTGACCTCT 58.796 45.455 0.00 0.00 0.00 3.69
2686 3776 2.993937 TGTTTTTCGGACACTTGACCT 58.006 42.857 0.00 0.00 0.00 3.85
2688 3778 4.142773 TGTCTTGTTTTTCGGACACTTGAC 60.143 41.667 0.00 0.00 34.38 3.18
2689 3779 4.004314 TGTCTTGTTTTTCGGACACTTGA 58.996 39.130 0.00 0.00 34.38 3.02
2701 3791 1.378531 TGCGCTGAGTGTCTTGTTTT 58.621 45.000 9.73 0.00 0.00 2.43
2707 3797 1.181741 TCCTCTTGCGCTGAGTGTCT 61.182 55.000 22.47 0.00 0.00 3.41
2712 3802 1.449246 CCCTTCCTCTTGCGCTGAG 60.449 63.158 19.23 19.23 0.00 3.35
2724 3814 7.776618 TTTCTTTCTCCTTATTTTCCCTTCC 57.223 36.000 0.00 0.00 0.00 3.46
2748 3838 1.612395 CGCCCCAGCTCTCTTCTCTT 61.612 60.000 0.00 0.00 36.60 2.85
2811 3908 4.755629 CGTAAGATTAGGGACGAGATCAGA 59.244 45.833 0.00 0.00 37.50 3.27
2835 3932 3.885297 CCTTGACTTTGGAAAGCTTCAGA 59.115 43.478 0.00 0.00 39.63 3.27
2865 3962 1.600663 CGGAATCGACGGATCTTCCAG 60.601 57.143 12.43 3.40 35.70 3.86
2898 4094 1.376683 CCCGGCGAATTGAACAGGA 60.377 57.895 9.30 0.00 0.00 3.86
2904 4100 2.125147 CTCTGCCCGGCGAATTGA 60.125 61.111 9.30 0.08 0.00 2.57
3019 4215 2.092103 AGCAAAACCAGGAGTACAACCA 60.092 45.455 10.84 0.00 0.00 3.67
3020 4216 2.552743 GAGCAAAACCAGGAGTACAACC 59.447 50.000 0.00 0.00 0.00 3.77
3081 4460 4.212004 GCTGCAATGCTCGATAATGTAGAA 59.788 41.667 6.82 0.00 0.00 2.10
3158 4537 2.095252 GGAAGAACCGCTCAGTCGC 61.095 63.158 0.00 0.00 0.00 5.19
3159 4538 4.170723 GGAAGAACCGCTCAGTCG 57.829 61.111 0.00 0.00 0.00 4.18
3168 4547 1.800713 GTCTCGACGCGGAAGAACC 60.801 63.158 12.47 0.00 0.00 3.62
3169 4548 1.800713 GGTCTCGACGCGGAAGAAC 60.801 63.158 12.47 9.08 0.00 3.01
3170 4549 1.970114 AGGTCTCGACGCGGAAGAA 60.970 57.895 12.47 0.00 0.00 2.52
3171 4550 2.359602 AGGTCTCGACGCGGAAGA 60.360 61.111 12.47 7.19 0.00 2.87
3172 4551 2.202492 CAGGTCTCGACGCGGAAG 60.202 66.667 12.47 4.52 0.00 3.46
3173 4552 3.744719 CCAGGTCTCGACGCGGAA 61.745 66.667 12.47 0.00 0.00 4.30
3174 4553 4.710167 TCCAGGTCTCGACGCGGA 62.710 66.667 12.47 0.00 32.17 5.54
3175 4554 1.721664 TATTCCAGGTCTCGACGCGG 61.722 60.000 12.47 0.00 0.00 6.46
3176 4555 0.317103 CTATTCCAGGTCTCGACGCG 60.317 60.000 3.53 3.53 0.00 6.01
3177 4556 0.030908 CCTATTCCAGGTCTCGACGC 59.969 60.000 0.00 0.00 39.91 5.19


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

AutoCloner maintained by Alex Coulton.