Multiple sequence alignment - TraesCS7D01G504500

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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 TraesCS7D01G504500 chr7D 100.000 3713 0 0 1 3713 610538330 610534618 0.000000e+00 6857.0
1 TraesCS7D01G504500 chr7D 95.163 3597 120 25 131 3713 600238711 600235155 0.000000e+00 5629.0
2 TraesCS7D01G504500 chr7D 93.317 2409 114 17 767 3160 514744159 514746535 0.000000e+00 3513.0
3 TraesCS7D01G504500 chr7D 91.458 878 63 4 1046 1915 79325957 79326830 0.000000e+00 1195.0
4 TraesCS7D01G504500 chr7D 89.977 878 76 4 1046 1915 79260319 79261192 0.000000e+00 1123.0
5 TraesCS7D01G504500 chr7D 89.009 737 71 4 2172 2904 608195619 608196349 0.000000e+00 904.0
6 TraesCS7D01G504500 chr7D 92.110 545 34 3 820 1356 608192738 608193281 0.000000e+00 760.0
7 TraesCS7D01G504500 chr7D 90.364 467 23 13 3124 3589 608196614 608197059 8.880000e-166 593.0
8 TraesCS7D01G504500 chr7D 88.940 434 18 14 3186 3589 514746523 514746956 3.310000e-140 508.0
9 TraesCS7D01G504500 chr7D 91.760 267 15 2 285 545 608191769 608192034 7.580000e-97 364.0
10 TraesCS7D01G504500 chr7D 85.106 141 8 4 1 128 608191606 608191746 8.370000e-27 132.0
11 TraesCS7D01G504500 chr7B 92.486 2981 140 33 767 3713 696140082 696143012 0.000000e+00 4187.0
12 TraesCS7D01G504500 chr7B 89.721 1508 109 15 683 2173 699177318 699178796 0.000000e+00 1884.0
13 TraesCS7D01G504500 chr7B 88.646 1418 114 22 767 2173 698649908 698651289 0.000000e+00 1683.0
14 TraesCS7D01G504500 chr7B 89.442 1326 91 22 861 2173 693617516 693618805 0.000000e+00 1628.0
15 TraesCS7D01G504500 chr7B 87.631 1334 109 17 861 2173 694359393 694360691 0.000000e+00 1498.0
16 TraesCS7D01G504500 chr7B 85.902 1447 140 28 2172 3589 694360720 694362131 0.000000e+00 1483.0
17 TraesCS7D01G504500 chr7B 89.021 838 81 5 2172 3004 698651318 698652149 0.000000e+00 1027.0
18 TraesCS7D01G504500 chr7B 88.915 839 80 5 2172 3004 693618834 693619665 0.000000e+00 1022.0
19 TraesCS7D01G504500 chr7B 87.723 839 85 6 2172 3004 699178825 699179651 0.000000e+00 963.0
20 TraesCS7D01G504500 chr7B 89.560 613 28 17 3009 3589 699138815 699139423 0.000000e+00 745.0
21 TraesCS7D01G504500 chr7B 86.842 608 29 18 3012 3589 698652198 698652784 1.880000e-177 632.0
22 TraesCS7D01G504500 chr7B 86.679 563 27 17 3058 3589 693619742 693620287 6.910000e-162 580.0
23 TraesCS7D01G504500 chr7B 91.557 379 30 2 3198 3574 636073385 636073763 4.250000e-144 521.0
24 TraesCS7D01G504500 chr7B 90.716 377 33 2 3198 3572 12863842 12863466 5.540000e-138 501.0
25 TraesCS7D01G504500 chr7B 92.722 316 21 2 3275 3589 699180027 699180341 4.370000e-124 455.0
26 TraesCS7D01G504500 chr7B 85.271 258 22 8 302 546 699176565 699176819 6.160000e-63 252.0
27 TraesCS7D01G504500 chr7B 86.441 177 21 2 682 857 699136354 699136528 1.360000e-44 191.0
28 TraesCS7D01G504500 chr7B 85.227 176 24 1 682 857 693617229 693617402 2.950000e-41 180.0
29 TraesCS7D01G504500 chr7B 85.227 176 24 1 682 857 694359106 694359279 2.950000e-41 180.0
30 TraesCS7D01G504500 chr7B 83.978 181 19 6 683 855 696138174 696138352 8.250000e-37 165.0
31 TraesCS7D01G504500 chr7B 87.075 147 4 3 1 136 699135155 699135297 6.420000e-33 152.0
32 TraesCS7D01G504500 chr7B 85.714 147 6 3 1 136 693616026 693616168 1.390000e-29 141.0
33 TraesCS7D01G504500 chr7B 92.683 82 6 0 1 82 696123700 696123781 6.510000e-23 119.0
34 TraesCS7D01G504500 chr7B 94.872 78 0 2 282 356 696123831 696123907 6.510000e-23 119.0
35 TraesCS7D01G504500 chr7B 85.586 111 15 1 152 262 667763313 667763204 8.430000e-22 115.0
36 TraesCS7D01G504500 chr7B 91.765 85 3 1 1 85 694357860 694357940 8.430000e-22 115.0
37 TraesCS7D01G504500 chr7B 89.773 88 4 2 289 373 696139616 696139701 1.410000e-19 108.0
38 TraesCS7D01G504500 chr7B 100.000 36 0 0 101 136 696123778 696123813 2.390000e-07 67.6
39 TraesCS7D01G504500 chr7B 97.222 36 1 0 101 136 694357977 694358012 1.110000e-05 62.1
40 TraesCS7D01G504500 chr7B 97.222 36 1 0 102 137 699176482 699176517 1.110000e-05 62.1
41 TraesCS7D01G504500 chr7A 92.282 2099 143 9 915 3004 700204351 700206439 0.000000e+00 2961.0
42 TraesCS7D01G504500 chr7A 86.626 1473 116 20 2172 3592 700507927 700506484 0.000000e+00 1554.0
43 TraesCS7D01G504500 chr7A 89.829 934 64 8 1249 2173 700508867 700507956 0.000000e+00 1170.0
44 TraesCS7D01G504500 chr7A 89.984 609 29 9 3010 3589 700206486 700207091 0.000000e+00 758.0
45 TraesCS7D01G504500 chr7A 89.982 569 37 8 689 1252 700509690 700509137 0.000000e+00 717.0
46 TraesCS7D01G504500 chr7A 94.964 278 14 0 282 559 700509992 700509715 1.580000e-118 436.0
47 TraesCS7D01G504500 chr7A 93.578 109 4 2 289 396 700203509 700203615 3.840000e-35 159.0
48 TraesCS7D01G504500 chr7A 93.023 86 5 1 1 85 700203299 700203384 1.400000e-24 124.0
49 TraesCS7D01G504500 chr7A 88.462 104 7 5 289 388 699917206 699917104 1.810000e-23 121.0
50 TraesCS7D01G504500 chr7A 82.143 112 10 7 47 155 700510100 700509996 1.840000e-13 87.9
51 TraesCS7D01G504500 chr4A 89.199 1324 106 12 862 2173 661819470 661820768 0.000000e+00 1618.0
52 TraesCS7D01G504500 chr4A 87.129 606 35 13 3009 3589 661821664 661822251 0.000000e+00 647.0
53 TraesCS7D01G504500 chr4A 83.815 173 13 7 289 446 661819080 661819252 2.310000e-32 150.0
54 TraesCS7D01G504500 chr4A 90.722 97 7 2 592 686 606584242 606584338 1.080000e-25 128.0
55 TraesCS7D01G504500 chr5D 90.557 879 67 8 1046 1915 385871469 385870598 0.000000e+00 1149.0
56 TraesCS7D01G504500 chr6A 90.034 873 65 9 1046 1909 470903760 470904619 0.000000e+00 1110.0
57 TraesCS7D01G504500 chr2B 90.263 380 33 4 3198 3574 135995030 135994652 9.260000e-136 494.0
58 TraesCS7D01G504500 chr6D 87.687 268 20 5 1046 1312 58859816 58860071 2.170000e-77 300.0
59 TraesCS7D01G504500 chr5A 90.099 101 7 3 592 690 673214889 673214790 1.080000e-25 128.0
60 TraesCS7D01G504500 chr2D 88.889 99 9 2 590 686 317345634 317345732 1.810000e-23 121.0
61 TraesCS7D01G504500 chr1A 87.619 105 9 4 588 689 49276353 49276250 6.510000e-23 119.0
62 TraesCS7D01G504500 chr1A 87.037 108 11 3 582 686 561412919 561413026 6.510000e-23 119.0
63 TraesCS7D01G504500 chr5B 86.486 111 9 5 584 691 24233384 24233277 2.340000e-22 117.0
64 TraesCS7D01G504500 chr4D 85.345 116 12 4 592 705 93339453 93339341 8.430000e-22 115.0
65 TraesCS7D01G504500 chr1B 86.792 106 11 3 592 695 301264483 301264587 8.430000e-22 115.0
66 TraesCS7D01G504500 chr3B 86.813 91 11 1 147 237 445598145 445598056 2.360000e-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 TraesCS7D01G504500 chr7D 610534618 610538330 3712 True 6857.000000 6857 100.000000 1 3713 1 chr7D.!!$R2 3712
1 TraesCS7D01G504500 chr7D 600235155 600238711 3556 True 5629.000000 5629 95.163000 131 3713 1 chr7D.!!$R1 3582
2 TraesCS7D01G504500 chr7D 514744159 514746956 2797 False 2010.500000 3513 91.128500 767 3589 2 chr7D.!!$F3 2822
3 TraesCS7D01G504500 chr7D 79325957 79326830 873 False 1195.000000 1195 91.458000 1046 1915 1 chr7D.!!$F2 869
4 TraesCS7D01G504500 chr7D 79260319 79261192 873 False 1123.000000 1123 89.977000 1046 1915 1 chr7D.!!$F1 869
5 TraesCS7D01G504500 chr7D 608191606 608197059 5453 False 550.600000 904 89.669800 1 3589 5 chr7D.!!$F4 3588
6 TraesCS7D01G504500 chr7B 696138174 696143012 4838 False 1486.666667 4187 88.745667 289 3713 3 chr7B.!!$F5 3424
7 TraesCS7D01G504500 chr7B 698649908 698652784 2876 False 1114.000000 1683 88.169667 767 3589 3 chr7B.!!$F6 2822
8 TraesCS7D01G504500 chr7B 699176482 699180341 3859 False 723.220000 1884 90.531800 102 3589 5 chr7B.!!$F8 3487
9 TraesCS7D01G504500 chr7B 693616026 693620287 4261 False 710.200000 1628 87.195400 1 3589 5 chr7B.!!$F2 3588
10 TraesCS7D01G504500 chr7B 694357860 694362131 4271 False 667.620000 1498 89.549400 1 3589 5 chr7B.!!$F3 3588
11 TraesCS7D01G504500 chr7B 699135155 699139423 4268 False 362.666667 745 87.692000 1 3589 3 chr7B.!!$F7 3588
12 TraesCS7D01G504500 chr7A 700203299 700207091 3792 False 1000.500000 2961 92.216750 1 3589 4 chr7A.!!$F1 3588
13 TraesCS7D01G504500 chr7A 700506484 700510100 3616 True 792.980000 1554 88.708800 47 3592 5 chr7A.!!$R2 3545
14 TraesCS7D01G504500 chr4A 661819080 661822251 3171 False 805.000000 1618 86.714333 289 3589 3 chr4A.!!$F2 3300
15 TraesCS7D01G504500 chr5D 385870598 385871469 871 True 1149.000000 1149 90.557000 1046 1915 1 chr5D.!!$R1 869
16 TraesCS7D01G504500 chr6A 470903760 470904619 859 False 1110.000000 1110 90.034000 1046 1909 1 chr6A.!!$F1 863

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
728 3164 0.665670 CATCGTGCTAGGCGAGATGG 60.666 60.0 14.50 0.0 41.83 3.51 F
2538 7616 0.034863 GGTCGGGCCCACATCTAAAA 60.035 55.0 24.92 0.0 0.00 1.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2706 7793 0.519999 CGCGAGTGCAGCTTCATTTC 60.520 55.0 0.00 0.0 42.97 2.17 R
3348 8795 0.694444 GGGAGGTATCCTGGCTCCAA 60.694 60.0 16.73 0.0 45.85 3.53 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
26 27 1.068748 TCGTCTGCAACTACGACCTTC 60.069 52.381 12.90 0.00 42.74 3.46
142 192 1.594310 GCCTCTGTCCAGTCCAGAC 59.406 63.158 0.00 0.00 35.23 3.51
155 205 7.453752 TGTCCAGTCCAGACTTAATTAGTACTT 59.546 37.037 0.00 0.00 40.20 2.24
181 231 4.442706 TCGTCTGAAAAAGCTTGTCTCTT 58.557 39.130 0.00 0.00 0.00 2.85
271 321 4.903045 TTTTCAGACCGAGGGAATACTT 57.097 40.909 0.00 0.00 0.00 2.24
283 333 7.230309 ACCGAGGGAATACTTTATACAGAGTAC 59.770 40.741 0.00 0.00 31.70 2.73
407 1625 2.058057 GGCAGTTAATTTGTTGCACGG 58.942 47.619 9.13 0.00 38.27 4.94
502 2028 9.135843 CAAAATATGCATGAAAATATCTGCGAT 57.864 29.630 10.16 0.00 35.94 4.58
510 2036 9.443283 GCATGAAAATATCTGCGATTAATATCC 57.557 33.333 0.00 0.00 0.00 2.59
528 2054 3.029483 TCCAATGCTCCATGGCAATAA 57.971 42.857 6.96 0.00 45.68 1.40
609 2951 7.855784 AAAAATTACTCCTCTGTCCCAAAAT 57.144 32.000 0.00 0.00 0.00 1.82
610 2952 8.950007 AAAAATTACTCCTCTGTCCCAAAATA 57.050 30.769 0.00 0.00 0.00 1.40
611 2953 8.950007 AAAATTACTCCTCTGTCCCAAAATAA 57.050 30.769 0.00 0.00 0.00 1.40
612 2954 8.581253 AAATTACTCCTCTGTCCCAAAATAAG 57.419 34.615 0.00 0.00 0.00 1.73
613 2955 6.697641 TTACTCCTCTGTCCCAAAATAAGT 57.302 37.500 0.00 0.00 0.00 2.24
614 2956 4.911390 ACTCCTCTGTCCCAAAATAAGTG 58.089 43.478 0.00 0.00 0.00 3.16
615 2957 4.351111 ACTCCTCTGTCCCAAAATAAGTGT 59.649 41.667 0.00 0.00 0.00 3.55
616 2958 4.906618 TCCTCTGTCCCAAAATAAGTGTC 58.093 43.478 0.00 0.00 0.00 3.67
617 2959 4.597507 TCCTCTGTCCCAAAATAAGTGTCT 59.402 41.667 0.00 0.00 0.00 3.41
618 2960 5.073144 TCCTCTGTCCCAAAATAAGTGTCTT 59.927 40.000 0.00 0.00 0.00 3.01
619 2961 6.271391 TCCTCTGTCCCAAAATAAGTGTCTTA 59.729 38.462 0.00 0.00 0.00 2.10
620 2962 6.940298 CCTCTGTCCCAAAATAAGTGTCTTAA 59.060 38.462 0.00 0.00 0.00 1.85
621 2963 7.094762 CCTCTGTCCCAAAATAAGTGTCTTAAC 60.095 40.741 0.00 0.00 0.00 2.01
622 2964 7.514721 TCTGTCCCAAAATAAGTGTCTTAACT 58.485 34.615 0.00 0.00 0.00 2.24
623 2965 7.996644 TCTGTCCCAAAATAAGTGTCTTAACTT 59.003 33.333 0.00 0.00 42.89 2.66
624 2966 8.528044 TGTCCCAAAATAAGTGTCTTAACTTT 57.472 30.769 0.00 0.00 40.77 2.66
625 2967 8.410141 TGTCCCAAAATAAGTGTCTTAACTTTG 58.590 33.333 14.00 14.00 40.77 2.77
626 2968 8.410912 GTCCCAAAATAAGTGTCTTAACTTTGT 58.589 33.333 16.72 0.00 40.77 2.83
627 2969 9.629878 TCCCAAAATAAGTGTCTTAACTTTGTA 57.370 29.630 16.72 8.94 40.77 2.41
628 2970 9.673454 CCCAAAATAAGTGTCTTAACTTTGTAC 57.327 33.333 16.72 0.00 40.77 2.90
663 3005 9.316730 ACGTAAAGTTGTATTAAAGTTGAGACA 57.683 29.630 0.00 0.00 0.00 3.41
664 3006 9.577003 CGTAAAGTTGTATTAAAGTTGAGACAC 57.423 33.333 0.00 0.00 0.00 3.67
678 3020 8.463930 AAGTTGAGACACTTATTTGAAATGGA 57.536 30.769 0.00 0.00 35.10 3.41
679 3021 8.103948 AGTTGAGACACTTATTTGAAATGGAG 57.896 34.615 0.00 1.56 0.00 3.86
680 3022 7.175641 AGTTGAGACACTTATTTGAAATGGAGG 59.824 37.037 0.00 0.00 0.00 4.30
728 3164 0.665670 CATCGTGCTAGGCGAGATGG 60.666 60.000 14.50 0.00 41.83 3.51
1846 6846 1.001406 CGTTGCCTGAGAAAGAGGAGT 59.999 52.381 0.00 0.00 31.48 3.85
1847 6847 2.548920 CGTTGCCTGAGAAAGAGGAGTT 60.549 50.000 0.00 0.00 31.48 3.01
1911 6914 0.622154 AGACGAGAGAGGGAGGAGGA 60.622 60.000 0.00 0.00 0.00 3.71
2098 7107 5.178623 TGTGCTTCAGATTACGTACCAAAAG 59.821 40.000 0.00 0.00 0.00 2.27
2200 7269 1.810151 GTGGGCGCAGAAGAAACAATA 59.190 47.619 10.83 0.00 0.00 1.90
2537 7615 1.605453 GGTCGGGCCCACATCTAAA 59.395 57.895 24.92 0.00 0.00 1.85
2538 7616 0.034863 GGTCGGGCCCACATCTAAAA 60.035 55.000 24.92 0.00 0.00 1.52
2539 7617 1.614850 GGTCGGGCCCACATCTAAAAA 60.615 52.381 24.92 0.00 0.00 1.94
2540 7618 2.375146 GTCGGGCCCACATCTAAAAAT 58.625 47.619 24.92 0.00 0.00 1.82
2607 7694 6.623767 GCACCACTGATTTTTCATCTCTTACC 60.624 42.308 0.00 0.00 0.00 2.85
2651 7738 6.373005 TGTGAAAAGAAGGATATCACCTCA 57.627 37.500 4.83 0.00 39.64 3.86
2706 7793 1.000283 CTAGCAGCTGATTACCCTCGG 60.000 57.143 20.43 0.00 0.00 4.63
2809 7905 4.411327 TGTTGTTTTTCAAGAACTGCGAG 58.589 39.130 0.00 0.00 37.13 5.03
2840 7936 5.805486 GCTGTCATATTAAGTGTGTCGAGAA 59.195 40.000 0.00 0.00 0.00 2.87
3102 8485 2.430921 GTGACACGCCTCGACCTG 60.431 66.667 0.00 0.00 0.00 4.00
3106 8489 1.863662 GACACGCCTCGACCTGAAGA 61.864 60.000 0.00 0.00 0.00 2.87
3107 8490 1.289066 CACGCCTCGACCTGAAGAA 59.711 57.895 0.00 0.00 0.00 2.52
3108 8491 1.009389 CACGCCTCGACCTGAAGAAC 61.009 60.000 0.00 0.00 0.00 3.01
3150 8536 2.485479 GCAGGTTTCTTCACCACTCTGA 60.485 50.000 0.00 0.00 39.62 3.27
3199 8585 0.890683 AATGGCTGCTTGTACCTTGC 59.109 50.000 0.00 0.00 0.00 4.01
3271 8661 2.151502 ATGGTGTGGTTTGTTGTGGA 57.848 45.000 0.00 0.00 0.00 4.02
3272 8662 2.151502 TGGTGTGGTTTGTTGTGGAT 57.848 45.000 0.00 0.00 0.00 3.41
3273 8663 2.028130 TGGTGTGGTTTGTTGTGGATC 58.972 47.619 0.00 0.00 0.00 3.36
3274 8664 2.028130 GGTGTGGTTTGTTGTGGATCA 58.972 47.619 0.00 0.00 0.00 2.92
3275 8665 2.627699 GGTGTGGTTTGTTGTGGATCAT 59.372 45.455 0.00 0.00 0.00 2.45
3342 8789 4.043310 TCTCTTGGGTTTCATCCATTCTGT 59.957 41.667 0.00 0.00 33.82 3.41
3348 8795 7.552050 TGGGTTTCATCCATTCTGTAAAAAT 57.448 32.000 0.00 0.00 0.00 1.82
3363 8810 4.953579 TGTAAAAATTGGAGCCAGGATACC 59.046 41.667 0.00 0.00 37.17 2.73
3386 8833 6.077322 CCTCCCTCTTGATCTTCTCTAGAAT 58.923 44.000 0.00 0.00 35.69 2.40
3483 8932 7.148069 ACCATAAAAGGTTTATAGTTCAGCAGC 60.148 37.037 0.00 0.00 39.34 5.25
3582 9031 7.119846 ACCTGAAGAAATGCTACTATTGTTCAC 59.880 37.037 0.00 0.00 0.00 3.18
3593 9042 0.405585 ATTGTTCACCAGAGTGGGGG 59.594 55.000 0.00 0.00 42.59 5.40
3604 9053 0.613777 GAGTGGGGGTGGAGTACTTG 59.386 60.000 0.00 0.00 0.00 3.16
3621 9078 2.829720 ACTTGAACAGGCATGCATGAAT 59.170 40.909 36.44 24.31 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
142 192 9.635520 TTTCAGACGAAGGAAGTACTAATTAAG 57.364 33.333 0.00 0.00 31.28 1.85
155 205 3.541632 ACAAGCTTTTTCAGACGAAGGA 58.458 40.909 0.00 0.00 31.28 3.36
221 271 2.293122 CCCAAGCTTGTTCGTCAAATGA 59.707 45.455 24.35 0.00 35.48 2.57
259 309 7.041508 ACGTACTCTGTATAAAGTATTCCCTCG 60.042 40.741 0.00 0.00 31.10 4.63
266 316 9.995003 AGCTAGTACGTACTCTGTATAAAGTAT 57.005 33.333 30.53 10.68 37.73 2.12
271 321 6.051074 TGCAGCTAGTACGTACTCTGTATAA 58.949 40.000 30.04 18.36 37.73 0.98
283 333 2.875317 TCTCTGATCTGCAGCTAGTACG 59.125 50.000 9.47 0.00 44.52 3.67
407 1625 0.040692 CGCCACTGCATGCATGTATC 60.041 55.000 26.79 11.80 37.32 2.24
502 2028 4.738685 TGCCATGGAGCATTGGATATTAA 58.261 39.130 18.40 0.00 38.00 1.40
528 2054 5.592104 ACTTTTCTCATTCGGGTGTTTTT 57.408 34.783 0.00 0.00 0.00 1.94
589 2931 7.112779 CACTTATTTTGGGACAGAGGAGTAAT 58.887 38.462 0.00 0.00 42.39 1.89
590 2932 6.043938 ACACTTATTTTGGGACAGAGGAGTAA 59.956 38.462 0.00 0.00 42.39 2.24
591 2933 5.546499 ACACTTATTTTGGGACAGAGGAGTA 59.454 40.000 0.00 0.00 42.39 2.59
592 2934 4.351111 ACACTTATTTTGGGACAGAGGAGT 59.649 41.667 0.00 0.00 42.39 3.85
593 2935 4.911390 ACACTTATTTTGGGACAGAGGAG 58.089 43.478 0.00 0.00 42.39 3.69
594 2936 4.597507 AGACACTTATTTTGGGACAGAGGA 59.402 41.667 0.00 0.00 42.39 3.71
595 2937 4.911390 AGACACTTATTTTGGGACAGAGG 58.089 43.478 0.00 0.00 42.39 3.69
596 2938 7.661847 AGTTAAGACACTTATTTTGGGACAGAG 59.338 37.037 0.00 0.00 42.39 3.35
597 2939 7.514721 AGTTAAGACACTTATTTTGGGACAGA 58.485 34.615 0.00 0.00 42.39 3.41
598 2940 7.745620 AGTTAAGACACTTATTTTGGGACAG 57.254 36.000 0.00 0.00 42.39 3.51
599 2941 8.410141 CAAAGTTAAGACACTTATTTTGGGACA 58.590 33.333 0.92 0.00 35.87 4.02
600 2942 8.410912 ACAAAGTTAAGACACTTATTTTGGGAC 58.589 33.333 19.96 6.58 35.87 4.46
601 2943 8.528044 ACAAAGTTAAGACACTTATTTTGGGA 57.472 30.769 19.96 0.00 35.87 4.37
602 2944 9.673454 GTACAAAGTTAAGACACTTATTTTGGG 57.327 33.333 19.96 8.06 35.87 4.12
637 2979 9.316730 TGTCTCAACTTTAATACAACTTTACGT 57.683 29.630 0.00 0.00 0.00 3.57
638 2980 9.577003 GTGTCTCAACTTTAATACAACTTTACG 57.423 33.333 0.00 0.00 0.00 3.18
652 2994 8.912988 TCCATTTCAAATAAGTGTCTCAACTTT 58.087 29.630 0.00 0.00 40.77 2.66
653 2995 8.463930 TCCATTTCAAATAAGTGTCTCAACTT 57.536 30.769 0.00 0.00 42.89 2.66
654 2996 7.175641 CCTCCATTTCAAATAAGTGTCTCAACT 59.824 37.037 0.00 0.00 0.00 3.16
655 2997 7.308435 CCTCCATTTCAAATAAGTGTCTCAAC 58.692 38.462 0.00 0.00 0.00 3.18
656 2998 6.434028 CCCTCCATTTCAAATAAGTGTCTCAA 59.566 38.462 0.00 0.00 0.00 3.02
657 2999 5.945784 CCCTCCATTTCAAATAAGTGTCTCA 59.054 40.000 0.00 0.00 0.00 3.27
658 3000 6.180472 TCCCTCCATTTCAAATAAGTGTCTC 58.820 40.000 0.00 0.00 0.00 3.36
659 3001 6.139679 TCCCTCCATTTCAAATAAGTGTCT 57.860 37.500 0.00 0.00 0.00 3.41
660 3002 5.946377 ACTCCCTCCATTTCAAATAAGTGTC 59.054 40.000 0.00 0.00 0.00 3.67
661 3003 5.892348 ACTCCCTCCATTTCAAATAAGTGT 58.108 37.500 0.00 0.00 0.00 3.55
662 3004 7.938140 TTACTCCCTCCATTTCAAATAAGTG 57.062 36.000 0.00 0.00 0.00 3.16
669 3011 9.627123 CAAACTATATTACTCCCTCCATTTCAA 57.373 33.333 0.00 0.00 0.00 2.69
670 3012 7.719633 GCAAACTATATTACTCCCTCCATTTCA 59.280 37.037 0.00 0.00 0.00 2.69
671 3013 7.719633 TGCAAACTATATTACTCCCTCCATTTC 59.280 37.037 0.00 0.00 0.00 2.17
672 3014 7.582719 TGCAAACTATATTACTCCCTCCATTT 58.417 34.615 0.00 0.00 0.00 2.32
673 3015 7.149202 TGCAAACTATATTACTCCCTCCATT 57.851 36.000 0.00 0.00 0.00 3.16
674 3016 6.763715 TGCAAACTATATTACTCCCTCCAT 57.236 37.500 0.00 0.00 0.00 3.41
675 3017 6.763715 ATGCAAACTATATTACTCCCTCCA 57.236 37.500 0.00 0.00 0.00 3.86
676 3018 6.072452 GCAATGCAAACTATATTACTCCCTCC 60.072 42.308 0.00 0.00 0.00 4.30
677 3019 6.486657 TGCAATGCAAACTATATTACTCCCTC 59.513 38.462 5.01 0.00 34.76 4.30
678 3020 6.364701 TGCAATGCAAACTATATTACTCCCT 58.635 36.000 5.01 0.00 34.76 4.20
679 3021 6.263168 ACTGCAATGCAAACTATATTACTCCC 59.737 38.462 9.92 0.00 38.41 4.30
680 3022 7.134815 CACTGCAATGCAAACTATATTACTCC 58.865 38.462 9.92 0.00 38.41 3.85
728 3164 1.872952 TGTATGCACTGCACAGTCAAC 59.127 47.619 5.67 0.00 43.04 3.18
1296 4687 4.387256 GGATCGTCTATGAACTATGCTTGC 59.613 45.833 0.00 0.00 0.00 4.01
2098 7107 0.967380 CTTCCATGCCTCCAACCACC 60.967 60.000 0.00 0.00 0.00 4.61
2200 7269 3.331889 ACCTCTTCAGATGTCCAATGGTT 59.668 43.478 0.00 0.00 0.00 3.67
2372 7441 4.070716 ACAAAACAATGAGCAGAGAGAGG 58.929 43.478 0.00 0.00 0.00 3.69
2607 7694 7.885297 TCACATTTCCCTGTAATTCAAGAAAG 58.115 34.615 0.00 0.00 34.29 2.62
2619 7706 4.803452 TCCTTCTTTTCACATTTCCCTGT 58.197 39.130 0.00 0.00 0.00 4.00
2651 7738 8.336235 TCTTTTTAACACAATCCCCATCTAGAT 58.664 33.333 0.00 0.00 0.00 1.98
2706 7793 0.519999 CGCGAGTGCAGCTTCATTTC 60.520 55.000 0.00 0.00 42.97 2.17
2809 7905 5.180117 CACACTTAATATGACAGCCTATGCC 59.820 44.000 0.00 0.00 38.69 4.40
2840 7936 7.301420 TCCAGATGGTTCAATCTACTCTCTAT 58.699 38.462 0.00 0.00 35.09 1.98
2910 8031 3.586961 TCGGAGGAGCGAGCGATG 61.587 66.667 0.00 0.00 0.00 3.84
3102 8485 1.600916 AGCGGCACCAAGGTTCTTC 60.601 57.895 1.45 0.00 0.00 2.87
3150 8536 0.606604 ACGGTCGCTCAAGGTACAAT 59.393 50.000 0.00 0.00 0.00 2.71
3271 8661 4.039004 GCTGAGTGAGTGACAGGATATGAT 59.961 45.833 0.00 0.00 33.00 2.45
3272 8662 3.382865 GCTGAGTGAGTGACAGGATATGA 59.617 47.826 0.00 0.00 33.00 2.15
3273 8663 3.492309 GGCTGAGTGAGTGACAGGATATG 60.492 52.174 0.00 0.00 33.00 1.78
3274 8664 2.697751 GGCTGAGTGAGTGACAGGATAT 59.302 50.000 0.00 0.00 33.00 1.63
3275 8665 2.103373 GGCTGAGTGAGTGACAGGATA 58.897 52.381 0.00 0.00 33.00 2.59
3342 8789 5.445964 GAGGTATCCTGGCTCCAATTTTTA 58.554 41.667 0.00 0.00 31.76 1.52
3348 8795 0.694444 GGGAGGTATCCTGGCTCCAA 60.694 60.000 16.73 0.00 45.85 3.53
3363 8810 6.015180 CCATTCTAGAGAAGATCAAGAGGGAG 60.015 46.154 0.00 0.00 37.48 4.30
3386 8833 5.055265 TCAAGGGTACAAACTGAATTCCA 57.945 39.130 2.27 0.00 0.00 3.53
3582 9031 1.080354 TACTCCACCCCCACTCTGG 59.920 63.158 0.00 0.00 37.25 3.86
3593 9042 2.543777 TGCCTGTTCAAGTACTCCAC 57.456 50.000 0.00 0.00 0.00 4.02
3604 9053 3.615496 GTGAAATTCATGCATGCCTGTTC 59.385 43.478 22.25 19.51 0.00 3.18
3621 9078 6.227522 TGACGAGATGTTAATTCTGGTGAAA 58.772 36.000 9.66 0.00 33.07 2.69


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

AutoCloner maintained by Alex Coulton.