Multiple sequence alignment - TraesCS2B01G393400

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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 TraesCS2B01G393400 chr2B 100.000 2891 0 0 1 2891 557817168 557814278 0.000000e+00 5339
1 TraesCS2B01G393400 chr2B 93.740 607 34 2 1 606 557823718 557823115 0.000000e+00 907
2 TraesCS2B01G393400 chr2D 93.658 1908 73 16 720 2589 476697335 476695438 0.000000e+00 2809
3 TraesCS2B01G393400 chr2D 94.828 116 4 2 622 735 476697465 476697350 2.290000e-41 180
4 TraesCS2B01G393400 chr2D 95.238 84 3 1 620 702 642214249 642214332 6.500000e-27 132
5 TraesCS2B01G393400 chr2D 95.122 82 2 2 622 702 275248990 275248910 8.410000e-26 128
6 TraesCS2B01G393400 chr2A 93.283 1861 73 18 774 2593 618982879 618981030 0.000000e+00 2697
7 TraesCS2B01G393400 chr2A 90.625 288 23 3 2604 2891 618980960 618980677 2.100000e-101 379
8 TraesCS2B01G393400 chr4B 91.734 617 44 7 1 613 632778283 632778896 0.000000e+00 850
9 TraesCS2B01G393400 chr4B 91.694 614 46 5 1 611 85241782 85241171 0.000000e+00 846
10 TraesCS2B01G393400 chr4B 91.653 611 44 6 1 607 632765247 632765854 0.000000e+00 839
11 TraesCS2B01G393400 chr4A 91.517 613 48 4 1 611 703168109 703168719 0.000000e+00 841
12 TraesCS2B01G393400 chr5B 91.248 617 51 3 1 615 398950085 398950700 0.000000e+00 837
13 TraesCS2B01G393400 chr1B 91.191 613 48 5 1 611 318799630 318800238 0.000000e+00 828
14 TraesCS2B01G393400 chr1B 91.191 613 48 6 1 611 447281634 447281026 0.000000e+00 828
15 TraesCS2B01G393400 chr6B 91.057 615 49 5 1 611 64336172 64335560 0.000000e+00 826
16 TraesCS2B01G393400 chr6B 88.305 590 65 4 1210 1797 471676642 471676055 0.000000e+00 704
17 TraesCS2B01G393400 chr6B 92.857 84 4 2 621 702 142130944 142130861 1.410000e-23 121
18 TraesCS2B01G393400 chr6A 85.229 677 81 15 1138 1797 409432215 409431541 0.000000e+00 678
19 TraesCS2B01G393400 chr6A 93.827 81 5 0 622 702 117002932 117003012 3.910000e-24 122
20 TraesCS2B01G393400 chr6D 85.785 605 70 6 1195 1797 305172852 305173442 6.800000e-176 627
21 TraesCS2B01G393400 chr6D 95.122 82 3 1 622 702 202257122 202257041 8.410000e-26 128
22 TraesCS2B01G393400 chr4D 93.182 88 6 0 615 702 506089451 506089538 2.340000e-26 130
23 TraesCS2B01G393400 chr7D 95.062 81 4 0 622 702 451043915 451043995 8.410000e-26 128
24 TraesCS2B01G393400 chr3D 92.045 88 6 1 623 709 125801137 125801224 3.910000e-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 TraesCS2B01G393400 chr2B 557814278 557817168 2890 True 5339.0 5339 100.000 1 2891 1 chr2B.!!$R1 2890
1 TraesCS2B01G393400 chr2B 557823115 557823718 603 True 907.0 907 93.740 1 606 1 chr2B.!!$R2 605
2 TraesCS2B01G393400 chr2D 476695438 476697465 2027 True 1494.5 2809 94.243 622 2589 2 chr2D.!!$R2 1967
3 TraesCS2B01G393400 chr2A 618980677 618982879 2202 True 1538.0 2697 91.954 774 2891 2 chr2A.!!$R1 2117
4 TraesCS2B01G393400 chr4B 632778283 632778896 613 False 850.0 850 91.734 1 613 1 chr4B.!!$F2 612
5 TraesCS2B01G393400 chr4B 85241171 85241782 611 True 846.0 846 91.694 1 611 1 chr4B.!!$R1 610
6 TraesCS2B01G393400 chr4B 632765247 632765854 607 False 839.0 839 91.653 1 607 1 chr4B.!!$F1 606
7 TraesCS2B01G393400 chr4A 703168109 703168719 610 False 841.0 841 91.517 1 611 1 chr4A.!!$F1 610
8 TraesCS2B01G393400 chr5B 398950085 398950700 615 False 837.0 837 91.248 1 615 1 chr5B.!!$F1 614
9 TraesCS2B01G393400 chr1B 318799630 318800238 608 False 828.0 828 91.191 1 611 1 chr1B.!!$F1 610
10 TraesCS2B01G393400 chr1B 447281026 447281634 608 True 828.0 828 91.191 1 611 1 chr1B.!!$R1 610
11 TraesCS2B01G393400 chr6B 64335560 64336172 612 True 826.0 826 91.057 1 611 1 chr6B.!!$R1 610
12 TraesCS2B01G393400 chr6B 471676055 471676642 587 True 704.0 704 88.305 1210 1797 1 chr6B.!!$R3 587
13 TraesCS2B01G393400 chr6A 409431541 409432215 674 True 678.0 678 85.229 1138 1797 1 chr6A.!!$R1 659
14 TraesCS2B01G393400 chr6D 305172852 305173442 590 False 627.0 627 85.785 1195 1797 1 chr6D.!!$F1 602

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
51 52 0.396435 TTGGTGATTCACTGGCGACT 59.604 50.0 16.02 0.0 34.4 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2003 1.905637 TCCAACGAGACAGCTACAGA 58.094 50.0 0.0 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
51 52 0.396435 TTGGTGATTCACTGGCGACT 59.604 50.000 16.02 0.00 34.40 4.18
103 104 8.768501 ACCTATCTGAACATTATGACTCACTA 57.231 34.615 0.00 0.00 0.00 2.74
104 105 9.201989 ACCTATCTGAACATTATGACTCACTAA 57.798 33.333 0.00 0.00 0.00 2.24
354 360 5.357742 AAAAGGGACAAGCAACAAGAAAT 57.642 34.783 0.00 0.00 0.00 2.17
491 497 1.406887 GGCCCGAAGCTGTCTAAATCA 60.407 52.381 0.00 0.00 43.05 2.57
504 510 6.402118 GCTGTCTAAATCATTTGTCTTGCGTA 60.402 38.462 0.00 0.00 0.00 4.42
565 573 2.573462 ACATAGATGTGTTGGCCTCACT 59.427 45.455 24.11 14.26 40.03 3.41
573 581 3.389983 TGTGTTGGCCTCACTACTAAGTT 59.610 43.478 24.11 0.00 36.83 2.66
607 617 5.647658 GGACATCTGATGTGTTAATTCCACA 59.352 40.000 26.71 11.86 45.03 4.17
615 625 9.292846 CTGATGTGTTAATTCCACAACAATATG 57.707 33.333 16.56 6.73 45.20 1.78
616 626 9.018582 TGATGTGTTAATTCCACAACAATATGA 57.981 29.630 14.67 0.00 45.20 2.15
617 627 9.507280 GATGTGTTAATTCCACAACAATATGAG 57.493 33.333 13.09 0.00 45.20 2.90
618 628 8.628630 TGTGTTAATTCCACAACAATATGAGA 57.371 30.769 8.07 0.00 39.73 3.27
619 629 8.511321 TGTGTTAATTCCACAACAATATGAGAC 58.489 33.333 8.07 0.00 39.73 3.36
620 630 7.968405 GTGTTAATTCCACAACAATATGAGACC 59.032 37.037 3.88 0.00 36.47 3.85
621 631 7.888021 TGTTAATTCCACAACAATATGAGACCT 59.112 33.333 0.00 0.00 31.93 3.85
622 632 8.739972 GTTAATTCCACAACAATATGAGACCTT 58.260 33.333 0.00 0.00 0.00 3.50
623 633 7.781324 AATTCCACAACAATATGAGACCTTT 57.219 32.000 0.00 0.00 0.00 3.11
624 634 7.781324 ATTCCACAACAATATGAGACCTTTT 57.219 32.000 0.00 0.00 0.00 2.27
625 635 7.595819 TTCCACAACAATATGAGACCTTTTT 57.404 32.000 0.00 0.00 0.00 1.94
704 714 9.396022 CATCCAAAATAAGGCTACGGATAATAT 57.604 33.333 0.00 0.00 30.70 1.28
706 716 7.827236 TCCAAAATAAGGCTACGGATAATATGG 59.173 37.037 0.00 0.00 0.00 2.74
729 739 5.888161 GGGACTTGGTAAATTCTCATGATGT 59.112 40.000 0.00 0.00 0.00 3.06
742 782 4.146745 TCATGATGTGAGCTAGCAACAT 57.853 40.909 26.94 26.94 31.80 2.71
1032 1084 1.886585 CCCCACTCGTCTGACTCTG 59.113 63.158 6.21 0.00 0.00 3.35
1180 1244 4.129737 CGCGGGCCTTCTTCTCGA 62.130 66.667 0.84 0.00 0.00 4.04
1191 1270 4.377760 TTCTCGACCTCCCCGGCT 62.378 66.667 0.00 0.00 35.61 5.52
1284 1363 0.377554 CCTACGACATCTTCTCGCGT 59.622 55.000 5.77 0.00 38.81 6.01
1455 1534 1.367782 CCTCGCGATCTACGACACG 60.368 63.158 10.36 0.00 45.77 4.49
1689 1768 0.898320 AGATCTACGCCAAGCACACT 59.102 50.000 0.00 0.00 0.00 3.55
1758 1837 4.329545 GACCCAGTGGAGGCGCAA 62.330 66.667 11.95 0.00 34.81 4.85
1865 1944 0.612174 GGAGGAGGGGAAAACAAGGC 60.612 60.000 0.00 0.00 0.00 4.35
2039 2118 5.106555 GCTAAGCTGATGTTTTGCTACTTGA 60.107 40.000 0.00 0.00 35.85 3.02
2054 2133 5.649395 TGCTACTTGAATTAATCTGCTGCTT 59.351 36.000 0.00 0.00 0.00 3.91
2057 2136 8.993121 GCTACTTGAATTAATCTGCTGCTTATA 58.007 33.333 0.00 0.00 0.00 0.98
2101 2184 5.580297 GCTTACTTAGCCATCATAGCTGATC 59.420 44.000 0.00 0.00 44.48 2.92
2124 2207 9.565213 GATCTTATGTTTGTCTGAAATCAAAGG 57.435 33.333 0.00 0.00 34.83 3.11
2125 2208 8.463930 TCTTATGTTTGTCTGAAATCAAAGGT 57.536 30.769 0.00 0.00 34.83 3.50
2126 2209 9.567776 TCTTATGTTTGTCTGAAATCAAAGGTA 57.432 29.630 0.00 0.00 34.83 3.08
2163 2246 2.540157 GGATAAACGCGGCATGTTTACC 60.540 50.000 12.47 12.39 42.63 2.85
2168 2251 1.154035 GCGGCATGTTTACCACAGC 60.154 57.895 0.00 0.00 39.40 4.40
2182 2265 1.342174 CCACAGCAGGCACATTTTTCT 59.658 47.619 0.00 0.00 0.00 2.52
2192 2275 4.183865 GGCACATTTTTCTTTGGCCTATC 58.816 43.478 3.32 0.00 37.00 2.08
2253 2336 6.882610 TGCTGATTCTTGTATCTTGTGTTT 57.117 33.333 0.00 0.00 0.00 2.83
2287 2370 1.202177 GCGCCTTGTTGATGTATGTGG 60.202 52.381 0.00 0.00 0.00 4.17
2307 2390 8.991243 ATGTGGTTTCATTTAATGAGTTGATG 57.009 30.769 7.72 0.00 40.94 3.07
2311 2394 6.311200 GGTTTCATTTAATGAGTTGATGCCAC 59.689 38.462 7.72 0.00 40.94 5.01
2319 2402 9.770097 TTTAATGAGTTGATGCCACAATTTTAA 57.230 25.926 0.00 0.00 32.36 1.52
2320 2403 7.656707 AATGAGTTGATGCCACAATTTTAAC 57.343 32.000 0.00 0.00 32.36 2.01
2364 2447 6.893554 TGATTTCATTCCAAGAGTCATCCATT 59.106 34.615 0.00 0.00 0.00 3.16
2365 2448 6.519679 TTTCATTCCAAGAGTCATCCATTG 57.480 37.500 0.00 0.00 0.00 2.82
2366 2449 5.183530 TCATTCCAAGAGTCATCCATTGT 57.816 39.130 0.00 0.00 0.00 2.71
2389 2472 7.429633 TGTTTGGAATTTCATACAATCAACGT 58.570 30.769 7.48 0.00 0.00 3.99
2396 2479 5.351233 TTCATACAATCAACGTTGTCCAC 57.649 39.130 26.47 0.00 41.18 4.02
2487 2574 7.499232 CCAGTAACGATCTTTCAAGGGAATTAT 59.501 37.037 0.00 0.00 31.93 1.28
2534 2630 9.557061 CCTTTATAATAGAAGAACACTTACCCC 57.443 37.037 0.00 0.00 0.00 4.95
2550 2646 5.659079 ACTTACCCCATCACTGAAAACAAAA 59.341 36.000 0.00 0.00 0.00 2.44
2593 2690 7.473735 TTTGCATTGATAGGTCAAACCATAA 57.526 32.000 0.00 0.00 46.67 1.90
2595 2692 6.186957 TGCATTGATAGGTCAAACCATAAGT 58.813 36.000 0.00 0.00 46.67 2.24
2596 2693 6.663093 TGCATTGATAGGTCAAACCATAAGTT 59.337 34.615 0.00 0.00 46.67 2.66
2597 2694 7.831690 TGCATTGATAGGTCAAACCATAAGTTA 59.168 33.333 0.00 0.00 46.67 2.24
2598 2695 8.682710 GCATTGATAGGTCAAACCATAAGTTAA 58.317 33.333 0.00 0.00 46.67 2.01
2600 2697 9.975218 ATTGATAGGTCAAACCATAAGTTAACT 57.025 29.630 1.12 1.12 46.67 2.24
2601 2698 9.802039 TTGATAGGTCAAACCATAAGTTAACTT 57.198 29.630 23.58 23.58 41.95 2.66
2606 2762 9.676861 AGGTCAAACCATAAGTTAACTTATACC 57.323 33.333 30.97 29.79 44.77 2.73
2619 2775 7.892241 AGTTAACTTATACCCAGTAGTCAGTCA 59.108 37.037 1.12 0.00 0.00 3.41
2625 2781 2.292257 ACCCAGTAGTCAGTCAGCCATA 60.292 50.000 0.00 0.00 0.00 2.74
2628 2784 4.141620 CCCAGTAGTCAGTCAGCCATATTT 60.142 45.833 0.00 0.00 0.00 1.40
2632 2788 6.372659 CAGTAGTCAGTCAGCCATATTTTTGT 59.627 38.462 0.00 0.00 0.00 2.83
2638 2794 5.182950 CAGTCAGCCATATTTTTGTACCACA 59.817 40.000 0.00 0.00 0.00 4.17
2731 2887 7.185565 TGACAATAAAGTTTGGGGATCCATTA 58.814 34.615 15.23 0.00 43.63 1.90
2742 2898 7.854166 TTGGGGATCCATTATTTCCTTAATG 57.146 36.000 15.23 0.00 43.63 1.90
2743 2899 6.932753 TGGGGATCCATTATTTCCTTAATGT 58.067 36.000 15.23 0.00 37.71 2.71
2744 2900 7.369434 TGGGGATCCATTATTTCCTTAATGTT 58.631 34.615 15.23 0.00 37.71 2.71
2749 2905 9.750125 GATCCATTATTTCCTTAATGTTTGTCC 57.250 33.333 4.14 0.00 37.71 4.02
2769 2925 2.169769 CCCGTATGGACCACATTACTGT 59.830 50.000 1.27 0.00 41.03 3.55
2773 2929 5.914743 CCGTATGGACCACATTACTGTGAAT 60.915 44.000 14.33 2.58 46.56 2.57
2787 2943 5.376854 ACTGTGAATTTGTCCAGTATTGC 57.623 39.130 0.00 0.00 36.54 3.56
2789 2945 5.301551 ACTGTGAATTTGTCCAGTATTGCAA 59.698 36.000 0.00 0.00 36.54 4.08
2805 2961 9.740239 CAGTATTGCAATAATATGAAAGCAGTT 57.260 29.630 20.46 0.00 33.14 3.16
2809 2965 8.633075 TTGCAATAATATGAAAGCAGTTAAGC 57.367 30.769 0.00 0.00 33.14 3.09
2810 2966 7.202526 TGCAATAATATGAAAGCAGTTAAGCC 58.797 34.615 0.00 0.00 34.23 4.35
2812 2968 7.922811 GCAATAATATGAAAGCAGTTAAGCCTT 59.077 33.333 0.00 0.00 34.23 4.35
2813 2969 9.241317 CAATAATATGAAAGCAGTTAAGCCTTG 57.759 33.333 0.00 0.00 34.23 3.61
2814 2970 6.840780 AATATGAAAGCAGTTAAGCCTTGT 57.159 33.333 0.00 0.00 34.23 3.16
2815 2971 6.840780 ATATGAAAGCAGTTAAGCCTTGTT 57.159 33.333 0.00 0.00 34.23 2.83
2828 2984 3.785486 AGCCTTGTTTGTTTGAGCTTTC 58.215 40.909 0.00 0.00 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
565 573 7.337184 CAGATGTCCTAGTGTGAGAACTTAGTA 59.663 40.741 0.00 0.00 0.00 1.82
573 581 4.400567 CACATCAGATGTCCTAGTGTGAGA 59.599 45.833 13.53 0.00 42.70 3.27
624 634 6.855763 AGTCATGATGGCATTTCCTAAAAA 57.144 33.333 0.00 0.00 35.26 1.94
625 635 6.039717 GCTAGTCATGATGGCATTTCCTAAAA 59.960 38.462 0.00 0.00 35.26 1.52
626 636 5.532406 GCTAGTCATGATGGCATTTCCTAAA 59.468 40.000 0.00 0.00 35.26 1.85
627 637 5.065914 GCTAGTCATGATGGCATTTCCTAA 58.934 41.667 0.00 0.00 35.26 2.69
628 638 4.349048 AGCTAGTCATGATGGCATTTCCTA 59.651 41.667 0.00 0.00 35.26 2.94
671 681 7.257722 CGTAGCCTTATTTTGGATGATTTGTT 58.742 34.615 0.00 0.00 0.00 2.83
704 714 5.512942 TCATGAGAATTTACCAAGTCCCA 57.487 39.130 0.00 0.00 0.00 4.37
706 716 6.599244 TCACATCATGAGAATTTACCAAGTCC 59.401 38.462 0.09 0.00 31.91 3.85
772 812 4.398044 GCGAAAGGAGATGTCCCATTTTTA 59.602 41.667 5.02 0.00 45.26 1.52
1032 1084 2.037527 AGAGGTGAGGTCGGGGTC 59.962 66.667 0.00 0.00 0.00 4.46
1924 2003 1.905637 TCCAACGAGACAGCTACAGA 58.094 50.000 0.00 0.00 0.00 3.41
2039 2118 8.248945 GCATCCATTATAAGCAGCAGATTAATT 58.751 33.333 0.00 0.00 0.00 1.40
2086 2165 6.206243 ACAAACATAAGATCAGCTATGATGGC 59.794 38.462 13.44 0.00 46.39 4.40
2087 2166 7.660617 AGACAAACATAAGATCAGCTATGATGG 59.339 37.037 13.44 5.18 46.39 3.51
2088 2167 8.496751 CAGACAAACATAAGATCAGCTATGATG 58.503 37.037 13.44 12.98 46.39 3.07
2093 2176 9.102757 GATTTCAGACAAACATAAGATCAGCTA 57.897 33.333 0.00 0.00 0.00 3.32
2101 2184 9.831737 CTACCTTTGATTTCAGACAAACATAAG 57.168 33.333 0.00 0.00 33.42 1.73
2122 2205 4.368067 TCCTTTATGTTGGGCTACTACCT 58.632 43.478 0.00 0.00 0.00 3.08
2123 2206 4.765813 TCCTTTATGTTGGGCTACTACC 57.234 45.455 0.00 0.00 0.00 3.18
2124 2207 7.042254 CGTTTATCCTTTATGTTGGGCTACTAC 60.042 40.741 0.00 0.00 0.00 2.73
2125 2208 6.987992 CGTTTATCCTTTATGTTGGGCTACTA 59.012 38.462 0.00 0.00 0.00 1.82
2126 2209 5.820947 CGTTTATCCTTTATGTTGGGCTACT 59.179 40.000 0.00 0.00 0.00 2.57
2163 2246 2.806608 AGAAAAATGTGCCTGCTGTG 57.193 45.000 0.00 0.00 0.00 3.66
2168 2251 2.145536 GGCCAAAGAAAAATGTGCCTG 58.854 47.619 0.00 0.00 33.08 4.85
2192 2275 0.609131 ACCATTCCCAACTTGCTCCG 60.609 55.000 0.00 0.00 0.00 4.63
2253 2336 5.637006 ACAAGGCGCAACTAAAATTATCA 57.363 34.783 10.83 0.00 0.00 2.15
2287 2370 6.867816 TGTGGCATCAACTCATTAAATGAAAC 59.132 34.615 0.00 0.00 39.11 2.78
2311 2394 5.452078 TCAAGGAGGCACAGTTAAAATTG 57.548 39.130 0.00 0.00 0.00 2.32
2319 2402 4.922206 TCAAATAATCAAGGAGGCACAGT 58.078 39.130 0.00 0.00 0.00 3.55
2320 2403 6.461110 AATCAAATAATCAAGGAGGCACAG 57.539 37.500 0.00 0.00 0.00 3.66
2364 2447 7.429633 ACGTTGATTGTATGAAATTCCAAACA 58.570 30.769 0.00 0.00 0.00 2.83
2365 2448 7.867445 ACGTTGATTGTATGAAATTCCAAAC 57.133 32.000 0.00 0.00 0.00 2.93
2366 2449 7.923344 ACAACGTTGATTGTATGAAATTCCAAA 59.077 29.630 33.66 0.00 41.04 3.28
2387 2470 2.350498 ACGAAAGACAAAGTGGACAACG 59.650 45.455 0.00 0.00 0.00 4.10
2389 2472 5.875910 TCTTTACGAAAGACAAAGTGGACAA 59.124 36.000 6.10 0.00 42.31 3.18
2396 2479 7.241376 ACACTGTTTCTTTACGAAAGACAAAG 58.759 34.615 8.83 9.46 46.53 2.77
2464 2551 9.110502 AGAATAATTCCCTTGAAAGATCGTTAC 57.889 33.333 0.00 0.00 33.32 2.50
2466 2553 7.611855 ACAGAATAATTCCCTTGAAAGATCGTT 59.388 33.333 0.00 0.00 33.32 3.85
2467 2554 7.112779 ACAGAATAATTCCCTTGAAAGATCGT 58.887 34.615 0.00 0.00 33.32 3.73
2468 2555 7.559590 ACAGAATAATTCCCTTGAAAGATCG 57.440 36.000 0.00 0.00 33.32 3.69
2508 2595 9.557061 GGGGTAAGTGTTCTTCTATTATAAAGG 57.443 37.037 0.00 0.00 35.36 3.11
2527 2623 5.782893 TTTGTTTTCAGTGATGGGGTAAG 57.217 39.130 0.00 0.00 0.00 2.34
2528 2624 5.163395 GGTTTTGTTTTCAGTGATGGGGTAA 60.163 40.000 0.00 0.00 0.00 2.85
2529 2625 4.342665 GGTTTTGTTTTCAGTGATGGGGTA 59.657 41.667 0.00 0.00 0.00 3.69
2531 2627 3.133721 TGGTTTTGTTTTCAGTGATGGGG 59.866 43.478 0.00 0.00 0.00 4.96
2534 2630 6.534436 TCACAATGGTTTTGTTTTCAGTGATG 59.466 34.615 0.00 0.00 0.00 3.07
2550 2646 4.183101 CAAAAGCAGTTTGTCACAATGGT 58.817 39.130 0.00 0.00 41.55 3.55
2593 2690 7.892241 TGACTGACTACTGGGTATAAGTTAACT 59.108 37.037 1.12 1.12 0.00 2.24
2595 2692 7.147949 GCTGACTGACTACTGGGTATAAGTTAA 60.148 40.741 0.00 0.00 0.00 2.01
2596 2693 6.320672 GCTGACTGACTACTGGGTATAAGTTA 59.679 42.308 0.00 0.00 0.00 2.24
2597 2694 5.127356 GCTGACTGACTACTGGGTATAAGTT 59.873 44.000 0.00 0.00 0.00 2.66
2598 2695 4.645588 GCTGACTGACTACTGGGTATAAGT 59.354 45.833 0.00 0.00 0.00 2.24
2599 2696 4.038162 GGCTGACTGACTACTGGGTATAAG 59.962 50.000 0.00 0.00 0.00 1.73
2600 2697 3.958798 GGCTGACTGACTACTGGGTATAA 59.041 47.826 0.00 0.00 0.00 0.98
2601 2698 3.053170 TGGCTGACTGACTACTGGGTATA 60.053 47.826 0.00 0.00 0.00 1.47
2602 2699 2.292257 TGGCTGACTGACTACTGGGTAT 60.292 50.000 0.00 0.00 0.00 2.73
2606 2762 4.679373 AATATGGCTGACTGACTACTGG 57.321 45.455 0.00 0.00 0.00 4.00
2619 2775 5.951747 ACAGATGTGGTACAAAAATATGGCT 59.048 36.000 0.00 0.00 44.16 4.75
2666 2822 2.289945 GCATAAGGATAGCACCAGGAGG 60.290 54.545 0.00 0.00 42.21 4.30
2721 2877 8.704668 ACAAACATTAAGGAAATAATGGATCCC 58.295 33.333 9.90 0.00 44.11 3.85
2731 2887 6.096282 CCATACGGGACAAACATTAAGGAAAT 59.904 38.462 0.00 0.00 40.01 2.17
2749 2905 3.118920 TCACAGTAATGTGGTCCATACGG 60.119 47.826 22.02 0.00 40.03 4.02
2758 2914 5.241506 ACTGGACAAATTCACAGTAATGTGG 59.758 40.000 22.02 8.94 41.95 4.17
2765 2921 4.826733 TGCAATACTGGACAAATTCACAGT 59.173 37.500 0.00 0.00 45.32 3.55
2787 2943 9.241317 CAAGGCTTAACTGCTTTCATATTATTG 57.759 33.333 0.00 0.00 29.69 1.90
2789 2945 8.525290 ACAAGGCTTAACTGCTTTCATATTAT 57.475 30.769 0.00 0.00 29.69 1.28
2797 2953 4.736126 ACAAACAAGGCTTAACTGCTTT 57.264 36.364 0.00 0.00 32.39 3.51
2805 2961 5.337578 AAAGCTCAAACAAACAAGGCTTA 57.662 34.783 0.00 0.00 37.53 3.09
2806 2962 3.893326 AAGCTCAAACAAACAAGGCTT 57.107 38.095 0.00 0.00 34.36 4.35
2807 2963 3.734902 CGAAAGCTCAAACAAACAAGGCT 60.735 43.478 0.00 0.00 0.00 4.58
2808 2964 2.535574 CGAAAGCTCAAACAAACAAGGC 59.464 45.455 0.00 0.00 0.00 4.35
2809 2965 3.115554 CCGAAAGCTCAAACAAACAAGG 58.884 45.455 0.00 0.00 0.00 3.61
2810 2966 3.769536 ACCGAAAGCTCAAACAAACAAG 58.230 40.909 0.00 0.00 0.00 3.16
2812 2968 5.334569 GCTATACCGAAAGCTCAAACAAACA 60.335 40.000 0.00 0.00 35.80 2.83
2813 2969 5.086727 GCTATACCGAAAGCTCAAACAAAC 58.913 41.667 0.00 0.00 35.80 2.93
2814 2970 5.001232 AGCTATACCGAAAGCTCAAACAAA 58.999 37.500 0.00 0.00 45.92 2.83
2815 2971 4.575885 AGCTATACCGAAAGCTCAAACAA 58.424 39.130 0.00 0.00 45.92 2.83


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

AutoCloner maintained by Alex Coulton.