Multiple sequence alignment - TraesCS2B01G081900

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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 TraesCS2B01G081900 chr2B 100.000 4784 0 0 1 4784 45671582 45676365 0.000000e+00 8835
1 TraesCS2B01G081900 chr2B 95.735 4127 122 22 692 4784 44746220 44742114 0.000000e+00 6597
2 TraesCS2B01G081900 chr2B 87.392 4069 415 48 726 4724 45549742 45553782 0.000000e+00 4582
3 TraesCS2B01G081900 chr2B 83.929 784 111 8 3516 4287 44433208 44432428 0.000000e+00 736
4 TraesCS2B01G081900 chr2B 90.132 456 17 7 53 503 44746897 44746465 6.950000e-158 568
5 TraesCS2B01G081900 chr2B 87.543 289 22 6 1 282 45033983 45033702 5.970000e-84 322
6 TraesCS2B01G081900 chr2B 86.017 236 21 2 57 292 45549294 45549517 4.780000e-60 243
7 TraesCS2B01G081900 chr2D 89.975 3940 337 32 873 4784 27995590 27991681 0.000000e+00 5035
8 TraesCS2B01G081900 chr2D 90.116 3531 297 30 797 4295 27953500 27949990 0.000000e+00 4540
9 TraesCS2B01G081900 chr2D 86.232 3450 435 23 988 4412 27982195 27978761 0.000000e+00 3703
10 TraesCS2B01G081900 chr2D 86.772 3092 356 29 798 3862 27935681 27932616 0.000000e+00 3395
11 TraesCS2B01G081900 chr2D 86.476 1856 206 31 2693 4523 27965863 27964028 0.000000e+00 1995
12 TraesCS2B01G081900 chr2D 91.843 662 33 3 1 658 27996451 27995807 0.000000e+00 904
13 TraesCS2B01G081900 chr2D 94.348 230 13 0 4374 4603 27949987 27949758 2.120000e-93 353
14 TraesCS2B01G081900 chr2D 84.814 349 30 9 1 329 27968236 27967891 3.570000e-86 329
15 TraesCS2B01G081900 chr2D 88.182 110 13 0 4616 4725 27949661 27949552 1.080000e-26 132
16 TraesCS2B01G081900 chr2A 88.105 3716 369 32 797 4480 30179256 30175582 0.000000e+00 4346
17 TraesCS2B01G081900 chr2A 84.910 3658 500 34 949 4576 30170863 30167228 0.000000e+00 3650
18 TraesCS2B01G081900 chr2A 88.612 2204 238 6 1397 3589 30157759 30155558 0.000000e+00 2667
19 TraesCS2B01G081900 chr2A 84.053 301 34 9 4493 4784 30175247 30174952 1.310000e-70 278


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 TraesCS2B01G081900 chr2B 45671582 45676365 4783 False 8835.0 8835 100.0000 1 4784 1 chr2B.!!$F1 4783
1 TraesCS2B01G081900 chr2B 44742114 44746897 4783 True 3582.5 6597 92.9335 53 4784 2 chr2B.!!$R3 4731
2 TraesCS2B01G081900 chr2B 45549294 45553782 4488 False 2412.5 4582 86.7045 57 4724 2 chr2B.!!$F2 4667
3 TraesCS2B01G081900 chr2B 44432428 44433208 780 True 736.0 736 83.9290 3516 4287 1 chr2B.!!$R1 771
4 TraesCS2B01G081900 chr2D 27978761 27982195 3434 True 3703.0 3703 86.2320 988 4412 1 chr2D.!!$R2 3424
5 TraesCS2B01G081900 chr2D 27932616 27935681 3065 True 3395.0 3395 86.7720 798 3862 1 chr2D.!!$R1 3064
6 TraesCS2B01G081900 chr2D 27991681 27996451 4770 True 2969.5 5035 90.9090 1 4784 2 chr2D.!!$R5 4783
7 TraesCS2B01G081900 chr2D 27949552 27953500 3948 True 1675.0 4540 90.8820 797 4725 3 chr2D.!!$R3 3928
8 TraesCS2B01G081900 chr2D 27964028 27968236 4208 True 1162.0 1995 85.6450 1 4523 2 chr2D.!!$R4 4522
9 TraesCS2B01G081900 chr2A 30167228 30170863 3635 True 3650.0 3650 84.9100 949 4576 1 chr2A.!!$R2 3627
10 TraesCS2B01G081900 chr2A 30155558 30157759 2201 True 2667.0 2667 88.6120 1397 3589 1 chr2A.!!$R1 2192
11 TraesCS2B01G081900 chr2A 30174952 30179256 4304 True 2312.0 4346 86.0790 797 4784 2 chr2A.!!$R3 3987

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
683 773 0.248843 TCTGAGCACACACACACACA 59.751 50.000 0.0 0.0 0.00 3.72 F
684 774 0.374758 CTGAGCACACACACACACAC 59.625 55.000 0.0 0.0 0.00 3.82 F
688 778 0.454285 GCACACACACACACACACAC 60.454 55.000 0.0 0.0 0.00 3.82 F
689 779 0.871057 CACACACACACACACACACA 59.129 50.000 0.0 0.0 0.00 3.72 F
690 780 1.468127 CACACACACACACACACACAT 59.532 47.619 0.0 0.0 0.00 3.21 F
1395 1866 1.544691 TCTGGAAGCGTACCTGAAGAC 59.455 52.381 0.0 0.0 33.64 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2101 2572 1.366319 GATCCTAGGGATGGCACCAT 58.634 55.000 9.46 0.66 43.27 3.55 R
2467 2938 3.125829 CCAACTGTTGATGGAATCTGACG 59.874 47.826 21.49 0.00 45.81 4.35 R
2737 3208 7.986889 GCCACCAGATAATTTGTTATTGGAAAT 59.013 33.333 12.24 0.00 0.00 2.17 R
3288 3774 5.361571 TGTATGACTTGAGCTTATCCGGTTA 59.638 40.000 0.00 0.00 0.00 2.85 R
3412 3898 4.412207 GTGTTTTTCAGAACTTCGCACTT 58.588 39.130 0.00 0.00 0.00 3.16 R
4044 4542 0.535335 TCGACATACTTGTGGAGGCC 59.465 55.000 0.00 0.00 35.90 5.19 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
31 32 1.825191 CAATGCCTGCCTGCCGTAT 60.825 57.895 0.00 0.00 0.00 3.06
34 35 2.661866 GCCTGCCTGCCGTATACG 60.662 66.667 18.40 18.40 39.44 3.06
137 146 7.172361 GCCATCTCTTTTGAATCTATCTGGTAC 59.828 40.741 0.00 0.00 0.00 3.34
158 184 0.596600 TCGTGTGGAGCAAGTTCGAC 60.597 55.000 0.00 0.00 0.00 4.20
183 209 3.117131 TGTGGATAGCTGGATCCTGACTA 60.117 47.826 21.91 19.69 45.07 2.59
447 536 8.737168 TTTTCTACTATTCATCCCAGTCAATG 57.263 34.615 0.00 0.00 0.00 2.82
497 586 4.466370 TGCAGAAGCTGTAGGTTGTATAGT 59.534 41.667 0.45 0.00 42.74 2.12
509 598 9.636789 TGTAGGTTGTATAGTAAGCAGAGAATA 57.363 33.333 0.00 0.00 0.00 1.75
549 638 4.044426 GACTGGTTCAAGCACACATTTTC 58.956 43.478 0.00 0.00 0.00 2.29
562 652 6.032094 GCACACATTTTCTTCATCCACATAG 58.968 40.000 0.00 0.00 0.00 2.23
581 671 5.308237 ACATAGACCTCTCACAAGTTCCTTT 59.692 40.000 0.00 0.00 0.00 3.11
658 748 5.952347 TTCAACTCCCCTATTCCTCTAAC 57.048 43.478 0.00 0.00 0.00 2.34
660 750 5.538877 TCAACTCCCCTATTCCTCTAACAT 58.461 41.667 0.00 0.00 0.00 2.71
661 751 6.689561 TCAACTCCCCTATTCCTCTAACATA 58.310 40.000 0.00 0.00 0.00 2.29
662 752 7.313731 TCAACTCCCCTATTCCTCTAACATAT 58.686 38.462 0.00 0.00 0.00 1.78
663 753 8.461854 TCAACTCCCCTATTCCTCTAACATATA 58.538 37.037 0.00 0.00 0.00 0.86
664 754 9.273137 CAACTCCCCTATTCCTCTAACATATAT 57.727 37.037 0.00 0.00 0.00 0.86
667 757 9.142014 CTCCCCTATTCCTCTAACATATATCTG 57.858 40.741 0.00 0.00 0.00 2.90
668 758 8.856974 TCCCCTATTCCTCTAACATATATCTGA 58.143 37.037 0.00 0.00 0.00 3.27
669 759 9.142014 CCCCTATTCCTCTAACATATATCTGAG 57.858 40.741 0.00 0.00 0.00 3.35
670 760 8.637986 CCCTATTCCTCTAACATATATCTGAGC 58.362 40.741 0.00 0.00 0.00 4.26
671 761 9.194972 CCTATTCCTCTAACATATATCTGAGCA 57.805 37.037 0.00 0.00 0.00 4.26
675 765 6.777580 TCCTCTAACATATATCTGAGCACACA 59.222 38.462 0.00 0.00 0.00 3.72
676 766 6.865726 CCTCTAACATATATCTGAGCACACAC 59.134 42.308 0.00 0.00 0.00 3.82
677 767 7.346751 TCTAACATATATCTGAGCACACACA 57.653 36.000 0.00 0.00 0.00 3.72
678 768 7.203218 TCTAACATATATCTGAGCACACACAC 58.797 38.462 0.00 0.00 0.00 3.82
679 769 5.343307 ACATATATCTGAGCACACACACA 57.657 39.130 0.00 0.00 0.00 3.72
680 770 5.111989 ACATATATCTGAGCACACACACAC 58.888 41.667 0.00 0.00 0.00 3.82
681 771 3.683365 ATATCTGAGCACACACACACA 57.317 42.857 0.00 0.00 0.00 3.72
683 773 0.248843 TCTGAGCACACACACACACA 59.751 50.000 0.00 0.00 0.00 3.72
684 774 0.374758 CTGAGCACACACACACACAC 59.625 55.000 0.00 0.00 0.00 3.82
687 777 0.605050 AGCACACACACACACACACA 60.605 50.000 0.00 0.00 0.00 3.72
688 778 0.454285 GCACACACACACACACACAC 60.454 55.000 0.00 0.00 0.00 3.82
689 779 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
690 780 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
691 781 2.675348 CACACACACACACACACACATA 59.325 45.455 0.00 0.00 0.00 2.29
694 784 2.675844 ACACACACACACACACATACAC 59.324 45.455 0.00 0.00 0.00 2.90
695 785 2.675348 CACACACACACACACATACACA 59.325 45.455 0.00 0.00 0.00 3.72
696 786 2.675844 ACACACACACACACATACACAC 59.324 45.455 0.00 0.00 0.00 3.82
697 787 2.675348 CACACACACACACATACACACA 59.325 45.455 0.00 0.00 0.00 3.72
698 788 2.675844 ACACACACACACATACACACAC 59.324 45.455 0.00 0.00 0.00 3.82
699 789 2.675348 CACACACACACATACACACACA 59.325 45.455 0.00 0.00 0.00 3.72
701 791 2.675348 CACACACACATACACACACACA 59.325 45.455 0.00 0.00 0.00 3.72
702 792 3.126000 CACACACACATACACACACACAA 59.874 43.478 0.00 0.00 0.00 3.33
703 793 3.944650 ACACACACATACACACACACAAT 59.055 39.130 0.00 0.00 0.00 2.71
704 794 5.007136 CACACACACATACACACACACAATA 59.993 40.000 0.00 0.00 0.00 1.90
705 795 5.762711 ACACACACATACACACACACAATAT 59.237 36.000 0.00 0.00 0.00 1.28
706 796 6.262049 ACACACACATACACACACACAATATT 59.738 34.615 0.00 0.00 0.00 1.28
707 797 7.138081 CACACACATACACACACACAATATTT 58.862 34.615 0.00 0.00 0.00 1.40
710 800 9.112789 CACACATACACACACACAATATTTAAC 57.887 33.333 0.00 0.00 0.00 2.01
711 801 8.841300 ACACATACACACACACAATATTTAACA 58.159 29.630 0.00 0.00 0.00 2.41
712 802 9.670719 CACATACACACACACAATATTTAACAA 57.329 29.630 0.00 0.00 0.00 2.83
716 806 8.401046 ACACACACACAATATTTAACAAACAC 57.599 30.769 0.00 0.00 0.00 3.32
717 807 8.029522 ACACACACACAATATTTAACAAACACA 58.970 29.630 0.00 0.00 0.00 3.72
718 808 8.317460 CACACACACAATATTTAACAAACACAC 58.683 33.333 0.00 0.00 0.00 3.82
719 809 8.247562 ACACACACAATATTTAACAAACACACT 58.752 29.630 0.00 0.00 0.00 3.55
720 810 8.742188 CACACACAATATTTAACAAACACACTC 58.258 33.333 0.00 0.00 0.00 3.51
721 811 7.918562 ACACACAATATTTAACAAACACACTCC 59.081 33.333 0.00 0.00 0.00 3.85
722 812 7.112844 CACACAATATTTAACAAACACACTCCG 59.887 37.037 0.00 0.00 0.00 4.63
724 814 7.646130 CACAATATTTAACAAACACACTCCGTT 59.354 33.333 0.00 0.00 0.00 4.44
725 815 8.838365 ACAATATTTAACAAACACACTCCGTTA 58.162 29.630 0.00 0.00 0.00 3.18
726 816 9.325150 CAATATTTAACAAACACACTCCGTTAG 57.675 33.333 0.00 0.00 0.00 2.34
727 817 8.836268 ATATTTAACAAACACACTCCGTTAGA 57.164 30.769 0.00 0.00 0.00 2.10
728 818 6.981762 TTTAACAAACACACTCCGTTAGAA 57.018 33.333 0.00 0.00 0.00 2.10
729 819 6.592798 TTAACAAACACACTCCGTTAGAAG 57.407 37.500 0.00 0.00 0.00 2.85
730 820 2.870411 ACAAACACACTCCGTTAGAAGC 59.130 45.455 0.00 0.00 0.00 3.86
732 822 2.440539 ACACACTCCGTTAGAAGCTG 57.559 50.000 0.00 0.00 0.00 4.24
733 823 1.687123 ACACACTCCGTTAGAAGCTGT 59.313 47.619 0.00 0.00 0.00 4.40
734 824 2.889045 ACACACTCCGTTAGAAGCTGTA 59.111 45.455 0.00 0.00 0.00 2.74
735 825 3.057456 ACACACTCCGTTAGAAGCTGTAG 60.057 47.826 0.00 0.00 0.00 2.74
736 826 2.492484 ACACTCCGTTAGAAGCTGTAGG 59.508 50.000 0.00 0.00 0.00 3.18
737 827 2.492484 CACTCCGTTAGAAGCTGTAGGT 59.508 50.000 0.00 0.00 0.00 3.08
738 828 3.056749 CACTCCGTTAGAAGCTGTAGGTT 60.057 47.826 0.00 0.00 38.61 3.50
739 829 3.056749 ACTCCGTTAGAAGCTGTAGGTTG 60.057 47.826 0.45 0.00 35.69 3.77
740 830 2.895404 TCCGTTAGAAGCTGTAGGTTGT 59.105 45.455 0.45 0.00 35.69 3.32
742 832 4.708421 TCCGTTAGAAGCTGTAGGTTGTAT 59.292 41.667 0.45 0.00 35.69 2.29
744 834 6.039047 TCCGTTAGAAGCTGTAGGTTGTATAG 59.961 42.308 0.45 0.12 35.69 1.31
745 835 5.686397 CGTTAGAAGCTGTAGGTTGTATAGC 59.314 44.000 0.45 0.00 35.69 2.97
746 836 6.570692 GTTAGAAGCTGTAGGTTGTATAGCA 58.429 40.000 0.45 0.00 36.87 3.49
747 837 5.677319 AGAAGCTGTAGGTTGTATAGCAA 57.323 39.130 0.45 0.00 36.87 3.91
748 838 5.665459 AGAAGCTGTAGGTTGTATAGCAAG 58.335 41.667 0.45 0.00 37.83 4.01
768 876 7.560368 AGCAAGCAGAGAATAGTATTTGTACT 58.440 34.615 0.00 0.00 0.00 2.73
770 878 8.331742 GCAAGCAGAGAATAGTATTTGTACTTC 58.668 37.037 0.00 0.00 0.00 3.01
771 879 9.593134 CAAGCAGAGAATAGTATTTGTACTTCT 57.407 33.333 0.00 0.00 0.00 2.85
811 938 4.094442 ACACGTTTTCTCACAAGTTCCTTC 59.906 41.667 0.00 0.00 0.00 3.46
872 1324 4.004196 ACTACCAAGCTAACCAAGACAC 57.996 45.455 0.00 0.00 0.00 3.67
912 1368 4.368565 AAGTTTCAACTTCCCTACCCTC 57.631 45.455 0.00 0.00 45.65 4.30
948 1413 2.252127 AAGCACACACGCACACACAC 62.252 55.000 0.00 0.00 0.00 3.82
949 1414 3.033166 GCACACACGCACACACACA 62.033 57.895 0.00 0.00 0.00 3.72
1003 1468 6.351711 CCATTAGGACAAGAAGAGAGACATGT 60.352 42.308 0.00 0.00 36.89 3.21
1320 1791 2.898705 CTCACAGGAACACTATCCAGC 58.101 52.381 0.00 0.00 42.27 4.85
1395 1866 1.544691 TCTGGAAGCGTACCTGAAGAC 59.455 52.381 0.00 0.00 33.64 3.01
1553 2024 6.731467 TCCCTGATTCCTTAGCAAATAGTTT 58.269 36.000 0.00 0.00 0.00 2.66
2101 2572 3.435590 GCAACTTGCTGACTGGCA 58.564 55.556 6.50 0.00 40.96 4.92
2467 2938 6.575162 AACTTTCCATGAATAGGTTGTCAC 57.425 37.500 0.00 0.00 0.00 3.67
2737 3208 6.466326 CCTGATCAATCTTGGCCTCCTAAATA 60.466 42.308 3.32 0.00 0.00 1.40
3148 3634 8.562052 TGCTGATAATAACTGCATTGATTACTG 58.438 33.333 0.00 0.00 37.31 2.74
3412 3898 4.330944 TCGAGAACTAGCTTTTTCACCA 57.669 40.909 0.00 0.00 0.00 4.17
3785 4278 1.377536 GCAGACCAGAAGGCTTGATC 58.622 55.000 3.46 0.00 39.06 2.92
3908 4406 8.439993 TTGTTAGTTTCACAAGTACTTATGCA 57.560 30.769 9.09 0.00 30.49 3.96
3958 4456 1.338200 GGGATGCAAAGTCTCGACAGT 60.338 52.381 0.00 0.00 0.00 3.55
4008 4506 4.147449 TGGAGATGCTCACGGCGG 62.147 66.667 13.24 0.00 45.43 6.13
4022 4520 4.849329 GCGGTGCGACCTACGGAG 62.849 72.222 0.00 0.00 43.91 4.63
4044 4542 3.434319 AATGCAGCAACGCCCTCG 61.434 61.111 0.00 0.00 42.43 4.63
4066 4564 2.159099 GCCTCCACAAGTATGTCGATCA 60.159 50.000 0.00 0.00 37.82 2.92
4112 4610 4.968080 GAGATTCTAGATCCCCATATGCCT 59.032 45.833 0.00 0.00 0.00 4.75
4315 4822 2.158623 TGGGTTGAGCAGTGAGATGTTT 60.159 45.455 0.00 0.00 0.00 2.83
4318 4825 4.518970 GGGTTGAGCAGTGAGATGTTTAAA 59.481 41.667 0.00 0.00 0.00 1.52
4595 5493 6.687081 AAACAACGAAGGTGTGATTTTCTA 57.313 33.333 0.00 0.00 0.00 2.10
4638 5620 6.758886 TGTTTTGAATAAGTGTTGCCGATTTT 59.241 30.769 0.00 0.00 0.00 1.82
4705 5687 8.912988 ACTCAACTTTCAAACCAGATAATTTGA 58.087 29.630 0.00 0.00 41.80 2.69
4731 5714 0.109723 ACCAGGCTCAAAGCGGTTTA 59.890 50.000 12.94 1.07 43.62 2.01
4733 5716 1.068541 CCAGGCTCAAAGCGGTTTAAC 60.069 52.381 12.94 5.04 43.62 2.01
4739 5722 0.110554 CAAAGCGGTTTAACGGACGG 60.111 55.000 12.94 0.00 0.00 4.79
4741 5724 2.992607 AAGCGGTTTAACGGACGGCA 62.993 55.000 6.84 0.00 43.33 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 2.175499 ACTAGGTGCCAGGTATACCGTA 59.825 50.000 16.31 0.00 42.08 4.02
34 35 3.569491 TGTACTAGGTGCCAGGTATACC 58.431 50.000 14.54 14.54 34.68 2.73
43 47 4.576463 CCTGATTGAATTGTACTAGGTGCC 59.424 45.833 0.00 0.00 0.00 5.01
44 48 5.186198 ACCTGATTGAATTGTACTAGGTGC 58.814 41.667 0.00 0.00 36.06 5.01
137 146 0.508641 CGAACTTGCTCCACACGAAG 59.491 55.000 0.00 0.00 0.00 3.79
158 184 1.898472 AGGATCCAGCTATCCACATCG 59.102 52.381 15.82 0.00 46.81 3.84
340 368 2.254546 TACAGTTGGCTCTGTGGTTG 57.745 50.000 20.04 0.00 46.36 3.77
549 638 4.403752 TGTGAGAGGTCTATGTGGATGAAG 59.596 45.833 0.00 0.00 0.00 3.02
581 671 1.682854 CTGAAAAAGGCCTGAGCACAA 59.317 47.619 5.69 0.00 42.56 3.33
658 748 5.006068 GTGTGTGTGTGTGCTCAGATATATG 59.994 44.000 0.00 0.00 0.00 1.78
660 750 4.021544 TGTGTGTGTGTGTGCTCAGATATA 60.022 41.667 0.00 0.00 0.00 0.86
661 751 3.244181 TGTGTGTGTGTGTGCTCAGATAT 60.244 43.478 0.00 0.00 0.00 1.63
662 752 2.102252 TGTGTGTGTGTGTGCTCAGATA 59.898 45.455 0.00 0.00 0.00 1.98
663 753 1.134431 TGTGTGTGTGTGTGCTCAGAT 60.134 47.619 0.00 0.00 0.00 2.90
664 754 0.248843 TGTGTGTGTGTGTGCTCAGA 59.751 50.000 0.00 0.00 0.00 3.27
667 757 0.096976 GTGTGTGTGTGTGTGTGCTC 59.903 55.000 0.00 0.00 0.00 4.26
668 758 0.605050 TGTGTGTGTGTGTGTGTGCT 60.605 50.000 0.00 0.00 0.00 4.40
669 759 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
670 760 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
671 761 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
672 762 2.675348 TGTATGTGTGTGTGTGTGTGTG 59.325 45.455 0.00 0.00 0.00 3.82
675 765 2.675844 GTGTGTATGTGTGTGTGTGTGT 59.324 45.455 0.00 0.00 0.00 3.72
676 766 2.675348 TGTGTGTATGTGTGTGTGTGTG 59.325 45.455 0.00 0.00 0.00 3.82
677 767 2.675844 GTGTGTGTATGTGTGTGTGTGT 59.324 45.455 0.00 0.00 0.00 3.72
678 768 2.675348 TGTGTGTGTATGTGTGTGTGTG 59.325 45.455 0.00 0.00 0.00 3.82
679 769 2.675844 GTGTGTGTGTATGTGTGTGTGT 59.324 45.455 0.00 0.00 0.00 3.72
680 770 2.675348 TGTGTGTGTGTATGTGTGTGTG 59.325 45.455 0.00 0.00 0.00 3.82
681 771 2.979240 TGTGTGTGTGTATGTGTGTGT 58.021 42.857 0.00 0.00 0.00 3.72
683 773 6.875948 AATATTGTGTGTGTGTATGTGTGT 57.124 33.333 0.00 0.00 0.00 3.72
684 774 9.112789 GTTAAATATTGTGTGTGTGTATGTGTG 57.887 33.333 0.00 0.00 0.00 3.82
690 780 9.504710 GTGTTTGTTAAATATTGTGTGTGTGTA 57.495 29.630 0.00 0.00 0.00 2.90
691 781 8.029522 TGTGTTTGTTAAATATTGTGTGTGTGT 58.970 29.630 0.00 0.00 0.00 3.72
694 784 8.627487 AGTGTGTTTGTTAAATATTGTGTGTG 57.373 30.769 0.00 0.00 0.00 3.82
695 785 7.918562 GGAGTGTGTTTGTTAAATATTGTGTGT 59.081 33.333 0.00 0.00 0.00 3.72
696 786 7.112844 CGGAGTGTGTTTGTTAAATATTGTGTG 59.887 37.037 0.00 0.00 0.00 3.82
697 787 7.136119 CGGAGTGTGTTTGTTAAATATTGTGT 58.864 34.615 0.00 0.00 0.00 3.72
698 788 7.136119 ACGGAGTGTGTTTGTTAAATATTGTG 58.864 34.615 0.00 0.00 42.51 3.33
699 789 7.266922 ACGGAGTGTGTTTGTTAAATATTGT 57.733 32.000 0.00 0.00 42.51 2.71
701 791 9.275398 TCTAACGGAGTGTGTTTGTTAAATATT 57.725 29.630 0.00 0.00 45.00 1.28
702 792 8.836268 TCTAACGGAGTGTGTTTGTTAAATAT 57.164 30.769 0.00 0.00 45.00 1.28
703 793 8.659925 TTCTAACGGAGTGTGTTTGTTAAATA 57.340 30.769 0.00 0.00 45.00 1.40
704 794 7.556733 TTCTAACGGAGTGTGTTTGTTAAAT 57.443 32.000 0.00 0.00 45.00 1.40
705 795 6.457257 GCTTCTAACGGAGTGTGTTTGTTAAA 60.457 38.462 0.00 0.00 45.00 1.52
706 796 5.006941 GCTTCTAACGGAGTGTGTTTGTTAA 59.993 40.000 0.00 0.00 45.00 2.01
707 797 4.508861 GCTTCTAACGGAGTGTGTTTGTTA 59.491 41.667 0.00 0.00 45.00 2.41
710 800 3.059597 CAGCTTCTAACGGAGTGTGTTTG 60.060 47.826 0.00 0.00 45.00 2.93
711 801 3.131396 CAGCTTCTAACGGAGTGTGTTT 58.869 45.455 0.00 0.00 45.00 2.83
712 802 2.102588 ACAGCTTCTAACGGAGTGTGTT 59.897 45.455 0.00 0.00 45.00 3.32
713 803 1.687123 ACAGCTTCTAACGGAGTGTGT 59.313 47.619 0.00 0.00 45.00 3.72
714 804 2.440539 ACAGCTTCTAACGGAGTGTG 57.559 50.000 0.00 0.00 45.00 3.82
715 805 2.492484 CCTACAGCTTCTAACGGAGTGT 59.508 50.000 0.00 0.00 45.00 3.55
716 806 2.492484 ACCTACAGCTTCTAACGGAGTG 59.508 50.000 0.00 0.00 45.00 3.51
718 808 3.056749 ACAACCTACAGCTTCTAACGGAG 60.057 47.826 0.00 0.00 0.00 4.63
719 809 2.895404 ACAACCTACAGCTTCTAACGGA 59.105 45.455 0.00 0.00 0.00 4.69
720 810 3.314541 ACAACCTACAGCTTCTAACGG 57.685 47.619 0.00 0.00 0.00 4.44
721 811 5.686397 GCTATACAACCTACAGCTTCTAACG 59.314 44.000 0.00 0.00 0.00 3.18
722 812 6.570692 TGCTATACAACCTACAGCTTCTAAC 58.429 40.000 0.00 0.00 33.38 2.34
724 814 6.683110 GCTTGCTATACAACCTACAGCTTCTA 60.683 42.308 0.00 0.00 33.68 2.10
725 815 5.665459 CTTGCTATACAACCTACAGCTTCT 58.335 41.667 0.00 0.00 33.68 2.85
726 816 4.271291 GCTTGCTATACAACCTACAGCTTC 59.729 45.833 0.00 0.00 33.68 3.86
727 817 4.192317 GCTTGCTATACAACCTACAGCTT 58.808 43.478 0.00 0.00 33.68 3.74
728 818 3.197766 TGCTTGCTATACAACCTACAGCT 59.802 43.478 0.00 0.00 33.68 4.24
729 819 3.531538 TGCTTGCTATACAACCTACAGC 58.468 45.455 0.00 0.00 33.68 4.40
730 820 5.011090 TCTGCTTGCTATACAACCTACAG 57.989 43.478 0.00 0.00 33.68 2.74
732 822 5.263968 TCTCTGCTTGCTATACAACCTAC 57.736 43.478 0.00 0.00 33.68 3.18
733 823 5.932619 TTCTCTGCTTGCTATACAACCTA 57.067 39.130 0.00 0.00 33.68 3.08
734 824 4.826274 TTCTCTGCTTGCTATACAACCT 57.174 40.909 0.00 0.00 33.68 3.50
735 825 6.284459 ACTATTCTCTGCTTGCTATACAACC 58.716 40.000 0.00 0.00 33.68 3.77
736 826 9.482627 AATACTATTCTCTGCTTGCTATACAAC 57.517 33.333 0.00 0.00 33.68 3.32
738 828 9.481340 CAAATACTATTCTCTGCTTGCTATACA 57.519 33.333 0.00 0.00 0.00 2.29
739 829 9.482627 ACAAATACTATTCTCTGCTTGCTATAC 57.517 33.333 0.00 0.00 0.00 1.47
742 832 8.696374 AGTACAAATACTATTCTCTGCTTGCTA 58.304 33.333 0.00 0.00 40.02 3.49
744 834 7.778470 AGTACAAATACTATTCTCTGCTTGC 57.222 36.000 0.00 0.00 40.02 4.01
745 835 9.593134 AGAAGTACAAATACTATTCTCTGCTTG 57.407 33.333 0.00 0.00 41.00 4.01
766 874 7.042335 GTGTGCATAAACCAGTCTATAGAAGT 58.958 38.462 3.40 0.00 0.00 3.01
768 876 6.040247 CGTGTGCATAAACCAGTCTATAGAA 58.960 40.000 3.40 0.00 0.00 2.10
770 878 5.348986 ACGTGTGCATAAACCAGTCTATAG 58.651 41.667 0.00 0.00 0.00 1.31
771 879 5.333299 ACGTGTGCATAAACCAGTCTATA 57.667 39.130 0.00 0.00 0.00 1.31
775 883 3.619233 AAACGTGTGCATAAACCAGTC 57.381 42.857 0.00 0.00 0.00 3.51
776 884 3.630312 AGAAAACGTGTGCATAAACCAGT 59.370 39.130 0.00 0.00 0.00 4.00
872 1324 6.952935 AACTTCTATACTTTGACTTGAGCG 57.047 37.500 0.00 0.00 0.00 5.03
902 1358 0.490017 TGTGGAAGTGAGGGTAGGGA 59.510 55.000 0.00 0.00 0.00 4.20
912 1368 6.986231 TGTGTGCTTAGATATATGTGGAAGTG 59.014 38.462 0.00 0.00 0.00 3.16
949 1414 9.973450 TGTGCTTATTAAAATATTTGTGTGTGT 57.027 25.926 0.39 0.00 0.00 3.72
1003 1468 1.542547 GGTGCGGAAAACTTGAGGAGA 60.543 52.381 0.00 0.00 0.00 3.71
1296 1767 2.497675 GGATAGTGTTCCTGTGAGCTGA 59.502 50.000 0.00 0.00 32.68 4.26
1320 1791 2.234908 AGAAGTAAGGGCAGCTGTACAG 59.765 50.000 18.93 18.93 0.00 2.74
1395 1866 3.280920 GCTCCGAAGCTCACCTATG 57.719 57.895 0.00 0.00 45.55 2.23
1553 2024 5.514169 AGAGGATTATCTCACTGAGTGACA 58.486 41.667 11.93 1.29 37.67 3.58
1614 2085 5.069516 AGCAACAAGTTTGGATGAGTTGAAT 59.930 36.000 0.00 0.00 38.80 2.57
2101 2572 1.366319 GATCCTAGGGATGGCACCAT 58.634 55.000 9.46 0.66 43.27 3.55
2467 2938 3.125829 CCAACTGTTGATGGAATCTGACG 59.874 47.826 21.49 0.00 45.81 4.35
2737 3208 7.986889 GCCACCAGATAATTTGTTATTGGAAAT 59.013 33.333 12.24 0.00 0.00 2.17
3283 3769 5.658468 ACTTGAGCTTATCCGGTTAACTAC 58.342 41.667 0.00 0.00 0.00 2.73
3288 3774 5.361571 TGTATGACTTGAGCTTATCCGGTTA 59.638 40.000 0.00 0.00 0.00 2.85
3412 3898 4.412207 GTGTTTTTCAGAACTTCGCACTT 58.588 39.130 0.00 0.00 0.00 3.16
3785 4278 1.470979 CCGATTGTTCCTCCTACACCG 60.471 57.143 0.00 0.00 0.00 4.94
3908 4406 6.128282 CGTATTCTGTAAAACAGGAGCAATGT 60.128 38.462 7.18 0.00 45.94 2.71
4022 4520 3.107661 GCGTTGCTGCATTGTGCC 61.108 61.111 1.84 0.00 44.23 5.01
4044 4542 0.535335 TCGACATACTTGTGGAGGCC 59.465 55.000 0.00 0.00 35.90 5.19
4066 4564 1.003573 ATCCTCTCGGGGAAGGCTT 59.996 57.895 0.00 0.00 39.02 4.35
4112 4610 2.754658 GCCTCGTCCTCCTCGGAA 60.755 66.667 0.00 0.00 45.32 4.30
4595 5493 8.114331 TCAAAACATGAACTAATCAGCATCTT 57.886 30.769 0.00 0.00 42.53 2.40
4638 5620 6.664816 ACATTCATGGCTCCAAAAGAAGAATA 59.335 34.615 0.00 0.00 0.00 1.75
4705 5687 1.545651 GCTTTGAGCCTGGTTAGTGGT 60.546 52.381 0.00 0.00 34.48 4.16
4731 5714 2.552585 CTACCATCGTGCCGTCCGTT 62.553 60.000 0.00 0.00 0.00 4.44
4733 5716 1.717791 TACTACCATCGTGCCGTCCG 61.718 60.000 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.