Multiple sequence alignment - TraesCS2B01G433700

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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 TraesCS2B01G433700 chr2B 100.000 4006 0 0 1 4006 622911413 622915418 0.000000e+00 7398.0
1 TraesCS2B01G433700 chr2A 92.867 2103 111 18 576 2647 671701935 671704029 0.000000e+00 3016.0
2 TraesCS2B01G433700 chr2A 94.872 1287 60 4 2725 4006 671704142 671705427 0.000000e+00 2006.0
3 TraesCS2B01G433700 chr2D 93.372 1901 80 18 771 2647 526514352 526516230 0.000000e+00 2771.0
4 TraesCS2B01G433700 chr2D 94.628 726 35 3 2692 3415 526516228 526516951 0.000000e+00 1122.0
5 TraesCS2B01G433700 chr2D 93.297 552 36 1 3454 4005 526516953 526517503 0.000000e+00 813.0
6 TraesCS2B01G433700 chr2D 91.444 561 25 9 1 555 526512578 526513121 0.000000e+00 749.0
7 TraesCS2B01G433700 chr2D 95.294 170 6 1 611 778 526513127 526513296 6.600000e-68 268.0
8 TraesCS2B01G433700 chr3B 90.055 181 15 2 3470 3650 586051515 586051338 8.660000e-57 231.0
9 TraesCS2B01G433700 chr3B 87.500 160 17 1 3738 3897 586051273 586051117 8.840000e-42 182.0
10 TraesCS2B01G433700 chr3B 89.051 137 15 0 2662 2798 586130381 586130245 1.910000e-38 171.0
11 TraesCS2B01G433700 chr3B 93.407 91 6 0 2804 2894 586051607 586051517 6.980000e-28 135.0
12 TraesCS2B01G433700 chr3B 86.869 99 9 3 2599 2693 685063025 685063123 1.520000e-19 108.0
13 TraesCS2B01G433700 chr3B 81.522 92 11 4 2607 2693 370162596 370162506 2.000000e-08 71.3
14 TraesCS2B01G433700 chr6D 90.816 98 6 3 2602 2696 324520774 324520677 1.170000e-25 128.0
15 TraesCS2B01G433700 chr6D 83.871 93 15 0 2934 3026 325819627 325819719 5.510000e-14 89.8
16 TraesCS2B01G433700 chr7A 89.899 99 6 1 2599 2693 85209400 85209302 1.510000e-24 124.0
17 TraesCS2B01G433700 chr7A 86.408 103 11 3 2601 2701 159698839 159698738 4.230000e-20 110.0
18 TraesCS2B01G433700 chr6B 89.899 99 6 1 2601 2695 530560366 530560464 1.510000e-24 124.0
19 TraesCS2B01G433700 chr6B 83.871 93 15 0 2934 3026 496988537 496988445 5.510000e-14 89.8
20 TraesCS2B01G433700 chr6A 87.255 102 8 3 2597 2694 34179648 34179548 1.180000e-20 111.0
21 TraesCS2B01G433700 chr6A 83.871 93 15 0 2934 3026 464689193 464689285 5.510000e-14 89.8
22 TraesCS2B01G433700 chr3D 85.185 108 16 0 2587 2694 406158435 406158328 1.180000e-20 111.0
23 TraesCS2B01G433700 chr1D 87.500 96 8 3 2601 2692 47710703 47710798 1.520000e-19 108.0


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 TraesCS2B01G433700 chr2B 622911413 622915418 4005 False 7398.0 7398 100.0000 1 4006 1 chr2B.!!$F1 4005
1 TraesCS2B01G433700 chr2A 671701935 671705427 3492 False 2511.0 3016 93.8695 576 4006 2 chr2A.!!$F1 3430
2 TraesCS2B01G433700 chr2D 526512578 526517503 4925 False 1144.6 2771 93.6070 1 4005 5 chr2D.!!$F1 4004

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
279 283 0.802494 GTCAACCATTGCCGTCGATT 59.198 50.000 0.00 0.0 0.00 3.34 F
1300 2381 1.079057 GAGGAGTTCTTGGCCGTCC 60.079 63.158 0.00 0.0 0.00 4.79 F
2107 3220 0.250684 TGCATCCGAGAAGCAAACCA 60.251 50.000 2.07 0.0 33.32 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1550 2637 0.387929 TCTCCCAATCATACGGCGAC 59.612 55.0 16.62 0.0 0.00 5.19 R
2677 3792 0.635009 AAGGTACTCCCTCCGATCCA 59.365 55.0 0.00 0.0 45.47 3.41 R
3569 4771 0.184692 TGGTGGTGTTGGATGCAAGA 59.815 50.0 0.00 0.0 0.00 3.02 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 2.079925 CGAAGAGGCTTCTTTTCCCTG 58.920 52.381 12.88 0.00 43.63 4.45
83 86 6.548441 ACAAACATGCTTTGATGGATTTTG 57.452 33.333 20.41 10.19 33.83 2.44
87 90 7.605410 AACATGCTTTGATGGATTTTGATTC 57.395 32.000 0.00 0.00 0.00 2.52
91 94 5.039333 GCTTTGATGGATTTTGATTCCTCG 58.961 41.667 0.00 0.00 34.17 4.63
92 95 5.581126 TTTGATGGATTTTGATTCCTCGG 57.419 39.130 0.00 0.00 34.17 4.63
203 207 3.758973 TTGCCGTCAAAGTCCGCCA 62.759 57.895 0.00 0.00 0.00 5.69
218 222 2.047844 CCACAGGAGACCAGTGCG 60.048 66.667 7.62 0.00 36.02 5.34
279 283 0.802494 GTCAACCATTGCCGTCGATT 59.198 50.000 0.00 0.00 0.00 3.34
491 495 9.807649 CCTCACCTTTAAATCATCCTTAAATTG 57.192 33.333 0.00 0.00 30.10 2.32
517 524 4.335400 AAAAGCCCCAACAACACTTATG 57.665 40.909 0.00 0.00 0.00 1.90
529 536 9.354673 CCAACAACACTTATGGAAGGATATATT 57.645 33.333 0.00 0.00 36.95 1.28
541 548 7.217200 TGGAAGGATATATTTCTTTGGACTCG 58.783 38.462 0.00 0.00 0.00 4.18
544 551 6.448006 AGGATATATTTCTTTGGACTCGTCG 58.552 40.000 0.00 0.00 0.00 5.12
555 562 2.036733 TGGACTCGTCGGATGAGTTTTT 59.963 45.455 28.33 10.43 43.99 1.94
578 585 5.028549 TGGGAGAGACTCTTGAAATATGC 57.971 43.478 6.40 0.00 0.00 3.14
584 591 5.816777 AGAGACTCTTGAAATATGCTCTTGC 59.183 40.000 0.00 0.00 40.20 4.01
600 607 5.186198 GCTCTTGCACCTCTAATTTTCCTA 58.814 41.667 0.00 0.00 39.41 2.94
601 608 5.295540 GCTCTTGCACCTCTAATTTTCCTAG 59.704 44.000 0.00 0.00 39.41 3.02
602 609 6.374417 TCTTGCACCTCTAATTTTCCTAGT 57.626 37.500 0.00 0.00 0.00 2.57
604 611 7.556844 TCTTGCACCTCTAATTTTCCTAGTAG 58.443 38.462 0.00 0.00 0.00 2.57
606 613 7.966339 TGCACCTCTAATTTTCCTAGTAGTA 57.034 36.000 0.00 0.00 0.00 1.82
607 614 7.779073 TGCACCTCTAATTTTCCTAGTAGTAC 58.221 38.462 0.00 0.00 0.00 2.73
691 700 2.401583 ATCACAGAGCGCATTAACCA 57.598 45.000 11.47 0.00 0.00 3.67
755 764 2.428890 TCCACGCAAATGAAAACACCTT 59.571 40.909 0.00 0.00 0.00 3.50
815 1887 8.620416 ACATCTTAACAGCAAATATTTATCGCA 58.380 29.630 10.56 0.00 0.00 5.10
870 1948 6.346096 CAAGGAGATAAATTAACCGAGGACA 58.654 40.000 0.00 0.00 0.00 4.02
934 2012 1.601419 TAACCAACTCGGCCTCCTCG 61.601 60.000 0.00 0.00 39.03 4.63
1047 2128 1.613630 GGAGAACAGCTGGAGGGGA 60.614 63.158 19.93 0.00 0.00 4.81
1071 2152 1.242665 ACTCGTCCGTCAGGTTCCTC 61.243 60.000 0.00 0.00 39.05 3.71
1192 2273 3.456365 GAGGGCTCTCTCTGCGCA 61.456 66.667 10.98 10.98 44.29 6.09
1197 2278 2.969016 CTCTCTCTGCGCACCACT 59.031 61.111 5.66 0.00 0.00 4.00
1300 2381 1.079057 GAGGAGTTCTTGGCCGTCC 60.079 63.158 0.00 0.00 0.00 4.79
1330 2411 3.284251 TGGGGGCAGAGGAGGAGA 61.284 66.667 0.00 0.00 0.00 3.71
1508 2589 5.282055 AGCATCCACTTAGATTGATCGAA 57.718 39.130 0.00 0.00 0.00 3.71
1566 2653 0.319555 ATCGTCGCCGTATGATTGGG 60.320 55.000 0.00 0.00 35.01 4.12
1602 2689 8.165239 TGTCTTGAACAATTATTACTTGCTGT 57.835 30.769 0.00 0.00 34.03 4.40
1716 2804 6.036626 GCTACTTTCCTTGCAGATTACTCTTC 59.963 42.308 0.00 0.00 0.00 2.87
1848 2945 3.570975 CCATTGCTTAATCATAGCCTGCA 59.429 43.478 0.00 0.00 37.85 4.41
1866 2979 1.338020 GCAACCCACTCTCCTTTGTTG 59.662 52.381 0.00 0.00 36.92 3.33
1867 2980 1.338020 CAACCCACTCTCCTTTGTTGC 59.662 52.381 0.00 0.00 0.00 4.17
1931 3044 6.134535 TGGTATCTGGGTTTTACATGTTCT 57.865 37.500 2.30 0.00 0.00 3.01
2107 3220 0.250684 TGCATCCGAGAAGCAAACCA 60.251 50.000 2.07 0.00 33.32 3.67
2284 3397 6.072508 TGTTCAGGTGAATACTGCTTGATTTC 60.073 38.462 0.00 0.00 36.33 2.17
2286 3399 6.182627 TCAGGTGAATACTGCTTGATTTCAT 58.817 36.000 0.00 0.00 35.94 2.57
2293 3406 8.741841 TGAATACTGCTTGATTTCATTCATTGA 58.258 29.630 0.00 0.00 0.00 2.57
2463 3578 3.261580 CGCTGTCATGAACAATGAGGTA 58.738 45.455 0.00 0.00 46.09 3.08
2481 3596 8.635765 ATGAGGTAGTGCAAGAATTTAAGAAA 57.364 30.769 0.00 0.00 0.00 2.52
2577 3692 9.508567 GATGAAAGATAACCTTTTGATAGTTGC 57.491 33.333 0.00 0.00 44.63 4.17
2585 3700 4.226761 CCTTTTGATAGTTGCCGTCAAAC 58.773 43.478 0.00 0.00 40.42 2.93
2591 3706 6.417191 TGATAGTTGCCGTCAAACTTTATC 57.583 37.500 0.70 0.91 33.37 1.75
2598 3713 4.576873 TGCCGTCAAACTTTATCAACTTCA 59.423 37.500 0.00 0.00 0.00 3.02
2625 3740 5.785423 ACTCCCTCCGATCCATATTAATTGA 59.215 40.000 0.00 0.00 0.00 2.57
2646 3761 9.769093 AATTGACGCTGATTTAGTACAAATTAC 57.231 29.630 0.00 0.00 0.00 1.89
2647 3762 7.892778 TGACGCTGATTTAGTACAAATTACA 57.107 32.000 0.00 0.00 0.00 2.41
2648 3763 8.312896 TGACGCTGATTTAGTACAAATTACAA 57.687 30.769 0.00 0.00 0.00 2.41
2649 3764 8.775527 TGACGCTGATTTAGTACAAATTACAAA 58.224 29.630 0.00 0.00 0.00 2.83
2650 3765 9.262472 GACGCTGATTTAGTACAAATTACAAAG 57.738 33.333 0.00 0.00 0.00 2.77
2651 3766 8.780249 ACGCTGATTTAGTACAAATTACAAAGT 58.220 29.630 0.00 0.00 0.00 2.66
2652 3767 9.607285 CGCTGATTTAGTACAAATTACAAAGTT 57.393 29.630 0.00 0.00 0.00 2.66
2666 3781 9.607285 AAATTACAAAGTTGTACTAAATCAGCG 57.393 29.630 3.38 0.00 42.84 5.18
2667 3782 7.949903 TTACAAAGTTGTACTAAATCAGCGA 57.050 32.000 3.38 0.00 42.84 4.93
2668 3783 6.224420 ACAAAGTTGTACTAAATCAGCGAC 57.776 37.500 0.00 0.00 40.16 5.19
2669 3784 5.756347 ACAAAGTTGTACTAAATCAGCGACA 59.244 36.000 0.00 0.00 40.16 4.35
2670 3785 6.259167 ACAAAGTTGTACTAAATCAGCGACAA 59.741 34.615 0.00 0.00 40.16 3.18
2671 3786 7.041372 ACAAAGTTGTACTAAATCAGCGACAAT 60.041 33.333 0.00 0.00 40.16 2.71
2672 3787 7.435068 AAGTTGTACTAAATCAGCGACAATT 57.565 32.000 0.00 0.00 36.39 2.32
2673 3788 8.542497 AAGTTGTACTAAATCAGCGACAATTA 57.458 30.769 0.00 0.00 36.39 1.40
2674 3789 8.542497 AGTTGTACTAAATCAGCGACAATTAA 57.458 30.769 0.00 0.00 36.39 1.40
2675 3790 9.162764 AGTTGTACTAAATCAGCGACAATTAAT 57.837 29.630 0.00 0.00 36.39 1.40
2680 3795 8.902540 ACTAAATCAGCGACAATTAATATGGA 57.097 30.769 0.00 0.00 0.00 3.41
2681 3796 9.507329 ACTAAATCAGCGACAATTAATATGGAT 57.493 29.630 0.00 0.00 0.00 3.41
2682 3797 9.979270 CTAAATCAGCGACAATTAATATGGATC 57.021 33.333 0.00 0.00 0.00 3.36
2683 3798 6.653273 ATCAGCGACAATTAATATGGATCG 57.347 37.500 0.00 0.00 0.00 3.69
2684 3799 4.929211 TCAGCGACAATTAATATGGATCGG 59.071 41.667 0.00 0.00 0.00 4.18
2685 3800 4.929211 CAGCGACAATTAATATGGATCGGA 59.071 41.667 0.00 0.00 0.00 4.55
2686 3801 5.062683 CAGCGACAATTAATATGGATCGGAG 59.937 44.000 0.00 0.00 0.00 4.63
2687 3802 4.330074 GCGACAATTAATATGGATCGGAGG 59.670 45.833 0.00 0.00 0.00 4.30
2688 3803 4.870426 CGACAATTAATATGGATCGGAGGG 59.130 45.833 0.00 0.00 0.00 4.30
2689 3804 5.337250 CGACAATTAATATGGATCGGAGGGA 60.337 44.000 0.00 0.00 0.00 4.20
2690 3805 6.054860 ACAATTAATATGGATCGGAGGGAG 57.945 41.667 0.00 0.00 0.00 4.30
2691 3806 5.548056 ACAATTAATATGGATCGGAGGGAGT 59.452 40.000 0.00 0.00 0.00 3.85
2692 3807 6.729100 ACAATTAATATGGATCGGAGGGAGTA 59.271 38.462 0.00 0.00 0.00 2.59
2710 3825 5.048507 GGAGTACCTTATTTAGCTGTTCCG 58.951 45.833 0.00 0.00 0.00 4.30
2720 3835 0.104304 AGCTGTTCCGTCAAAGTCGT 59.896 50.000 0.00 0.00 0.00 4.34
2746 3943 2.418368 TATGTTGGGTGGATCTGCAC 57.582 50.000 0.00 0.00 0.00 4.57
2749 3946 0.618458 GTTGGGTGGATCTGCACCTA 59.382 55.000 18.67 11.43 41.07 3.08
3035 4232 0.031585 TCGTCGACTTCACACTTGGG 59.968 55.000 14.70 0.00 0.00 4.12
3079 4276 8.289939 TCAGTTATAGTCCTAGTGATTTCGTT 57.710 34.615 0.00 0.00 0.00 3.85
3087 4284 4.517453 TCCTAGTGATTTCGTTTGGGTTTG 59.483 41.667 0.00 0.00 0.00 2.93
3128 4325 3.323979 ACAGTGTCCGTCTTAGTTTCCAT 59.676 43.478 0.00 0.00 0.00 3.41
3245 4443 7.071069 TCCATAGTTCATATCAACTGCATCT 57.929 36.000 1.72 0.00 37.20 2.90
3311 4512 5.338365 GGTTCATCAGTGATGCAAGATTTC 58.662 41.667 25.53 4.52 39.63 2.17
3312 4513 4.870221 TCATCAGTGATGCAAGATTTCG 57.130 40.909 25.53 1.19 39.63 3.46
3323 4524 2.223135 GCAAGATTTCGCAAGCTCCTAC 60.223 50.000 0.00 0.00 37.18 3.18
3409 4611 5.167121 CGCTCCTATCAAAATCGATCAGAT 58.833 41.667 0.00 5.45 42.43 2.90
3443 4645 1.260544 GGGAGCCTGACAATTGCTTT 58.739 50.000 5.05 0.00 34.99 3.51
3451 4653 4.791974 CCTGACAATTGCTTTTCAGAGTC 58.208 43.478 19.93 2.74 38.19 3.36
3453 4655 3.250762 TGACAATTGCTTTTCAGAGTCGG 59.749 43.478 5.05 0.00 0.00 4.79
3456 4658 1.593196 TTGCTTTTCAGAGTCGGTGG 58.407 50.000 0.00 0.00 0.00 4.61
3527 4729 1.527433 GGAAGGTGAGGTGCTTTGGC 61.527 60.000 0.00 0.00 39.26 4.52
3569 4771 2.026262 TGCGCCTCTTTTCCCTATCTTT 60.026 45.455 4.18 0.00 0.00 2.52
3663 4865 5.630264 TCAAATGATGCTGATGTTTGAAACG 59.370 36.000 3.37 0.00 36.27 3.60
3677 4879 1.885887 TGAAACGCCTGGAATCTTTGG 59.114 47.619 0.00 0.00 0.00 3.28
3683 4885 3.244770 ACGCCTGGAATCTTTGGAAGTTA 60.245 43.478 0.00 0.00 0.00 2.24
3688 4890 6.405176 GCCTGGAATCTTTGGAAGTTATTGAG 60.405 42.308 0.00 0.00 0.00 3.02
3730 4932 6.174720 AGAGTTTTGTATGAACTGACAGGA 57.825 37.500 7.51 0.00 37.46 3.86
3739 4941 8.250143 TGTATGAACTGACAGGACATATGTAT 57.750 34.615 8.71 0.00 0.00 2.29
3800 5002 2.919043 GCCGGTGGGGATGAAGAT 59.081 61.111 1.90 0.00 38.47 2.40
3831 5033 3.682292 GAACTTGCGCCCCTCGGAT 62.682 63.158 4.18 0.00 38.62 4.18
3876 5078 1.272490 GAGACATCGACCTTCACCACA 59.728 52.381 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 49 4.685924 CATGTTTGTTGGCTCAACTTTCT 58.314 39.130 15.91 0.02 43.85 2.52
57 60 3.992643 TCCATCAAAGCATGTTTGTTGG 58.007 40.909 25.68 25.68 44.56 3.77
160 164 4.362279 GCCATGCGTTGATGTGATATTTT 58.638 39.130 0.00 0.00 0.00 1.82
189 193 2.317609 CCTGTGGCGGACTTTGACG 61.318 63.158 0.00 0.00 0.00 4.35
192 196 0.951040 GTCTCCTGTGGCGGACTTTG 60.951 60.000 0.00 0.00 0.00 2.77
203 207 4.008933 GGCGCACTGGTCTCCTGT 62.009 66.667 10.83 0.00 36.11 4.00
279 283 0.888736 CGTGATGGGCTCCAACAACA 60.889 55.000 5.89 0.00 38.01 3.33
310 314 2.181021 GACTGGCGGTGGTACTCG 59.819 66.667 2.25 0.00 0.00 4.18
360 364 0.949105 TCTCTTTCTTCGGCGTTGGC 60.949 55.000 6.85 0.00 38.90 4.52
361 365 1.071605 CTCTCTTTCTTCGGCGTTGG 58.928 55.000 6.85 0.00 0.00 3.77
362 366 1.989165 CTCTCTCTTTCTTCGGCGTTG 59.011 52.381 6.85 0.64 0.00 4.10
363 367 1.887198 TCTCTCTCTTTCTTCGGCGTT 59.113 47.619 6.85 0.00 0.00 4.84
364 368 1.535833 TCTCTCTCTTTCTTCGGCGT 58.464 50.000 6.85 0.00 0.00 5.68
367 371 5.065704 TGTCATTCTCTCTCTTTCTTCGG 57.934 43.478 0.00 0.00 0.00 4.30
480 484 7.750655 TGGGGCTTTTTAAACAATTTAAGGAT 58.249 30.769 0.00 0.00 36.56 3.24
491 495 4.509616 AGTGTTGTTGGGGCTTTTTAAAC 58.490 39.130 0.00 0.00 0.00 2.01
517 524 7.217906 ACGAGTCCAAAGAAATATATCCTTCC 58.782 38.462 0.00 0.00 0.00 3.46
529 536 1.890489 TCATCCGACGAGTCCAAAGAA 59.110 47.619 0.00 0.00 0.00 2.52
531 538 1.202582 ACTCATCCGACGAGTCCAAAG 59.797 52.381 0.00 0.00 39.56 2.77
555 562 5.190528 AGCATATTTCAAGAGTCTCTCCCAA 59.809 40.000 1.96 0.00 0.00 4.12
556 563 4.718774 AGCATATTTCAAGAGTCTCTCCCA 59.281 41.667 1.96 0.00 0.00 4.37
557 564 5.070313 AGAGCATATTTCAAGAGTCTCTCCC 59.930 44.000 1.96 0.00 0.00 4.30
558 565 6.160576 AGAGCATATTTCAAGAGTCTCTCC 57.839 41.667 1.96 0.00 0.00 3.71
559 566 6.018832 GCAAGAGCATATTTCAAGAGTCTCTC 60.019 42.308 1.96 0.00 41.58 3.20
560 567 5.816777 GCAAGAGCATATTTCAAGAGTCTCT 59.183 40.000 0.00 0.00 41.58 3.10
561 568 6.046885 GCAAGAGCATATTTCAAGAGTCTC 57.953 41.667 0.00 0.00 41.58 3.36
578 585 6.410540 ACTAGGAAAATTAGAGGTGCAAGAG 58.589 40.000 0.00 0.00 0.00 2.85
691 700 1.459592 CGTCGGCTGTTCTTTTCGATT 59.540 47.619 0.00 0.00 32.46 3.34
755 764 9.733556 ACCATAAATATTTTATCTGATGCCGTA 57.266 29.630 5.91 0.00 0.00 4.02
800 1872 7.138692 AGGAGATTCTGCGATAAATATTTGC 57.861 36.000 11.05 6.51 0.00 3.68
815 1887 5.324832 TTTGGAACTTGGAAGGAGATTCT 57.675 39.130 0.00 0.00 38.07 2.40
870 1948 2.181954 TGTTTGGGTATTTACGCGGT 57.818 45.000 12.47 0.00 41.48 5.68
934 2012 0.794473 CTCGCCCGAGGTTTGTTTAC 59.206 55.000 9.71 0.00 38.51 2.01
980 2058 4.767255 CTGGACCTCACCGCTGCC 62.767 72.222 0.00 0.00 0.00 4.85
1047 2128 3.432588 CTGACGGACGAGTCGGCT 61.433 66.667 19.69 0.00 43.70 5.52
1179 2260 2.778309 AAGTGGTGCGCAGAGAGAGC 62.778 60.000 12.22 0.00 44.03 4.09
1282 2363 1.079057 GGACGGCCAAGAACTCCTC 60.079 63.158 0.00 0.00 0.00 3.71
1472 2553 9.565213 CTAAGTGGATGCTTTTTAAGATTCTTG 57.435 33.333 9.22 0.00 0.00 3.02
1550 2637 0.387929 TCTCCCAATCATACGGCGAC 59.612 55.000 16.62 0.00 0.00 5.19
1566 2653 3.914312 TGTTCAAGACAGTTCCGATCTC 58.086 45.455 0.00 0.00 33.40 2.75
1728 2816 2.422597 CGCACACCCTTTAACAGATGA 58.577 47.619 0.00 0.00 0.00 2.92
1729 2817 1.135689 GCGCACACCCTTTAACAGATG 60.136 52.381 0.30 0.00 0.00 2.90
1731 2819 0.887387 GGCGCACACCCTTTAACAGA 60.887 55.000 10.83 0.00 0.00 3.41
1848 2945 1.692411 GCAACAAAGGAGAGTGGGTT 58.308 50.000 0.00 0.00 0.00 4.11
1866 2979 3.730963 GCGGACAAGCTTTAAGTAATGGC 60.731 47.826 0.00 0.00 0.00 4.40
1867 2980 3.689649 AGCGGACAAGCTTTAAGTAATGG 59.310 43.478 0.00 0.00 46.80 3.16
2032 3145 1.748493 AGATGAAGAGAGTCCTGCGAC 59.252 52.381 0.00 0.00 39.50 5.19
2107 3220 5.466127 TTCCCTAAGTTGGCTATTTGGAT 57.534 39.130 0.00 0.00 0.00 3.41
2293 3406 9.717942 GAGACTCTTCTATGCATAAATACCATT 57.282 33.333 8.00 0.00 29.47 3.16
2315 3428 3.364366 CGTGGCACTGAGAAATTTGAGAC 60.364 47.826 16.72 0.00 0.00 3.36
2576 3691 5.103290 TGAAGTTGATAAAGTTTGACGGC 57.897 39.130 0.00 0.00 0.00 5.68
2577 3692 6.300354 ACTGAAGTTGATAAAGTTTGACGG 57.700 37.500 0.00 0.00 0.00 4.79
2585 3700 6.342111 GGAGGGAGTACTGAAGTTGATAAAG 58.658 44.000 0.00 0.00 0.00 1.85
2591 3706 2.168496 TCGGAGGGAGTACTGAAGTTG 58.832 52.381 0.00 0.00 0.00 3.16
2598 3713 4.405756 AATATGGATCGGAGGGAGTACT 57.594 45.455 0.00 0.00 0.00 2.73
2625 3740 8.780249 ACTTTGTAATTTGTACTAAATCAGCGT 58.220 29.630 0.00 0.00 0.00 5.07
2646 3761 6.223138 TGTCGCTGATTTAGTACAACTTTG 57.777 37.500 0.00 0.00 0.00 2.77
2647 3762 6.854496 TTGTCGCTGATTTAGTACAACTTT 57.146 33.333 0.00 0.00 32.84 2.66
2648 3763 7.435068 AATTGTCGCTGATTTAGTACAACTT 57.565 32.000 0.00 0.00 37.29 2.66
2649 3764 8.542497 TTAATTGTCGCTGATTTAGTACAACT 57.458 30.769 0.00 0.00 37.29 3.16
2654 3769 9.990360 TCCATATTAATTGTCGCTGATTTAGTA 57.010 29.630 0.00 0.00 0.00 1.82
2655 3770 8.902540 TCCATATTAATTGTCGCTGATTTAGT 57.097 30.769 0.00 0.00 0.00 2.24
2656 3771 9.979270 GATCCATATTAATTGTCGCTGATTTAG 57.021 33.333 0.00 0.00 0.00 1.85
2657 3772 8.655970 CGATCCATATTAATTGTCGCTGATTTA 58.344 33.333 0.00 0.00 0.00 1.40
2658 3773 7.361201 CCGATCCATATTAATTGTCGCTGATTT 60.361 37.037 0.00 0.00 0.00 2.17
2659 3774 6.092670 CCGATCCATATTAATTGTCGCTGATT 59.907 38.462 0.00 0.00 0.00 2.57
2660 3775 5.582269 CCGATCCATATTAATTGTCGCTGAT 59.418 40.000 0.00 0.00 0.00 2.90
2661 3776 4.929211 CCGATCCATATTAATTGTCGCTGA 59.071 41.667 0.00 0.00 0.00 4.26
2662 3777 4.929211 TCCGATCCATATTAATTGTCGCTG 59.071 41.667 0.00 0.00 0.00 5.18
2663 3778 5.147330 TCCGATCCATATTAATTGTCGCT 57.853 39.130 0.00 0.00 0.00 4.93
2664 3779 4.330074 CCTCCGATCCATATTAATTGTCGC 59.670 45.833 0.00 0.00 0.00 5.19
2665 3780 4.870426 CCCTCCGATCCATATTAATTGTCG 59.130 45.833 0.00 0.00 0.00 4.35
2666 3781 6.049955 TCCCTCCGATCCATATTAATTGTC 57.950 41.667 0.00 0.00 0.00 3.18
2667 3782 5.548056 ACTCCCTCCGATCCATATTAATTGT 59.452 40.000 0.00 0.00 0.00 2.71
2668 3783 6.054860 ACTCCCTCCGATCCATATTAATTG 57.945 41.667 0.00 0.00 0.00 2.32
2669 3784 6.156429 GGTACTCCCTCCGATCCATATTAATT 59.844 42.308 0.00 0.00 0.00 1.40
2670 3785 5.661759 GGTACTCCCTCCGATCCATATTAAT 59.338 44.000 0.00 0.00 0.00 1.40
2671 3786 5.021458 GGTACTCCCTCCGATCCATATTAA 58.979 45.833 0.00 0.00 0.00 1.40
2672 3787 4.294168 AGGTACTCCCTCCGATCCATATTA 59.706 45.833 0.00 0.00 40.71 0.98
2673 3788 3.077695 AGGTACTCCCTCCGATCCATATT 59.922 47.826 0.00 0.00 40.71 1.28
2674 3789 2.655407 AGGTACTCCCTCCGATCCATAT 59.345 50.000 0.00 0.00 40.71 1.78
2675 3790 2.071372 AGGTACTCCCTCCGATCCATA 58.929 52.381 0.00 0.00 40.71 2.74
2676 3791 0.861155 AGGTACTCCCTCCGATCCAT 59.139 55.000 0.00 0.00 40.71 3.41
2677 3792 0.635009 AAGGTACTCCCTCCGATCCA 59.365 55.000 0.00 0.00 45.47 3.41
2678 3793 2.671896 TAAGGTACTCCCTCCGATCC 57.328 55.000 0.00 0.00 45.47 3.36
2679 3794 5.336610 GCTAAATAAGGTACTCCCTCCGATC 60.337 48.000 0.00 0.00 45.47 3.69
2680 3795 4.527427 GCTAAATAAGGTACTCCCTCCGAT 59.473 45.833 0.00 0.00 45.47 4.18
2681 3796 3.893813 GCTAAATAAGGTACTCCCTCCGA 59.106 47.826 0.00 0.00 45.47 4.55
2682 3797 3.896272 AGCTAAATAAGGTACTCCCTCCG 59.104 47.826 0.00 0.00 45.47 4.63
2683 3798 4.654724 ACAGCTAAATAAGGTACTCCCTCC 59.345 45.833 0.00 0.00 45.47 4.30
2684 3799 5.873146 ACAGCTAAATAAGGTACTCCCTC 57.127 43.478 0.00 0.00 45.47 4.30
2686 3801 5.366460 GGAACAGCTAAATAAGGTACTCCC 58.634 45.833 0.00 0.00 38.49 4.30
2687 3802 5.048507 CGGAACAGCTAAATAAGGTACTCC 58.951 45.833 0.00 0.00 38.49 3.85
2688 3803 5.658468 ACGGAACAGCTAAATAAGGTACTC 58.342 41.667 0.00 0.00 38.49 2.59
2690 3805 5.413499 TGACGGAACAGCTAAATAAGGTAC 58.587 41.667 0.00 0.00 33.59 3.34
2691 3806 5.664294 TGACGGAACAGCTAAATAAGGTA 57.336 39.130 0.00 0.00 33.59 3.08
2692 3807 4.546829 TGACGGAACAGCTAAATAAGGT 57.453 40.909 0.00 0.00 35.94 3.50
2710 3825 7.709613 ACCCAACATAATAGATACGACTTTGAC 59.290 37.037 0.00 0.00 0.00 3.18
2720 3835 6.272090 TGCAGATCCACCCAACATAATAGATA 59.728 38.462 0.00 0.00 0.00 1.98
2746 3943 8.506168 TGAAAAGTAGGATAACTTGCATTAGG 57.494 34.615 0.00 0.00 39.62 2.69
2749 3946 6.660949 AGCTGAAAAGTAGGATAACTTGCATT 59.339 34.615 0.00 0.00 39.62 3.56
2756 3953 8.666573 GTTTCCTTAGCTGAAAAGTAGGATAAC 58.333 37.037 0.00 0.00 33.80 1.89
2927 4124 5.242069 ACATTCTCACTACATCGTCAGAG 57.758 43.478 0.00 0.00 0.00 3.35
3035 4232 6.481434 ACTGATCCTGTACAATACTAACCC 57.519 41.667 0.00 0.00 0.00 4.11
3079 4276 4.895889 TGATCACAACCATAACAAACCCAA 59.104 37.500 0.00 0.00 0.00 4.12
3087 4284 3.941483 CTGTCCCTGATCACAACCATAAC 59.059 47.826 0.00 0.00 0.00 1.89
3128 4325 5.168569 CGGCAACTTCTAATGTTCTAGACA 58.831 41.667 0.00 0.00 43.71 3.41
3142 4339 1.301423 TGTAACACCACGGCAACTTC 58.699 50.000 0.00 0.00 0.00 3.01
3245 4443 3.011818 CAGCAGGATAACAAGCATGACA 58.988 45.455 0.00 0.00 0.00 3.58
3311 4512 0.460284 ACCATTCGTAGGAGCTTGCG 60.460 55.000 0.00 0.00 0.00 4.85
3312 4513 1.398390 CAACCATTCGTAGGAGCTTGC 59.602 52.381 0.00 0.00 0.00 4.01
3323 4524 5.349270 TCCGTTCTTATACAACAACCATTCG 59.651 40.000 0.00 0.00 0.00 3.34
3379 4581 8.827177 ATCGATTTTGATAGGAGCGTAAAATA 57.173 30.769 0.00 0.00 32.79 1.40
3432 4634 3.251004 ACCGACTCTGAAAAGCAATTGTC 59.749 43.478 7.40 0.00 0.00 3.18
3443 4645 2.343758 GCAGCCACCGACTCTGAA 59.656 61.111 0.00 0.00 0.00 3.02
3451 4653 2.088178 GCAAAAATCGCAGCCACCG 61.088 57.895 0.00 0.00 0.00 4.94
3453 4655 3.860717 GGCAAAAATCGCAGCCAC 58.139 55.556 0.00 0.00 46.26 5.01
3456 4658 1.712401 TGAATGGCAAAAATCGCAGC 58.288 45.000 0.00 0.00 0.00 5.25
3527 4729 3.613737 CACTTGTGGCAAAACTTGAAGTG 59.386 43.478 0.00 0.00 36.27 3.16
3569 4771 0.184692 TGGTGGTGTTGGATGCAAGA 59.815 50.000 0.00 0.00 0.00 3.02
3650 4852 1.974265 TCCAGGCGTTTCAAACATCA 58.026 45.000 0.22 0.00 0.00 3.07
3663 4865 5.418840 TCAATAACTTCCAAAGATTCCAGGC 59.581 40.000 0.00 0.00 0.00 4.85
3703 4905 7.118390 CCTGTCAGTTCATACAAAACTCTTAGG 59.882 40.741 0.00 0.00 34.79 2.69
3705 4907 7.656137 GTCCTGTCAGTTCATACAAAACTCTTA 59.344 37.037 0.00 0.00 34.79 2.10
3719 4921 8.204836 AGGTAAATACATATGTCCTGTCAGTTC 58.795 37.037 12.68 0.00 0.00 3.01
3720 4922 8.090788 AGGTAAATACATATGTCCTGTCAGTT 57.909 34.615 12.68 1.81 0.00 3.16
3739 4941 7.328737 GGCTATGTTCTTCTTGTAGAGGTAAA 58.671 38.462 0.00 0.00 0.00 2.01
3876 5078 4.658063 TCCCATATTTTCCGTTTGACAGT 58.342 39.130 0.00 0.00 0.00 3.55
3924 5126 2.994186 ATAGGTTCATTTACGCGGGT 57.006 45.000 12.47 10.91 0.00 5.28


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

AutoCloner maintained by Alex Coulton.