Multiple sequence alignment - TraesCS6D01G265500

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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 TraesCS6D01G265500 chr6D 100.000 3971 0 0 1 3971 375027471 375031441 0.000000e+00 7334
1 TraesCS6D01G265500 chr6D 96.071 560 15 2 3419 3971 21990011 21990570 0.000000e+00 905
2 TraesCS6D01G265500 chr6D 74.257 1177 280 20 1799 2962 444137544 444136378 1.290000e-129 473
3 TraesCS6D01G265500 chr6A 93.347 3457 139 38 1 3407 516413419 516416834 0.000000e+00 5025
4 TraesCS6D01G265500 chr6A 73.980 1176 285 18 1799 2962 591733142 591731976 1.300000e-124 457
5 TraesCS6D01G265500 chr6B 96.193 2627 76 15 815 3419 561700729 561703353 0.000000e+00 4276
6 TraesCS6D01G265500 chr6B 84.685 666 34 26 171 806 561699975 561700602 1.580000e-168 603
7 TraesCS6D01G265500 chr6B 74.490 1176 279 18 1799 2962 668777835 668776669 1.280000e-134 490
8 TraesCS6D01G265500 chr7D 76.139 1865 390 46 1138 2967 202058367 202056523 0.000000e+00 928
9 TraesCS6D01G265500 chr3D 96.786 560 11 5 3419 3971 551011204 551011763 0.000000e+00 928
10 TraesCS6D01G265500 chr3D 96.043 556 15 2 3423 3971 335679123 335678568 0.000000e+00 898
11 TraesCS6D01G265500 chr3D 95.544 561 18 5 3418 3971 549650798 549650238 0.000000e+00 891
12 TraesCS6D01G265500 chr3D 95.528 559 17 3 3420 3971 178653548 178654105 0.000000e+00 887
13 TraesCS6D01G265500 chr7B 76.071 1868 386 51 1138 2967 165532154 165530310 0.000000e+00 917
14 TraesCS6D01G265500 chr7A 75.991 1866 391 47 1138 2967 214435369 214433525 0.000000e+00 911
15 TraesCS6D01G265500 chr2D 96.078 561 14 3 3418 3971 115586183 115585624 0.000000e+00 907
16 TraesCS6D01G265500 chr4D 95.707 559 17 2 3420 3971 49934339 49933781 0.000000e+00 893
17 TraesCS6D01G265500 chr1D 95.528 559 18 4 3420 3971 314434012 314434570 0.000000e+00 887
18 TraesCS6D01G265500 chr2A 95.536 560 14 4 3419 3971 57992940 57993495 0.000000e+00 885


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 TraesCS6D01G265500 chr6D 375027471 375031441 3970 False 7334.0 7334 100.000 1 3971 1 chr6D.!!$F2 3970
1 TraesCS6D01G265500 chr6D 21990011 21990570 559 False 905.0 905 96.071 3419 3971 1 chr6D.!!$F1 552
2 TraesCS6D01G265500 chr6D 444136378 444137544 1166 True 473.0 473 74.257 1799 2962 1 chr6D.!!$R1 1163
3 TraesCS6D01G265500 chr6A 516413419 516416834 3415 False 5025.0 5025 93.347 1 3407 1 chr6A.!!$F1 3406
4 TraesCS6D01G265500 chr6A 591731976 591733142 1166 True 457.0 457 73.980 1799 2962 1 chr6A.!!$R1 1163
5 TraesCS6D01G265500 chr6B 561699975 561703353 3378 False 2439.5 4276 90.439 171 3419 2 chr6B.!!$F1 3248
6 TraesCS6D01G265500 chr6B 668776669 668777835 1166 True 490.0 490 74.490 1799 2962 1 chr6B.!!$R1 1163
7 TraesCS6D01G265500 chr7D 202056523 202058367 1844 True 928.0 928 76.139 1138 2967 1 chr7D.!!$R1 1829
8 TraesCS6D01G265500 chr3D 551011204 551011763 559 False 928.0 928 96.786 3419 3971 1 chr3D.!!$F2 552
9 TraesCS6D01G265500 chr3D 335678568 335679123 555 True 898.0 898 96.043 3423 3971 1 chr3D.!!$R1 548
10 TraesCS6D01G265500 chr3D 549650238 549650798 560 True 891.0 891 95.544 3418 3971 1 chr3D.!!$R2 553
11 TraesCS6D01G265500 chr3D 178653548 178654105 557 False 887.0 887 95.528 3420 3971 1 chr3D.!!$F1 551
12 TraesCS6D01G265500 chr7B 165530310 165532154 1844 True 917.0 917 76.071 1138 2967 1 chr7B.!!$R1 1829
13 TraesCS6D01G265500 chr7A 214433525 214435369 1844 True 911.0 911 75.991 1138 2967 1 chr7A.!!$R1 1829
14 TraesCS6D01G265500 chr2D 115585624 115586183 559 True 907.0 907 96.078 3418 3971 1 chr2D.!!$R1 553
15 TraesCS6D01G265500 chr4D 49933781 49934339 558 True 893.0 893 95.707 3420 3971 1 chr4D.!!$R1 551
16 TraesCS6D01G265500 chr1D 314434012 314434570 558 False 887.0 887 95.528 3420 3971 1 chr1D.!!$F1 551
17 TraesCS6D01G265500 chr2A 57992940 57993495 555 False 885.0 885 95.536 3419 3971 1 chr2A.!!$F1 552

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
602 680 0.034863 TTCCCCCGCTGGTTATTGTC 60.035 55.000 0.0 0.0 0.00 3.18 F
632 710 0.036306 GGGGATTGTTGACTGGTCGT 59.964 55.000 0.0 0.0 0.00 4.34 F
635 713 0.163788 GATTGTTGACTGGTCGTGCG 59.836 55.000 0.0 0.0 0.00 5.34 F
998 1219 0.400213 TCAGAGGAATTTGGTGCCGT 59.600 50.000 0.0 0.0 0.00 5.68 F
1836 2072 2.350895 CCGTCAAGGTGGGATGCA 59.649 61.111 0.0 0.0 34.51 3.96 F
1911 2150 3.181440 TGATGGTTGTCTTCTTCTTGGCT 60.181 43.478 0.0 0.0 0.00 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1488 1712 0.394565 AATCCTCGCTGCTACCCATC 59.605 55.000 0.00 0.00 0.00 3.51 R
1548 1772 1.003580 ACATCACCTTGTGCCTGGTAG 59.996 52.381 0.00 0.00 34.79 3.18 R
1836 2072 1.139058 GCACCGTCCATCTTCAGGTAT 59.861 52.381 0.00 0.00 33.30 2.73 R
2004 2243 1.914798 AGCTTCCATCCTGAAAGCTCT 59.085 47.619 3.13 0.00 28.97 4.09 R
2772 3027 2.190325 ATAGGAAGACGAAGAACGCG 57.810 50.000 3.53 3.53 46.94 6.01 R
3851 4114 0.032952 AGCTGTCGCGAAGGTGTTTA 59.967 50.000 12.06 0.00 42.32 2.01 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
82 88 1.616921 CCCGACCTACCCACCTAGA 59.383 63.158 0.00 0.00 0.00 2.43
88 94 2.564504 GACCTACCCACCTAGAAAACGT 59.435 50.000 0.00 0.00 0.00 3.99
95 101 4.891168 ACCCACCTAGAAAACGTTCAAATT 59.109 37.500 0.00 0.00 36.09 1.82
98 104 5.623673 CCACCTAGAAAACGTTCAAATTTCG 59.376 40.000 0.00 0.00 37.95 3.46
102 108 1.761206 AAACGTTCAAATTTCGCCCG 58.239 45.000 0.00 0.00 0.00 6.13
106 112 1.976045 CGTTCAAATTTCGCCCGAAAG 59.024 47.619 18.89 7.93 45.66 2.62
109 115 3.817148 TCAAATTTCGCCCGAAAGTAC 57.183 42.857 18.89 0.00 45.66 2.73
110 116 3.404899 TCAAATTTCGCCCGAAAGTACT 58.595 40.909 18.89 2.67 45.66 2.73
111 117 4.567971 TCAAATTTCGCCCGAAAGTACTA 58.432 39.130 18.89 5.51 45.66 1.82
117 123 4.717233 TCGCCCGAAAGTACTACAAATA 57.283 40.909 0.00 0.00 0.00 1.40
121 127 5.608449 GCCCGAAAGTACTACAAATATCCT 58.392 41.667 0.00 0.00 0.00 3.24
158 164 1.515954 GGGCGGTGAATTCGAGAGA 59.484 57.895 0.04 0.00 39.20 3.10
219 243 2.949644 GCAGTATAAGATTGGCGGGTTT 59.050 45.455 0.00 0.00 0.00 3.27
328 379 2.683968 CGGACGGAGAGATAGAGAGAG 58.316 57.143 0.00 0.00 0.00 3.20
329 380 2.297880 CGGACGGAGAGATAGAGAGAGA 59.702 54.545 0.00 0.00 0.00 3.10
330 381 3.614150 CGGACGGAGAGATAGAGAGAGAG 60.614 56.522 0.00 0.00 0.00 3.20
331 382 3.326747 GACGGAGAGATAGAGAGAGAGC 58.673 54.545 0.00 0.00 0.00 4.09
332 383 2.038557 ACGGAGAGATAGAGAGAGAGCC 59.961 54.545 0.00 0.00 0.00 4.70
333 384 2.038426 CGGAGAGATAGAGAGAGAGCCA 59.962 54.545 0.00 0.00 0.00 4.75
334 385 3.679389 GGAGAGATAGAGAGAGAGCCAG 58.321 54.545 0.00 0.00 0.00 4.85
335 386 3.327757 GGAGAGATAGAGAGAGAGCCAGA 59.672 52.174 0.00 0.00 0.00 3.86
367 421 2.257676 GTCGGAACTCGGAAGCGT 59.742 61.111 0.00 0.00 39.77 5.07
439 494 4.463879 CTGAGGTGAGCGCCCCTG 62.464 72.222 14.87 0.00 0.00 4.45
488 550 0.870307 CTCCCTGCGTAATTCGTCCG 60.870 60.000 0.00 0.00 42.13 4.79
562 640 1.228583 TCGGGCTGTCTGTCTGTCT 60.229 57.895 0.00 0.00 0.00 3.41
563 641 1.080230 CGGGCTGTCTGTCTGTCTG 60.080 63.158 0.00 0.00 0.00 3.51
564 642 1.810606 CGGGCTGTCTGTCTGTCTGT 61.811 60.000 0.00 0.00 0.00 3.41
565 643 0.037790 GGGCTGTCTGTCTGTCTGTC 60.038 60.000 0.00 0.00 0.00 3.51
566 644 0.965439 GGCTGTCTGTCTGTCTGTCT 59.035 55.000 0.00 0.00 0.00 3.41
567 645 1.336702 GGCTGTCTGTCTGTCTGTCTG 60.337 57.143 0.00 0.00 0.00 3.51
568 646 1.339610 GCTGTCTGTCTGTCTGTCTGT 59.660 52.381 0.00 0.00 0.00 3.41
569 647 2.606795 GCTGTCTGTCTGTCTGTCTGTC 60.607 54.545 0.00 0.00 0.00 3.51
585 663 5.156355 TGTCTGTCGGTATAGTTCGTTTTC 58.844 41.667 0.00 0.00 0.00 2.29
602 680 0.034863 TTCCCCCGCTGGTTATTGTC 60.035 55.000 0.00 0.00 0.00 3.18
605 683 0.675522 CCCCGCTGGTTATTGTCGTT 60.676 55.000 0.00 0.00 0.00 3.85
621 699 3.081804 GTCGTTGATTTCAGGGGATTGT 58.918 45.455 0.00 0.00 0.00 2.71
622 700 3.506067 GTCGTTGATTTCAGGGGATTGTT 59.494 43.478 0.00 0.00 0.00 2.83
623 701 3.505680 TCGTTGATTTCAGGGGATTGTTG 59.494 43.478 0.00 0.00 0.00 3.33
624 702 3.505680 CGTTGATTTCAGGGGATTGTTGA 59.494 43.478 0.00 0.00 0.00 3.18
625 703 4.615912 CGTTGATTTCAGGGGATTGTTGAC 60.616 45.833 0.00 0.00 0.00 3.18
626 704 4.387026 TGATTTCAGGGGATTGTTGACT 57.613 40.909 0.00 0.00 0.00 3.41
627 705 4.081406 TGATTTCAGGGGATTGTTGACTG 58.919 43.478 0.00 0.00 0.00 3.51
628 706 2.584835 TTCAGGGGATTGTTGACTGG 57.415 50.000 0.00 0.00 0.00 4.00
629 707 1.444933 TCAGGGGATTGTTGACTGGT 58.555 50.000 0.00 0.00 0.00 4.00
630 708 1.351017 TCAGGGGATTGTTGACTGGTC 59.649 52.381 0.00 0.00 0.00 4.02
631 709 0.324943 AGGGGATTGTTGACTGGTCG 59.675 55.000 0.00 0.00 0.00 4.79
632 710 0.036306 GGGGATTGTTGACTGGTCGT 59.964 55.000 0.00 0.00 0.00 4.34
633 711 1.156736 GGGATTGTTGACTGGTCGTG 58.843 55.000 0.00 0.00 0.00 4.35
634 712 0.517316 GGATTGTTGACTGGTCGTGC 59.483 55.000 0.00 0.00 0.00 5.34
635 713 0.163788 GATTGTTGACTGGTCGTGCG 59.836 55.000 0.00 0.00 0.00 5.34
636 714 0.531974 ATTGTTGACTGGTCGTGCGT 60.532 50.000 0.00 0.00 0.00 5.24
639 717 1.142097 TTGACTGGTCGTGCGTGAA 59.858 52.632 0.00 0.00 0.00 3.18
652 730 0.512952 GCGTGAACATGCTCGTTCTT 59.487 50.000 16.39 0.00 44.59 2.52
653 731 1.724623 GCGTGAACATGCTCGTTCTTA 59.275 47.619 16.39 0.00 44.59 2.10
657 735 1.659098 GAACATGCTCGTTCTTACCGG 59.341 52.381 0.00 0.00 41.70 5.28
659 737 0.999406 CATGCTCGTTCTTACCGGTG 59.001 55.000 19.93 0.15 0.00 4.94
662 740 1.274167 TGCTCGTTCTTACCGGTGAAT 59.726 47.619 19.93 0.00 0.00 2.57
664 742 2.268298 CTCGTTCTTACCGGTGAATGG 58.732 52.381 19.93 9.50 32.01 3.16
665 743 0.725117 CGTTCTTACCGGTGAATGGC 59.275 55.000 19.93 0.58 0.00 4.40
672 750 0.463116 ACCGGTGAATGGCGGTTATC 60.463 55.000 6.12 0.00 0.00 1.75
707 785 1.332997 AGGATCGGTCGATTACGTGTC 59.667 52.381 7.32 0.00 40.69 3.67
717 795 2.342651 CGATTACGTGTCTCTGTTGCTG 59.657 50.000 0.00 0.00 34.56 4.41
726 804 0.678048 CTCTGTTGCTGGTTAGGCCC 60.678 60.000 0.00 0.00 36.04 5.80
757 835 3.118371 GGGTGTAGGAGTATTGGTCCTTG 60.118 52.174 0.00 0.00 42.12 3.61
806 890 1.682323 TGCATGCATGTTGGCGATTAT 59.318 42.857 26.79 0.00 36.28 1.28
807 891 2.883386 TGCATGCATGTTGGCGATTATA 59.117 40.909 26.79 0.00 36.28 0.98
808 892 3.506844 TGCATGCATGTTGGCGATTATAT 59.493 39.130 26.79 0.00 36.28 0.86
809 893 4.699257 TGCATGCATGTTGGCGATTATATA 59.301 37.500 26.79 0.00 36.28 0.86
810 894 5.182760 TGCATGCATGTTGGCGATTATATAA 59.817 36.000 26.79 0.00 36.28 0.98
861 1068 6.301108 TGCGTTCGTCTTTAATTATGTGTTC 58.699 36.000 0.00 0.00 0.00 3.18
877 1084 4.682787 TGTGTTCTGTTGCTATATCCTCG 58.317 43.478 0.00 0.00 0.00 4.63
929 1149 7.751793 TGTTGATTCTGTGAAATGAATTGATCG 59.248 33.333 0.00 0.00 33.60 3.69
954 1174 6.638468 GGTGTTTCTTCTCTACAATTTGCTTG 59.362 38.462 0.00 0.00 40.90 4.01
968 1188 1.055849 TGCTTGCAGGTGGAGTTCTA 58.944 50.000 0.00 0.00 0.00 2.10
975 1195 3.055819 TGCAGGTGGAGTTCTAGATTGAC 60.056 47.826 0.00 0.00 0.00 3.18
976 1196 3.196685 GCAGGTGGAGTTCTAGATTGACT 59.803 47.826 0.00 0.00 0.00 3.41
998 1219 0.400213 TCAGAGGAATTTGGTGCCGT 59.600 50.000 0.00 0.00 0.00 5.68
1022 1246 4.778143 GCCCAAGATGCCGTCGGT 62.778 66.667 13.94 0.00 0.00 4.69
1836 2072 2.350895 CCGTCAAGGTGGGATGCA 59.649 61.111 0.00 0.00 34.51 3.96
1911 2150 3.181440 TGATGGTTGTCTTCTTCTTGGCT 60.181 43.478 0.00 0.00 0.00 4.75
2772 3027 0.320771 TCTTTGCTTCTGGCTCCGTC 60.321 55.000 0.00 0.00 42.39 4.79
2994 3249 1.296715 CCCTGCAGTAGTGTCACCC 59.703 63.158 13.81 0.00 0.00 4.61
3205 3461 0.527385 GGCGTTTGTGAGCAGCAAAA 60.527 50.000 0.00 0.00 37.54 2.44
3258 3514 6.543430 AATGGGCAAATTTGATTACAGCTA 57.457 33.333 22.31 0.00 0.00 3.32
3348 3604 6.597562 TGTAACCAGATTGTCCTGTTAAAGT 58.402 36.000 0.00 0.00 32.43 2.66
3407 3663 4.389992 TGATCATTTGCTTCTCGTGTTCTC 59.610 41.667 0.00 0.00 0.00 2.87
3441 3697 1.002794 TAGGAGCTAGGGCCCTACCA 61.003 60.000 29.72 15.00 42.05 3.25
3635 3897 8.435187 TGCTTGATTAGATTGATACATCTCCTT 58.565 33.333 0.00 0.00 0.00 3.36
3851 4114 1.204704 TCGAGATGATCAACCAGCGTT 59.795 47.619 0.00 0.00 0.00 4.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.047560 GTTCGGTTCGAGGTGGGG 60.048 66.667 0.00 0.00 37.14 4.96
41 42 2.203480 GTTTGGTGCTCCAGGCCA 60.203 61.111 5.01 0.00 45.22 5.36
82 88 2.121009 CGGGCGAAATTTGAACGTTTT 58.879 42.857 0.46 0.00 0.00 2.43
88 94 3.816523 AGTACTTTCGGGCGAAATTTGAA 59.183 39.130 0.00 0.00 42.34 2.69
95 101 3.383620 TTTGTAGTACTTTCGGGCGAA 57.616 42.857 0.00 0.00 0.00 4.70
98 104 5.608449 AGGATATTTGTAGTACTTTCGGGC 58.392 41.667 0.00 0.00 0.00 6.13
109 115 9.754382 CCATTTGAATTTGGAGGATATTTGTAG 57.246 33.333 0.00 0.00 34.81 2.74
110 116 8.203485 GCCATTTGAATTTGGAGGATATTTGTA 58.797 33.333 0.00 0.00 34.81 2.41
111 117 7.049754 GCCATTTGAATTTGGAGGATATTTGT 58.950 34.615 0.00 0.00 34.81 2.83
117 123 3.119029 CGTGCCATTTGAATTTGGAGGAT 60.119 43.478 0.00 0.00 34.81 3.24
121 127 1.274728 CCCGTGCCATTTGAATTTGGA 59.725 47.619 0.00 0.00 34.81 3.53
158 164 2.031068 GGCGCGGTTTTTGATTTGTTTT 59.969 40.909 8.83 0.00 0.00 2.43
192 198 3.923461 CGCCAATCTTATACTGCTAGAGC 59.077 47.826 0.00 0.00 42.50 4.09
193 199 4.489810 CCGCCAATCTTATACTGCTAGAG 58.510 47.826 0.00 0.00 0.00 2.43
195 201 3.006967 ACCCGCCAATCTTATACTGCTAG 59.993 47.826 0.00 0.00 0.00 3.42
351 402 2.564975 GACGCTTCCGAGTTCCGA 59.435 61.111 0.00 0.00 41.76 4.55
352 403 2.506438 GGACGCTTCCGAGTTCCG 60.506 66.667 0.00 0.00 38.29 4.30
353 404 1.084370 CATGGACGCTTCCGAGTTCC 61.084 60.000 4.57 0.00 46.37 3.62
354 405 0.389948 ACATGGACGCTTCCGAGTTC 60.390 55.000 4.57 0.00 46.37 3.01
355 406 0.034896 AACATGGACGCTTCCGAGTT 59.965 50.000 11.72 11.72 46.37 3.01
356 407 0.034896 AAACATGGACGCTTCCGAGT 59.965 50.000 4.57 2.71 46.37 4.18
357 408 1.135972 CAAAACATGGACGCTTCCGAG 60.136 52.381 4.57 2.05 46.37 4.63
367 421 0.608035 GGGCGAGGTCAAAACATGGA 60.608 55.000 0.00 0.00 0.00 3.41
442 497 1.921869 GAAATGGGGGAGCGGAGGAA 61.922 60.000 0.00 0.00 0.00 3.36
444 499 2.193248 GAAATGGGGGAGCGGAGG 59.807 66.667 0.00 0.00 0.00 4.30
449 504 1.686428 GGAAGAAGGAAATGGGGGAGC 60.686 57.143 0.00 0.00 0.00 4.70
562 640 4.771590 AAACGAACTATACCGACAGACA 57.228 40.909 0.00 0.00 0.00 3.41
563 641 4.560427 GGAAAACGAACTATACCGACAGAC 59.440 45.833 0.00 0.00 0.00 3.51
564 642 4.380867 GGGAAAACGAACTATACCGACAGA 60.381 45.833 0.00 0.00 0.00 3.41
565 643 3.861689 GGGAAAACGAACTATACCGACAG 59.138 47.826 0.00 0.00 0.00 3.51
566 644 3.368323 GGGGAAAACGAACTATACCGACA 60.368 47.826 0.00 0.00 0.00 4.35
567 645 3.190079 GGGGAAAACGAACTATACCGAC 58.810 50.000 0.00 0.00 0.00 4.79
568 646 2.168313 GGGGGAAAACGAACTATACCGA 59.832 50.000 0.00 0.00 0.00 4.69
569 647 2.554142 GGGGGAAAACGAACTATACCG 58.446 52.381 0.00 0.00 0.00 4.02
585 663 1.817941 CGACAATAACCAGCGGGGG 60.818 63.158 8.08 0.00 42.91 5.40
602 680 3.505680 TCAACAATCCCCTGAAATCAACG 59.494 43.478 0.00 0.00 0.00 4.10
605 683 4.081406 CAGTCAACAATCCCCTGAAATCA 58.919 43.478 0.00 0.00 0.00 2.57
621 699 1.142097 TTCACGCACGACCAGTCAA 59.858 52.632 0.00 0.00 0.00 3.18
622 700 1.590525 GTTCACGCACGACCAGTCA 60.591 57.895 0.00 0.00 0.00 3.41
623 701 0.944311 ATGTTCACGCACGACCAGTC 60.944 55.000 0.00 0.00 0.00 3.51
624 702 1.069090 ATGTTCACGCACGACCAGT 59.931 52.632 0.00 0.00 0.00 4.00
625 703 1.492873 CATGTTCACGCACGACCAG 59.507 57.895 0.00 0.00 0.00 4.00
626 704 2.603247 GCATGTTCACGCACGACCA 61.603 57.895 0.00 0.00 0.00 4.02
627 705 2.173382 GCATGTTCACGCACGACC 59.827 61.111 0.00 0.00 0.00 4.79
628 706 1.130613 GAGCATGTTCACGCACGAC 59.869 57.895 4.47 0.00 0.00 4.34
629 707 2.371923 CGAGCATGTTCACGCACGA 61.372 57.895 10.36 0.00 43.54 4.35
630 708 2.094539 CGAGCATGTTCACGCACG 59.905 61.111 10.36 0.00 35.99 5.34
631 709 0.451135 GAACGAGCATGTTCACGCAC 60.451 55.000 10.36 0.00 45.92 5.34
632 710 1.859398 GAACGAGCATGTTCACGCA 59.141 52.632 10.36 0.00 45.92 5.24
633 711 4.725758 GAACGAGCATGTTCACGC 57.274 55.556 10.36 0.00 45.92 5.34
639 717 0.606604 ACCGGTAAGAACGAGCATGT 59.393 50.000 4.49 0.00 0.00 3.21
657 735 2.277084 AGAACGATAACCGCCATTCAC 58.723 47.619 0.00 0.00 43.32 3.18
659 737 1.521423 CGAGAACGATAACCGCCATTC 59.479 52.381 0.00 0.00 43.32 2.67
662 740 1.140161 CCGAGAACGATAACCGCCA 59.860 57.895 0.00 0.00 43.32 5.69
664 742 1.322637 GAAACCGAGAACGATAACCGC 59.677 52.381 0.00 0.00 43.32 5.68
665 743 2.597305 CTGAAACCGAGAACGATAACCG 59.403 50.000 0.00 0.00 42.66 4.44
672 750 2.531206 GATCCTCTGAAACCGAGAACG 58.469 52.381 0.00 0.00 39.43 3.95
707 785 0.678048 GGGCCTAACCAGCAACAGAG 60.678 60.000 0.84 0.00 42.05 3.35
717 795 4.858680 GGAGCTGCGGGCCTAACC 62.859 72.222 0.84 0.00 43.05 2.85
726 804 4.514577 CCTACACCCGGAGCTGCG 62.515 72.222 21.89 21.89 0.00 5.18
757 835 3.553511 CGAACACAGATGATCTACCAAGC 59.446 47.826 0.00 0.00 0.00 4.01
861 1068 9.457110 GATATAATCACGAGGATATAGCAACAG 57.543 37.037 0.00 0.00 34.28 3.16
871 1078 8.657074 TTTTTCGTTGATATAATCACGAGGAT 57.343 30.769 0.00 0.00 40.77 3.24
903 1121 7.751793 CGATCAATTCATTTCACAGAATCAACA 59.248 33.333 0.00 0.00 33.58 3.33
906 1124 6.375174 ACCGATCAATTCATTTCACAGAATCA 59.625 34.615 0.00 0.00 33.58 2.57
910 1128 5.003160 ACACCGATCAATTCATTTCACAGA 58.997 37.500 0.00 0.00 0.00 3.41
929 1149 6.319141 AGCAAATTGTAGAGAAGAAACACC 57.681 37.500 0.00 0.00 0.00 4.16
954 1174 3.196685 AGTCAATCTAGAACTCCACCTGC 59.803 47.826 0.00 0.00 0.00 4.85
968 1188 5.251764 CAAATTCCTCTGACCAGTCAATCT 58.748 41.667 1.58 0.00 39.39 2.40
975 1195 1.815003 GCACCAAATTCCTCTGACCAG 59.185 52.381 0.00 0.00 0.00 4.00
976 1196 1.547675 GGCACCAAATTCCTCTGACCA 60.548 52.381 0.00 0.00 0.00 4.02
998 1219 1.755395 GGCATCTTGGGCAGCATGA 60.755 57.895 0.00 0.00 39.69 3.07
1197 1421 3.015145 GGGGGCTTGCAGTAGGGA 61.015 66.667 0.00 0.00 0.00 4.20
1488 1712 0.394565 AATCCTCGCTGCTACCCATC 59.605 55.000 0.00 0.00 0.00 3.51
1548 1772 1.003580 ACATCACCTTGTGCCTGGTAG 59.996 52.381 0.00 0.00 34.79 3.18
1836 2072 1.139058 GCACCGTCCATCTTCAGGTAT 59.861 52.381 0.00 0.00 33.30 2.73
1911 2150 8.628630 TCAAGAATATGACAAACACAATACCA 57.371 30.769 0.00 0.00 0.00 3.25
2004 2243 1.914798 AGCTTCCATCCTGAAAGCTCT 59.085 47.619 3.13 0.00 28.97 4.09
2772 3027 2.190325 ATAGGAAGACGAAGAACGCG 57.810 50.000 3.53 3.53 46.94 6.01
2994 3249 5.730296 AGGGATAACTATCACCAGAATCG 57.270 43.478 0.00 0.00 36.79 3.34
3205 3461 4.658063 TCAACAAGTCCCCGATAACAAAT 58.342 39.130 0.00 0.00 0.00 2.32
3258 3514 5.560966 AAACGTCAAAACAGATCACAAGT 57.439 34.783 0.00 0.00 0.00 3.16
3407 3663 4.583871 AGCTCCTACCAGATTCAAACTTG 58.416 43.478 0.00 0.00 0.00 3.16
3441 3697 2.456073 ACAACCTACGCCCTAGATCT 57.544 50.000 0.00 0.00 0.00 2.75
3851 4114 0.032952 AGCTGTCGCGAAGGTGTTTA 59.967 50.000 12.06 0.00 42.32 2.01


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

AutoCloner maintained by Alex Coulton.