Multiple sequence alignment - TraesCS2A01G504300

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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 TraesCS2A01G504300 chr2A 100.000 2919 0 0 1 2919 733218464 733215546 0.000000e+00 5391
1 TraesCS2A01G504300 chr2D 94.359 1365 45 16 801 2159 599004109 599002771 0.000000e+00 2065
2 TraesCS2A01G504300 chr2D 95.477 199 4 1 2721 2919 599002776 599002583 2.180000e-81 313
3 TraesCS2A01G504300 chr2B 92.914 1383 60 11 801 2159 728398717 728397349 0.000000e+00 1977
4 TraesCS2A01G504300 chr2B 88.038 209 11 7 2721 2919 728397354 728397150 4.860000e-58 235
5 TraesCS2A01G504300 chr7D 94.862 798 34 3 1 796 635392717 635393509 0.000000e+00 1240
6 TraesCS2A01G504300 chr7D 80.000 325 60 3 1133 1453 22624659 22624336 4.860000e-58 235
7 TraesCS2A01G504300 chr7A 93.766 802 42 5 1 800 459207619 459206824 0.000000e+00 1197
8 TraesCS2A01G504300 chr7A 92.509 801 53 5 1 800 163375133 163374339 0.000000e+00 1140
9 TraesCS2A01G504300 chr7A 88.255 596 45 14 2150 2722 645718597 645718004 0.000000e+00 689
10 TraesCS2A01G504300 chr7A 87.925 588 46 8 2159 2724 645714209 645713625 0.000000e+00 669
11 TraesCS2A01G504300 chr7A 87.479 591 45 14 2159 2722 78714111 78713523 0.000000e+00 654
12 TraesCS2A01G504300 chr7A 80.124 322 59 3 1133 1450 22976901 22976581 4.860000e-58 235
13 TraesCS2A01G504300 chr1A 93.383 801 46 5 1 800 535412112 535412906 0.000000e+00 1179
14 TraesCS2A01G504300 chr1A 91.910 754 43 6 1 751 570444602 570443864 0.000000e+00 1038
15 TraesCS2A01G504300 chr1A 81.126 302 50 6 1134 1433 337776906 337776610 4.860000e-58 235
16 TraesCS2A01G504300 chr5D 93.358 798 40 7 1 796 515643140 515642354 0.000000e+00 1168
17 TraesCS2A01G504300 chr5A 92.547 805 45 8 1 801 471513351 471514144 0.000000e+00 1140
18 TraesCS2A01G504300 chr5A 91.885 801 47 10 1 800 59025216 59024433 0.000000e+00 1103
19 TraesCS2A01G504300 chr5A 88.737 586 42 11 2160 2722 692379298 692378714 0.000000e+00 695
20 TraesCS2A01G504300 chr1B 92.010 801 57 4 1 800 491698794 491698000 0.000000e+00 1118
21 TraesCS2A01G504300 chr1B 90.753 584 33 8 2160 2722 520118885 520118302 0.000000e+00 760
22 TraesCS2A01G504300 chr1B 90.427 585 35 8 2159 2722 520102335 520101751 0.000000e+00 750
23 TraesCS2A01G504300 chr1B 84.127 315 47 1 1133 1447 349547298 349546987 4.730000e-78 302
24 TraesCS2A01G504300 chr4B 91.760 801 58 5 1 799 150733558 150732764 0.000000e+00 1107
25 TraesCS2A01G504300 chr4B 90.582 584 33 5 2160 2722 642637287 642636705 0.000000e+00 754
26 TraesCS2A01G504300 chr4B 88.861 404 40 5 390 792 496220441 496220840 2.610000e-135 492
27 TraesCS2A01G504300 chr4B 87.678 422 29 11 2 404 496218417 496218834 1.220000e-128 470
28 TraesCS2A01G504300 chr7B 90.428 794 67 7 10 800 658118323 658119110 0.000000e+00 1037
29 TraesCS2A01G504300 chr7B 86.294 591 52 16 2160 2725 27060804 27061390 1.490000e-172 616
30 TraesCS2A01G504300 chr6B 90.012 801 48 10 1 800 67406678 67407447 0.000000e+00 1007
31 TraesCS2A01G504300 chr6B 88.586 587 43 11 2159 2723 583273861 583273277 0.000000e+00 691
32 TraesCS2A01G504300 chr6B 84.088 685 77 24 123 796 67513916 67513253 1.480000e-177 632
33 TraesCS2A01G504300 chr3B 88.908 586 40 11 2160 2722 545448476 545449059 0.000000e+00 699
34 TraesCS2A01G504300 chr3B 86.819 569 58 6 2158 2722 222179098 222178543 1.150000e-173 619
35 TraesCS2A01G504300 chr3D 88.136 590 44 12 2154 2721 520446611 520447196 0.000000e+00 678
36 TraesCS2A01G504300 chr3D 81.191 319 50 7 1133 1449 544439625 544439935 6.250000e-62 248
37 TraesCS2A01G504300 chr3D 80.120 332 50 11 1121 1444 363249638 363249961 1.750000e-57 233
38 TraesCS2A01G504300 chr3A 88.165 583 47 11 2162 2723 750641812 750642393 0.000000e+00 675
39 TraesCS2A01G504300 chr3A 82.188 320 44 10 1133 1449 681396066 681396375 2.230000e-66 263
40 TraesCS2A01G504300 chr4A 85.240 603 61 14 2145 2721 719114990 719115590 1.940000e-166 595
41 TraesCS2A01G504300 chr4A 80.969 289 47 4 1133 1420 705546377 705546096 3.790000e-54 222
42 TraesCS2A01G504300 chr5B 94.191 241 9 2 1 240 631471905 631471669 2.140000e-96 363
43 TraesCS2A01G504300 chr1D 83.333 312 49 1 1133 1444 262287840 262288148 4.760000e-73 285
44 TraesCS2A01G504300 chr6D 80.233 344 52 12 3 338 452131589 452131924 8.080000e-61 244


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 TraesCS2A01G504300 chr2A 733215546 733218464 2918 True 5391 5391 100.0000 1 2919 1 chr2A.!!$R1 2918
1 TraesCS2A01G504300 chr2D 599002583 599004109 1526 True 1189 2065 94.9180 801 2919 2 chr2D.!!$R1 2118
2 TraesCS2A01G504300 chr2B 728397150 728398717 1567 True 1106 1977 90.4760 801 2919 2 chr2B.!!$R1 2118
3 TraesCS2A01G504300 chr7D 635392717 635393509 792 False 1240 1240 94.8620 1 796 1 chr7D.!!$F1 795
4 TraesCS2A01G504300 chr7A 459206824 459207619 795 True 1197 1197 93.7660 1 800 1 chr7A.!!$R4 799
5 TraesCS2A01G504300 chr7A 163374339 163375133 794 True 1140 1140 92.5090 1 800 1 chr7A.!!$R3 799
6 TraesCS2A01G504300 chr7A 645713625 645718597 4972 True 679 689 88.0900 2150 2724 2 chr7A.!!$R5 574
7 TraesCS2A01G504300 chr7A 78713523 78714111 588 True 654 654 87.4790 2159 2722 1 chr7A.!!$R2 563
8 TraesCS2A01G504300 chr1A 535412112 535412906 794 False 1179 1179 93.3830 1 800 1 chr1A.!!$F1 799
9 TraesCS2A01G504300 chr1A 570443864 570444602 738 True 1038 1038 91.9100 1 751 1 chr1A.!!$R2 750
10 TraesCS2A01G504300 chr5D 515642354 515643140 786 True 1168 1168 93.3580 1 796 1 chr5D.!!$R1 795
11 TraesCS2A01G504300 chr5A 471513351 471514144 793 False 1140 1140 92.5470 1 801 1 chr5A.!!$F1 800
12 TraesCS2A01G504300 chr5A 59024433 59025216 783 True 1103 1103 91.8850 1 800 1 chr5A.!!$R1 799
13 TraesCS2A01G504300 chr5A 692378714 692379298 584 True 695 695 88.7370 2160 2722 1 chr5A.!!$R2 562
14 TraesCS2A01G504300 chr1B 491698000 491698794 794 True 1118 1118 92.0100 1 800 1 chr1B.!!$R2 799
15 TraesCS2A01G504300 chr1B 520118302 520118885 583 True 760 760 90.7530 2160 2722 1 chr1B.!!$R4 562
16 TraesCS2A01G504300 chr1B 520101751 520102335 584 True 750 750 90.4270 2159 2722 1 chr1B.!!$R3 563
17 TraesCS2A01G504300 chr4B 150732764 150733558 794 True 1107 1107 91.7600 1 799 1 chr4B.!!$R1 798
18 TraesCS2A01G504300 chr4B 642636705 642637287 582 True 754 754 90.5820 2160 2722 1 chr4B.!!$R2 562
19 TraesCS2A01G504300 chr4B 496218417 496220840 2423 False 481 492 88.2695 2 792 2 chr4B.!!$F1 790
20 TraesCS2A01G504300 chr7B 658118323 658119110 787 False 1037 1037 90.4280 10 800 1 chr7B.!!$F2 790
21 TraesCS2A01G504300 chr7B 27060804 27061390 586 False 616 616 86.2940 2160 2725 1 chr7B.!!$F1 565
22 TraesCS2A01G504300 chr6B 67406678 67407447 769 False 1007 1007 90.0120 1 800 1 chr6B.!!$F1 799
23 TraesCS2A01G504300 chr6B 583273277 583273861 584 True 691 691 88.5860 2159 2723 1 chr6B.!!$R2 564
24 TraesCS2A01G504300 chr6B 67513253 67513916 663 True 632 632 84.0880 123 796 1 chr6B.!!$R1 673
25 TraesCS2A01G504300 chr3B 545448476 545449059 583 False 699 699 88.9080 2160 2722 1 chr3B.!!$F1 562
26 TraesCS2A01G504300 chr3B 222178543 222179098 555 True 619 619 86.8190 2158 2722 1 chr3B.!!$R1 564
27 TraesCS2A01G504300 chr3D 520446611 520447196 585 False 678 678 88.1360 2154 2721 1 chr3D.!!$F2 567
28 TraesCS2A01G504300 chr3A 750641812 750642393 581 False 675 675 88.1650 2162 2723 1 chr3A.!!$F2 561
29 TraesCS2A01G504300 chr4A 719114990 719115590 600 False 595 595 85.2400 2145 2721 1 chr4A.!!$F1 576

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
821 2526 0.108138 GGCGCTGTCTGGTCATACTT 60.108 55.0 7.64 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2724 8870 0.037326 CACTCCGCTGGTTCTGCTTA 60.037 55.0 0.0 0.0 0.0 3.09 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
69 70 9.676195 TTCAATTGACTAAATGTAATGTGTGTG 57.324 29.630 7.89 0.00 0.00 3.82
70 71 8.845227 TCAATTGACTAAATGTAATGTGTGTGT 58.155 29.630 3.38 0.00 0.00 3.72
74 75 9.509855 TTGACTAAATGTAATGTGTGTGTTTTC 57.490 29.630 0.00 0.00 0.00 2.29
75 76 8.898761 TGACTAAATGTAATGTGTGTGTTTTCT 58.101 29.630 0.00 0.00 0.00 2.52
76 77 9.169468 GACTAAATGTAATGTGTGTGTTTTCTG 57.831 33.333 0.00 0.00 0.00 3.02
78 79 9.729023 CTAAATGTAATGTGTGTGTTTTCTGAA 57.271 29.630 0.00 0.00 0.00 3.02
79 80 8.994429 AAATGTAATGTGTGTGTTTTCTGAAA 57.006 26.923 0.00 0.00 0.00 2.69
83 84 9.729023 TGTAATGTGTGTGTTTTCTGAAATAAG 57.271 29.630 3.31 0.00 0.00 1.73
85 86 8.633075 AATGTGTGTGTTTTCTGAAATAAGTG 57.367 30.769 3.31 0.00 0.00 3.16
86 87 7.384439 TGTGTGTGTTTTCTGAAATAAGTGA 57.616 32.000 3.31 0.00 0.00 3.41
87 88 7.821652 TGTGTGTGTTTTCTGAAATAAGTGAA 58.178 30.769 3.31 0.00 0.00 3.18
89 90 9.301153 GTGTGTGTTTTCTGAAATAAGTGAAAT 57.699 29.630 3.31 0.00 0.00 2.17
90 91 9.868277 TGTGTGTTTTCTGAAATAAGTGAAATT 57.132 25.926 3.31 0.00 0.00 1.82
108 109 9.450807 AGTGAAATTAGTTTCTTGAAACGAATG 57.549 29.630 24.31 0.00 43.30 2.67
109 110 9.445786 GTGAAATTAGTTTCTTGAAACGAATGA 57.554 29.630 24.31 14.49 43.30 2.57
350 417 9.274065 GTGAAATAATTTGTTCGGAATGAGTAC 57.726 33.333 0.00 0.00 0.00 2.73
351 418 9.226606 TGAAATAATTTGTTCGGAATGAGTACT 57.773 29.630 0.00 0.00 0.00 2.73
624 2327 4.744795 ATCAGTCACCCACTAAGTCATC 57.255 45.455 0.00 0.00 32.21 2.92
760 2465 6.431234 AGAAAGCAATTGAACGGTAGATTCTT 59.569 34.615 10.34 0.00 0.00 2.52
819 2524 1.521681 GGGCGCTGTCTGGTCATAC 60.522 63.158 7.64 0.00 0.00 2.39
820 2525 1.517832 GGCGCTGTCTGGTCATACT 59.482 57.895 7.64 0.00 0.00 2.12
821 2526 0.108138 GGCGCTGTCTGGTCATACTT 60.108 55.000 7.64 0.00 0.00 2.24
844 2551 5.008331 TGTAGACGAAGGAGTTAGTGTGAT 58.992 41.667 0.00 0.00 0.00 3.06
902 2609 8.122952 CCCACAAGAATATTTTCTATCGTTGTC 58.877 37.037 0.00 0.00 41.42 3.18
903 2610 7.846107 CCACAAGAATATTTTCTATCGTTGTCG 59.154 37.037 0.00 0.00 41.42 4.35
905 2612 9.577110 ACAAGAATATTTTCTATCGTTGTCGTA 57.423 29.630 0.00 0.00 41.42 3.43
908 2615 7.866393 AGAATATTTTCTATCGTTGTCGTAGGG 59.134 37.037 0.00 0.00 40.47 3.53
1029 2737 4.969196 CGTGTGCTGTGCCGTCCT 62.969 66.667 0.00 0.00 0.00 3.85
1036 2744 3.649277 CTGTGCCGTCCTTCCCTCG 62.649 68.421 0.00 0.00 0.00 4.63
1063 2771 3.493176 GCAGAACAAAAACCTCAGCCATT 60.493 43.478 0.00 0.00 0.00 3.16
1461 3169 2.436417 GACCAGGTAAGAATGCAGCAA 58.564 47.619 0.00 0.00 0.00 3.91
1462 3170 3.019564 GACCAGGTAAGAATGCAGCAAT 58.980 45.455 0.00 0.00 0.00 3.56
1489 3197 2.368875 AGATGAACACCGACACCTTTCT 59.631 45.455 0.00 0.00 0.00 2.52
1636 3344 2.203126 CAGAAGATGGAGGGCGCC 60.203 66.667 21.18 21.18 0.00 6.53
1661 3369 2.282745 AGTGCTCCAAGGGCAAGC 60.283 61.111 0.00 0.00 41.54 4.01
1726 3434 3.186047 GGGTTCGTCGCGTGGATG 61.186 66.667 5.77 0.00 0.00 3.51
1875 3583 3.777925 CGAGTTCGCCAAGCACGG 61.778 66.667 0.00 0.00 0.00 4.94
1904 3612 1.742761 GCTGCTCCAGAAACTGCATA 58.257 50.000 0.00 0.00 34.79 3.14
1905 3613 1.669779 GCTGCTCCAGAAACTGCATAG 59.330 52.381 0.00 0.00 34.79 2.23
1906 3614 2.938756 GCTGCTCCAGAAACTGCATAGT 60.939 50.000 0.00 0.00 34.02 2.12
1907 3615 3.679917 GCTGCTCCAGAAACTGCATAGTA 60.680 47.826 0.00 0.00 32.29 1.82
1967 3676 1.602377 CCGACCATTTAAGGCGGATTC 59.398 52.381 1.24 0.00 45.20 2.52
1976 3685 5.347620 TTTAAGGCGGATTCTACTGCTAA 57.652 39.130 0.00 0.00 41.36 3.09
2032 3741 2.783135 GAAAGAAGGATGCACAGTGGA 58.217 47.619 1.84 0.00 0.00 4.02
2065 3774 2.401766 GGTGCTCAGCAATCGTGGG 61.402 63.158 0.00 0.00 41.47 4.61
2068 3777 0.323302 TGCTCAGCAATCGTGGGTTA 59.677 50.000 0.00 0.00 34.76 2.85
2069 3778 1.009829 GCTCAGCAATCGTGGGTTAG 58.990 55.000 0.00 0.00 0.00 2.34
2070 3779 1.656652 CTCAGCAATCGTGGGTTAGG 58.343 55.000 0.00 0.00 0.00 2.69
2071 3780 0.251916 TCAGCAATCGTGGGTTAGGG 59.748 55.000 0.00 0.00 0.00 3.53
2079 3788 2.045438 TGGGTTAGGGCACATGCG 60.045 61.111 0.00 0.00 43.26 4.73
2209 3944 2.039084 CCCCTATTCCTCTGCGCTTATT 59.961 50.000 9.73 0.00 0.00 1.40
2216 3951 1.202371 CCTCTGCGCTTATTCGTGGTA 60.202 52.381 9.73 0.00 0.00 3.25
2249 3984 1.892769 CGCATATCTGAGGCTAGGGGA 60.893 57.143 0.00 0.00 30.73 4.81
2309 4049 7.432869 CACCTCTTCTACAGATAAGATTCCTG 58.567 42.308 0.00 0.00 31.60 3.86
2323 4063 9.838339 GATAAGATTCCTGGTCTTTTCATCTAA 57.162 33.333 5.05 0.00 37.18 2.10
2354 4095 6.432403 GGATAGAGTCCAGATCAAATTCCT 57.568 41.667 0.00 0.00 46.96 3.36
2355 4096 6.463360 GGATAGAGTCCAGATCAAATTCCTC 58.537 44.000 0.00 0.00 46.96 3.71
2361 4125 5.422331 AGTCCAGATCAAATTCCTCTAACGA 59.578 40.000 0.00 0.00 0.00 3.85
2449 8590 7.233389 TCCTCTAATTATGTAGACCAGCATC 57.767 40.000 0.00 0.00 0.00 3.91
2452 8593 7.039434 CCTCTAATTATGTAGACCAGCATCAGA 60.039 40.741 0.00 0.00 0.00 3.27
2494 8635 5.954752 TGATCTAGCTCCTTCCGATTATCAT 59.045 40.000 0.00 0.00 0.00 2.45
2724 8870 5.068198 GCAGGACACATAATTCCAACATGAT 59.932 40.000 0.00 0.00 33.92 2.45
2725 8871 6.262944 GCAGGACACATAATTCCAACATGATA 59.737 38.462 0.00 0.00 33.92 2.15
2772 8918 2.384382 GAGCATTTGTTGGTTGTCACG 58.616 47.619 0.00 0.00 35.82 4.35
2773 8919 1.748493 AGCATTTGTTGGTTGTCACGT 59.252 42.857 0.00 0.00 29.87 4.49
2775 8921 3.040099 GCATTTGTTGGTTGTCACGTAC 58.960 45.455 0.00 0.00 0.00 3.67
2776 8922 3.487711 GCATTTGTTGGTTGTCACGTACA 60.488 43.478 0.00 0.00 35.88 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 9.676195 CACACACATTACATTTAGTCAATTGAA 57.324 29.630 10.35 0.00 0.00 2.69
45 46 9.462174 AACACACACATTACATTTAGTCAATTG 57.538 29.630 0.00 0.00 0.00 2.32
48 49 9.509855 GAAAACACACACATTACATTTAGTCAA 57.490 29.630 0.00 0.00 0.00 3.18
50 51 9.169468 CAGAAAACACACACATTACATTTAGTC 57.831 33.333 0.00 0.00 0.00 2.59
51 52 8.898761 TCAGAAAACACACACATTACATTTAGT 58.101 29.630 0.00 0.00 0.00 2.24
52 53 9.729023 TTCAGAAAACACACACATTACATTTAG 57.271 29.630 0.00 0.00 0.00 1.85
54 55 8.994429 TTTCAGAAAACACACACATTACATTT 57.006 26.923 0.00 0.00 0.00 2.32
58 59 9.730420 ACTTATTTCAGAAAACACACACATTAC 57.270 29.630 0.00 0.00 0.00 1.89
59 60 9.729023 CACTTATTTCAGAAAACACACACATTA 57.271 29.630 0.00 0.00 0.00 1.90
63 64 8.682128 TTTCACTTATTTCAGAAAACACACAC 57.318 30.769 0.00 0.00 0.00 3.82
64 65 9.868277 AATTTCACTTATTTCAGAAAACACACA 57.132 25.926 0.00 0.00 34.13 3.72
82 83 9.450807 CATTCGTTTCAAGAAACTAATTTCACT 57.549 29.630 19.83 1.42 45.78 3.41
83 84 9.445786 TCATTCGTTTCAAGAAACTAATTTCAC 57.554 29.630 19.83 0.00 45.78 3.18
322 389 8.023128 ACTCATTCCGAACAAATTATTTCACTG 58.977 33.333 0.00 0.00 0.00 3.66
624 2327 2.676839 CAGATGTGTGGCAGCTTTAGAG 59.323 50.000 0.00 0.00 41.72 2.43
819 2524 5.048921 TCACACTAACTCCTTCGTCTACAAG 60.049 44.000 0.00 0.00 0.00 3.16
820 2525 4.823442 TCACACTAACTCCTTCGTCTACAA 59.177 41.667 0.00 0.00 0.00 2.41
821 2526 4.392047 TCACACTAACTCCTTCGTCTACA 58.608 43.478 0.00 0.00 0.00 2.74
844 2551 2.673258 TGGACGGTGAATAGATAGCCA 58.327 47.619 0.00 0.00 0.00 4.75
875 2582 7.067008 ACAACGATAGAAAATATTCTTGTGGGG 59.933 37.037 0.00 0.00 43.43 4.96
891 2598 1.027357 GGCCCTACGACAACGATAGA 58.973 55.000 0.00 0.00 42.66 1.98
999 2707 5.562890 GCACAGCACACGATCTATAGTCATA 60.563 44.000 0.00 0.00 0.00 2.15
1000 2708 4.794329 GCACAGCACACGATCTATAGTCAT 60.794 45.833 0.00 0.00 0.00 3.06
1001 2709 3.489229 GCACAGCACACGATCTATAGTCA 60.489 47.826 0.00 0.00 0.00 3.41
1002 2710 3.046390 GCACAGCACACGATCTATAGTC 58.954 50.000 0.00 0.00 0.00 2.59
1003 2711 2.223829 GGCACAGCACACGATCTATAGT 60.224 50.000 0.00 0.00 0.00 2.12
1004 2712 2.398498 GGCACAGCACACGATCTATAG 58.602 52.381 0.00 0.00 0.00 1.31
1029 2737 2.994995 TTCTGCGCTCCGAGGGAA 60.995 61.111 16.27 4.74 0.00 3.97
1036 2744 0.668535 AGGTTTTTGTTCTGCGCTCC 59.331 50.000 9.73 0.00 0.00 4.70
1461 3169 3.623060 GTGTCGGTGTTCATCTGCAATAT 59.377 43.478 0.00 0.00 0.00 1.28
1462 3170 3.000041 GTGTCGGTGTTCATCTGCAATA 59.000 45.455 0.00 0.00 0.00 1.90
1489 3197 5.529791 GCAAGGATCTACGATTAAGTAGCA 58.470 41.667 0.00 0.00 42.73 3.49
1543 3251 1.683790 CGAACGCCTTGATCCACGAC 61.684 60.000 0.00 0.00 0.00 4.34
1636 3344 2.048222 TTGGAGCACTCGCCGAAG 60.048 61.111 0.00 0.00 39.83 3.79
1904 3612 4.395959 TCACTGGTCAGTTTTTCGTACT 57.604 40.909 0.20 0.00 40.20 2.73
1905 3613 5.693104 TGTATCACTGGTCAGTTTTTCGTAC 59.307 40.000 0.20 0.83 40.20 3.67
1906 3614 5.693104 GTGTATCACTGGTCAGTTTTTCGTA 59.307 40.000 0.20 0.00 40.20 3.43
1907 3615 4.510340 GTGTATCACTGGTCAGTTTTTCGT 59.490 41.667 0.20 0.00 40.20 3.85
1976 3685 1.066143 CACCAATTCGAGGCCTACTGT 60.066 52.381 4.42 0.00 0.00 3.55
1980 3689 1.223487 GCCACCAATTCGAGGCCTA 59.777 57.895 4.42 0.00 41.25 3.93
2050 3759 1.009829 CTAACCCACGATTGCTGAGC 58.990 55.000 0.00 0.00 0.00 4.26
2065 3774 0.868406 GATAGCGCATGTGCCCTAAC 59.132 55.000 26.95 9.53 35.37 2.34
2068 3777 0.533755 GAAGATAGCGCATGTGCCCT 60.534 55.000 26.95 18.18 37.91 5.19
2069 3778 0.533755 AGAAGATAGCGCATGTGCCC 60.534 55.000 26.95 16.29 37.91 5.36
2070 3779 1.262683 GAAGAAGATAGCGCATGTGCC 59.737 52.381 26.95 12.47 37.91 5.01
2071 3780 1.935873 TGAAGAAGATAGCGCATGTGC 59.064 47.619 23.64 23.64 37.78 4.57
2079 3788 6.674694 AATGTCACACATGAAGAAGATAGC 57.325 37.500 0.00 0.00 37.97 2.97
2118 3849 6.183360 CCCCGAATAAGTATTTGAAAAGGCAT 60.183 38.462 0.56 0.00 30.22 4.40
2209 3944 2.406130 GAATTGTGAACGGTACCACGA 58.594 47.619 13.54 2.41 36.15 4.35
2216 3951 3.309682 CAGATATGCGAATTGTGAACGGT 59.690 43.478 0.00 0.00 0.00 4.83
2249 3984 7.750947 AAACACAGTATAAGAAGGTCCCTAT 57.249 36.000 0.00 0.00 0.00 2.57
2292 4028 8.260818 TGAAAAGACCAGGAATCTTATCTGTAG 58.739 37.037 0.00 0.00 35.31 2.74
2309 4049 5.650703 TCCCGGAAAATTAGATGAAAAGACC 59.349 40.000 0.73 0.00 0.00 3.85
2352 4093 4.382345 AACGGGTAGAATTCGTTAGAGG 57.618 45.455 0.00 0.00 43.88 3.69
2361 4125 2.103601 CGGGGACATAACGGGTAGAATT 59.896 50.000 0.00 0.00 0.00 2.17
2445 8586 4.647424 AGTTAGACTACAGCTCTGATGC 57.353 45.455 3.60 0.00 0.00 3.91
2449 8590 9.448438 AGATCATATAGTTAGACTACAGCTCTG 57.552 37.037 0.00 0.00 32.84 3.35
2452 8593 9.391006 GCTAGATCATATAGTTAGACTACAGCT 57.609 37.037 0.00 0.00 32.84 4.24
2459 8600 8.899771 GGAAGGAGCTAGATCATATAGTTAGAC 58.100 40.741 10.68 0.00 0.00 2.59
2494 8635 1.901833 GGAAAGACTACCCGGGTACAA 59.098 52.381 30.02 12.31 0.00 2.41
2584 8729 8.929260 ATTATCATGGAATTATCACTTGCTGA 57.071 30.769 0.00 0.00 0.00 4.26
2724 8870 0.037326 CACTCCGCTGGTTCTGCTTA 60.037 55.000 0.00 0.00 0.00 3.09
2725 8871 1.302033 CACTCCGCTGGTTCTGCTT 60.302 57.895 0.00 0.00 0.00 3.91
2887 9043 7.342026 AGGAAGTTCAGTTTTACTGGAAACAAT 59.658 33.333 5.01 0.15 45.94 2.71
2890 9046 6.694877 AGGAAGTTCAGTTTTACTGGAAAC 57.305 37.500 5.01 5.42 45.94 2.78


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

AutoCloner maintained by Alex Coulton.