Multiple sequence alignment - TraesCS2A01G486800

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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 TraesCS2A01G486800 chr2A 100.000 5947 0 0 1 5947 721738945 721732999 0.000000e+00 10983
1 TraesCS2A01G486800 chr2A 97.671 2834 61 5 513 3344 195116268 195113438 0.000000e+00 4863
2 TraesCS2A01G486800 chr2A 97.598 1957 38 5 3375 5323 195113461 195111506 0.000000e+00 3345
3 TraesCS2A01G486800 chr2A 97.847 418 8 1 5531 5947 195111064 195110647 0.000000e+00 721
4 TraesCS2A01G486800 chr2A 96.237 372 12 2 130 499 195116627 195116256 5.100000e-170 608
5 TraesCS2A01G486800 chr2A 93.220 236 16 0 133 368 281673923 281673688 1.230000e-91 348
6 TraesCS2A01G486800 chr2A 92.857 238 17 0 131 368 281670966 281670729 4.410000e-91 346
7 TraesCS2A01G486800 chr2A 91.632 239 18 2 130 368 281679546 281679310 4.440000e-86 329
8 TraesCS2A01G486800 chr7A 97.605 3215 42 4 131 3344 678167941 678171121 0.000000e+00 5478
9 TraesCS2A01G486800 chr7A 97.406 2583 31 9 3375 5947 678171098 678173654 0.000000e+00 4366
10 TraesCS2A01G486800 chr7A 88.690 168 18 1 424 590 679165599 679165432 2.810000e-48 204
11 TraesCS2A01G486800 chr7A 83.453 139 22 1 1 139 432145430 432145293 1.740000e-25 128
12 TraesCS2A01G486800 chr1A 98.060 2835 49 5 513 3344 14525368 14528199 0.000000e+00 4926
13 TraesCS2A01G486800 chr1A 97.935 2082 38 4 3462 5539 14528248 14530328 0.000000e+00 3602
14 TraesCS2A01G486800 chr1A 98.086 418 7 1 5531 5947 14530367 14530784 0.000000e+00 726
15 TraesCS2A01G486800 chr1A 95.148 371 16 2 131 499 14525010 14525380 8.590000e-163 584
16 TraesCS2A01G486800 chr1A 91.525 354 15 7 805 1143 13764724 13765077 1.940000e-129 473
17 TraesCS2A01G486800 chr1A 85.714 126 18 0 1 126 575459240 575459365 3.740000e-27 134
18 TraesCS2A01G486800 chr1A 92.208 77 0 2 3375 3445 14528176 14528252 2.930000e-18 104
19 TraesCS2A01G486800 chr1B 97.742 2834 59 5 513 3344 154151372 154148542 0.000000e+00 4874
20 TraesCS2A01G486800 chr1B 97.701 1957 36 5 3375 5323 154148565 154146610 0.000000e+00 3356
21 TraesCS2A01G486800 chr1B 90.615 1236 79 19 3664 4871 55535652 55536878 0.000000e+00 1605
22 TraesCS2A01G486800 chr1B 95.561 766 11 8 5205 5947 154146541 154145776 0.000000e+00 1205
23 TraesCS2A01G486800 chr1B 95.676 370 15 1 131 499 154151729 154151360 1.430000e-165 593
24 TraesCS2A01G486800 chr7D 97.055 2309 41 6 3664 5947 509913592 509915898 0.000000e+00 3862
25 TraesCS2A01G486800 chr7D 97.769 1569 30 4 1781 3344 509910724 509912292 0.000000e+00 2699
26 TraesCS2A01G486800 chr7D 93.305 1434 46 4 398 1781 509909321 509910754 0.000000e+00 2071
27 TraesCS2A01G486800 chr7D 96.382 304 5 2 3375 3672 509912269 509912572 4.140000e-136 496
28 TraesCS2A01G486800 chr7D 93.665 221 14 0 383 603 501018824 501019044 1.240000e-86 331
29 TraesCS2A01G486800 chr7D 88.942 208 21 2 587 793 162188713 162188507 7.650000e-64 255
30 TraesCS2A01G486800 chr7D 85.185 216 19 6 388 590 587258950 587258735 6.040000e-50 209
31 TraesCS2A01G486800 chr5D 97.245 2287 44 10 3664 5947 551019707 551021977 0.000000e+00 3856
32 TraesCS2A01G486800 chr5D 95.929 2309 52 17 3664 5947 254532954 254535245 0.000000e+00 3705
33 TraesCS2A01G486800 chr5D 97.642 1569 32 4 1781 3344 254530084 254531652 0.000000e+00 2687
34 TraesCS2A01G486800 chr5D 97.315 1564 38 4 1785 3344 551016845 551018408 0.000000e+00 2652
35 TraesCS2A01G486800 chr5D 92.491 1345 44 7 487 1781 551015534 551016871 0.000000e+00 1871
36 TraesCS2A01G486800 chr5D 91.159 1346 44 5 487 1781 254528793 254530114 0.000000e+00 1757
37 TraesCS2A01G486800 chr5D 97.039 304 2 3 3375 3672 551018385 551018687 6.880000e-139 505
38 TraesCS2A01G486800 chr5D 96.711 304 4 2 3375 3672 254531629 254531932 8.900000e-138 501
39 TraesCS2A01G486800 chr5D 93.919 148 9 0 380 527 551015375 551015522 2.160000e-54 224
40 TraesCS2A01G486800 chr4D 96.594 1703 33 6 3664 5364 40831533 40829854 0.000000e+00 2800
41 TraesCS2A01G486800 chr4D 97.706 1569 31 5 1781 3344 40834402 40832834 0.000000e+00 2693
42 TraesCS2A01G486800 chr4D 92.469 1434 49 8 398 1781 40835796 40834372 0.000000e+00 1995
43 TraesCS2A01G486800 chr4D 97.368 418 10 1 5531 5947 40829776 40829359 0.000000e+00 710
44 TraesCS2A01G486800 chr4D 96.053 304 6 2 3375 3672 40832857 40832554 1.930000e-134 490
45 TraesCS2A01G486800 chr4D 86.486 407 44 5 5541 5947 315817551 315817156 2.540000e-118 436
46 TraesCS2A01G486800 chr4D 90.514 253 20 4 131 382 100763053 100763302 1.240000e-86 331
47 TraesCS2A01G486800 chr6D 96.078 561 20 2 2257 2815 39580594 39581154 0.000000e+00 913
48 TraesCS2A01G486800 chr6D 94.855 447 23 0 1335 1781 39577318 39577764 0.000000e+00 699
49 TraesCS2A01G486800 chr6D 95.224 335 14 1 1932 2264 39578109 39578443 4.080000e-146 529
50 TraesCS2A01G486800 chr6D 96.667 150 4 1 1781 1929 39577734 39577883 1.280000e-61 248
51 TraesCS2A01G486800 chr1D 91.629 657 46 7 4889 5542 479502638 479501988 0.000000e+00 900
52 TraesCS2A01G486800 chr1D 92.023 351 13 4 805 1140 11620273 11620623 4.170000e-131 479
53 TraesCS2A01G486800 chrUn 91.061 660 50 7 4886 5542 260016236 260016889 0.000000e+00 883
54 TraesCS2A01G486800 chrUn 100.000 411 0 0 2828 3238 477629458 477629048 0.000000e+00 760
55 TraesCS2A01G486800 chr5A 91.406 256 22 0 128 383 487695089 487695344 9.480000e-93 351
56 TraesCS2A01G486800 chr4A 91.373 255 20 2 130 383 558667421 558667674 1.230000e-91 348
57 TraesCS2A01G486800 chr6A 89.960 249 22 3 131 378 27354204 27353958 9.620000e-83 318
58 TraesCS2A01G486800 chr5B 89.879 247 21 4 130 374 344640255 344640011 1.240000e-81 315
59 TraesCS2A01G486800 chr5B 86.607 224 24 5 1 220 433889147 433888926 5.950000e-60 243
60 TraesCS2A01G486800 chr6B 88.716 257 25 3 130 383 22926911 22926656 1.610000e-80 311
61 TraesCS2A01G486800 chr6B 87.121 132 17 0 1 132 182039312 182039181 3.710000e-32 150
62 TraesCS2A01G486800 chr6B 90.526 95 8 1 3 97 513688079 513687986 2.250000e-24 124
63 TraesCS2A01G486800 chr3A 87.111 225 21 3 375 592 329532430 329532653 1.280000e-61 248
64 TraesCS2A01G486800 chr3A 98.462 65 1 0 3607 3671 365952745 365952809 1.350000e-21 115
65 TraesCS2A01G486800 chr2D 88.889 126 14 0 1 126 639305892 639306017 7.980000e-34 156
66 TraesCS2A01G486800 chr2B 90.351 114 11 0 1 114 375576588 375576701 3.710000e-32 150
67 TraesCS2A01G486800 chr4B 85.484 124 18 0 3 126 616313960 616313837 4.840000e-26 130
68 TraesCS2A01G486800 chr4B 82.540 126 22 0 1 126 673235359 673235484 1.750000e-20 111
69 TraesCS2A01G486800 chr3D 93.827 81 2 2 1142 1219 535396181 535396261 1.050000e-22 119


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 TraesCS2A01G486800 chr2A 721732999 721738945 5946 True 10983.00 10983 100.00000 1 5947 1 chr2A.!!$R2 5946
1 TraesCS2A01G486800 chr2A 195110647 195116627 5980 True 2384.25 4863 97.33825 130 5947 4 chr2A.!!$R3 5817
2 TraesCS2A01G486800 chr2A 281670729 281673923 3194 True 347.00 348 93.03850 131 368 2 chr2A.!!$R4 237
3 TraesCS2A01G486800 chr7A 678167941 678173654 5713 False 4922.00 5478 97.50550 131 5947 2 chr7A.!!$F1 5816
4 TraesCS2A01G486800 chr1A 14525010 14530784 5774 False 1988.40 4926 96.28740 131 5947 5 chr1A.!!$F3 5816
5 TraesCS2A01G486800 chr1B 154145776 154151729 5953 True 2507.00 4874 96.67000 131 5947 4 chr1B.!!$R1 5816
6 TraesCS2A01G486800 chr1B 55535652 55536878 1226 False 1605.00 1605 90.61500 3664 4871 1 chr1B.!!$F1 1207
7 TraesCS2A01G486800 chr7D 509909321 509915898 6577 False 2282.00 3862 96.12775 398 5947 4 chr7D.!!$F2 5549
8 TraesCS2A01G486800 chr5D 254528793 254535245 6452 False 2162.50 3705 95.36025 487 5947 4 chr5D.!!$F1 5460
9 TraesCS2A01G486800 chr5D 551015375 551021977 6602 False 1821.60 3856 95.60180 380 5947 5 chr5D.!!$F2 5567
10 TraesCS2A01G486800 chr4D 40829359 40835796 6437 True 1737.60 2800 96.03800 398 5947 5 chr4D.!!$R2 5549
11 TraesCS2A01G486800 chr6D 39577318 39581154 3836 False 597.25 913 95.70600 1335 2815 4 chr6D.!!$F1 1480
12 TraesCS2A01G486800 chr1D 479501988 479502638 650 True 900.00 900 91.62900 4889 5542 1 chr1D.!!$R1 653
13 TraesCS2A01G486800 chrUn 260016236 260016889 653 False 883.00 883 91.06100 4886 5542 1 chrUn.!!$F1 656

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
415 446 1.048601 GACCCCTGGATCTATTCGCA 58.951 55.000 0.0 0.0 0.00 5.10 F
519 602 2.529389 AGGTCCCAAAGGAGGCGT 60.529 61.111 0.0 0.0 45.21 5.68 F
1000 1404 4.371786 CGATGAATCAGTTAGCAAGCCTA 58.628 43.478 0.0 0.0 0.00 3.93 F
1680 2388 1.270041 GCAATGGGAAGGCGAAAAACA 60.270 47.619 0.0 0.0 0.00 2.83 F
3238 6338 0.322456 GGTGGGTGTGCATCAAGCTA 60.322 55.000 0.0 0.0 45.94 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 2319 3.117738 CCCTTTAGCTGATGGTTCATCCT 60.118 47.826 9.26 0.13 39.87 3.24 R
1649 2357 4.581868 CCTTCCCATTGCATTCAACAAAT 58.418 39.130 0.00 0.00 34.60 2.32 R
2821 5920 3.593442 AAACAAGGTTGAGTCCCATGA 57.407 42.857 0.00 0.00 0.00 3.07 R
3345 6445 0.800631 AAAAGCCGTAAGCCGTAAGC 59.199 50.000 0.00 0.00 45.47 3.09 R
5060 10548 1.207089 TGATCTAGTGGGCTCAAACCG 59.793 52.381 0.00 0.00 0.00 4.44 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
52 53 7.730364 ATACTACTTTGTGTAATGCATAGCC 57.270 36.000 0.00 0.00 0.00 3.93
53 54 5.496556 ACTACTTTGTGTAATGCATAGCCA 58.503 37.500 0.00 0.00 0.00 4.75
54 55 6.122277 ACTACTTTGTGTAATGCATAGCCAT 58.878 36.000 0.00 0.00 0.00 4.40
55 56 7.279615 ACTACTTTGTGTAATGCATAGCCATA 58.720 34.615 0.00 0.00 0.00 2.74
56 57 7.773224 ACTACTTTGTGTAATGCATAGCCATAA 59.227 33.333 0.00 0.00 0.00 1.90
57 58 7.403312 ACTTTGTGTAATGCATAGCCATAAA 57.597 32.000 0.00 7.19 0.00 1.40
58 59 8.010733 ACTTTGTGTAATGCATAGCCATAAAT 57.989 30.769 0.00 0.00 0.00 1.40
59 60 9.130661 ACTTTGTGTAATGCATAGCCATAAATA 57.869 29.630 0.00 0.00 0.00 1.40
60 61 9.964303 CTTTGTGTAATGCATAGCCATAAATAA 57.036 29.630 0.00 0.00 0.00 1.40
61 62 9.964303 TTTGTGTAATGCATAGCCATAAATAAG 57.036 29.630 0.00 0.00 0.00 1.73
62 63 8.109705 TGTGTAATGCATAGCCATAAATAAGG 57.890 34.615 0.00 0.00 0.00 2.69
63 64 7.723616 TGTGTAATGCATAGCCATAAATAAGGT 59.276 33.333 0.00 0.00 0.00 3.50
64 65 8.237267 GTGTAATGCATAGCCATAAATAAGGTC 58.763 37.037 0.00 0.00 0.00 3.85
65 66 7.941790 TGTAATGCATAGCCATAAATAAGGTCA 59.058 33.333 0.00 0.00 0.00 4.02
66 67 8.960591 GTAATGCATAGCCATAAATAAGGTCAT 58.039 33.333 0.00 0.00 0.00 3.06
67 68 7.636150 ATGCATAGCCATAAATAAGGTCATC 57.364 36.000 0.00 0.00 0.00 2.92
68 69 6.782986 TGCATAGCCATAAATAAGGTCATCT 58.217 36.000 0.00 0.00 0.00 2.90
69 70 7.917003 TGCATAGCCATAAATAAGGTCATCTA 58.083 34.615 0.00 0.00 0.00 1.98
70 71 8.551440 TGCATAGCCATAAATAAGGTCATCTAT 58.449 33.333 0.00 0.00 0.00 1.98
346 377 5.161943 AGACCTACGAAAATTAACCAGCT 57.838 39.130 0.00 0.00 0.00 4.24
415 446 1.048601 GACCCCTGGATCTATTCGCA 58.951 55.000 0.00 0.00 0.00 5.10
519 602 2.529389 AGGTCCCAAAGGAGGCGT 60.529 61.111 0.00 0.00 45.21 5.68
854 1258 5.359194 TCAGTTTAGATCCCTTTGCTAGG 57.641 43.478 0.00 0.00 44.33 3.02
1000 1404 4.371786 CGATGAATCAGTTAGCAAGCCTA 58.628 43.478 0.00 0.00 0.00 3.93
1045 1449 8.164070 TCAATCATCCTGATCATCATCTGAAAT 58.836 33.333 0.00 0.00 35.76 2.17
1498 2206 5.020795 TCCAGTGTTCACTAGGCTTGTATA 58.979 41.667 0.24 0.00 0.00 1.47
1611 2319 5.221521 GGAGCATCAGGTACATCTTATGTGA 60.222 44.000 2.83 0.00 39.96 3.58
1647 2355 6.012858 TCAGCTAAAGGGAGTGATAGGAAAAA 60.013 38.462 0.00 0.00 0.00 1.94
1680 2388 1.270041 GCAATGGGAAGGCGAAAAACA 60.270 47.619 0.00 0.00 0.00 2.83
2122 3056 4.445019 GGAGGTCCTCCTTTTGGTGATATC 60.445 50.000 28.40 0.00 46.41 1.63
2127 3061 4.080356 TCCTCCTTTTGGTGATATCCACTG 60.080 45.833 0.00 0.00 45.03 3.66
2598 5697 8.931385 AATACATATTGAACTGAATTGGTTGC 57.069 30.769 0.00 0.00 0.00 4.17
2687 5786 2.203401 TGCATTGTTTCAGCTTTGCAC 58.797 42.857 0.00 0.00 35.36 4.57
2732 5831 3.003275 TCATCCAATCGGCTTTAATTCGC 59.997 43.478 0.00 0.00 0.00 4.70
2821 5920 5.952947 ACTCCTATTTGTCTGTAGTACTGCT 59.047 40.000 12.42 0.00 0.00 4.24
2826 5925 4.456280 TTGTCTGTAGTACTGCTCATGG 57.544 45.455 12.42 0.00 0.00 3.66
3238 6338 0.322456 GGTGGGTGTGCATCAAGCTA 60.322 55.000 0.00 0.00 45.94 3.32
3336 6436 4.201812 CGATGTGCCTTTCATACGAAACAT 60.202 41.667 0.00 0.00 36.19 2.71
3344 6444 6.529829 GCCTTTCATACGAAACATTTTATGCA 59.470 34.615 0.00 0.00 36.19 3.96
3345 6445 7.253750 GCCTTTCATACGAAACATTTTATGCAG 60.254 37.037 0.00 0.00 36.19 4.41
3346 6446 7.253750 CCTTTCATACGAAACATTTTATGCAGC 60.254 37.037 0.00 0.00 36.19 5.25
3347 6447 6.435430 TCATACGAAACATTTTATGCAGCT 57.565 33.333 0.00 0.00 0.00 4.24
3348 6448 6.851609 TCATACGAAACATTTTATGCAGCTT 58.148 32.000 0.00 0.00 0.00 3.74
3349 6449 7.980062 TCATACGAAACATTTTATGCAGCTTA 58.020 30.769 0.00 0.00 0.00 3.09
3350 6450 7.908082 TCATACGAAACATTTTATGCAGCTTAC 59.092 33.333 0.00 0.00 0.00 2.34
3351 6451 5.086058 ACGAAACATTTTATGCAGCTTACG 58.914 37.500 0.00 0.00 0.00 3.18
3352 6452 4.495472 CGAAACATTTTATGCAGCTTACGG 59.505 41.667 0.00 0.00 0.00 4.02
3353 6453 3.420839 ACATTTTATGCAGCTTACGGC 57.579 42.857 0.00 0.00 42.19 5.68
3385 6485 6.885952 TTTTTGTTGATCCCTTTCATACGA 57.114 33.333 0.00 0.00 0.00 3.43
3386 6486 6.885952 TTTTGTTGATCCCTTTCATACGAA 57.114 33.333 0.00 0.00 0.00 3.85
3387 6487 6.885952 TTTGTTGATCCCTTTCATACGAAA 57.114 33.333 0.00 0.00 38.83 3.46
3388 6488 5.873179 TGTTGATCCCTTTCATACGAAAC 57.127 39.130 0.00 0.00 36.19 2.78
3389 6489 5.309638 TGTTGATCCCTTTCATACGAAACA 58.690 37.500 0.00 0.00 36.19 2.83
3390 6490 5.411361 TGTTGATCCCTTTCATACGAAACAG 59.589 40.000 0.00 0.00 36.19 3.16
3391 6491 5.160607 TGATCCCTTTCATACGAAACAGT 57.839 39.130 0.00 0.00 36.19 3.55
3392 6492 6.288941 TGATCCCTTTCATACGAAACAGTA 57.711 37.500 0.00 0.00 36.19 2.74
3558 6658 0.909133 TCCAGGTATGAGGCTGTGCA 60.909 55.000 0.00 0.00 0.00 4.57
3703 8859 8.278639 TGAAGCAGACCCCTTATAATTATGAAA 58.721 33.333 8.28 0.00 0.00 2.69
3784 8940 1.542547 GCCAAAGACAAGTTCGAGGGA 60.543 52.381 0.00 0.00 0.00 4.20
3952 9109 1.817099 GACATGCAAGGCGAGGGAG 60.817 63.158 0.00 0.00 0.00 4.30
4736 10036 6.883217 AGTTACTGTCGAGAGGTTTCATACTA 59.117 38.462 14.79 0.00 0.00 1.82
4738 10038 6.585695 ACTGTCGAGAGGTTTCATACTAAA 57.414 37.500 14.79 0.00 0.00 1.85
4944 10432 0.034670 GCAGGCACCATCTTCTCCTT 60.035 55.000 0.00 0.00 0.00 3.36
4960 10448 8.833231 TCTTCTCCTTGACTTAAAATGTAGTG 57.167 34.615 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.268268 GGCTATGCATTACACAAAGTAGTATAA 57.732 33.333 3.54 0.00 33.43 0.98
27 28 8.425703 TGGCTATGCATTACACAAAGTAGTATA 58.574 33.333 3.54 0.00 33.43 1.47
28 29 7.279615 TGGCTATGCATTACACAAAGTAGTAT 58.720 34.615 3.54 0.00 33.43 2.12
29 30 6.645306 TGGCTATGCATTACACAAAGTAGTA 58.355 36.000 3.54 0.00 33.43 1.82
30 31 5.496556 TGGCTATGCATTACACAAAGTAGT 58.503 37.500 3.54 0.00 33.43 2.73
31 32 6.624352 ATGGCTATGCATTACACAAAGTAG 57.376 37.500 3.54 0.00 33.43 2.57
32 33 8.512966 TTTATGGCTATGCATTACACAAAGTA 57.487 30.769 3.54 0.00 0.00 2.24
33 34 7.403312 TTTATGGCTATGCATTACACAAAGT 57.597 32.000 3.54 0.00 0.00 2.66
34 35 9.964303 TTATTTATGGCTATGCATTACACAAAG 57.036 29.630 3.54 0.00 0.00 2.77
35 36 9.964303 CTTATTTATGGCTATGCATTACACAAA 57.036 29.630 3.54 4.24 0.00 2.83
36 37 8.575589 CCTTATTTATGGCTATGCATTACACAA 58.424 33.333 3.54 0.00 0.00 3.33
37 38 7.723616 ACCTTATTTATGGCTATGCATTACACA 59.276 33.333 3.54 0.00 0.00 3.72
38 39 8.110860 ACCTTATTTATGGCTATGCATTACAC 57.889 34.615 3.54 0.00 0.00 2.90
39 40 7.941790 TGACCTTATTTATGGCTATGCATTACA 59.058 33.333 3.54 1.95 0.00 2.41
40 41 8.335532 TGACCTTATTTATGGCTATGCATTAC 57.664 34.615 3.54 0.00 0.00 1.89
41 42 9.177608 GATGACCTTATTTATGGCTATGCATTA 57.822 33.333 3.54 0.00 0.00 1.90
42 43 7.892241 AGATGACCTTATTTATGGCTATGCATT 59.108 33.333 3.54 0.00 0.00 3.56
43 44 7.408543 AGATGACCTTATTTATGGCTATGCAT 58.591 34.615 3.79 3.79 0.00 3.96
44 45 6.782986 AGATGACCTTATTTATGGCTATGCA 58.217 36.000 0.00 0.00 0.00 3.96
45 46 8.970859 ATAGATGACCTTATTTATGGCTATGC 57.029 34.615 0.00 0.00 0.00 3.14
120 121 9.913310 CCATTAGGAGTAGAGATACAGATGATA 57.087 37.037 0.00 0.00 36.89 2.15
121 122 8.619281 TCCATTAGGAGTAGAGATACAGATGAT 58.381 37.037 0.00 0.00 39.61 2.45
122 123 7.990055 TCCATTAGGAGTAGAGATACAGATGA 58.010 38.462 0.00 0.00 39.61 2.92
207 210 0.787084 AAGTCAGAGGTGGGAGGAGA 59.213 55.000 0.00 0.00 0.00 3.71
356 387 1.227438 TGCGGGCGATAGGTTTAGC 60.227 57.895 0.00 0.00 0.00 3.09
500 531 2.592993 CGCCTCCTTTGGGACCTCA 61.593 63.158 0.00 0.00 36.57 3.86
519 602 2.823593 CCACAATGATGGCGGCGA 60.824 61.111 12.98 0.00 31.52 5.54
854 1258 6.768029 TTGTTGTATGCAGCATTCTTTTTC 57.232 33.333 14.58 0.00 35.79 2.29
955 1359 2.433239 GGTCTGGTGGTATGTTCCGTAT 59.567 50.000 0.00 0.00 0.00 3.06
1498 2206 7.014038 CAGGAGCTAGCAAATTAGGAATGAAAT 59.986 37.037 18.83 0.00 0.00 2.17
1611 2319 3.117738 CCCTTTAGCTGATGGTTCATCCT 60.118 47.826 9.26 0.13 39.87 3.24
1647 2355 5.474189 CCTTCCCATTGCATTCAACAAATTT 59.526 36.000 0.00 0.00 34.60 1.82
1649 2357 4.581868 CCTTCCCATTGCATTCAACAAAT 58.418 39.130 0.00 0.00 34.60 2.32
2598 5697 4.756642 ACATCCTTCGTGGCATATGTAATG 59.243 41.667 4.29 0.00 31.46 1.90
2687 5786 6.866770 TGAGGTAATTCGTCAAAGAAGTACAG 59.133 38.462 15.75 0.00 46.96 2.74
2732 5831 8.483218 CAATGATAATTAGTAAGACTGACGCTG 58.517 37.037 0.00 0.00 0.00 5.18
2821 5920 3.593442 AAACAAGGTTGAGTCCCATGA 57.407 42.857 0.00 0.00 0.00 3.07
2826 5925 6.947644 TTAAGGTAAAACAAGGTTGAGTCC 57.052 37.500 0.00 0.00 0.00 3.85
3345 6445 0.800631 AAAAGCCGTAAGCCGTAAGC 59.199 50.000 0.00 0.00 45.47 3.09
3362 6462 6.885952 TCGTATGAAAGGGATCAACAAAAA 57.114 33.333 0.00 0.00 32.06 1.94
3363 6463 6.885952 TTCGTATGAAAGGGATCAACAAAA 57.114 33.333 0.00 0.00 32.06 2.44
3364 6464 6.263392 TGTTTCGTATGAAAGGGATCAACAAA 59.737 34.615 10.41 0.00 44.42 2.83
3365 6465 5.765677 TGTTTCGTATGAAAGGGATCAACAA 59.234 36.000 10.41 0.00 44.42 2.83
3366 6466 5.309638 TGTTTCGTATGAAAGGGATCAACA 58.690 37.500 10.41 0.84 44.42 3.33
3367 6467 5.411669 ACTGTTTCGTATGAAAGGGATCAAC 59.588 40.000 10.41 0.00 44.42 3.18
3368 6468 5.556915 ACTGTTTCGTATGAAAGGGATCAA 58.443 37.500 10.41 0.00 44.42 2.57
3369 6469 5.160607 ACTGTTTCGTATGAAAGGGATCA 57.839 39.130 10.41 4.28 44.42 2.92
3370 6470 8.926710 CATATACTGTTTCGTATGAAAGGGATC 58.073 37.037 10.41 0.00 44.42 3.36
3371 6471 7.878127 CCATATACTGTTTCGTATGAAAGGGAT 59.122 37.037 10.41 10.69 44.42 3.85
3372 6472 7.214381 CCATATACTGTTTCGTATGAAAGGGA 58.786 38.462 10.41 4.34 44.42 4.20
3373 6473 6.426937 CCCATATACTGTTTCGTATGAAAGGG 59.573 42.308 10.41 10.69 44.42 3.95
3374 6474 6.990349 ACCCATATACTGTTTCGTATGAAAGG 59.010 38.462 10.41 9.04 44.42 3.11
3375 6475 7.494625 ACACCCATATACTGTTTCGTATGAAAG 59.505 37.037 10.41 2.82 44.42 2.62
3376 6476 7.332557 ACACCCATATACTGTTTCGTATGAAA 58.667 34.615 6.00 6.00 41.69 2.69
3377 6477 6.880484 ACACCCATATACTGTTTCGTATGAA 58.120 36.000 0.00 0.00 32.63 2.57
3378 6478 6.474140 ACACCCATATACTGTTTCGTATGA 57.526 37.500 0.00 0.00 32.63 2.15
3379 6479 6.759356 TGAACACCCATATACTGTTTCGTATG 59.241 38.462 0.00 0.00 32.63 2.39
3380 6480 6.880484 TGAACACCCATATACTGTTTCGTAT 58.120 36.000 0.00 0.00 34.63 3.06
3381 6481 6.283544 TGAACACCCATATACTGTTTCGTA 57.716 37.500 0.00 0.00 0.00 3.43
3382 6482 5.155278 TGAACACCCATATACTGTTTCGT 57.845 39.130 0.00 0.00 0.00 3.85
3383 6483 6.049149 AGATGAACACCCATATACTGTTTCG 58.951 40.000 0.00 0.00 0.00 3.46
3384 6484 7.865706 AAGATGAACACCCATATACTGTTTC 57.134 36.000 0.00 0.00 0.00 2.78
3385 6485 7.669722 ACAAAGATGAACACCCATATACTGTTT 59.330 33.333 0.00 0.00 0.00 2.83
3386 6486 7.175104 ACAAAGATGAACACCCATATACTGTT 58.825 34.615 0.00 0.00 0.00 3.16
3387 6487 6.721318 ACAAAGATGAACACCCATATACTGT 58.279 36.000 0.00 0.00 0.00 3.55
3388 6488 7.630242 AACAAAGATGAACACCCATATACTG 57.370 36.000 0.00 0.00 0.00 2.74
3389 6489 8.109634 AGAAACAAAGATGAACACCCATATACT 58.890 33.333 0.00 0.00 0.00 2.12
3390 6490 8.184192 CAGAAACAAAGATGAACACCCATATAC 58.816 37.037 0.00 0.00 0.00 1.47
3391 6491 7.888021 ACAGAAACAAAGATGAACACCCATATA 59.112 33.333 0.00 0.00 0.00 0.86
3392 6492 6.721208 ACAGAAACAAAGATGAACACCCATAT 59.279 34.615 0.00 0.00 0.00 1.78
3703 8859 9.588096 AGTTTCATCCTTCAACTTTATAAACCT 57.412 29.630 0.00 0.00 0.00 3.50
3952 9109 2.997986 CCTGCATGTTTTGGCTTCAATC 59.002 45.455 0.00 0.00 0.00 2.67
4033 9190 9.563748 AAACTACTGTACCTAGCAATGTAAAAA 57.436 29.630 0.00 0.00 0.00 1.94
4944 10432 7.744087 ACATGAAGCACTACATTTTAAGTCA 57.256 32.000 0.00 0.00 0.00 3.41
4960 10448 3.059352 ACAAGTGGGAGTACATGAAGC 57.941 47.619 0.00 0.00 0.00 3.86
5060 10548 1.207089 TGATCTAGTGGGCTCAAACCG 59.793 52.381 0.00 0.00 0.00 4.44
5889 11948 2.032681 GACGGCCTTGTCCTGCTT 59.967 61.111 0.00 0.00 32.61 3.91


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

AutoCloner maintained by Alex Coulton.