Multiple sequence alignment - TraesCS3B01G338600

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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 TraesCS3B01G338600 chr3B 100.000 2438 0 0 1 2438 545009942 545007505 0.000000e+00 4503.0
1 TraesCS3B01G338600 chr3B 92.464 1725 91 21 738 2438 544922570 544920861 0.000000e+00 2429.0
2 TraesCS3B01G338600 chr3B 85.237 569 56 17 175 738 770095903 770096448 5.890000e-156 560.0
3 TraesCS3B01G338600 chr3B 89.862 217 20 1 153 369 598032757 598032971 6.640000e-71 278.0
4 TraesCS3B01G338600 chr3B 92.857 182 11 2 1444 1624 544818780 544818600 1.860000e-66 263.0
5 TraesCS3B01G338600 chr3B 93.600 125 5 3 1625 1747 544818557 544818434 1.490000e-42 183.0
6 TraesCS3B01G338600 chr3B 89.011 91 9 1 738 827 544821433 544821343 7.130000e-21 111.0
7 TraesCS3B01G338600 chr3D 93.103 899 50 3 738 1624 418705882 418704984 0.000000e+00 1306.0
8 TraesCS3B01G338600 chr3D 93.110 537 35 2 1090 1624 418482627 418482091 0.000000e+00 785.0
9 TraesCS3B01G338600 chr3D 89.870 385 30 3 1056 1432 418410759 418410376 1.010000e-133 486.0
10 TraesCS3B01G338600 chr3D 88.922 334 35 2 2 335 380383711 380383380 6.270000e-111 411.0
11 TraesCS3B01G338600 chr3D 91.209 273 24 0 1160 1432 416404365 416404637 2.960000e-99 372.0
12 TraesCS3B01G338600 chr3D 96.063 127 3 2 1625 1749 418482048 418481922 3.180000e-49 206.0
13 TraesCS3B01G338600 chr3D 81.569 255 21 13 738 976 416404048 416404292 1.150000e-43 187.0
14 TraesCS3B01G338600 chr3D 84.516 155 9 2 1471 1624 418410256 418410116 3.270000e-29 139.0
15 TraesCS3B01G338600 chr3D 88.372 86 8 2 753 837 418410960 418410876 4.290000e-18 102.0
16 TraesCS3B01G338600 chr3A 94.670 788 34 3 738 1520 532487993 532488777 0.000000e+00 1216.0
17 TraesCS3B01G338600 chr3A 88.450 329 28 4 998 1326 532644458 532644776 2.940000e-104 388.0
18 TraesCS3B01G338600 chr3A 93.548 124 6 2 1625 1747 532645156 532645278 1.490000e-42 183.0
19 TraesCS3B01G338600 chr3A 84.153 183 14 2 1443 1624 532644944 532645112 1.940000e-36 163.0
20 TraesCS3B01G338600 chr2D 93.703 667 40 2 1773 2438 147354012 147354677 0.000000e+00 998.0
21 TraesCS3B01G338600 chr1B 92.420 686 50 2 1754 2438 269085457 269086141 0.000000e+00 977.0
22 TraesCS3B01G338600 chr7B 91.266 687 56 4 1753 2438 138662488 138663171 0.000000e+00 933.0
23 TraesCS3B01G338600 chr7B 87.786 262 24 7 478 738 374423179 374422925 1.420000e-77 300.0
24 TraesCS3B01G338600 chr7B 90.196 204 17 2 173 375 374423440 374423239 1.860000e-66 263.0
25 TraesCS3B01G338600 chr7B 88.636 132 15 0 2 133 374423577 374423446 6.980000e-36 161.0
26 TraesCS3B01G338600 chr7B 92.857 98 7 0 642 739 586263066 586263163 2.530000e-30 143.0
27 TraesCS3B01G338600 chr7D 90.791 695 61 3 1746 2438 252026479 252025786 0.000000e+00 926.0
28 TraesCS3B01G338600 chr4D 89.800 549 53 3 1750 2296 276625677 276626224 0.000000e+00 701.0
29 TraesCS3B01G338600 chr5B 89.572 374 39 0 2 375 509469158 509469531 2.190000e-130 475.0
30 TraesCS3B01G338600 chr5B 76.676 686 138 17 1753 2425 703184068 703184744 6.410000e-96 361.0
31 TraesCS3B01G338600 chr5B 85.196 331 34 14 426 751 509469549 509469869 2.340000e-85 326.0
32 TraesCS3B01G338600 chr5B 84.118 340 38 9 2 334 675887281 675887611 5.060000e-82 315.0
33 TraesCS3B01G338600 chr5B 89.888 89 5 3 469 555 675888089 675888175 7.130000e-21 111.0
34 TraesCS3B01G338600 chr5B 88.608 79 9 0 660 738 516036851 516036929 2.000000e-16 97.1
35 TraesCS3B01G338600 chr6A 86.253 371 36 7 127 495 564514623 564514980 2.940000e-104 388.0
36 TraesCS3B01G338600 chr6A 76.259 695 149 14 1752 2438 464426597 464425911 2.980000e-94 355.0
37 TraesCS3B01G338600 chr6A 75.533 703 146 19 1753 2438 426137372 426136679 3.020000e-84 322.0
38 TraesCS3B01G338600 chr6B 78.893 578 81 28 2 555 683646138 683646698 1.070000e-93 353.0
39 TraesCS3B01G338600 chr6B 82.972 323 36 10 216 534 633847188 633846881 8.590000e-70 274.0
40 TraesCS3B01G338600 chr4B 82.297 418 44 17 145 555 502994479 502994873 3.880000e-88 335.0
41 TraesCS3B01G338600 chr4B 84.337 83 12 1 660 741 479212239 479212321 2.010000e-11 80.5
42 TraesCS3B01G338600 chr5D 82.169 415 43 18 149 555 127882297 127882688 6.500000e-86 327.0
43 TraesCS3B01G338600 chr5D 85.185 243 26 5 2 244 535134674 535134906 8.710000e-60 241.0
44 TraesCS3B01G338600 chr5D 90.000 80 6 1 478 555 535135258 535135337 4.290000e-18 102.0
45 TraesCS3B01G338600 chr4A 86.364 308 29 7 2 308 636650927 636650632 8.410000e-85 324.0
46 TraesCS3B01G338600 chr4A 87.234 94 6 3 478 565 636648301 636648208 4.290000e-18 102.0
47 TraesCS3B01G338600 chr4A 87.500 80 9 1 660 738 734873470 734873391 9.280000e-15 91.6
48 TraesCS3B01G338600 chr4A 87.500 80 9 1 660 738 736111765 736111686 9.280000e-15 91.6
49 TraesCS3B01G338600 chr7A 93.805 113 6 1 264 375 48912087 48912199 4.170000e-38 169.0
50 TraesCS3B01G338600 chr7A 88.608 79 9 0 660 738 650538751 650538673 2.000000e-16 97.1
51 TraesCS3B01G338600 chr2A 89.431 123 13 0 17 139 734736510 734736632 3.250000e-34 156.0
52 TraesCS3B01G338600 chr2A 85.517 145 19 1 2 146 618983739 618983597 1.510000e-32 150.0


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 TraesCS3B01G338600 chr3B 545007505 545009942 2437 True 4503.000000 4503 100.000000 1 2438 1 chr3B.!!$R2 2437
1 TraesCS3B01G338600 chr3B 544920861 544922570 1709 True 2429.000000 2429 92.464000 738 2438 1 chr3B.!!$R1 1700
2 TraesCS3B01G338600 chr3B 770095903 770096448 545 False 560.000000 560 85.237000 175 738 1 chr3B.!!$F2 563
3 TraesCS3B01G338600 chr3D 418704984 418705882 898 True 1306.000000 1306 93.103000 738 1624 1 chr3D.!!$R2 886
4 TraesCS3B01G338600 chr3D 418481922 418482627 705 True 495.500000 785 94.586500 1090 1749 2 chr3D.!!$R4 659
5 TraesCS3B01G338600 chr3D 416404048 416404637 589 False 279.500000 372 86.389000 738 1432 2 chr3D.!!$F1 694
6 TraesCS3B01G338600 chr3D 418410116 418410960 844 True 242.333333 486 87.586000 753 1624 3 chr3D.!!$R3 871
7 TraesCS3B01G338600 chr3A 532487993 532488777 784 False 1216.000000 1216 94.670000 738 1520 1 chr3A.!!$F1 782
8 TraesCS3B01G338600 chr3A 532644458 532645278 820 False 244.666667 388 88.717000 998 1747 3 chr3A.!!$F2 749
9 TraesCS3B01G338600 chr2D 147354012 147354677 665 False 998.000000 998 93.703000 1773 2438 1 chr2D.!!$F1 665
10 TraesCS3B01G338600 chr1B 269085457 269086141 684 False 977.000000 977 92.420000 1754 2438 1 chr1B.!!$F1 684
11 TraesCS3B01G338600 chr7B 138662488 138663171 683 False 933.000000 933 91.266000 1753 2438 1 chr7B.!!$F1 685
12 TraesCS3B01G338600 chr7B 374422925 374423577 652 True 241.333333 300 88.872667 2 738 3 chr7B.!!$R1 736
13 TraesCS3B01G338600 chr7D 252025786 252026479 693 True 926.000000 926 90.791000 1746 2438 1 chr7D.!!$R1 692
14 TraesCS3B01G338600 chr4D 276625677 276626224 547 False 701.000000 701 89.800000 1750 2296 1 chr4D.!!$F1 546
15 TraesCS3B01G338600 chr5B 509469158 509469869 711 False 400.500000 475 87.384000 2 751 2 chr5B.!!$F3 749
16 TraesCS3B01G338600 chr5B 703184068 703184744 676 False 361.000000 361 76.676000 1753 2425 1 chr5B.!!$F2 672
17 TraesCS3B01G338600 chr5B 675887281 675888175 894 False 213.000000 315 87.003000 2 555 2 chr5B.!!$F4 553
18 TraesCS3B01G338600 chr6A 464425911 464426597 686 True 355.000000 355 76.259000 1752 2438 1 chr6A.!!$R2 686
19 TraesCS3B01G338600 chr6A 426136679 426137372 693 True 322.000000 322 75.533000 1753 2438 1 chr6A.!!$R1 685
20 TraesCS3B01G338600 chr6B 683646138 683646698 560 False 353.000000 353 78.893000 2 555 1 chr6B.!!$F1 553
21 TraesCS3B01G338600 chr4A 636648208 636650927 2719 True 213.000000 324 86.799000 2 565 2 chr4A.!!$R3 563

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
894 3113 0.743097 GCCCATGCCAAGATTCTCAC 59.257 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2381 4871 0.03759 TATGCGGCTTTGTTCTGGGT 59.962 50.0 0.0 0.0 0.0 4.51 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 4.766969 CTTGCAAGCAGAAAACTTGTTC 57.233 40.909 14.65 0.00 45.09 3.18
40 41 7.992180 AGCAGAAAACTTGTTCATTTAGTTG 57.008 32.000 0.00 0.00 32.76 3.16
66 67 4.467438 TCACCACTGATTCTGCTGAAGATA 59.533 41.667 11.86 0.46 35.44 1.98
115 116 6.876155 TGTGCCAATCCTAACGTTAGTATAA 58.124 36.000 28.60 14.61 0.00 0.98
244 274 2.386661 TCTTCTGCTTTCCGTCCATC 57.613 50.000 0.00 0.00 0.00 3.51
258 295 1.394917 GTCCATCGAGACATGCAACAC 59.605 52.381 0.00 0.00 36.73 3.32
291 328 3.944015 AGAAACTAGGTGCAATCTGATGC 59.056 43.478 0.00 0.00 46.58 3.91
360 2260 3.003793 GCTTTCCACTCTCTTTTGGTGAC 59.996 47.826 0.00 0.00 34.19 3.67
365 2265 5.794894 TCCACTCTCTTTTGGTGACTATTC 58.205 41.667 0.00 0.00 34.19 1.75
375 2275 7.939039 TCTTTTGGTGACTATTCTGTGATTCTT 59.061 33.333 0.00 0.00 0.00 2.52
377 2277 5.734720 TGGTGACTATTCTGTGATTCTTCC 58.265 41.667 0.00 0.00 0.00 3.46
378 2278 5.485353 TGGTGACTATTCTGTGATTCTTCCT 59.515 40.000 0.00 0.00 0.00 3.36
379 2279 6.013379 TGGTGACTATTCTGTGATTCTTCCTT 60.013 38.462 0.00 0.00 0.00 3.36
380 2280 6.314896 GGTGACTATTCTGTGATTCTTCCTTG 59.685 42.308 0.00 0.00 0.00 3.61
381 2281 6.314896 GTGACTATTCTGTGATTCTTCCTTGG 59.685 42.308 0.00 0.00 0.00 3.61
382 2282 6.013379 TGACTATTCTGTGATTCTTCCTTGGT 60.013 38.462 0.00 0.00 0.00 3.67
384 2284 7.918076 ACTATTCTGTGATTCTTCCTTGGTAA 58.082 34.615 0.00 0.00 0.00 2.85
385 2285 8.383175 ACTATTCTGTGATTCTTCCTTGGTAAA 58.617 33.333 0.00 0.00 0.00 2.01
386 2286 9.231297 CTATTCTGTGATTCTTCCTTGGTAAAA 57.769 33.333 0.00 0.00 0.00 1.52
387 2287 8.655935 ATTCTGTGATTCTTCCTTGGTAAAAT 57.344 30.769 0.00 0.00 0.00 1.82
389 2289 8.792830 TCTGTGATTCTTCCTTGGTAAAATAG 57.207 34.615 0.00 0.00 0.00 1.73
390 2290 8.383175 TCTGTGATTCTTCCTTGGTAAAATAGT 58.617 33.333 0.00 0.00 0.00 2.12
391 2291 9.667107 CTGTGATTCTTCCTTGGTAAAATAGTA 57.333 33.333 0.00 0.00 0.00 1.82
392 2292 9.444600 TGTGATTCTTCCTTGGTAAAATAGTAC 57.555 33.333 0.00 0.00 0.00 2.73
393 2293 8.890718 GTGATTCTTCCTTGGTAAAATAGTACC 58.109 37.037 0.00 0.00 43.45 3.34
394 2294 8.050930 TGATTCTTCCTTGGTAAAATAGTACCC 58.949 37.037 0.00 0.00 42.63 3.69
395 2295 6.956102 TCTTCCTTGGTAAAATAGTACCCA 57.044 37.500 0.00 0.00 42.63 4.51
396 2296 6.714278 TCTTCCTTGGTAAAATAGTACCCAC 58.286 40.000 0.00 0.00 42.63 4.61
397 2297 6.502863 TCTTCCTTGGTAAAATAGTACCCACT 59.497 38.462 0.00 0.00 42.63 4.00
404 2304 8.168790 TGGTAAAATAGTACCCACTTTGAAAC 57.831 34.615 0.00 0.00 42.63 2.78
406 2306 7.449395 GGTAAAATAGTACCCACTTTGAAACCT 59.551 37.037 0.00 0.00 38.08 3.50
407 2307 7.907841 AAAATAGTACCCACTTTGAAACCTT 57.092 32.000 0.00 0.00 36.14 3.50
410 2310 8.999905 AATAGTACCCACTTTGAAACCTTTTA 57.000 30.769 0.00 0.00 36.14 1.52
412 2312 6.665695 AGTACCCACTTTGAAACCTTTTAGA 58.334 36.000 0.00 0.00 0.00 2.10
413 2313 7.295340 AGTACCCACTTTGAAACCTTTTAGAT 58.705 34.615 0.00 0.00 0.00 1.98
414 2314 6.650427 ACCCACTTTGAAACCTTTTAGATC 57.350 37.500 0.00 0.00 0.00 2.75
442 2349 1.348696 TCTGCACCACACTCATCATGT 59.651 47.619 0.00 0.00 0.00 3.21
476 2685 7.041576 TCAGCTTGTGATATATCTTGCATGTTC 60.042 37.037 13.79 2.80 0.00 3.18
482 2691 7.495606 TGTGATATATCTTGCATGTTCGAAACT 59.504 33.333 13.79 0.00 0.00 2.66
546 2757 5.037383 TGGAGTTGGTTGTGTTGTACATA 57.963 39.130 0.00 0.00 39.48 2.29
555 2766 5.938125 GGTTGTGTTGTACATATCTGGTCTT 59.062 40.000 0.00 0.00 39.48 3.01
556 2767 6.128282 GGTTGTGTTGTACATATCTGGTCTTG 60.128 42.308 0.00 0.00 39.48 3.02
558 2769 7.234661 TGTGTTGTACATATCTGGTCTTGTA 57.765 36.000 0.00 0.00 33.42 2.41
559 2770 7.320399 TGTGTTGTACATATCTGGTCTTGTAG 58.680 38.462 0.00 0.00 33.42 2.74
560 2771 7.039293 TGTGTTGTACATATCTGGTCTTGTAGT 60.039 37.037 0.00 0.00 33.42 2.73
562 2773 8.372459 TGTTGTACATATCTGGTCTTGTAGTTT 58.628 33.333 0.00 0.00 0.00 2.66
563 2774 8.656849 GTTGTACATATCTGGTCTTGTAGTTTG 58.343 37.037 0.00 0.00 0.00 2.93
564 2775 8.129496 TGTACATATCTGGTCTTGTAGTTTGA 57.871 34.615 0.00 0.00 0.00 2.69
565 2776 8.251026 TGTACATATCTGGTCTTGTAGTTTGAG 58.749 37.037 0.00 0.00 0.00 3.02
566 2777 7.246171 ACATATCTGGTCTTGTAGTTTGAGT 57.754 36.000 0.00 0.00 0.00 3.41
573 2784 6.119536 TGGTCTTGTAGTTTGAGTGTTTGAT 58.880 36.000 0.00 0.00 0.00 2.57
627 2838 8.158132 TGTTAATTCTGTATGGTTGTCTGGTTA 58.842 33.333 0.00 0.00 0.00 2.85
656 2867 4.119136 CCACTATGTGCATGTTCGATACA 58.881 43.478 0.00 3.49 35.04 2.29
839 3057 3.454371 ACGTGCTACTAATTGGCTAGG 57.546 47.619 0.00 0.00 0.00 3.02
894 3113 0.743097 GCCCATGCCAAGATTCTCAC 59.257 55.000 0.00 0.00 0.00 3.51
921 3144 0.753867 TACCAACACGGAACAGCTCA 59.246 50.000 0.00 0.00 38.63 4.26
928 3151 1.998315 CACGGAACAGCTCAATCTCAG 59.002 52.381 0.00 0.00 0.00 3.35
933 3159 3.260740 GAACAGCTCAATCTCAGTCAGG 58.739 50.000 0.00 0.00 0.00 3.86
1070 3320 1.227380 GCGACGGCAAGATCTCCAT 60.227 57.895 0.00 0.00 39.62 3.41
1102 3352 3.694058 CTCTGCATGAAGGCGGCCT 62.694 63.158 17.69 17.69 40.04 5.19
1254 3504 4.416738 GACAGGTGCAGGGAGGCC 62.417 72.222 0.00 0.00 0.00 5.19
1273 3523 1.603172 CCTTCGGGATGTACGAGATGC 60.603 57.143 0.00 0.00 41.81 3.91
1345 3603 4.314440 GGCTGCACCTGGACGTCA 62.314 66.667 18.91 2.63 34.51 4.35
1510 3937 7.306632 CGAAAATTTCTATCTTCGATTAGCGGT 60.307 37.037 4.09 0.00 42.44 5.68
1634 4108 1.259840 ACAATGCTTGGGACATGGCC 61.260 55.000 10.00 10.00 39.30 5.36
1749 4225 6.152661 CCTAATTAAAACAGATGGACCAGCAA 59.847 38.462 13.21 0.00 0.00 3.91
1882 4360 2.904434 ACTCATCCACCGTTCTAACCTT 59.096 45.455 0.00 0.00 0.00 3.50
1884 4362 4.529377 ACTCATCCACCGTTCTAACCTTAA 59.471 41.667 0.00 0.00 0.00 1.85
1886 4364 3.967332 TCCACCGTTCTAACCTTAAGG 57.033 47.619 20.42 20.42 42.17 2.69
1889 4367 4.020839 TCCACCGTTCTAACCTTAAGGAAG 60.021 45.833 28.52 22.00 38.94 3.46
1892 4370 5.993441 CACCGTTCTAACCTTAAGGAAGAAA 59.007 40.000 29.34 17.22 40.03 2.52
2103 4581 2.280797 GCCGACAAGCCACTCACA 60.281 61.111 0.00 0.00 0.00 3.58
2125 4603 1.302511 GGAGTCATGTGCCGTTGGT 60.303 57.895 0.00 0.00 0.00 3.67
2185 4663 2.345641 CCAAGTCGATCTAGCAAACACG 59.654 50.000 0.00 0.00 0.00 4.49
2188 4666 1.927174 GTCGATCTAGCAAACACGCAT 59.073 47.619 0.00 0.00 0.00 4.73
2381 4871 1.075822 ATGGGATCCACCGTCCGTA 60.076 57.895 15.23 0.00 35.80 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.601613 TGGTGAGACAACTAAATGAACAAGTT 59.398 34.615 0.00 0.00 33.82 2.66
28 29 5.758296 TCAGTGGTGAGACAACTAAATGAAC 59.242 40.000 0.00 0.00 0.00 3.18
31 32 6.652481 AGAATCAGTGGTGAGACAACTAAATG 59.348 38.462 0.00 0.00 35.66 2.32
40 41 2.028658 TCAGCAGAATCAGTGGTGAGAC 60.029 50.000 1.01 0.00 45.15 3.36
95 96 7.042254 GGTTGCTTATACTAACGTTAGGATTGG 60.042 40.741 32.46 25.02 35.88 3.16
115 116 6.017109 CAGTAAACTCAACATGTTAGGTTGCT 60.017 38.462 21.16 20.62 44.02 3.91
237 267 0.647410 GTTGCATGTCTCGATGGACG 59.353 55.000 0.00 0.00 44.09 4.79
258 295 4.256920 CACCTAGTTTCTGGTTCTCCATG 58.743 47.826 0.00 0.00 43.43 3.66
270 307 3.944015 AGCATCAGATTGCACCTAGTTTC 59.056 43.478 0.00 0.00 45.23 2.78
291 328 1.280457 AGCAGGTTCTACCAAGGGAG 58.720 55.000 0.00 0.00 41.95 4.30
360 2260 8.792830 TTTACCAAGGAAGAATCACAGAATAG 57.207 34.615 0.00 0.00 0.00 1.73
365 2265 8.567285 ACTATTTTACCAAGGAAGAATCACAG 57.433 34.615 0.00 0.00 0.00 3.66
375 2275 6.707273 AAGTGGGTACTATTTTACCAAGGA 57.293 37.500 1.90 0.00 43.15 3.36
377 2277 7.989416 TCAAAGTGGGTACTATTTTACCAAG 57.011 36.000 1.90 0.00 43.15 3.61
378 2278 8.631797 GTTTCAAAGTGGGTACTATTTTACCAA 58.368 33.333 1.90 0.00 43.15 3.67
379 2279 7.231115 GGTTTCAAAGTGGGTACTATTTTACCA 59.769 37.037 1.90 0.00 43.15 3.25
380 2280 7.449395 AGGTTTCAAAGTGGGTACTATTTTACC 59.551 37.037 0.00 0.00 40.94 2.85
381 2281 8.400184 AGGTTTCAAAGTGGGTACTATTTTAC 57.600 34.615 0.00 0.00 35.69 2.01
382 2282 8.999905 AAGGTTTCAAAGTGGGTACTATTTTA 57.000 30.769 0.00 0.00 35.69 1.52
384 2284 7.907841 AAAGGTTTCAAAGTGGGTACTATTT 57.092 32.000 0.00 0.00 35.69 1.40
385 2285 7.907841 AAAAGGTTTCAAAGTGGGTACTATT 57.092 32.000 0.00 0.00 35.69 1.73
386 2286 8.442374 TCTAAAAGGTTTCAAAGTGGGTACTAT 58.558 33.333 0.00 0.00 35.69 2.12
387 2287 7.804147 TCTAAAAGGTTTCAAAGTGGGTACTA 58.196 34.615 0.00 0.00 35.69 1.82
389 2289 6.947644 TCTAAAAGGTTTCAAAGTGGGTAC 57.052 37.500 0.00 0.00 0.00 3.34
390 2290 6.717997 GGATCTAAAAGGTTTCAAAGTGGGTA 59.282 38.462 0.00 0.00 0.00 3.69
391 2291 5.538813 GGATCTAAAAGGTTTCAAAGTGGGT 59.461 40.000 0.00 0.00 0.00 4.51
392 2292 5.047306 GGGATCTAAAAGGTTTCAAAGTGGG 60.047 44.000 0.00 0.00 0.00 4.61
393 2293 5.047306 GGGGATCTAAAAGGTTTCAAAGTGG 60.047 44.000 0.00 0.00 0.00 4.00
394 2294 5.047306 GGGGGATCTAAAAGGTTTCAAAGTG 60.047 44.000 0.00 0.00 0.00 3.16
395 2295 5.084519 GGGGGATCTAAAAGGTTTCAAAGT 58.915 41.667 0.00 0.00 0.00 2.66
396 2296 5.661056 GGGGGATCTAAAAGGTTTCAAAG 57.339 43.478 0.00 0.00 0.00 2.77
546 2757 5.552870 ACACTCAAACTACAAGACCAGAT 57.447 39.130 0.00 0.00 0.00 2.90
555 2766 9.048446 GTACCTTAATCAAACACTCAAACTACA 57.952 33.333 0.00 0.00 0.00 2.74
556 2767 9.269453 AGTACCTTAATCAAACACTCAAACTAC 57.731 33.333 0.00 0.00 0.00 2.73
558 2769 7.773690 ACAGTACCTTAATCAAACACTCAAACT 59.226 33.333 0.00 0.00 0.00 2.66
559 2770 7.927048 ACAGTACCTTAATCAAACACTCAAAC 58.073 34.615 0.00 0.00 0.00 2.93
560 2771 8.402472 CAACAGTACCTTAATCAAACACTCAAA 58.598 33.333 0.00 0.00 0.00 2.69
562 2773 7.051623 ACAACAGTACCTTAATCAAACACTCA 58.948 34.615 0.00 0.00 0.00 3.41
563 2774 7.492352 ACAACAGTACCTTAATCAAACACTC 57.508 36.000 0.00 0.00 0.00 3.51
564 2775 9.569122 AATACAACAGTACCTTAATCAAACACT 57.431 29.630 0.00 0.00 0.00 3.55
573 2784 8.550710 AACGCATTAATACAACAGTACCTTAA 57.449 30.769 0.00 0.00 0.00 1.85
595 2806 8.568732 ACAACCATACAGAATTAACAAAAACG 57.431 30.769 0.00 0.00 0.00 3.60
627 2838 4.292186 ACATGCACATAGTGGACTTCTT 57.708 40.909 0.00 0.00 36.59 2.52
692 2903 7.709269 ACGCACGTATAATCATACAAAGAAT 57.291 32.000 0.00 0.00 37.47 2.40
699 2911 4.702247 TGCAACGCACGTATAATCATAC 57.298 40.909 0.00 0.00 31.71 2.39
839 3057 3.058914 CGGTGTTTGATCAAGTTCAGGAC 60.059 47.826 8.41 2.86 0.00 3.85
894 3113 5.007332 GCTGTTCCGTGTTGGTATTTATAGG 59.993 44.000 0.00 0.00 39.52 2.57
921 3144 2.373169 TGGTTTGCTCCTGACTGAGATT 59.627 45.455 0.00 0.00 34.11 2.40
928 3151 1.301716 TCGCTGGTTTGCTCCTGAC 60.302 57.895 0.00 0.00 0.00 3.51
933 3159 1.204312 GTTCGTCGCTGGTTTGCTC 59.796 57.895 0.00 0.00 0.00 4.26
965 3197 3.059188 GCAAAGATCGGTTTGTCTTTCGA 60.059 43.478 8.67 0.00 41.40 3.71
1172 3422 0.968393 GAACTCCTCCTCGTCCAGCT 60.968 60.000 0.00 0.00 0.00 4.24
1254 3504 1.067060 TGCATCTCGTACATCCCGAAG 59.933 52.381 0.00 0.00 33.34 3.79
1273 3523 2.123982 GATGCAGCCCCTCCCTTG 60.124 66.667 0.00 0.00 0.00 3.61
1345 3603 2.202236 ATCATGGCCTGGCACTCGTT 62.202 55.000 22.05 0.00 0.00 3.85
1405 3663 5.127031 TCATCATCATGGTCTTGAACTCGTA 59.873 40.000 0.00 0.00 0.00 3.43
1882 4360 4.079253 GCAACATGGACCTTTCTTCCTTA 58.921 43.478 0.00 0.00 33.84 2.69
1884 4362 2.519013 GCAACATGGACCTTTCTTCCT 58.481 47.619 0.00 0.00 33.84 3.36
1886 4364 2.519013 AGGCAACATGGACCTTTCTTC 58.481 47.619 0.00 0.00 41.41 2.87
1892 4370 3.844640 AGTTTAAAGGCAACATGGACCT 58.155 40.909 0.00 0.00 41.41 3.85
2103 4581 0.615331 AACGGCACATGACTCCATCT 59.385 50.000 0.00 0.00 0.00 2.90
2125 4603 4.329545 GGCAAGCCGGAGTGGTCA 62.330 66.667 5.05 0.00 41.21 4.02
2381 4871 0.037590 TATGCGGCTTTGTTCTGGGT 59.962 50.000 0.00 0.00 0.00 4.51


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

AutoCloner maintained by Alex Coulton.