Multiple sequence alignment - TraesCS2B01G084800

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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 TraesCS2B01G084800 chr2B 100.000 2720 0 0 1 2720 47416114 47418833 0.000000e+00 5024.0
1 TraesCS2B01G084800 chr2B 100.000 345 0 0 3171 3515 47419284 47419628 3.830000e-179 638.0
2 TraesCS2B01G084800 chr2D 88.391 2722 191 62 5 2683 29190074 29187435 0.000000e+00 3160.0
3 TraesCS2B01G084800 chr2D 87.379 103 12 1 2441 2542 29171700 29171598 2.220000e-22 117.0
4 TraesCS2B01G084800 chr2A 91.824 2116 118 33 620 2720 31202804 31200729 0.000000e+00 2898.0
5 TraesCS2B01G084800 chr2A 89.143 350 32 3 3171 3515 31200687 31200339 6.970000e-117 431.0
6 TraesCS2B01G084800 chr2A 86.982 169 21 1 2375 2542 31146902 31146734 4.630000e-44 189.0
7 TraesCS2B01G084800 chr4B 74.774 1439 292 56 1090 2503 44944552 44945944 6.540000e-162 580.0
8 TraesCS2B01G084800 chr4D 74.209 1454 292 62 1090 2503 31447463 31446053 6.680000e-147 531.0
9 TraesCS2B01G084800 chr3D 85.859 99 10 3 2164 2260 387709291 387709195 6.210000e-18 102.0
10 TraesCS2B01G084800 chr3A 85.859 99 10 3 2164 2260 509020594 509020498 6.210000e-18 102.0
11 TraesCS2B01G084800 chr7D 79.861 144 23 6 2119 2259 101780243 101780103 2.230000e-17 100.0
12 TraesCS2B01G084800 chr7B 79.861 144 23 6 2119 2259 59079753 59079893 2.230000e-17 100.0
13 TraesCS2B01G084800 chr7B 79.231 130 22 5 3280 3407 538202910 538202784 6.250000e-13 86.1
14 TraesCS2B01G084800 chr3B 85.714 98 10 3 2164 2259 504068629 504068724 2.230000e-17 100.0
15 TraesCS2B01G084800 chr1D 82.558 86 14 1 3325 3409 276499717 276499802 1.350000e-09 75.0
16 TraesCS2B01G084800 chr1B 88.679 53 5 1 3185 3237 5512499 5512550 2.930000e-06 63.9


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 TraesCS2B01G084800 chr2B 47416114 47419628 3514 False 2831.0 5024 100.0000 1 3515 2 chr2B.!!$F1 3514
1 TraesCS2B01G084800 chr2D 29187435 29190074 2639 True 3160.0 3160 88.3910 5 2683 1 chr2D.!!$R2 2678
2 TraesCS2B01G084800 chr2A 31200339 31202804 2465 True 1664.5 2898 90.4835 620 3515 2 chr2A.!!$R2 2895
3 TraesCS2B01G084800 chr4B 44944552 44945944 1392 False 580.0 580 74.7740 1090 2503 1 chr4B.!!$F1 1413
4 TraesCS2B01G084800 chr4D 31446053 31447463 1410 True 531.0 531 74.2090 1090 2503 1 chr4D.!!$R1 1413

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
937 987 0.173708 CCGTTTTCCTCTCCTCCGAG 59.826 60.0 0.0 0.0 37.48 4.63 F
1492 1548 0.469144 TTTCCCCAACAGCTTCACCC 60.469 55.0 0.0 0.0 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1803 1859 0.952497 CTTCGCTGGAGCTGCTTGAA 60.952 55.0 6.82 6.96 39.32 2.69 R
3225 3300 0.905337 GAGTCTGCCACCCTACCACT 60.905 60.0 0.00 0.00 0.00 4.00 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
26 27 5.974751 TCATCAACTTTTCTAAACGCAAACC 59.025 36.000 0.00 0.00 0.00 3.27
28 29 5.956642 TCAACTTTTCTAAACGCAAACCTT 58.043 33.333 0.00 0.00 0.00 3.50
43 44 6.928492 ACGCAAACCTTTCATAAATTTGTGAT 59.072 30.769 17.07 1.20 41.19 3.06
44 45 7.440856 ACGCAAACCTTTCATAAATTTGTGATT 59.559 29.630 17.07 7.00 41.19 2.57
45 46 8.281893 CGCAAACCTTTCATAAATTTGTGATTT 58.718 29.630 17.07 11.91 41.19 2.17
46 47 9.949174 GCAAACCTTTCATAAATTTGTGATTTT 57.051 25.926 17.07 11.51 33.70 1.82
160 165 8.938906 CCAAATATTTCAAATTTCTGAACAGGG 58.061 33.333 0.00 0.00 35.07 4.45
169 174 7.548780 TCAAATTTCTGAACAGGGTTCAAAAAG 59.451 33.333 13.84 4.05 0.00 2.27
172 177 6.597832 TTCTGAACAGGGTTCAAAAAGAAA 57.402 33.333 12.32 0.10 38.13 2.52
178 183 9.377312 TGAACAGGGTTCAAAAAGAAAAATAAG 57.623 29.630 9.19 0.00 38.13 1.73
183 189 9.952030 AGGGTTCAAAAAGAAAAATAAGTTCAA 57.048 25.926 0.00 0.00 38.13 2.69
280 286 2.112297 GTCCCAACAAGGCGACCA 59.888 61.111 0.00 0.00 33.78 4.02
284 290 1.024271 CCCAACAAGGCGACCATATG 58.976 55.000 0.00 0.00 35.39 1.78
287 293 1.095228 AACAAGGCGACCATATGGCG 61.095 55.000 22.18 23.92 39.32 5.69
288 294 2.111043 AAGGCGACCATATGGCGG 59.889 61.111 28.02 19.49 39.32 6.13
291 297 3.044305 GCGACCATATGGCGGCTC 61.044 66.667 28.02 16.64 39.32 4.70
292 298 2.357517 CGACCATATGGCGGCTCC 60.358 66.667 22.18 3.58 39.32 4.70
327 333 3.670377 GCCGGCCCAACTGTTCAC 61.670 66.667 18.11 0.00 0.00 3.18
342 349 7.414436 CAACTGTTCACGGATTTAAAAGAAGA 58.586 34.615 0.00 0.00 0.00 2.87
347 354 8.792633 TGTTCACGGATTTAAAAGAAGATCATT 58.207 29.630 0.00 0.00 0.00 2.57
392 400 8.795786 TCACGAATTTTAGAACAAAATTCTGG 57.204 30.769 22.77 17.24 46.49 3.86
394 402 6.645003 ACGAATTTTAGAACAAAATTCTGGGC 59.355 34.615 22.77 6.99 46.49 5.36
397 405 8.978874 AATTTTAGAACAAAATTCTGGGCTTT 57.021 26.923 0.00 0.00 35.59 3.51
400 408 8.880878 TTTAGAACAAAATTCTGGGCTTTAAC 57.119 30.769 0.00 0.00 0.00 2.01
401 409 5.853936 AGAACAAAATTCTGGGCTTTAACC 58.146 37.500 0.00 0.00 0.00 2.85
402 410 5.602561 AGAACAAAATTCTGGGCTTTAACCT 59.397 36.000 0.00 0.00 0.00 3.50
405 413 6.993079 ACAAAATTCTGGGCTTTAACCTAAG 58.007 36.000 0.00 0.00 0.00 2.18
406 414 6.553476 ACAAAATTCTGGGCTTTAACCTAAGT 59.447 34.615 0.00 0.00 0.00 2.24
408 416 6.835819 AATTCTGGGCTTTAACCTAAGTTC 57.164 37.500 0.00 0.00 37.42 3.01
416 424 8.799367 TGGGCTTTAACCTAAGTTCTAAAAATC 58.201 33.333 0.00 0.00 37.42 2.17
417 425 8.799367 GGGCTTTAACCTAAGTTCTAAAAATCA 58.201 33.333 0.00 0.00 37.42 2.57
473 504 9.581289 TCAAGAATTTTGTAAAATACTCAGGGA 57.419 29.630 3.25 0.00 37.62 4.20
482 513 9.575868 TTGTAAAATACTCAGGGATTTGTAACA 57.424 29.630 0.00 0.00 0.00 2.41
483 514 9.575868 TGTAAAATACTCAGGGATTTGTAACAA 57.424 29.630 0.00 0.00 0.00 2.83
488 519 9.927668 AATACTCAGGGATTTGTAACAAATTTG 57.072 29.630 16.67 16.67 0.00 2.32
489 520 6.223120 ACTCAGGGATTTGTAACAAATTTGC 58.777 36.000 18.12 2.82 0.00 3.68
604 638 4.380531 TCTCCATAGATTTGTTCGCATCC 58.619 43.478 0.00 0.00 0.00 3.51
608 642 4.452455 CCATAGATTTGTTCGCATCCTACC 59.548 45.833 0.00 0.00 0.00 3.18
616 650 4.196193 TGTTCGCATCCTACCCTTTATTG 58.804 43.478 0.00 0.00 0.00 1.90
617 651 4.196971 GTTCGCATCCTACCCTTTATTGT 58.803 43.478 0.00 0.00 0.00 2.71
618 652 3.804036 TCGCATCCTACCCTTTATTGTG 58.196 45.455 0.00 0.00 0.00 3.33
662 696 2.159627 CGTTGATGTGTTTAGGAGGTGC 59.840 50.000 0.00 0.00 0.00 5.01
663 697 2.488153 GTTGATGTGTTTAGGAGGTGCC 59.512 50.000 0.00 0.00 0.00 5.01
710 752 1.200519 AGTTTGCGGACCCAGCTATA 58.799 50.000 0.00 0.00 35.28 1.31
763 806 9.693739 TTAATGCTTATATTCTTGTTTCCCTGA 57.306 29.630 0.00 0.00 0.00 3.86
799 846 2.605257 TGGATGGTAGTATTCCCTCCG 58.395 52.381 0.00 0.00 40.86 4.63
841 888 8.463930 TCTTCAATTTGACTAATTCCACTTGT 57.536 30.769 0.00 0.00 34.19 3.16
897 947 1.470890 CAACTTTCACACACCAACCGT 59.529 47.619 0.00 0.00 0.00 4.83
929 979 2.805657 CGTTGTTCCTCCGTTTTCCTCT 60.806 50.000 0.00 0.00 0.00 3.69
930 980 2.806818 GTTGTTCCTCCGTTTTCCTCTC 59.193 50.000 0.00 0.00 0.00 3.20
931 981 1.346722 TGTTCCTCCGTTTTCCTCTCC 59.653 52.381 0.00 0.00 0.00 3.71
932 982 1.624312 GTTCCTCCGTTTTCCTCTCCT 59.376 52.381 0.00 0.00 0.00 3.69
933 983 1.558233 TCCTCCGTTTTCCTCTCCTC 58.442 55.000 0.00 0.00 0.00 3.71
937 987 0.173708 CCGTTTTCCTCTCCTCCGAG 59.826 60.000 0.00 0.00 37.48 4.63
942 992 3.535962 CCTCTCCTCCGAGCTGCC 61.536 72.222 0.00 0.00 35.94 4.85
964 1014 2.597455 AGCCACCAAAATTAGCTGTGT 58.403 42.857 0.00 0.00 31.23 3.72
965 1015 2.297033 AGCCACCAAAATTAGCTGTGTG 59.703 45.455 0.00 0.00 31.23 3.82
966 1016 2.035832 GCCACCAAAATTAGCTGTGTGT 59.964 45.455 0.00 0.00 0.00 3.72
967 1017 3.641648 CCACCAAAATTAGCTGTGTGTG 58.358 45.455 0.00 0.00 0.00 3.82
970 1020 3.131933 ACCAAAATTAGCTGTGTGTGCAA 59.868 39.130 0.00 0.00 0.00 4.08
989 1039 3.318017 CAAGCGGCGTAATAATCTAGCT 58.682 45.455 9.37 0.00 34.96 3.32
990 1040 4.482386 CAAGCGGCGTAATAATCTAGCTA 58.518 43.478 9.37 0.00 32.98 3.32
991 1041 4.094090 AGCGGCGTAATAATCTAGCTAC 57.906 45.455 9.37 0.00 31.38 3.58
992 1042 2.844804 GCGGCGTAATAATCTAGCTACG 59.155 50.000 9.37 0.00 40.00 3.51
993 1043 3.669023 GCGGCGTAATAATCTAGCTACGT 60.669 47.826 9.37 0.00 39.39 3.57
1035 1085 2.444624 CGGTGCAAGTGATCCGTCG 61.445 63.158 3.17 0.00 38.45 5.12
1037 1087 2.434185 TGCAAGTGATCCGTCGCC 60.434 61.111 0.00 0.00 35.43 5.54
1038 1088 3.554692 GCAAGTGATCCGTCGCCG 61.555 66.667 0.00 0.00 35.43 6.46
1039 1089 2.126071 CAAGTGATCCGTCGCCGT 60.126 61.111 0.00 0.00 35.43 5.68
1059 1109 2.434884 ATCGTGCAGACAAGGCCG 60.435 61.111 0.00 0.00 0.00 6.13
1210 1260 1.069090 GTCACGCTCACCAACCTCA 59.931 57.895 0.00 0.00 0.00 3.86
1473 1529 2.639327 CGTCCCGGGGTACGTCTTT 61.639 63.158 23.50 0.00 42.24 2.52
1492 1548 0.469144 TTTCCCCAACAGCTTCACCC 60.469 55.000 0.00 0.00 0.00 4.61
1569 1625 4.351938 CGCGACCTCCCGAACACA 62.352 66.667 0.00 0.00 0.00 3.72
1817 1873 1.004560 TCCGTTCAAGCAGCTCCAG 60.005 57.895 0.00 0.00 0.00 3.86
1847 1903 3.123620 CGAGCTGGACTGCTTGGC 61.124 66.667 9.78 0.00 44.17 4.52
2523 2597 2.398554 CGGGGATTGACTTGGTGCG 61.399 63.158 0.00 0.00 0.00 5.34
2528 2602 1.069227 GGATTGACTTGGTGCGTGTTC 60.069 52.381 0.00 0.00 0.00 3.18
2532 2606 2.907634 TGACTTGGTGCGTGTTCTTTA 58.092 42.857 0.00 0.00 0.00 1.85
2533 2607 2.869801 TGACTTGGTGCGTGTTCTTTAG 59.130 45.455 0.00 0.00 0.00 1.85
2534 2608 1.602377 ACTTGGTGCGTGTTCTTTAGC 59.398 47.619 0.00 0.00 0.00 3.09
2535 2609 0.584396 TTGGTGCGTGTTCTTTAGCG 59.416 50.000 0.00 0.00 0.00 4.26
2536 2610 0.249531 TGGTGCGTGTTCTTTAGCGA 60.250 50.000 0.00 0.00 0.00 4.93
2540 2615 3.551551 GTGCGTGTTCTTTAGCGAAAAT 58.448 40.909 0.00 0.00 0.00 1.82
2569 2644 9.679661 ACATATGATTTGTACACATAGGACAAA 57.320 29.630 18.10 7.96 44.63 2.83
2593 2668 7.673641 ATCATGATACTCTGTTTCCTCTCTT 57.326 36.000 6.36 0.00 0.00 2.85
2612 2687 5.011125 TCTCTTCCTACTCTGTTTTGTGGAG 59.989 44.000 0.00 0.00 0.00 3.86
3225 3300 3.194861 CTCGCCGACAATCTATTTTGGA 58.805 45.455 0.00 0.00 0.00 3.53
3238 3313 0.111639 TTTTGGAGTGGTAGGGTGGC 59.888 55.000 0.00 0.00 0.00 5.01
3254 3329 1.008309 GGCAGACTCGCCGACTATC 60.008 63.158 0.96 0.00 43.52 2.08
3264 3339 4.691685 ACTCGCCGACTATCTGTCTTATAG 59.308 45.833 0.00 0.00 43.25 1.31
3275 3350 0.249911 GTCTTATAGTGGCAGGCCGG 60.250 60.000 5.74 0.00 39.42 6.13
3309 3384 2.813226 TATGGGTGTGAAGGCGGTGC 62.813 60.000 0.00 0.00 0.00 5.01
3313 3388 3.555324 TGTGAAGGCGGTGCAGGA 61.555 61.111 0.00 0.00 0.00 3.86
3327 3402 0.610785 GCAGGATCACCGGGGAAAAA 60.611 55.000 12.35 0.00 41.83 1.94
3404 3480 4.506255 GGTGATTGGGGGAGGGCG 62.506 72.222 0.00 0.00 0.00 6.13
3421 3497 2.036256 GGGTGCCAAGGCTGACAT 59.964 61.111 12.96 0.00 42.51 3.06
3429 3505 2.596851 AAGGCTGACATGGGAGCGT 61.597 57.895 10.98 9.21 35.95 5.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.305993 GGTTTGCGTTTAGAAAAGTTGATGAAG 60.306 37.037 0.00 0.00 0.00 3.02
2 3 5.974751 GGTTTGCGTTTAGAAAAGTTGATGA 59.025 36.000 0.00 0.00 0.00 2.92
3 4 5.977129 AGGTTTGCGTTTAGAAAAGTTGATG 59.023 36.000 0.00 0.00 0.00 3.07
5 6 5.570234 AGGTTTGCGTTTAGAAAAGTTGA 57.430 34.783 0.00 0.00 0.00 3.18
6 7 6.309251 TGAAAGGTTTGCGTTTAGAAAAGTTG 59.691 34.615 0.00 0.00 33.46 3.16
7 8 6.391537 TGAAAGGTTTGCGTTTAGAAAAGTT 58.608 32.000 0.00 0.00 33.46 2.66
8 9 5.956642 TGAAAGGTTTGCGTTTAGAAAAGT 58.043 33.333 0.00 0.00 33.46 2.66
9 10 8.568732 TTATGAAAGGTTTGCGTTTAGAAAAG 57.431 30.769 0.00 0.00 33.46 2.27
14 15 8.760569 ACAAATTTATGAAAGGTTTGCGTTTAG 58.239 29.630 0.00 0.00 34.12 1.85
15 16 8.543774 CACAAATTTATGAAAGGTTTGCGTTTA 58.456 29.630 0.00 0.00 34.12 2.01
20 21 9.949174 AAAATCACAAATTTATGAAAGGTTTGC 57.051 25.926 2.77 0.00 34.12 3.68
144 149 7.548780 TCTTTTTGAACCCTGTTCAGAAATTTG 59.451 33.333 19.50 12.08 33.81 2.32
152 157 9.377312 CTTATTTTTCTTTTTGAACCCTGTTCA 57.623 29.630 5.59 5.59 33.88 3.18
249 255 0.988832 TGGGACAAGGCCTAAACGAT 59.011 50.000 5.16 0.00 31.92 3.73
264 270 0.916086 ATATGGTCGCCTTGTTGGGA 59.084 50.000 0.00 0.00 36.00 4.37
275 281 2.357517 GGAGCCGCCATATGGTCG 60.358 66.667 22.79 23.17 37.57 4.79
287 293 4.778143 ATGCGTCCAACGGGAGCC 62.778 66.667 1.33 0.00 46.12 4.70
288 294 3.499737 CATGCGTCCAACGGGAGC 61.500 66.667 1.33 0.00 46.12 4.70
291 297 2.560861 CAACATGCGTCCAACGGG 59.439 61.111 1.33 0.00 42.82 5.28
292 298 2.560861 CCAACATGCGTCCAACGG 59.439 61.111 1.33 0.00 42.82 4.44
295 301 2.988684 GGCCCAACATGCGTCCAA 60.989 61.111 0.00 0.00 0.00 3.53
321 327 7.737972 TGATCTTCTTTTAAATCCGTGAACA 57.262 32.000 0.00 0.00 0.00 3.18
377 385 6.780522 AGGTTAAAGCCCAGAATTTTGTTCTA 59.219 34.615 0.00 0.00 0.00 2.10
379 387 5.853936 AGGTTAAAGCCCAGAATTTTGTTC 58.146 37.500 0.00 0.00 0.00 3.18
382 390 6.993079 ACTTAGGTTAAAGCCCAGAATTTTG 58.007 36.000 0.00 0.00 0.00 2.44
388 396 6.691255 TTAGAACTTAGGTTAAAGCCCAGA 57.309 37.500 0.00 0.00 35.58 3.86
389 397 7.754851 TTTTAGAACTTAGGTTAAAGCCCAG 57.245 36.000 0.00 0.00 35.58 4.45
457 488 9.575868 TTGTTACAAATCCCTGAGTATTTTACA 57.424 29.630 0.00 0.00 0.00 2.41
467 498 6.166984 TGCAAATTTGTTACAAATCCCTGA 57.833 33.333 21.50 4.98 0.00 3.86
570 603 9.378504 ACAAATCTATGGAGATATCTCTGTTCT 57.621 33.333 27.65 13.09 41.87 3.01
571 604 9.995003 AACAAATCTATGGAGATATCTCTGTTC 57.005 33.333 27.65 14.40 41.87 3.18
572 605 9.995003 GAACAAATCTATGGAGATATCTCTGTT 57.005 33.333 27.65 24.79 41.87 3.16
573 606 8.303156 CGAACAAATCTATGGAGATATCTCTGT 58.697 37.037 27.65 19.31 41.87 3.41
587 620 4.348168 AGGGTAGGATGCGAACAAATCTAT 59.652 41.667 0.00 0.00 0.00 1.98
608 642 6.485830 TCTCTACATCCCTCACAATAAAGG 57.514 41.667 0.00 0.00 0.00 3.11
616 650 5.826643 AGGAGATATCTCTACATCCCTCAC 58.173 45.833 27.65 10.08 42.48 3.51
617 651 6.476409 AAGGAGATATCTCTACATCCCTCA 57.524 41.667 27.65 0.00 42.48 3.86
618 652 5.588648 CGAAGGAGATATCTCTACATCCCTC 59.411 48.000 27.65 12.25 42.48 4.30
688 729 0.328258 AGCTGGGTCCGCAAACTATT 59.672 50.000 0.00 0.00 0.00 1.73
710 752 7.304497 ACAGAGTAGTTTATCCACTCAACTT 57.696 36.000 4.01 0.00 40.94 2.66
747 790 5.414789 TCGATGTCAGGGAAACAAGAATA 57.585 39.130 0.00 0.00 0.00 1.75
799 846 3.569701 TGAAGAAATTGAACTGTGGAGCC 59.430 43.478 0.00 0.00 0.00 4.70
872 921 3.840890 TGGTGTGTGAAAGTTGTTGAC 57.159 42.857 0.00 0.00 0.00 3.18
897 947 4.383173 GGAGGAACAACGGAGACTTTTTA 58.617 43.478 0.00 0.00 0.00 1.52
929 979 4.087892 GCTTGGCAGCTCGGAGGA 62.088 66.667 7.20 0.00 43.51 3.71
931 981 4.399395 TGGCTTGGCAGCTCGGAG 62.399 66.667 0.00 0.00 46.44 4.63
932 982 4.704833 GTGGCTTGGCAGCTCGGA 62.705 66.667 8.45 0.00 46.44 4.55
937 987 0.250424 AATTTTGGTGGCTTGGCAGC 60.250 50.000 17.46 17.46 46.52 5.25
942 992 3.243839 ACACAGCTAATTTTGGTGGCTTG 60.244 43.478 13.18 6.37 37.25 4.01
964 1014 1.329292 GATTATTACGCCGCTTGCACA 59.671 47.619 0.00 0.00 41.33 4.57
965 1015 1.597663 AGATTATTACGCCGCTTGCAC 59.402 47.619 0.00 0.00 41.33 4.57
966 1016 1.948104 AGATTATTACGCCGCTTGCA 58.052 45.000 0.00 0.00 41.33 4.08
967 1017 2.159827 GCTAGATTATTACGCCGCTTGC 60.160 50.000 0.00 0.00 0.00 4.01
970 1020 3.425892 CGTAGCTAGATTATTACGCCGCT 60.426 47.826 0.00 0.00 33.50 5.52
982 1032 4.333095 CGCCATGATAGTACGTAGCTAGAT 59.667 45.833 0.00 0.00 0.00 1.98
983 1033 3.683340 CGCCATGATAGTACGTAGCTAGA 59.317 47.826 0.00 0.00 0.00 2.43
989 1039 0.239082 CGCCGCCATGATAGTACGTA 59.761 55.000 0.00 0.00 0.00 3.57
990 1040 1.007734 CGCCGCCATGATAGTACGT 60.008 57.895 0.00 0.00 0.00 3.57
991 1041 1.733041 CCGCCGCCATGATAGTACG 60.733 63.158 0.00 0.00 0.00 3.67
992 1042 2.027625 GCCGCCGCCATGATAGTAC 61.028 63.158 0.00 0.00 0.00 2.73
993 1043 2.342279 GCCGCCGCCATGATAGTA 59.658 61.111 0.00 0.00 0.00 1.82
1038 1088 1.687494 GCCTTGTCTGCACGATCGAC 61.687 60.000 24.34 13.89 0.00 4.20
1039 1089 1.446099 GCCTTGTCTGCACGATCGA 60.446 57.895 24.34 0.00 0.00 3.59
1059 1109 4.585526 TCATCCGCCGTGATCGCC 62.586 66.667 0.00 0.00 35.54 5.54
1321 1371 1.522580 GGAGCTCGAACATGAGGGC 60.523 63.158 7.83 1.61 36.47 5.19
1473 1529 0.469144 GGGTGAAGCTGTTGGGGAAA 60.469 55.000 0.00 0.00 0.00 3.13
1564 1620 4.003788 CGGGAGCCGGAGTGTGTT 62.004 66.667 5.05 0.00 44.15 3.32
1630 1686 1.593296 GCGTAGACAGGGTCGGTCTT 61.593 60.000 6.08 0.00 42.77 3.01
1631 1687 2.045131 GCGTAGACAGGGTCGGTCT 61.045 63.158 6.05 6.05 46.71 3.85
1803 1859 0.952497 CTTCGCTGGAGCTGCTTGAA 60.952 55.000 6.82 6.96 39.32 2.69
1817 1873 3.546397 GCTCGTCGGCTTCTTCGC 61.546 66.667 0.00 0.00 0.00 4.70
1873 1929 1.530013 AAGGAGACGTACACCACCGG 61.530 60.000 0.00 0.00 0.00 5.28
2080 2136 3.894947 GCTCCTCGTCCTCTCCGC 61.895 72.222 0.00 0.00 0.00 5.54
2081 2137 2.438614 TGCTCCTCGTCCTCTCCG 60.439 66.667 0.00 0.00 0.00 4.63
2469 2543 2.978010 CACTTGCCGGCGACCTTT 60.978 61.111 23.90 0.00 0.00 3.11
2562 2637 6.825721 GGAAACAGAGTATCATGATTTGTCCT 59.174 38.462 14.65 2.64 37.82 3.85
2569 2644 7.201992 GGAAGAGAGGAAACAGAGTATCATGAT 60.202 40.741 13.81 13.81 37.82 2.45
2570 2645 6.097554 GGAAGAGAGGAAACAGAGTATCATGA 59.902 42.308 0.00 0.00 37.82 3.07
2593 2668 3.964688 TCACTCCACAAAACAGAGTAGGA 59.035 43.478 0.00 0.00 38.80 2.94
2612 2687 3.552604 ACAATTACCGTGCATGTTCAC 57.447 42.857 4.96 0.00 0.00 3.18
3179 3254 2.094854 GCCACCCTAATATAGACCGTCG 60.095 54.545 0.00 0.00 0.00 5.12
3181 3256 2.897969 CTGCCACCCTAATATAGACCGT 59.102 50.000 0.00 0.00 0.00 4.83
3184 3259 2.907042 AGCCTGCCACCCTAATATAGAC 59.093 50.000 0.00 0.00 0.00 2.59
3225 3300 0.905337 GAGTCTGCCACCCTACCACT 60.905 60.000 0.00 0.00 0.00 4.00
3238 3313 1.003331 GACAGATAGTCGGCGAGTCTG 60.003 57.143 29.63 29.63 41.47 3.51
3254 3329 1.539065 CGGCCTGCCACTATAAGACAG 60.539 57.143 9.17 0.00 35.37 3.51
3275 3350 7.772166 TCACACCCATAAGATATATCATCGAC 58.228 38.462 15.08 0.00 0.00 4.20
3309 3384 3.662290 TTTTTCCCCGGTGATCCTG 57.338 52.632 0.00 0.00 0.00 3.86
3327 3402 2.550830 ACCTCGACAATGAGCAGTTT 57.449 45.000 0.00 0.00 34.56 2.66
3342 3417 1.749033 CGGCCATCCCTCTAACCTC 59.251 63.158 2.24 0.00 0.00 3.85
3343 3418 1.766461 CCGGCCATCCCTCTAACCT 60.766 63.158 2.24 0.00 0.00 3.50
3369 3445 3.044305 GTCCACTGACGTGCTGCC 61.044 66.667 0.00 0.00 39.86 4.85
3404 3480 2.036256 ATGTCAGCCTTGGCACCC 59.964 61.111 14.54 1.34 42.67 4.61
3407 3483 2.036098 CCCATGTCAGCCTTGGCA 59.964 61.111 14.54 0.00 44.26 4.92
3409 3485 1.751927 GCTCCCATGTCAGCCTTGG 60.752 63.158 2.31 0.00 37.96 3.61
3414 3490 3.044059 GCAACGCTCCCATGTCAGC 62.044 63.158 3.50 3.50 0.00 4.26
3473 3549 1.520342 CTACCTCAAGCCGCAGAGC 60.520 63.158 7.20 0.00 0.00 4.09


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

AutoCloner maintained by Alex Coulton.