Multiple sequence alignment - TraesCS2D01G165500

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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 TraesCS2D01G165500 chr2D 100.000 2210 0 0 1 2210 109736668 109738877 0.000000e+00 4082.0
1 TraesCS2D01G165500 chr2D 88.066 662 48 16 827 1468 109830732 109831382 0.000000e+00 756.0
2 TraesCS2D01G165500 chr2D 94.588 425 19 2 2 425 109802824 109803245 0.000000e+00 654.0
3 TraesCS2D01G165500 chr2D 88.542 384 33 9 932 1312 109793373 109793748 2.590000e-124 455.0
4 TraesCS2D01G165500 chr2D 87.404 389 33 10 933 1314 109902020 109902399 1.210000e-117 433.0
5 TraesCS2D01G165500 chr2D 91.579 285 24 0 510 794 109803247 109803531 5.720000e-106 394.0
6 TraesCS2D01G165500 chr2D 89.941 169 14 2 261 428 109901415 109901581 4.780000e-52 215.0
7 TraesCS2D01G165500 chr2D 96.875 96 3 0 427 522 81771357 81771262 6.310000e-36 161.0
8 TraesCS2D01G165500 chr2A 90.301 897 70 11 519 1411 105522372 105523255 0.000000e+00 1158.0
9 TraesCS2D01G165500 chr2A 87.960 706 48 15 788 1468 105531639 105532332 0.000000e+00 798.0
10 TraesCS2D01G165500 chr2A 86.563 387 35 10 921 1296 105541247 105541627 5.680000e-111 411.0
11 TraesCS2D01G165500 chr2A 76.034 580 121 13 1471 2036 18390454 18389879 3.590000e-73 285.0
12 TraesCS2D01G165500 chr2A 84.647 241 28 7 190 428 105531081 105531314 4.750000e-57 231.0
13 TraesCS2D01G165500 chr2A 88.166 169 16 3 261 428 105540676 105540841 4.810000e-47 198.0
14 TraesCS2D01G165500 chr2B 91.445 526 33 8 827 1346 159300062 159300581 0.000000e+00 712.0
15 TraesCS2D01G165500 chr2B 94.575 424 20 1 2 425 159299214 159299634 0.000000e+00 652.0
16 TraesCS2D01G165500 chr2B 92.632 285 21 0 510 794 159299636 159299920 5.680000e-111 411.0
17 TraesCS2D01G165500 chr2B 87.778 360 33 8 942 1296 159319085 159319438 5.680000e-111 411.0
18 TraesCS2D01G165500 chr3B 83.422 748 94 8 1468 2190 482918102 482917360 0.000000e+00 667.0
19 TraesCS2D01G165500 chr3B 74.668 754 128 46 1468 2191 750865521 750864801 2.160000e-70 276.0
20 TraesCS2D01G165500 chr4B 76.010 767 149 21 1471 2210 174090868 174091626 4.480000e-97 364.0
21 TraesCS2D01G165500 chr4B 83.434 332 35 4 1853 2164 4606316 4606647 7.720000e-75 291.0
22 TraesCS2D01G165500 chr4B 74.457 599 115 22 1623 2191 611233809 611233219 7.940000e-55 224.0
23 TraesCS2D01G165500 chr6B 75.364 755 143 30 1471 2191 537452621 537453366 7.610000e-85 324.0
24 TraesCS2D01G165500 chr3D 77.015 583 110 18 1471 2036 230713680 230714255 1.650000e-81 313.0
25 TraesCS2D01G165500 chr3D 95.833 96 4 0 427 522 71921720 71921625 2.940000e-34 156.0
26 TraesCS2D01G165500 chr5D 76.857 579 100 27 1467 2023 400824674 400825240 1.660000e-76 296.0
27 TraesCS2D01G165500 chr5D 72.773 595 119 33 1471 2035 447381404 447380823 6.310000e-36 161.0
28 TraesCS2D01G165500 chr5D 96.774 93 3 0 427 519 237195282 237195374 2.940000e-34 156.0
29 TraesCS2D01G165500 chr5D 94.845 97 5 0 425 521 225253272 225253176 3.800000e-33 152.0
30 TraesCS2D01G165500 chr5D 97.143 35 1 0 1499 1533 447381604 447381570 2.370000e-05 60.2
31 TraesCS2D01G165500 chr5B 77.237 514 96 19 1465 1970 67522817 67523317 4.650000e-72 281.0
32 TraesCS2D01G165500 chr5A 79.381 388 64 13 1471 1849 636958311 636957931 2.180000e-65 259.0
33 TraesCS2D01G165500 chr4A 89.119 193 21 0 1473 1665 599939728 599939920 7.880000e-60 241.0
34 TraesCS2D01G165500 chr4D 95.876 97 4 0 427 523 41339515 41339611 8.170000e-35 158.0
35 TraesCS2D01G165500 chr4D 93.182 44 2 1 1466 1508 2972949 2972906 1.830000e-06 63.9
36 TraesCS2D01G165500 chr7D 96.774 93 3 0 427 519 570377882 570377974 2.940000e-34 156.0
37 TraesCS2D01G165500 chr6A 94.949 99 3 2 427 525 472360649 472360745 1.060000e-33 154.0
38 TraesCS2D01G165500 chr1A 95.789 95 4 0 427 521 486046077 486046171 1.060000e-33 154.0
39 TraesCS2D01G165500 chr1B 89.076 119 10 3 413 529 480823361 480823478 6.360000e-31 145.0


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 TraesCS2D01G165500 chr2D 109736668 109738877 2209 False 4082.000000 4082 100.0000 1 2210 1 chr2D.!!$F1 2209
1 TraesCS2D01G165500 chr2D 109830732 109831382 650 False 756.000000 756 88.0660 827 1468 1 chr2D.!!$F3 641
2 TraesCS2D01G165500 chr2D 109802824 109803531 707 False 524.000000 654 93.0835 2 794 2 chr2D.!!$F4 792
3 TraesCS2D01G165500 chr2D 109901415 109902399 984 False 324.000000 433 88.6725 261 1314 2 chr2D.!!$F5 1053
4 TraesCS2D01G165500 chr2A 105522372 105523255 883 False 1158.000000 1158 90.3010 519 1411 1 chr2A.!!$F1 892
5 TraesCS2D01G165500 chr2A 105531081 105532332 1251 False 514.500000 798 86.3035 190 1468 2 chr2A.!!$F2 1278
6 TraesCS2D01G165500 chr2A 105540676 105541627 951 False 304.500000 411 87.3645 261 1296 2 chr2A.!!$F3 1035
7 TraesCS2D01G165500 chr2A 18389879 18390454 575 True 285.000000 285 76.0340 1471 2036 1 chr2A.!!$R1 565
8 TraesCS2D01G165500 chr2B 159299214 159300581 1367 False 591.666667 712 92.8840 2 1346 3 chr2B.!!$F2 1344
9 TraesCS2D01G165500 chr3B 482917360 482918102 742 True 667.000000 667 83.4220 1468 2190 1 chr3B.!!$R1 722
10 TraesCS2D01G165500 chr3B 750864801 750865521 720 True 276.000000 276 74.6680 1468 2191 1 chr3B.!!$R2 723
11 TraesCS2D01G165500 chr4B 174090868 174091626 758 False 364.000000 364 76.0100 1471 2210 1 chr4B.!!$F2 739
12 TraesCS2D01G165500 chr4B 611233219 611233809 590 True 224.000000 224 74.4570 1623 2191 1 chr4B.!!$R1 568
13 TraesCS2D01G165500 chr6B 537452621 537453366 745 False 324.000000 324 75.3640 1471 2191 1 chr6B.!!$F1 720
14 TraesCS2D01G165500 chr3D 230713680 230714255 575 False 313.000000 313 77.0150 1471 2036 1 chr3D.!!$F1 565
15 TraesCS2D01G165500 chr5D 400824674 400825240 566 False 296.000000 296 76.8570 1467 2023 1 chr5D.!!$F2 556
16 TraesCS2D01G165500 chr5B 67522817 67523317 500 False 281.000000 281 77.2370 1465 1970 1 chr5B.!!$F1 505

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
443 446 4.799715 TTTTTACTCCCTCTGTCCCAAA 57.2 40.909 0.0 0.0 0.0 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2063 2306 0.108472 GTCTACCGTGGTTAGGTGGC 60.108 60.0 0.0 0.0 42.83 5.01 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
79 80 8.000780 AGTGGCCAGAAAAATAGATACATTTC 57.999 34.615 5.11 0.00 33.13 2.17
188 189 9.630098 CAATTTAGCATCACACACTAGAAAAAT 57.370 29.630 0.00 0.00 0.00 1.82
199 200 8.120465 CACACACTAGAAAAATGTTCGTTACTT 58.880 33.333 0.00 0.00 0.00 2.24
229 230 8.025445 GCAATGTCTCAATTATCTTTGTGAACT 58.975 33.333 0.00 0.00 32.66 3.01
243 244 7.639039 TCTTTGTGAACTAGTAGTTGCATTTG 58.361 34.615 20.21 10.86 38.80 2.32
443 446 4.799715 TTTTTACTCCCTCTGTCCCAAA 57.200 40.909 0.00 0.00 0.00 3.28
444 447 4.799715 TTTTACTCCCTCTGTCCCAAAA 57.200 40.909 0.00 0.00 0.00 2.44
445 448 5.333566 TTTTACTCCCTCTGTCCCAAAAT 57.666 39.130 0.00 0.00 0.00 1.82
446 449 6.457159 TTTTACTCCCTCTGTCCCAAAATA 57.543 37.500 0.00 0.00 0.00 1.40
447 450 6.652205 TTTACTCCCTCTGTCCCAAAATAT 57.348 37.500 0.00 0.00 0.00 1.28
448 451 7.758820 TTTACTCCCTCTGTCCCAAAATATA 57.241 36.000 0.00 0.00 0.00 0.86
449 452 7.758820 TTACTCCCTCTGTCCCAAAATATAA 57.241 36.000 0.00 0.00 0.00 0.98
450 453 6.652205 ACTCCCTCTGTCCCAAAATATAAA 57.348 37.500 0.00 0.00 0.00 1.40
451 454 7.039722 ACTCCCTCTGTCCCAAAATATAAAA 57.960 36.000 0.00 0.00 0.00 1.52
452 455 7.475299 ACTCCCTCTGTCCCAAAATATAAAAA 58.525 34.615 0.00 0.00 0.00 1.94
453 456 7.396339 ACTCCCTCTGTCCCAAAATATAAAAAC 59.604 37.037 0.00 0.00 0.00 2.43
454 457 6.376018 TCCCTCTGTCCCAAAATATAAAAACG 59.624 38.462 0.00 0.00 0.00 3.60
455 458 6.152154 CCCTCTGTCCCAAAATATAAAAACGT 59.848 38.462 0.00 0.00 0.00 3.99
456 459 7.309560 CCCTCTGTCCCAAAATATAAAAACGTT 60.310 37.037 0.00 0.00 0.00 3.99
457 460 8.085909 CCTCTGTCCCAAAATATAAAAACGTTT 58.914 33.333 7.96 7.96 0.00 3.60
458 461 9.471084 CTCTGTCCCAAAATATAAAAACGTTTT 57.529 29.630 20.26 20.26 0.00 2.43
459 462 9.819267 TCTGTCCCAAAATATAAAAACGTTTTT 57.181 25.926 33.94 33.94 42.51 1.94
486 489 6.579491 ACTACACTAGTGTCAAAAACGTTC 57.421 37.500 31.11 0.00 43.74 3.95
487 490 6.335777 ACTACACTAGTGTCAAAAACGTTCT 58.664 36.000 31.11 5.44 43.74 3.01
488 491 6.815142 ACTACACTAGTGTCAAAAACGTTCTT 59.185 34.615 31.11 4.99 43.74 2.52
489 492 7.975616 ACTACACTAGTGTCAAAAACGTTCTTA 59.024 33.333 31.11 8.36 43.74 2.10
490 493 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
491 494 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
492 495 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
507 510 7.001099 GTTCTTATATTATGGAACGGAGGGA 57.999 40.000 7.88 0.00 0.00 4.20
508 511 6.852420 TCTTATATTATGGAACGGAGGGAG 57.148 41.667 0.00 0.00 0.00 4.30
919 1122 7.822822 CCTAGCTAAAAGTGAAGCCTACTTAAA 59.177 37.037 0.00 0.00 39.64 1.52
1158 1369 4.153117 GTGACAGCAGACTTCGATTTGAAT 59.847 41.667 0.00 0.00 35.63 2.57
1179 1390 2.181021 GTTCGCGTCTGGGTCGAT 59.819 61.111 5.77 0.00 31.96 3.59
1296 1510 3.317711 TGCCGAATAAATAAGCATGGGTG 59.682 43.478 0.00 0.00 0.00 4.61
1357 1571 8.594881 ATGTTGTTTTGTTTGTGAGTTGTAAA 57.405 26.923 0.00 0.00 0.00 2.01
1434 1662 3.412386 ACCGTGAATTCTTCTTGAAGGG 58.588 45.455 7.05 2.24 38.18 3.95
1446 1674 8.561321 ATTCTTCTTGAAGGGCAATGATATGCA 61.561 37.037 10.08 0.00 42.03 3.96
1468 1696 9.646522 ATGCAGGGTATGATTTCTAATAAGTTT 57.353 29.630 0.00 0.00 0.00 2.66
1469 1697 9.120538 TGCAGGGTATGATTTCTAATAAGTTTC 57.879 33.333 0.00 0.00 0.00 2.78
1495 1723 4.853507 GCTTTCGCCCCGTTTTAC 57.146 55.556 0.00 0.00 0.00 2.01
1569 1799 2.280628 GTCCCCTTACAAAGCAGATCG 58.719 52.381 0.00 0.00 0.00 3.69
1591 1821 5.299531 TCGAGAGATACAACATGAACCTAGG 59.700 44.000 7.41 7.41 33.31 3.02
1604 1834 3.181434 TGAACCTAGGACAAGCCAAACAT 60.181 43.478 17.98 0.00 40.02 2.71
1612 1842 1.067516 ACAAGCCAAACATCACACTGC 59.932 47.619 0.00 0.00 0.00 4.40
1645 1878 0.318441 CCTGAGCTCCAAGACAACGA 59.682 55.000 12.15 0.00 0.00 3.85
1649 1882 1.122019 AGCTCCAAGACAACGACCCT 61.122 55.000 0.00 0.00 0.00 4.34
1656 1889 0.702902 AGACAACGACCCTAGGAGGA 59.297 55.000 11.48 0.00 37.67 3.71
1691 1924 4.742201 GCCGCTGCCGAGTCTGAA 62.742 66.667 0.00 0.00 36.29 3.02
1692 1925 2.185350 CCGCTGCCGAGTCTGAAT 59.815 61.111 0.00 0.00 36.29 2.57
1718 1951 4.095782 CCGGACAAAAGTTTTCACTCAGAA 59.904 41.667 0.00 0.00 30.45 3.02
1874 2107 1.575304 ACCACCATAATGAGGGCCAAT 59.425 47.619 6.18 0.00 0.00 3.16
1879 2113 3.662148 ACCATAATGAGGGCCAATCCATA 59.338 43.478 6.18 0.00 36.21 2.74
1884 2118 1.852309 TGAGGGCCAATCCATACACAT 59.148 47.619 6.18 0.00 36.21 3.21
1932 2166 1.195115 GAGCCTCCCATCACTACACA 58.805 55.000 0.00 0.00 0.00 3.72
2043 2286 3.011500 ATCCATGCCCCCATGCACA 62.011 57.895 0.00 0.00 45.97 4.57
2063 2306 2.019249 AGCCAATCATCAACATCACGG 58.981 47.619 0.00 0.00 0.00 4.94
2091 2348 1.203149 ACCACGGTAGACCTCCTTTCT 60.203 52.381 0.00 0.00 0.00 2.52
2098 2355 4.446600 CGGTAGACCTCCTTTCTCTCCTAT 60.447 50.000 0.00 0.00 0.00 2.57
2117 2374 4.082523 CCGACATCAGCCACCGGT 62.083 66.667 0.00 0.00 35.83 5.28
2151 2408 2.203209 CACCATAGGAAGCGCCCC 60.203 66.667 2.29 5.95 37.37 5.80
2202 2459 2.548375 GGGGGAGGGGGTATACAAC 58.452 63.158 5.01 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 5.895636 TTCTGGCCACTTTGTGTATAATG 57.104 39.130 0.00 0.00 0.00 1.90
121 122 3.795623 TGGTTAGGACGTGATAGCTTC 57.204 47.619 0.00 0.00 0.00 3.86
188 189 4.814234 AGACATTGCAAGAAGTAACGAACA 59.186 37.500 4.94 0.00 0.00 3.18
199 200 8.024865 CACAAAGATAATTGAGACATTGCAAGA 58.975 33.333 4.94 0.00 34.38 3.02
229 230 9.967346 GATGACTAGATACAAATGCAACTACTA 57.033 33.333 0.00 0.00 0.00 1.82
230 231 8.478066 TGATGACTAGATACAAATGCAACTACT 58.522 33.333 0.00 0.00 0.00 2.57
231 232 8.648557 TGATGACTAGATACAAATGCAACTAC 57.351 34.615 0.00 0.00 0.00 2.73
326 327 4.081406 TGCTATTGTCAACATTTCAGGCT 58.919 39.130 0.00 0.00 0.00 4.58
375 377 2.307768 CAAGCTTCTCATGGCATCCAT 58.692 47.619 0.00 0.00 46.37 3.41
426 429 7.758820 TTTATATTTTGGGACAGAGGGAGTA 57.241 36.000 0.00 0.00 42.39 2.59
427 430 6.652205 TTTATATTTTGGGACAGAGGGAGT 57.348 37.500 0.00 0.00 42.39 3.85
428 431 7.415206 CGTTTTTATATTTTGGGACAGAGGGAG 60.415 40.741 0.00 0.00 42.39 4.30
429 432 6.376018 CGTTTTTATATTTTGGGACAGAGGGA 59.624 38.462 0.00 0.00 42.39 4.20
430 433 6.152154 ACGTTTTTATATTTTGGGACAGAGGG 59.848 38.462 0.00 0.00 42.39 4.30
431 434 7.153217 ACGTTTTTATATTTTGGGACAGAGG 57.847 36.000 0.00 0.00 42.39 3.69
432 435 9.471084 AAAACGTTTTTATATTTTGGGACAGAG 57.529 29.630 20.26 0.00 42.39 3.35
433 436 9.819267 AAAAACGTTTTTATATTTTGGGACAGA 57.181 25.926 31.82 0.00 37.97 3.41
463 466 6.335777 AGAACGTTTTTGACACTAGTGTAGT 58.664 36.000 27.98 15.35 45.05 2.73
464 467 6.823678 AGAACGTTTTTGACACTAGTGTAG 57.176 37.500 27.98 14.79 45.05 2.74
465 468 8.876275 ATAAGAACGTTTTTGACACTAGTGTA 57.124 30.769 27.98 11.50 45.05 2.90
483 486 7.001099 TCCCTCCGTTCCATAATATAAGAAC 57.999 40.000 5.67 5.67 36.19 3.01
484 487 6.785963 ACTCCCTCCGTTCCATAATATAAGAA 59.214 38.462 0.00 0.00 0.00 2.52
485 488 6.320518 ACTCCCTCCGTTCCATAATATAAGA 58.679 40.000 0.00 0.00 0.00 2.10
486 489 6.607004 ACTCCCTCCGTTCCATAATATAAG 57.393 41.667 0.00 0.00 0.00 1.73
487 490 8.674925 AATACTCCCTCCGTTCCATAATATAA 57.325 34.615 0.00 0.00 0.00 0.98
488 491 8.674925 AAATACTCCCTCCGTTCCATAATATA 57.325 34.615 0.00 0.00 0.00 0.86
489 492 7.569599 AAATACTCCCTCCGTTCCATAATAT 57.430 36.000 0.00 0.00 0.00 1.28
490 493 8.674925 ATAAATACTCCCTCCGTTCCATAATA 57.325 34.615 0.00 0.00 0.00 0.98
491 494 5.906772 AAATACTCCCTCCGTTCCATAAT 57.093 39.130 0.00 0.00 0.00 1.28
492 495 7.383156 AATAAATACTCCCTCCGTTCCATAA 57.617 36.000 0.00 0.00 0.00 1.90
493 496 7.383156 AAATAAATACTCCCTCCGTTCCATA 57.617 36.000 0.00 0.00 0.00 2.74
494 497 5.906772 AATAAATACTCCCTCCGTTCCAT 57.093 39.130 0.00 0.00 0.00 3.41
495 498 5.703730 AAATAAATACTCCCTCCGTTCCA 57.296 39.130 0.00 0.00 0.00 3.53
496 499 5.699915 GCTAAATAAATACTCCCTCCGTTCC 59.300 44.000 0.00 0.00 0.00 3.62
497 500 6.285990 TGCTAAATAAATACTCCCTCCGTTC 58.714 40.000 0.00 0.00 0.00 3.95
498 501 6.243216 TGCTAAATAAATACTCCCTCCGTT 57.757 37.500 0.00 0.00 0.00 4.44
499 502 5.881923 TGCTAAATAAATACTCCCTCCGT 57.118 39.130 0.00 0.00 0.00 4.69
500 503 6.348540 GCAATGCTAAATAAATACTCCCTCCG 60.349 42.308 0.00 0.00 0.00 4.63
501 504 6.071896 GGCAATGCTAAATAAATACTCCCTCC 60.072 42.308 4.82 0.00 0.00 4.30
502 505 6.717084 AGGCAATGCTAAATAAATACTCCCTC 59.283 38.462 4.82 0.00 0.00 4.30
503 506 6.614657 AGGCAATGCTAAATAAATACTCCCT 58.385 36.000 4.82 0.00 0.00 4.20
504 507 6.901081 AGGCAATGCTAAATAAATACTCCC 57.099 37.500 4.82 0.00 0.00 4.30
692 704 3.932710 GAGATGCCCGCGATAAATGATAA 59.067 43.478 8.23 0.00 0.00 1.75
806 931 5.734720 CTCCTAGTTTGGAGCATGTAAAGA 58.265 41.667 0.00 0.00 45.84 2.52
887 1089 4.265073 CTTCACTTTTAGCTAGGCCACAT 58.735 43.478 5.01 0.00 0.00 3.21
1130 1341 3.838120 TCGAAGTCTGCTGTCACAATAG 58.162 45.455 0.00 0.00 0.00 1.73
1131 1342 3.934457 TCGAAGTCTGCTGTCACAATA 57.066 42.857 0.00 0.00 0.00 1.90
1132 1343 2.820059 TCGAAGTCTGCTGTCACAAT 57.180 45.000 0.00 0.00 0.00 2.71
1179 1390 3.384348 GGAACCTCTGCCACCGTA 58.616 61.111 0.00 0.00 0.00 4.02
1327 1541 7.575332 ACTCACAAACAAAACAACATTACAC 57.425 32.000 0.00 0.00 0.00 2.90
1357 1571 5.050490 GTGGCTCGACAATATTACTGATGT 58.950 41.667 0.00 0.00 0.00 3.06
1403 1617 6.780706 GAAGAATTCACGGTTGAAGTAGAA 57.219 37.500 8.44 0.00 46.62 2.10
1434 1662 5.909621 AATCATACCCTGCATATCATTGC 57.090 39.130 0.00 0.00 43.07 3.56
1446 1674 8.711170 TCGGAAACTTATTAGAAATCATACCCT 58.289 33.333 0.00 0.00 0.00 4.34
1569 1799 6.096987 TGTCCTAGGTTCATGTTGTATCTCTC 59.903 42.308 9.08 0.00 0.00 3.20
1591 1821 2.859806 GCAGTGTGATGTTTGGCTTGTC 60.860 50.000 0.00 0.00 0.00 3.18
1604 1834 1.112916 TCTTCGACCAGGCAGTGTGA 61.113 55.000 0.00 0.00 0.00 3.58
1612 1842 0.814457 CTCAGGAGTCTTCGACCAGG 59.186 60.000 0.00 0.00 32.18 4.45
1645 1878 0.826672 CGCCGTTATCCTCCTAGGGT 60.827 60.000 9.46 0.00 35.59 4.34
1649 1882 1.679680 CTTCACGCCGTTATCCTCCTA 59.320 52.381 0.00 0.00 0.00 2.94
1691 1924 5.591067 TGAGTGAAAACTTTTGTCCGGTTAT 59.409 36.000 0.00 0.00 0.00 1.89
1692 1925 4.942483 TGAGTGAAAACTTTTGTCCGGTTA 59.058 37.500 0.00 0.00 0.00 2.85
1718 1951 1.272769 GTCTCGTTCTTGTGCTAGGGT 59.727 52.381 0.00 0.00 0.00 4.34
1753 1986 2.328099 GGTGTCGCTTGCTTCCTGG 61.328 63.158 0.00 0.00 0.00 4.45
1874 2107 1.970640 CCCAGATCCGATGTGTATGGA 59.029 52.381 4.92 0.00 35.96 3.41
1879 2113 1.221840 GTGCCCAGATCCGATGTGT 59.778 57.895 4.92 0.00 0.00 3.72
1884 2118 3.785859 GGCAGTGCCCAGATCCGA 61.786 66.667 24.53 0.00 44.06 4.55
1932 2166 1.302511 GTCATGTGGGCGACAAGGT 60.303 57.895 6.39 0.00 38.36 3.50
2014 2257 3.860605 CATGGATGTCGGGGCGGA 61.861 66.667 0.00 0.00 0.00 5.54
2043 2286 2.019249 CCGTGATGTTGATGATTGGCT 58.981 47.619 0.00 0.00 0.00 4.75
2063 2306 0.108472 GTCTACCGTGGTTAGGTGGC 60.108 60.000 0.00 0.00 42.83 5.01
2091 2348 1.621992 GCTGATGTCGGGATAGGAGA 58.378 55.000 0.00 0.00 0.00 3.71
2098 2355 3.770040 CGGTGGCTGATGTCGGGA 61.770 66.667 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.