Multiple sequence alignment - TraesCS5B01G561300

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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 TraesCS5B01G561300 chr5B 100.000 2753 0 0 1 2753 707438980 707441732 0.000000e+00 5084.0
1 TraesCS5B01G561300 chr5B 89.775 489 38 8 1015 1503 707475983 707476459 1.400000e-172 616.0
2 TraesCS5B01G561300 chr5B 94.444 162 8 1 423 583 539322722 539322883 5.890000e-62 248.0
3 TraesCS5B01G561300 chr5B 86.667 150 20 0 1354 1503 529988190 529988339 1.700000e-37 167.0
4 TraesCS5B01G561300 chr5B 85.915 142 20 0 1354 1495 529609318 529609459 4.750000e-33 152.0
5 TraesCS5B01G561300 chr5B 90.667 75 7 0 1505 1579 529988419 529988493 1.740000e-17 100.0
6 TraesCS5B01G561300 chr5D 92.880 2177 96 31 588 2753 565703500 565701372 0.000000e+00 3107.0
7 TraesCS5B01G561300 chr5D 89.634 492 39 8 1015 1506 565659720 565659241 1.400000e-172 616.0
8 TraesCS5B01G561300 chr5D 95.133 226 7 2 1 226 565704068 565703847 1.210000e-93 353.0
9 TraesCS5B01G561300 chr4A 91.450 1579 85 19 954 2513 607262106 607260559 0.000000e+00 2122.0
10 TraesCS5B01G561300 chr4A 92.453 424 31 1 1084 1506 607178233 607177810 3.030000e-169 604.0
11 TraesCS5B01G561300 chr4A 94.324 370 13 3 1 362 607263721 607263352 6.660000e-156 560.0
12 TraesCS5B01G561300 chr4A 91.848 368 17 6 582 938 607263284 607262919 4.090000e-138 501.0
13 TraesCS5B01G561300 chr7D 92.727 165 11 1 420 583 453283499 453283663 1.270000e-58 237.0
14 TraesCS5B01G561300 chr4D 92.216 167 12 1 418 583 230542716 230542550 4.580000e-58 235.0
15 TraesCS5B01G561300 chr4D 91.515 165 13 1 420 583 61780394 61780230 2.760000e-55 226.0
16 TraesCS5B01G561300 chr4D 84.021 194 28 3 1433 1624 477749838 477750030 1.680000e-42 183.0
17 TraesCS5B01G561300 chr4D 79.508 122 22 3 1505 1624 419137426 419137546 1.760000e-12 84.2
18 TraesCS5B01G561300 chrUn 92.169 166 12 1 419 583 31220492 31220657 1.650000e-57 233.0
19 TraesCS5B01G561300 chr4B 92.638 163 11 1 423 584 483266379 483266541 1.650000e-57 233.0
20 TraesCS5B01G561300 chr4B 82.902 193 32 1 1433 1624 603520118 603520310 3.640000e-39 172.0
21 TraesCS5B01G561300 chr4B 80.172 116 20 3 1511 1624 516952144 516952030 1.760000e-12 84.2
22 TraesCS5B01G561300 chr1B 92.593 162 11 1 423 583 546968487 546968648 5.930000e-57 231.0
23 TraesCS5B01G561300 chr2D 90.643 171 15 1 419 588 305515034 305514864 2.760000e-55 226.0
24 TraesCS5B01G561300 chr6D 90.964 166 13 2 420 583 15801106 15801271 3.570000e-54 222.0


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 TraesCS5B01G561300 chr5B 707438980 707441732 2752 False 5084 5084 100.000000 1 2753 1 chr5B.!!$F3 2752
1 TraesCS5B01G561300 chr5D 565701372 565704068 2696 True 1730 3107 94.006500 1 2753 2 chr5D.!!$R2 2752
2 TraesCS5B01G561300 chr4A 607260559 607263721 3162 True 1061 2122 92.540667 1 2513 3 chr4A.!!$R2 2512

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
857 1051 0.10741 AGACCAAGACCAACGCAACA 60.107 50.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2343 3359 0.035056 GCCACTAGTGCTGGTTCCAT 60.035 55.0 17.86 0.0 0.0 3.41 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
145 146 2.527671 TGTGTACACAGACGCATGC 58.472 52.632 24.62 7.91 34.97 4.06
212 217 3.596214 ACCAAACAACGCTAGGTAGATG 58.404 45.455 0.00 0.00 0.00 2.90
256 265 4.054671 CTCCGTATCTCTTCATTCTTGCC 58.945 47.826 0.00 0.00 0.00 4.52
280 289 7.331026 CCTTGGTAGTAGATGAAGATGAACAA 58.669 38.462 0.00 0.00 0.00 2.83
313 322 4.022068 TCAGTTGCTTCATGGATTTGGAAC 60.022 41.667 0.00 0.00 0.00 3.62
340 349 8.409358 AGAAACTAACTAATGGCTTTGTTCAT 57.591 30.769 0.00 0.00 33.38 2.57
355 364 1.065418 GTTCATAGGGGTCAGGTGTGG 60.065 57.143 0.00 0.00 0.00 4.17
362 371 2.972505 GTCAGGTGTGGGTGCGTG 60.973 66.667 0.00 0.00 0.00 5.34
363 372 3.475494 TCAGGTGTGGGTGCGTGT 61.475 61.111 0.00 0.00 0.00 4.49
364 373 3.279116 CAGGTGTGGGTGCGTGTG 61.279 66.667 0.00 0.00 0.00 3.82
367 376 2.411504 GGTGTGGGTGCGTGTGTTT 61.412 57.895 0.00 0.00 0.00 2.83
371 380 2.025155 TGTGGGTGCGTGTGTTTTTAT 58.975 42.857 0.00 0.00 0.00 1.40
372 381 2.223595 TGTGGGTGCGTGTGTTTTTATG 60.224 45.455 0.00 0.00 0.00 1.90
373 382 1.338337 TGGGTGCGTGTGTTTTTATGG 59.662 47.619 0.00 0.00 0.00 2.74
374 383 1.609555 GGGTGCGTGTGTTTTTATGGA 59.390 47.619 0.00 0.00 0.00 3.41
376 385 3.440872 GGGTGCGTGTGTTTTTATGGATA 59.559 43.478 0.00 0.00 0.00 2.59
377 386 4.082679 GGGTGCGTGTGTTTTTATGGATAA 60.083 41.667 0.00 0.00 0.00 1.75
378 387 5.092781 GGTGCGTGTGTTTTTATGGATAAG 58.907 41.667 0.00 0.00 0.00 1.73
379 388 4.557301 GTGCGTGTGTTTTTATGGATAAGC 59.443 41.667 0.00 0.00 0.00 3.09
380 389 3.783943 GCGTGTGTTTTTATGGATAAGCG 59.216 43.478 0.00 0.00 0.00 4.68
381 390 4.670735 GCGTGTGTTTTTATGGATAAGCGT 60.671 41.667 0.00 0.00 0.00 5.07
382 391 5.446206 GCGTGTGTTTTTATGGATAAGCGTA 60.446 40.000 0.00 0.00 0.00 4.42
383 392 6.711579 CGTGTGTTTTTATGGATAAGCGTAT 58.288 36.000 0.00 0.00 0.00 3.06
384 393 6.627276 CGTGTGTTTTTATGGATAAGCGTATG 59.373 38.462 0.00 0.00 0.00 2.39
385 394 7.469260 GTGTGTTTTTATGGATAAGCGTATGT 58.531 34.615 0.00 0.00 0.00 2.29
386 395 8.605746 GTGTGTTTTTATGGATAAGCGTATGTA 58.394 33.333 0.00 0.00 0.00 2.29
387 396 9.163899 TGTGTTTTTATGGATAAGCGTATGTAA 57.836 29.630 0.00 0.00 0.00 2.41
388 397 9.991388 GTGTTTTTATGGATAAGCGTATGTAAA 57.009 29.630 0.00 0.00 0.00 2.01
401 410 8.670804 AAGCGTATGTAAATGATATCTACGTC 57.329 34.615 15.51 10.25 34.55 4.34
402 411 8.041829 AGCGTATGTAAATGATATCTACGTCT 57.958 34.615 15.51 11.66 34.55 4.18
403 412 9.159364 AGCGTATGTAAATGATATCTACGTCTA 57.841 33.333 15.51 0.00 34.55 2.59
404 413 9.932699 GCGTATGTAAATGATATCTACGTCTAT 57.067 33.333 15.51 0.00 34.55 1.98
472 587 9.167311 GTGTTTGTAGAGATTTCATTATGGACT 57.833 33.333 0.00 0.00 0.00 3.85
475 590 9.529325 TTTGTAGAGATTTCATTATGGACTACG 57.471 33.333 0.00 0.00 33.02 3.51
480 595 7.228108 AGAGATTTCATTATGGACTACGTACGA 59.772 37.037 24.41 4.69 0.00 3.43
482 597 7.861372 AGATTTCATTATGGACTACGTACGAAG 59.139 37.037 24.41 0.00 0.00 3.79
483 598 4.852138 TCATTATGGACTACGTACGAAGC 58.148 43.478 24.41 7.89 0.00 3.86
484 599 4.336153 TCATTATGGACTACGTACGAAGCA 59.664 41.667 24.41 2.89 0.00 3.91
489 604 3.676172 TGGACTACGTACGAAGCAAAATG 59.324 43.478 24.41 3.37 0.00 2.32
491 606 4.031426 GGACTACGTACGAAGCAAAATGAG 59.969 45.833 24.41 5.34 0.00 2.90
494 609 3.386486 ACGTACGAAGCAAAATGAGTGA 58.614 40.909 24.41 0.00 0.00 3.41
496 611 4.451096 ACGTACGAAGCAAAATGAGTGAAT 59.549 37.500 24.41 0.00 0.00 2.57
498 613 6.146510 ACGTACGAAGCAAAATGAGTGAATTA 59.853 34.615 24.41 0.00 0.00 1.40
499 614 6.461698 CGTACGAAGCAAAATGAGTGAATTAC 59.538 38.462 10.44 0.00 0.00 1.89
537 652 3.744238 CATACATCCGTATGTGGTCCA 57.256 47.619 3.56 0.00 46.70 4.02
550 671 4.487714 TGTGGTCCATAGTGAAATCTCC 57.512 45.455 0.00 0.00 0.00 3.71
601 781 7.556635 AGGGAGTAACTAATGGCTTTGTTAATC 59.443 37.037 17.24 17.24 42.02 1.75
610 790 6.780457 ATGGCTTTGTTAATCTGCAAGTAT 57.220 33.333 0.00 0.00 33.76 2.12
621 801 9.869844 GTTAATCTGCAAGTATGAACATGTATC 57.130 33.333 0.00 0.00 33.76 2.24
622 802 9.612066 TTAATCTGCAAGTATGAACATGTATCA 57.388 29.630 0.00 5.99 33.76 2.15
659 841 3.698250 TCAAACTGGTTGACTCGGG 57.302 52.632 3.54 0.00 41.47 5.14
736 918 4.827284 GCCAACAATAGCTAATACCCACAT 59.173 41.667 0.00 0.00 0.00 3.21
857 1051 0.107410 AGACCAAGACCAACGCAACA 60.107 50.000 0.00 0.00 0.00 3.33
947 1764 1.260561 GCCGGCACATACATAAACTCG 59.739 52.381 24.80 0.00 0.00 4.18
948 1765 1.260561 CCGGCACATACATAAACTCGC 59.739 52.381 0.00 0.00 0.00 5.03
949 1766 1.260561 CGGCACATACATAAACTCGCC 59.739 52.381 0.00 0.00 34.91 5.54
950 1767 1.602377 GGCACATACATAAACTCGCCC 59.398 52.381 0.00 0.00 32.01 6.13
951 1768 2.285083 GCACATACATAAACTCGCCCA 58.715 47.619 0.00 0.00 0.00 5.36
952 1769 2.878406 GCACATACATAAACTCGCCCAT 59.122 45.455 0.00 0.00 0.00 4.00
972 1963 4.585162 CCATCTAGATTCTCTACCACCGTT 59.415 45.833 1.33 0.00 0.00 4.44
987 1978 0.248134 CCGTTGATCGACCGAGAGAC 60.248 60.000 7.54 0.00 42.86 3.36
988 1979 0.446616 CGTTGATCGACCGAGAGACA 59.553 55.000 7.54 0.00 42.86 3.41
989 1980 1.530031 CGTTGATCGACCGAGAGACAG 60.530 57.143 7.54 0.00 42.86 3.51
990 1981 1.738350 GTTGATCGACCGAGAGACAGA 59.262 52.381 1.10 0.00 0.00 3.41
991 1982 1.370609 TGATCGACCGAGAGACAGAC 58.629 55.000 0.00 0.00 0.00 3.51
1020 2011 3.397439 GAGCAGCAGGAGGAGGCA 61.397 66.667 0.00 0.00 0.00 4.75
1045 2036 2.175078 CGACGACGATGACGGTGT 59.825 61.111 0.00 0.00 44.46 4.16
1092 2083 4.748679 GCGAGCAACGGCAGCAAG 62.749 66.667 0.00 0.00 44.61 4.01
1096 2087 2.429739 GCAACGGCAGCAAGAAGC 60.430 61.111 0.00 0.00 46.19 3.86
1608 2599 2.325857 GCAAGGCGCATCATCGTC 59.674 61.111 10.83 0.00 41.79 4.20
1704 2695 2.487428 CTCAGCTGGGAGTCGTCG 59.513 66.667 8.28 0.00 0.00 5.12
1779 2770 2.668632 GGCCGGATCAACTCACCA 59.331 61.111 5.05 0.00 0.00 4.17
1780 2771 1.745489 GGCCGGATCAACTCACCAC 60.745 63.158 5.05 0.00 0.00 4.16
1816 2807 4.274950 ACCCAAGATTAGTTGACAAACACG 59.725 41.667 0.00 0.00 38.88 4.49
1977 2990 7.798516 CGTATGGTTGAATGTATGCAAATACTC 59.201 37.037 0.00 0.00 0.00 2.59
2022 3035 4.997395 GGCTGACTTTCATTCTACTTGTGA 59.003 41.667 0.00 0.00 0.00 3.58
2031 3044 9.282247 CTTTCATTCTACTTGTGATGTTTATGC 57.718 33.333 0.00 0.00 0.00 3.14
2124 3140 1.862815 GCAGCGGCAACATGATTGATC 60.863 52.381 3.18 0.00 40.72 2.92
2242 3258 3.465742 AGTGAGGTCGATCCATTCATG 57.534 47.619 0.00 0.00 39.02 3.07
2272 3288 2.239681 TCTGTCCTCTCTTTCCCTCC 57.760 55.000 0.00 0.00 0.00 4.30
2314 3330 2.244651 GGTGTGCGTGTGTGAGGTC 61.245 63.158 0.00 0.00 0.00 3.85
2343 3359 1.375396 GCACGTGGATGCACTACCA 60.375 57.895 18.88 5.20 45.39 3.25
2396 3412 2.844839 GGAGGATAGGCCGGCAGT 60.845 66.667 30.85 17.79 43.43 4.40
2414 3430 4.634443 GGCAGTAACCAACCAAGTACTATG 59.366 45.833 0.00 0.00 0.00 2.23
2499 3515 7.723172 ACCAATTCTTCTCATCAATTATCCTCC 59.277 37.037 0.00 0.00 0.00 4.30
2501 3517 9.352191 CAATTCTTCTCATCAATTATCCTCCTT 57.648 33.333 0.00 0.00 0.00 3.36
2502 3518 8.921353 ATTCTTCTCATCAATTATCCTCCTTG 57.079 34.615 0.00 0.00 0.00 3.61
2504 3520 7.278135 TCTTCTCATCAATTATCCTCCTTGTG 58.722 38.462 0.00 0.00 0.00 3.33
2524 3540 0.748367 GCTAGCTAACAAGCCCCCAC 60.748 60.000 7.70 0.00 34.90 4.61
2588 3604 4.143301 GGGAGGCCCACAATCCCC 62.143 72.222 14.91 3.91 46.03 4.81
2589 3605 3.346734 GGAGGCCCACAATCCCCA 61.347 66.667 0.00 0.00 0.00 4.96
2591 3607 3.662117 GAGGCCCACAATCCCCACC 62.662 68.421 0.00 0.00 0.00 4.61
2594 3610 1.694856 GCCCACAATCCCCACCTAA 59.305 57.895 0.00 0.00 0.00 2.69
2595 3611 0.040499 GCCCACAATCCCCACCTAAA 59.960 55.000 0.00 0.00 0.00 1.85
2596 3612 1.551329 GCCCACAATCCCCACCTAAAA 60.551 52.381 0.00 0.00 0.00 1.52
2597 3613 2.892301 GCCCACAATCCCCACCTAAAAT 60.892 50.000 0.00 0.00 0.00 1.82
2606 3622 9.951866 ACAATCCCCACCTAAAATAAAATATCT 57.048 29.630 0.00 0.00 0.00 1.98
2624 3640 3.213206 TCTGCATTTCAAGTCACTGGT 57.787 42.857 0.00 0.00 0.00 4.00
2633 3649 2.703536 TCAAGTCACTGGTTGAAGCCTA 59.296 45.455 0.00 0.00 35.39 3.93
2640 3656 0.320421 TGGTTGAAGCCTACTGACGC 60.320 55.000 0.00 0.00 0.00 5.19
2647 3663 3.065306 CCTACTGACGCCACCCAA 58.935 61.111 0.00 0.00 0.00 4.12
2650 3666 2.172483 CTACTGACGCCACCCAAGCT 62.172 60.000 0.00 0.00 0.00 3.74
2676 3692 2.645510 GCGGCCGATACGAATGTCG 61.646 63.158 33.48 0.00 46.93 4.35
2685 3701 2.681666 CGAATGTCGTCGTCGTGC 59.318 61.111 1.33 0.00 36.26 5.34
2707 3723 1.749634 CCGATCCGGTAACTCTGAAGT 59.250 52.381 0.00 0.00 42.73 3.01
2722 3738 1.691976 TGAAGTTCCGACACCACATCT 59.308 47.619 0.00 0.00 0.00 2.90
2746 3762 2.924290 GTTGCGACACTAGATGAGGAAC 59.076 50.000 0.00 5.70 35.32 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 8.343168 TCATTTTCACTAATTAAATCCACGGT 57.657 30.769 0.00 0.00 0.00 4.83
212 217 7.022384 GGAGCACGTACATCTTATCTGTATAC 58.978 42.308 0.00 0.00 32.13 1.47
256 265 8.037758 AGTTGTTCATCTTCATCTACTACCAAG 58.962 37.037 0.00 0.00 0.00 3.61
280 289 5.879223 CCATGAAGCAACTGATCTCTTTAGT 59.121 40.000 0.00 0.00 0.00 2.24
313 322 8.134895 TGAACAAAGCCATTAGTTAGTTTCTTG 58.865 33.333 0.00 0.00 0.00 3.02
330 339 2.290960 ACCTGACCCCTATGAACAAAGC 60.291 50.000 0.00 0.00 0.00 3.51
340 349 1.537889 CACCCACACCTGACCCCTA 60.538 63.158 0.00 0.00 0.00 3.53
355 364 3.569250 ATCCATAAAAACACACGCACC 57.431 42.857 0.00 0.00 0.00 5.01
362 371 9.991388 TTTACATACGCTTATCCATAAAAACAC 57.009 29.630 0.00 0.00 0.00 3.32
376 385 8.512956 AGACGTAGATATCATTTACATACGCTT 58.487 33.333 14.68 4.77 38.38 4.68
377 386 8.041829 AGACGTAGATATCATTTACATACGCT 57.958 34.615 14.68 11.19 38.38 5.07
378 387 9.932699 ATAGACGTAGATATCATTTACATACGC 57.067 33.333 14.68 9.73 38.38 4.42
464 579 4.700268 TTGCTTCGTACGTAGTCCATAA 57.300 40.909 20.85 8.14 43.93 1.90
469 584 4.620184 ACTCATTTTGCTTCGTACGTAGTC 59.380 41.667 20.85 14.22 43.93 2.59
472 587 4.548494 TCACTCATTTTGCTTCGTACGTA 58.452 39.130 16.05 4.53 0.00 3.57
475 590 7.268447 GTGTAATTCACTCATTTTGCTTCGTAC 59.732 37.037 0.00 0.00 43.13 3.67
499 614 9.669353 GGATGTATGTAGATGCATTTTAAAGTG 57.331 33.333 0.00 6.35 35.26 3.16
501 616 8.559536 ACGGATGTATGTAGATGCATTTTAAAG 58.440 33.333 0.00 0.00 35.26 1.85
502 617 8.445275 ACGGATGTATGTAGATGCATTTTAAA 57.555 30.769 0.00 0.00 35.26 1.52
518 633 5.047306 CACTATGGACCACATACGGATGTAT 60.047 44.000 14.23 4.48 44.82 2.29
521 636 3.320826 TCACTATGGACCACATACGGATG 59.679 47.826 5.94 5.94 41.03 3.51
522 637 3.572642 TCACTATGGACCACATACGGAT 58.427 45.455 0.00 0.00 41.03 4.18
524 639 3.812156 TTCACTATGGACCACATACGG 57.188 47.619 0.00 0.00 41.03 4.02
532 647 4.487714 TGTGGAGATTTCACTATGGACC 57.512 45.455 0.00 0.00 36.21 4.46
534 649 6.013379 AGTCTTTGTGGAGATTTCACTATGGA 60.013 38.462 0.00 0.00 36.21 3.41
550 671 6.311935 TCCGTTCCGAAATATAAGTCTTTGTG 59.688 38.462 0.00 0.00 0.00 3.33
567 688 1.755179 TAGTTACTCCCTCCGTTCCG 58.245 55.000 0.00 0.00 0.00 4.30
573 694 4.200092 CAAAGCCATTAGTTACTCCCTCC 58.800 47.826 0.00 0.00 0.00 4.30
585 706 6.588719 ACTTGCAGATTAACAAAGCCATTA 57.411 33.333 0.00 0.00 0.00 1.90
601 781 6.092533 TGTGTGATACATGTTCATACTTGCAG 59.907 38.462 24.04 0.00 36.51 4.41
659 841 2.356695 GGCTTCGTCTACCTTCTCTCTC 59.643 54.545 0.00 0.00 0.00 3.20
857 1051 2.943033 GCCTACTGTTGTGTTGAGTTGT 59.057 45.455 0.00 0.00 0.00 3.32
951 1768 8.910094 CGATCAACGGTGGTAGAGAATCTAGAT 61.910 44.444 0.00 0.00 42.79 1.98
952 1769 7.675155 CGATCAACGGTGGTAGAGAATCTAGA 61.675 46.154 0.00 0.00 42.79 2.43
972 1963 1.338769 TGTCTGTCTCTCGGTCGATCA 60.339 52.381 0.00 0.00 0.00 2.92
987 1978 1.274447 TGCTCCATGTCTGTCTGTCTG 59.726 52.381 0.00 0.00 0.00 3.51
988 1979 1.549620 CTGCTCCATGTCTGTCTGTCT 59.450 52.381 0.00 0.00 0.00 3.41
989 1980 2.006056 GCTGCTCCATGTCTGTCTGTC 61.006 57.143 0.00 0.00 0.00 3.51
990 1981 0.036577 GCTGCTCCATGTCTGTCTGT 60.037 55.000 0.00 0.00 0.00 3.41
991 1982 0.036671 TGCTGCTCCATGTCTGTCTG 60.037 55.000 0.00 0.00 0.00 3.51
1035 2026 3.188786 GCCAGCGACACCGTCATC 61.189 66.667 0.00 0.00 38.24 2.92
1036 2027 4.760047 GGCCAGCGACACCGTCAT 62.760 66.667 0.00 0.00 38.24 3.06
1090 2081 2.740055 CGACGGCAGCTGCTTCTT 60.740 61.111 35.82 18.66 41.70 2.52
1116 2107 2.738521 CAGAAGACGCACACCCGG 60.739 66.667 0.00 0.00 0.00 5.73
1245 2236 4.489771 CGGGACACCAGGCCCATC 62.490 72.222 7.27 0.00 44.94 3.51
1668 2659 2.513666 TTGATGGCGGATGCGTCC 60.514 61.111 15.54 15.54 44.10 4.79
1779 2770 2.169590 TTGGGTTGGTGGTTGGTGGT 62.170 55.000 0.00 0.00 0.00 4.16
1780 2771 1.381872 TTGGGTTGGTGGTTGGTGG 60.382 57.895 0.00 0.00 0.00 4.61
1923 2928 8.887717 GCCACAGAATGATATGGTATCTAATTC 58.112 37.037 0.00 1.84 39.69 2.17
1997 3010 5.413833 CACAAGTAGAATGAAAGTCAGCCAT 59.586 40.000 0.00 0.00 30.01 4.40
2022 3035 5.263599 TGGGAACAGAAGATGCATAAACAT 58.736 37.500 0.00 0.00 35.01 2.71
2109 3122 4.556942 TCAATCGATCAATCATGTTGCC 57.443 40.909 0.00 0.00 0.00 4.52
2145 3161 6.682440 TCCTCCTCTCATCCATCTATCTATCT 59.318 42.308 0.00 0.00 0.00 1.98
2156 3172 3.932601 TCATCAATCCTCCTCTCATCCA 58.067 45.455 0.00 0.00 0.00 3.41
2157 3173 4.323638 CCATCATCAATCCTCCTCTCATCC 60.324 50.000 0.00 0.00 0.00 3.51
2242 3258 2.102252 GAGAGGACAGATGGACATGGAC 59.898 54.545 0.00 0.00 0.00 4.02
2339 3355 2.236146 CACTAGTGCTGGTTCCATGGTA 59.764 50.000 12.58 0.00 0.00 3.25
2343 3359 0.035056 GCCACTAGTGCTGGTTCCAT 60.035 55.000 17.86 0.00 0.00 3.41
2396 3412 5.230323 TGTGCATAGTACTTGGTTGGTTA 57.770 39.130 0.00 0.00 0.00 2.85
2414 3430 3.980646 TGTCTATTGTGTTGGTTGTGC 57.019 42.857 0.00 0.00 0.00 4.57
2597 3613 8.461222 CCAGTGACTTGAAATGCAGATATTTTA 58.539 33.333 0.00 0.00 30.78 1.52
2606 3622 3.286353 TCAACCAGTGACTTGAAATGCA 58.714 40.909 0.00 0.00 0.00 3.96
2607 3623 3.988379 TCAACCAGTGACTTGAAATGC 57.012 42.857 0.00 0.00 0.00 3.56
2622 3638 1.019805 GGCGTCAGTAGGCTTCAACC 61.020 60.000 0.00 0.00 36.72 3.77
2624 3640 0.320421 GTGGCGTCAGTAGGCTTCAA 60.320 55.000 0.00 0.00 36.72 2.69
2633 3649 3.560251 AGCTTGGGTGGCGTCAGT 61.560 61.111 0.00 0.00 34.52 3.41
2656 3672 4.059459 CATTCGTATCGGCCGCGC 62.059 66.667 23.51 11.87 0.00 6.86
2658 3674 2.645510 CGACATTCGTATCGGCCGC 61.646 63.158 23.51 5.56 34.72 6.53
2659 3675 3.522568 CGACATTCGTATCGGCCG 58.477 61.111 22.12 22.12 34.72 6.13
2669 3685 1.411089 GTGCACGACGACGACATTC 59.589 57.895 15.32 0.00 42.66 2.67
2671 3687 2.430244 GGTGCACGACGACGACAT 60.430 61.111 15.32 0.00 42.66 3.06
2695 3711 3.243636 TGGTGTCGGAACTTCAGAGTTAC 60.244 47.826 0.00 0.00 45.88 2.50
2701 3717 2.069273 GATGTGGTGTCGGAACTTCAG 58.931 52.381 0.00 0.00 0.00 3.02
2707 3723 1.338107 ACTCAGATGTGGTGTCGGAA 58.662 50.000 0.00 0.00 0.00 4.30
2712 3728 0.392706 TCGCAACTCAGATGTGGTGT 59.607 50.000 0.00 0.00 0.00 4.16
2722 3738 2.164422 CCTCATCTAGTGTCGCAACTCA 59.836 50.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.