Multiple sequence alignment - TraesCS6A01G285400

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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 TraesCS6A01G285400 chr6A 100.000 4997 0 0 1 4997 516681178 516676182 0.000000e+00 9228.0
1 TraesCS6A01G285400 chr6A 83.333 390 48 8 4354 4727 516606982 516606594 1.330000e-90 344.0
2 TraesCS6A01G285400 chr6A 92.889 225 16 0 4724 4948 516606512 516606288 1.340000e-85 327.0
3 TraesCS6A01G285400 chr6A 98.182 55 1 0 340 394 516680681 516680627 4.120000e-16 97.1
4 TraesCS6A01G285400 chr6A 98.182 55 1 0 498 552 516680839 516680785 4.120000e-16 97.1
5 TraesCS6A01G285400 chr6D 98.293 4453 53 7 549 4997 375296752 375292319 0.000000e+00 7781.0
6 TraesCS6A01G285400 chr6D 96.078 459 5 2 1 459 375297202 375296757 0.000000e+00 736.0
7 TraesCS6A01G285400 chr6D 91.166 283 25 0 2837 3119 102120265 102120547 7.850000e-103 385.0
8 TraesCS6A01G285400 chr6D 83.846 390 46 12 4354 4727 375097318 375096930 6.150000e-94 355.0
9 TraesCS6A01G285400 chr6D 92.444 225 17 0 4724 4948 375096847 375096623 6.240000e-84 322.0
10 TraesCS6A01G285400 chr6D 98.182 55 1 0 498 552 375296876 375296822 4.120000e-16 97.1
11 TraesCS6A01G285400 chr6B 97.199 2035 42 4 2978 4997 561837189 561835155 0.000000e+00 3428.0
12 TraesCS6A01G285400 chr6B 98.171 1640 21 6 1483 3115 561838871 561837234 0.000000e+00 2854.0
13 TraesCS6A01G285400 chr6B 98.680 985 10 1 549 1533 561839849 561838868 0.000000e+00 1744.0
14 TraesCS6A01G285400 chr6B 98.475 459 7 0 1 459 561840312 561839854 0.000000e+00 809.0
15 TraesCS6A01G285400 chr6B 84.872 390 42 4 4354 4727 561712829 561712441 1.310000e-100 377.0
16 TraesCS6A01G285400 chr6B 93.333 225 15 0 4724 4948 561712364 561712140 2.880000e-87 333.0
17 TraesCS6A01G285400 chr6B 98.182 55 1 0 498 552 561839973 561839919 4.120000e-16 97.1
18 TraesCS6A01G285400 chr6B 92.308 39 3 0 1376 1414 578659140 578659178 6.990000e-04 56.5
19 TraesCS6A01G285400 chrUn 91.289 287 25 0 2838 3124 32314298 32314012 4.690000e-105 392.0
20 TraesCS6A01G285400 chr2B 90.785 293 26 1 2837 3129 201248060 201247769 1.690000e-104 390.0
21 TraesCS6A01G285400 chr2B 90.722 291 27 0 2838 3128 134046900 134047190 6.070000e-104 388.0
22 TraesCS6A01G285400 chr5A 89.073 302 33 0 2831 3132 32507473 32507774 4.720000e-100 375.0
23 TraesCS6A01G285400 chr5A 94.737 38 2 0 1378 1415 706705607 706705570 5.400000e-05 60.2
24 TraesCS6A01G285400 chr5A 92.308 39 3 0 1376 1414 700366654 700366616 6.990000e-04 56.5
25 TraesCS6A01G285400 chr1A 89.796 294 27 3 2827 3119 488974388 488974097 1.700000e-99 374.0
26 TraesCS6A01G285400 chr2A 95.238 42 2 0 1376 1417 466974967 466974926 3.230000e-07 67.6
27 TraesCS6A01G285400 chr4B 97.143 35 1 0 1378 1412 639294930 639294964 5.400000e-05 60.2
28 TraesCS6A01G285400 chr4B 92.500 40 3 0 1376 1415 490038355 490038394 1.940000e-04 58.4
29 TraesCS6A01G285400 chr4A 92.683 41 3 0 1374 1414 689627443 689627403 5.400000e-05 60.2


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 TraesCS6A01G285400 chr6A 516676182 516681178 4996 True 3140.733333 9228 98.788000 1 4997 3 chr6A.!!$R2 4996
1 TraesCS6A01G285400 chr6A 516606288 516606982 694 True 335.500000 344 88.111000 4354 4948 2 chr6A.!!$R1 594
2 TraesCS6A01G285400 chr6D 375292319 375297202 4883 True 2871.366667 7781 97.517667 1 4997 3 chr6D.!!$R2 4996
3 TraesCS6A01G285400 chr6D 375096623 375097318 695 True 338.500000 355 88.145000 4354 4948 2 chr6D.!!$R1 594
4 TraesCS6A01G285400 chr6B 561835155 561840312 5157 True 1786.420000 3428 98.141400 1 4997 5 chr6B.!!$R2 4996
5 TraesCS6A01G285400 chr6B 561712140 561712829 689 True 355.000000 377 89.102500 4354 4948 2 chr6B.!!$R1 594

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
460 461 0.182061 AGGCAGATGGGCACTATGTG 59.818 55.0 0.0 0.0 43.21 3.21 F
1026 1027 1.006832 CTGCTAATCGTTCCCAACCG 58.993 55.0 0.0 0.0 0.00 4.44 F
2289 2340 1.159285 TGTGCTGGAAAGATTGAGCG 58.841 50.0 0.0 0.0 33.97 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1707 1756 4.081642 TGGAATTAGTCGGGAGAGACAAAG 60.082 45.833 0.0 0.0 43.24 2.77 R
2723 2774 4.818534 TGAGTTGCATGTGAAGAGAAAC 57.181 40.909 0.0 0.0 0.00 2.78 R
4267 4505 1.241315 ATTCAAAGGGGAACACGCCG 61.241 55.000 0.0 0.0 40.79 6.46 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
80 81 3.674997 TGCACCTGTAGAATGTTTCCTC 58.325 45.455 0.00 0.00 0.00 3.71
129 130 1.630126 GCCTCAGCTCCATTCTGGGA 61.630 60.000 0.00 0.00 38.32 4.37
414 415 6.404293 GCATTTCCGTATGTGTTTCCACTAAT 60.404 38.462 0.00 0.00 42.34 1.73
459 460 1.696336 CTAGGCAGATGGGCACTATGT 59.304 52.381 0.00 0.00 46.44 2.29
460 461 0.182061 AGGCAGATGGGCACTATGTG 59.818 55.000 0.00 0.00 43.21 3.21
479 480 9.762933 ACTATGTGCAATTTTTGTCTATTTTGT 57.237 25.926 0.00 0.00 0.00 2.83
482 483 8.261492 TGTGCAATTTTTGTCTATTTTGTTGT 57.739 26.923 0.00 0.00 0.00 3.32
483 484 8.725148 TGTGCAATTTTTGTCTATTTTGTTGTT 58.275 25.926 0.00 0.00 0.00 2.83
484 485 9.553418 GTGCAATTTTTGTCTATTTTGTTGTTT 57.447 25.926 0.00 0.00 0.00 2.83
485 486 9.766277 TGCAATTTTTGTCTATTTTGTTGTTTC 57.234 25.926 0.00 0.00 0.00 2.78
486 487 9.986833 GCAATTTTTGTCTATTTTGTTGTTTCT 57.013 25.926 0.00 0.00 0.00 2.52
490 491 9.862371 TTTTTGTCTATTTTGTTGTTTCTAGCA 57.138 25.926 0.00 0.00 0.00 3.49
494 495 9.677567 TGTCTATTTTGTTGTTTCTAGCATTTC 57.322 29.630 0.00 0.00 0.00 2.17
495 496 9.129209 GTCTATTTTGTTGTTTCTAGCATTTCC 57.871 33.333 0.00 0.00 0.00 3.13
496 497 8.020819 TCTATTTTGTTGTTTCTAGCATTTCCG 58.979 33.333 0.00 0.00 0.00 4.30
497 498 5.508200 TTTGTTGTTTCTAGCATTTCCGT 57.492 34.783 0.00 0.00 0.00 4.69
498 499 6.621316 TTTGTTGTTTCTAGCATTTCCGTA 57.379 33.333 0.00 0.00 0.00 4.02
499 500 6.811253 TTGTTGTTTCTAGCATTTCCGTAT 57.189 33.333 0.00 0.00 0.00 3.06
500 501 6.176975 TGTTGTTTCTAGCATTTCCGTATG 57.823 37.500 0.00 0.00 0.00 2.39
501 502 5.703592 TGTTGTTTCTAGCATTTCCGTATGT 59.296 36.000 0.00 0.00 0.00 2.29
502 503 5.794687 TGTTTCTAGCATTTCCGTATGTG 57.205 39.130 0.00 0.00 0.00 3.21
503 504 5.242434 TGTTTCTAGCATTTCCGTATGTGT 58.758 37.500 0.00 0.00 0.00 3.72
504 505 5.350365 TGTTTCTAGCATTTCCGTATGTGTC 59.650 40.000 0.00 0.00 0.00 3.67
505 506 5.339008 TTCTAGCATTTCCGTATGTGTCT 57.661 39.130 0.00 0.00 0.00 3.41
506 507 4.933330 TCTAGCATTTCCGTATGTGTCTC 58.067 43.478 0.00 0.00 0.00 3.36
507 508 2.906354 AGCATTTCCGTATGTGTCTCC 58.094 47.619 0.00 0.00 0.00 3.71
508 509 2.501723 AGCATTTCCGTATGTGTCTCCT 59.498 45.455 0.00 0.00 0.00 3.69
509 510 3.704566 AGCATTTCCGTATGTGTCTCCTA 59.295 43.478 0.00 0.00 0.00 2.94
510 511 3.802685 GCATTTCCGTATGTGTCTCCTAC 59.197 47.826 0.00 0.00 0.00 3.18
511 512 4.679639 GCATTTCCGTATGTGTCTCCTACA 60.680 45.833 0.00 0.00 35.06 2.74
523 524 5.290493 TGTCTCCTACACAATTTGACACT 57.710 39.130 2.79 0.00 31.43 3.55
524 525 6.413783 TGTCTCCTACACAATTTGACACTA 57.586 37.500 2.79 0.00 31.43 2.74
525 526 7.004555 TGTCTCCTACACAATTTGACACTAT 57.995 36.000 2.79 0.00 31.43 2.12
526 527 7.097192 TGTCTCCTACACAATTTGACACTATC 58.903 38.462 2.79 0.00 31.43 2.08
527 528 7.039011 TGTCTCCTACACAATTTGACACTATCT 60.039 37.037 2.79 0.00 31.43 1.98
528 529 7.276658 GTCTCCTACACAATTTGACACTATCTG 59.723 40.741 2.79 0.00 0.00 2.90
529 530 5.874810 TCCTACACAATTTGACACTATCTGC 59.125 40.000 2.79 0.00 0.00 4.26
530 531 5.877012 CCTACACAATTTGACACTATCTGCT 59.123 40.000 2.79 0.00 0.00 4.24
531 532 6.372659 CCTACACAATTTGACACTATCTGCTT 59.627 38.462 2.79 0.00 0.00 3.91
532 533 6.246420 ACACAATTTGACACTATCTGCTTC 57.754 37.500 2.79 0.00 0.00 3.86
533 534 6.000219 ACACAATTTGACACTATCTGCTTCT 59.000 36.000 2.79 0.00 0.00 2.85
534 535 6.072838 ACACAATTTGACACTATCTGCTTCTG 60.073 38.462 2.79 0.00 0.00 3.02
535 536 6.000219 ACAATTTGACACTATCTGCTTCTGT 59.000 36.000 2.79 0.00 0.00 3.41
536 537 7.118245 CACAATTTGACACTATCTGCTTCTGTA 59.882 37.037 2.79 0.00 0.00 2.74
537 538 7.826252 ACAATTTGACACTATCTGCTTCTGTAT 59.174 33.333 2.79 0.00 0.00 2.29
538 539 8.333908 CAATTTGACACTATCTGCTTCTGTATC 58.666 37.037 0.00 0.00 0.00 2.24
539 540 6.782082 TTGACACTATCTGCTTCTGTATCT 57.218 37.500 0.00 0.00 0.00 1.98
540 541 6.141560 TGACACTATCTGCTTCTGTATCTG 57.858 41.667 0.00 0.00 0.00 2.90
541 542 5.654209 TGACACTATCTGCTTCTGTATCTGT 59.346 40.000 0.00 0.00 0.00 3.41
542 543 6.153510 TGACACTATCTGCTTCTGTATCTGTT 59.846 38.462 0.00 0.00 0.00 3.16
543 544 6.940739 ACACTATCTGCTTCTGTATCTGTTT 58.059 36.000 0.00 0.00 0.00 2.83
544 545 7.038659 ACACTATCTGCTTCTGTATCTGTTTC 58.961 38.462 0.00 0.00 0.00 2.78
545 546 7.093552 ACACTATCTGCTTCTGTATCTGTTTCT 60.094 37.037 0.00 0.00 0.00 2.52
546 547 8.409371 CACTATCTGCTTCTGTATCTGTTTCTA 58.591 37.037 0.00 0.00 0.00 2.10
547 548 8.629158 ACTATCTGCTTCTGTATCTGTTTCTAG 58.371 37.037 0.00 0.00 0.00 2.43
1026 1027 1.006832 CTGCTAATCGTTCCCAACCG 58.993 55.000 0.00 0.00 0.00 4.44
1593 1641 2.835764 TCTTAACCTTACCTCCGTGCAT 59.164 45.455 0.00 0.00 0.00 3.96
2152 2203 5.514500 AGGCAGGTTTAGAATCTACCAAA 57.486 39.130 5.13 0.00 34.32 3.28
2289 2340 1.159285 TGTGCTGGAAAGATTGAGCG 58.841 50.000 0.00 0.00 33.97 5.03
2487 2538 7.648112 GGTAAAGTTTCATTTCCTTGTCACTTC 59.352 37.037 0.00 0.00 0.00 3.01
2526 2577 3.645212 TGGCATCATCTTTGGGTCAAAAA 59.355 39.130 0.00 0.00 32.75 1.94
2786 2841 6.668541 ACGAGGTATCAATGATTGAAGTTG 57.331 37.500 12.36 4.01 43.95 3.16
2868 2923 3.004944 GCTTCCTAGGTCCTCGAACTATG 59.995 52.174 9.08 0.00 30.97 2.23
3025 3172 0.976641 TGAGGACCTGGATGACACAC 59.023 55.000 0.00 0.00 0.00 3.82
3026 3173 0.976641 GAGGACCTGGATGACACACA 59.023 55.000 0.00 0.00 0.00 3.72
3092 3330 4.691216 GGACCTACATGACACTTCTGAAAC 59.309 45.833 0.00 0.00 0.00 2.78
3326 3564 5.979288 AGTTAGTGAACCAACTACGAGAT 57.021 39.130 0.00 0.00 36.08 2.75
3340 3578 5.144100 ACTACGAGATGAAGGGATGATTCT 58.856 41.667 0.00 0.00 0.00 2.40
3627 3865 9.125026 ACACATATGTGAGAAAAGAAACTCTTT 57.875 29.630 36.36 9.88 46.79 2.52
4051 4289 8.947055 AACTCAGAAAGCATAAATGTTTTGTT 57.053 26.923 9.17 5.17 40.52 2.83
4263 4501 9.289303 CTAATGTCACATTGGTGCTTAAAATAC 57.711 33.333 13.65 0.00 44.87 1.89
4267 4505 5.417580 TCACATTGGTGCTTAAAATACCTCC 59.582 40.000 0.00 0.00 44.87 4.30
4787 5146 2.439701 CCGACGAGCCAGTAGGGA 60.440 66.667 0.00 0.00 40.01 4.20
4910 5269 2.587194 CTCGCCGCCCTCTTCATG 60.587 66.667 0.00 0.00 0.00 3.07
4957 5316 0.965866 AGCGTGTCCTCGATCTCCAA 60.966 55.000 0.00 0.00 0.00 3.53
4973 5332 0.038744 CCAACAGCACCAGGGAGAAT 59.961 55.000 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
459 460 9.766277 GAAACAACAAAATAGACAAAAATTGCA 57.234 25.926 0.00 0.00 0.00 4.08
460 461 9.986833 AGAAACAACAAAATAGACAAAAATTGC 57.013 25.926 0.00 0.00 0.00 3.56
464 465 9.862371 TGCTAGAAACAACAAAATAGACAAAAA 57.138 25.926 0.00 0.00 0.00 1.94
468 469 9.677567 GAAATGCTAGAAACAACAAAATAGACA 57.322 29.630 0.00 0.00 0.00 3.41
469 470 9.129209 GGAAATGCTAGAAACAACAAAATAGAC 57.871 33.333 0.00 0.00 0.00 2.59
470 471 8.020819 CGGAAATGCTAGAAACAACAAAATAGA 58.979 33.333 0.00 0.00 0.00 1.98
471 472 7.807907 ACGGAAATGCTAGAAACAACAAAATAG 59.192 33.333 0.00 0.00 0.00 1.73
472 473 7.653647 ACGGAAATGCTAGAAACAACAAAATA 58.346 30.769 0.00 0.00 0.00 1.40
473 474 6.512297 ACGGAAATGCTAGAAACAACAAAAT 58.488 32.000 0.00 0.00 0.00 1.82
474 475 5.897050 ACGGAAATGCTAGAAACAACAAAA 58.103 33.333 0.00 0.00 0.00 2.44
475 476 5.508200 ACGGAAATGCTAGAAACAACAAA 57.492 34.783 0.00 0.00 0.00 2.83
476 477 6.205853 ACATACGGAAATGCTAGAAACAACAA 59.794 34.615 0.00 0.00 0.00 2.83
477 478 5.703592 ACATACGGAAATGCTAGAAACAACA 59.296 36.000 0.00 0.00 0.00 3.33
478 479 6.021596 CACATACGGAAATGCTAGAAACAAC 58.978 40.000 0.00 0.00 0.00 3.32
479 480 5.703592 ACACATACGGAAATGCTAGAAACAA 59.296 36.000 0.00 0.00 0.00 2.83
480 481 5.242434 ACACATACGGAAATGCTAGAAACA 58.758 37.500 0.00 0.00 0.00 2.83
481 482 5.581085 AGACACATACGGAAATGCTAGAAAC 59.419 40.000 0.00 0.00 0.00 2.78
482 483 5.730550 AGACACATACGGAAATGCTAGAAA 58.269 37.500 0.00 0.00 0.00 2.52
483 484 5.339008 AGACACATACGGAAATGCTAGAA 57.661 39.130 0.00 0.00 0.00 2.10
484 485 4.202121 GGAGACACATACGGAAATGCTAGA 60.202 45.833 0.00 0.00 0.00 2.43
485 486 4.051922 GGAGACACATACGGAAATGCTAG 58.948 47.826 0.00 0.00 0.00 3.42
486 487 3.704566 AGGAGACACATACGGAAATGCTA 59.295 43.478 0.00 0.00 0.00 3.49
487 488 2.501723 AGGAGACACATACGGAAATGCT 59.498 45.455 0.00 0.00 0.00 3.79
488 489 2.906354 AGGAGACACATACGGAAATGC 58.094 47.619 0.00 0.00 0.00 3.56
489 490 5.006153 TGTAGGAGACACATACGGAAATG 57.994 43.478 0.00 0.00 38.41 2.32
501 502 5.290493 AGTGTCAAATTGTGTAGGAGACA 57.710 39.130 0.00 0.00 34.94 3.41
502 503 7.276658 CAGATAGTGTCAAATTGTGTAGGAGAC 59.723 40.741 0.00 0.00 0.00 3.36
503 504 7.323420 CAGATAGTGTCAAATTGTGTAGGAGA 58.677 38.462 0.00 0.00 0.00 3.71
504 505 6.036517 GCAGATAGTGTCAAATTGTGTAGGAG 59.963 42.308 0.00 0.00 0.00 3.69
505 506 5.874810 GCAGATAGTGTCAAATTGTGTAGGA 59.125 40.000 0.00 0.00 0.00 2.94
506 507 5.877012 AGCAGATAGTGTCAAATTGTGTAGG 59.123 40.000 0.00 0.00 0.00 3.18
507 508 6.974932 AGCAGATAGTGTCAAATTGTGTAG 57.025 37.500 0.00 0.00 0.00 2.74
508 509 7.118245 CAGAAGCAGATAGTGTCAAATTGTGTA 59.882 37.037 0.00 0.00 0.00 2.90
509 510 6.000219 AGAAGCAGATAGTGTCAAATTGTGT 59.000 36.000 0.00 0.00 0.00 3.72
510 511 6.072838 ACAGAAGCAGATAGTGTCAAATTGTG 60.073 38.462 0.00 0.00 0.00 3.33
511 512 6.000219 ACAGAAGCAGATAGTGTCAAATTGT 59.000 36.000 0.00 0.00 0.00 2.71
512 513 6.492007 ACAGAAGCAGATAGTGTCAAATTG 57.508 37.500 0.00 0.00 0.00 2.32
513 514 8.263640 AGATACAGAAGCAGATAGTGTCAAATT 58.736 33.333 0.00 0.00 0.00 1.82
514 515 7.710044 CAGATACAGAAGCAGATAGTGTCAAAT 59.290 37.037 0.00 0.00 0.00 2.32
515 516 7.038048 CAGATACAGAAGCAGATAGTGTCAAA 58.962 38.462 0.00 0.00 0.00 2.69
516 517 6.153510 ACAGATACAGAAGCAGATAGTGTCAA 59.846 38.462 0.00 0.00 0.00 3.18
517 518 5.654209 ACAGATACAGAAGCAGATAGTGTCA 59.346 40.000 0.00 0.00 0.00 3.58
518 519 6.142818 ACAGATACAGAAGCAGATAGTGTC 57.857 41.667 0.00 0.00 0.00 3.67
519 520 6.537453 AACAGATACAGAAGCAGATAGTGT 57.463 37.500 0.00 0.00 0.00 3.55
520 521 7.264221 AGAAACAGATACAGAAGCAGATAGTG 58.736 38.462 0.00 0.00 0.00 2.74
521 522 7.416964 AGAAACAGATACAGAAGCAGATAGT 57.583 36.000 0.00 0.00 0.00 2.12
522 523 7.594758 GCTAGAAACAGATACAGAAGCAGATAG 59.405 40.741 0.00 0.00 0.00 2.08
523 524 7.068716 TGCTAGAAACAGATACAGAAGCAGATA 59.931 37.037 0.00 0.00 32.88 1.98
524 525 6.127225 TGCTAGAAACAGATACAGAAGCAGAT 60.127 38.462 0.00 0.00 32.88 2.90
525 526 5.185828 TGCTAGAAACAGATACAGAAGCAGA 59.814 40.000 0.00 0.00 32.88 4.26
526 527 5.414360 TGCTAGAAACAGATACAGAAGCAG 58.586 41.667 0.00 0.00 32.88 4.24
527 528 5.405935 TGCTAGAAACAGATACAGAAGCA 57.594 39.130 0.00 0.00 35.26 3.91
528 529 6.314896 ACAATGCTAGAAACAGATACAGAAGC 59.685 38.462 0.00 0.00 0.00 3.86
529 530 7.763528 AGACAATGCTAGAAACAGATACAGAAG 59.236 37.037 0.00 0.00 0.00 2.85
530 531 7.615403 AGACAATGCTAGAAACAGATACAGAA 58.385 34.615 0.00 0.00 0.00 3.02
531 532 7.175347 AGACAATGCTAGAAACAGATACAGA 57.825 36.000 0.00 0.00 0.00 3.41
535 536 9.645059 GCATATAGACAATGCTAGAAACAGATA 57.355 33.333 0.00 0.00 45.05 1.98
536 537 8.545229 GCATATAGACAATGCTAGAAACAGAT 57.455 34.615 0.00 0.00 45.05 2.90
537 538 7.953158 GCATATAGACAATGCTAGAAACAGA 57.047 36.000 0.00 0.00 45.05 3.41
1026 1027 2.485814 GACAGGCCTGTTCAACTTGATC 59.514 50.000 37.98 18.08 45.05 2.92
1100 1101 9.322769 GGACCTCCTATGGTTCTAGAATAATAA 57.677 37.037 8.75 0.00 41.00 1.40
1101 1102 8.689054 AGGACCTCCTATGGTTCTAGAATAATA 58.311 37.037 8.75 8.79 43.81 0.98
1593 1641 8.707796 ATACTCCGATATTAGAAGACCTGAAA 57.292 34.615 0.00 0.00 0.00 2.69
1707 1756 4.081642 TGGAATTAGTCGGGAGAGACAAAG 60.082 45.833 0.00 0.00 43.24 2.77
2152 2203 7.667575 ACTATTATCCACACTGTTCAGAGAT 57.332 36.000 6.83 5.94 0.00 2.75
2289 2340 6.259608 ACAGTAATGCAGCTTCAATCAGATAC 59.740 38.462 0.00 0.00 0.00 2.24
2517 2568 6.569780 ACAAACACAGATTACTTTTTGACCC 58.430 36.000 0.00 0.00 0.00 4.46
2526 2577 5.464389 GTCACCGTAACAAACACAGATTACT 59.536 40.000 0.00 0.00 0.00 2.24
2723 2774 4.818534 TGAGTTGCATGTGAAGAGAAAC 57.181 40.909 0.00 0.00 0.00 2.78
2786 2841 8.831000 CAGTAAGGTTTACTGTTGTTTTACAC 57.169 34.615 16.89 0.00 39.88 2.90
2868 2923 5.128827 TGAGGACCTATATGACACCTTCAAC 59.871 44.000 0.00 0.00 37.92 3.18
3025 3172 5.674525 TCTAGGTCCTCAAAGTGCAATATG 58.325 41.667 0.00 0.00 0.00 1.78
3026 3173 5.957771 TCTAGGTCCTCAAAGTGCAATAT 57.042 39.130 0.00 0.00 0.00 1.28
3092 3330 3.624861 GTGCATCATAGGTCCTCAAACTG 59.375 47.826 0.00 0.00 0.00 3.16
3326 3564 7.622502 TCTTCATCATAGAATCATCCCTTCA 57.377 36.000 0.00 0.00 0.00 3.02
3340 3578 6.888105 TGTTCATAAGGTGCTCTTCATCATA 58.112 36.000 0.00 0.00 36.93 2.15
3650 3888 5.359576 TGTCTTGCCTGATTTGTTACTGTTT 59.640 36.000 0.00 0.00 0.00 2.83
3685 3923 6.322456 CAGTAAGATTGTATCAGGGAGTGAGA 59.678 42.308 0.00 0.00 39.07 3.27
3918 4156 3.119814 GCAGCTTTAGGTAAACTTCCTGC 60.120 47.826 0.00 0.00 36.60 4.85
4051 4289 4.350368 TCGAAGCCATCCAGCATAAATA 57.650 40.909 0.00 0.00 34.23 1.40
4267 4505 1.241315 ATTCAAAGGGGAACACGCCG 61.241 55.000 0.00 0.00 40.79 6.46
4838 5197 3.740128 CTGCGGGTGCTTCGGCTAT 62.740 63.158 9.75 0.00 43.34 2.97
4902 5261 1.138661 GGAGAGCCAGACCATGAAGAG 59.861 57.143 0.00 0.00 0.00 2.85
4957 5316 1.687612 CCATTCTCCCTGGTGCTGT 59.312 57.895 0.00 0.00 0.00 4.40
4973 5332 2.762459 ATCGCCTTCGCCTACCCA 60.762 61.111 0.00 0.00 35.26 4.51


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

AutoCloner maintained by Alex Coulton.