Multiple sequence alignment - TraesCS2D01G156100

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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 TraesCS2D01G156100 chr2D 100.000 2321 0 0 1 2321 99577370 99579690 0.000000e+00 4287.0
1 TraesCS2D01G156100 chr2D 94.063 758 37 5 1571 2321 21572873 21573629 0.000000e+00 1144.0
2 TraesCS2D01G156100 chr2D 90.143 771 55 12 1571 2321 80612694 80611925 0.000000e+00 983.0
3 TraesCS2D01G156100 chr2A 96.933 1076 19 3 495 1570 98874964 98876025 0.000000e+00 1792.0
4 TraesCS2D01G156100 chr2A 93.626 455 20 6 1 453 98874547 98874994 0.000000e+00 671.0
5 TraesCS2D01G156100 chr2B 95.219 983 28 9 596 1570 151461092 151460121 0.000000e+00 1537.0
6 TraesCS2D01G156100 chr2B 85.246 183 16 5 190 366 692156562 692156739 6.590000e-41 178.0
7 TraesCS2D01G156100 chr2B 97.872 47 1 0 562 608 151462609 151462563 5.320000e-12 82.4
8 TraesCS2D01G156100 chr4D 94.364 763 34 5 1568 2321 488555839 488556601 0.000000e+00 1162.0
9 TraesCS2D01G156100 chr1D 93.947 760 37 5 1571 2321 15616324 15615565 0.000000e+00 1140.0
10 TraesCS2D01G156100 chr5D 93.824 761 33 8 1573 2321 486493003 486493761 0.000000e+00 1133.0
11 TraesCS2D01G156100 chr5D 90.731 766 53 10 1571 2321 9409394 9410156 0.000000e+00 1005.0
12 TraesCS2D01G156100 chr5D 89.020 765 62 17 1568 2319 361226749 361227504 0.000000e+00 928.0
13 TraesCS2D01G156100 chr5A 89.221 770 61 11 1571 2321 567056407 567057173 0.000000e+00 942.0
14 TraesCS2D01G156100 chr7D 88.918 767 62 12 1571 2321 92143743 92144502 0.000000e+00 924.0
15 TraesCS2D01G156100 chrUn 100.000 408 0 0 558 965 477877733 477877326 0.000000e+00 754.0


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 TraesCS2D01G156100 chr2D 99577370 99579690 2320 False 4287.0 4287 100.0000 1 2321 1 chr2D.!!$F2 2320
1 TraesCS2D01G156100 chr2D 21572873 21573629 756 False 1144.0 1144 94.0630 1571 2321 1 chr2D.!!$F1 750
2 TraesCS2D01G156100 chr2D 80611925 80612694 769 True 983.0 983 90.1430 1571 2321 1 chr2D.!!$R1 750
3 TraesCS2D01G156100 chr2A 98874547 98876025 1478 False 1231.5 1792 95.2795 1 1570 2 chr2A.!!$F1 1569
4 TraesCS2D01G156100 chr2B 151460121 151462609 2488 True 809.7 1537 96.5455 562 1570 2 chr2B.!!$R1 1008
5 TraesCS2D01G156100 chr4D 488555839 488556601 762 False 1162.0 1162 94.3640 1568 2321 1 chr4D.!!$F1 753
6 TraesCS2D01G156100 chr1D 15615565 15616324 759 True 1140.0 1140 93.9470 1571 2321 1 chr1D.!!$R1 750
7 TraesCS2D01G156100 chr5D 486493003 486493761 758 False 1133.0 1133 93.8240 1573 2321 1 chr5D.!!$F3 748
8 TraesCS2D01G156100 chr5D 9409394 9410156 762 False 1005.0 1005 90.7310 1571 2321 1 chr5D.!!$F1 750
9 TraesCS2D01G156100 chr5D 361226749 361227504 755 False 928.0 928 89.0200 1568 2319 1 chr5D.!!$F2 751
10 TraesCS2D01G156100 chr5A 567056407 567057173 766 False 942.0 942 89.2210 1571 2321 1 chr5A.!!$F1 750
11 TraesCS2D01G156100 chr7D 92143743 92144502 759 False 924.0 924 88.9180 1571 2321 1 chr7D.!!$F1 750

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
556 559 0.033991 TCCTCCTCAAGACTCCCTCG 60.034 60.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1836 3351 0.393448 TCATTTGTCCCGGTTCGTGA 59.607 50.0 0.0 0.0 0.0 4.35 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
20 21 1.715931 TGGGGAATTTGATGGGTGAGT 59.284 47.619 0.00 0.00 0.00 3.41
23 24 3.628257 GGGGAATTTGATGGGTGAGTGAT 60.628 47.826 0.00 0.00 0.00 3.06
73 74 1.258676 AGGAAAGAGAGGGACACGTC 58.741 55.000 0.00 0.00 0.00 4.34
92 93 2.811317 GTGGCTCCGTGCGAAGAG 60.811 66.667 0.00 0.00 44.05 2.85
93 94 2.989253 TGGCTCCGTGCGAAGAGA 60.989 61.111 1.22 0.00 44.05 3.10
94 95 2.351244 TGGCTCCGTGCGAAGAGAT 61.351 57.895 1.22 0.00 44.05 2.75
122 123 1.604378 GTGGGTCCACAGCTAGCAT 59.396 57.895 18.83 0.78 45.53 3.79
136 137 3.096791 GCATGAGGCGACAAGAGC 58.903 61.111 0.00 0.00 0.00 4.09
169 170 0.107848 CCCAATTTCTAGCCGGTCGT 60.108 55.000 1.90 0.00 0.00 4.34
182 183 2.719774 GGTCGTCCGGCGTTAAACG 61.720 63.158 16.00 10.90 45.88 3.60
206 207 8.491958 ACGTTTCCCTTTACAATTAGATAGGAT 58.508 33.333 0.00 0.00 0.00 3.24
233 234 2.390599 TTCGAATCGCAGCACTGGC 61.391 57.895 0.00 0.00 41.61 4.85
335 337 5.357257 CCCGTTTGCAGATAGTACTGTAAT 58.643 41.667 5.39 0.00 40.75 1.89
337 339 5.234329 CCGTTTGCAGATAGTACTGTAATGG 59.766 44.000 5.39 0.94 40.75 3.16
453 456 4.396478 GCTGAACTTGTATCTTTTCCCCTC 59.604 45.833 0.00 0.00 0.00 4.30
454 457 5.804771 GCTGAACTTGTATCTTTTCCCCTCT 60.805 44.000 0.00 0.00 0.00 3.69
455 458 5.560724 TGAACTTGTATCTTTTCCCCTCTG 58.439 41.667 0.00 0.00 0.00 3.35
456 459 3.956744 ACTTGTATCTTTTCCCCTCTGC 58.043 45.455 0.00 0.00 0.00 4.26
457 460 3.330701 ACTTGTATCTTTTCCCCTCTGCA 59.669 43.478 0.00 0.00 0.00 4.41
458 461 4.202567 ACTTGTATCTTTTCCCCTCTGCAA 60.203 41.667 0.00 0.00 0.00 4.08
459 462 3.686016 TGTATCTTTTCCCCTCTGCAAC 58.314 45.455 0.00 0.00 0.00 4.17
460 463 1.826385 ATCTTTTCCCCTCTGCAACG 58.174 50.000 0.00 0.00 0.00 4.10
461 464 0.762418 TCTTTTCCCCTCTGCAACGA 59.238 50.000 0.00 0.00 0.00 3.85
462 465 1.160137 CTTTTCCCCTCTGCAACGAG 58.840 55.000 0.00 0.00 0.00 4.18
463 466 0.762418 TTTTCCCCTCTGCAACGAGA 59.238 50.000 4.59 0.00 32.74 4.04
464 467 0.762418 TTTCCCCTCTGCAACGAGAA 59.238 50.000 4.59 0.00 32.74 2.87
465 468 0.321671 TTCCCCTCTGCAACGAGAAG 59.678 55.000 4.59 0.00 32.74 2.85
466 469 1.078848 CCCCTCTGCAACGAGAAGG 60.079 63.158 4.59 1.91 32.74 3.46
467 470 1.078848 CCCTCTGCAACGAGAAGGG 60.079 63.158 4.59 2.65 32.74 3.95
468 471 1.743252 CCTCTGCAACGAGAAGGGC 60.743 63.158 4.59 0.00 32.74 5.19
469 472 1.004560 CTCTGCAACGAGAAGGGCA 60.005 57.895 0.00 0.00 32.74 5.36
470 473 0.392193 CTCTGCAACGAGAAGGGCAT 60.392 55.000 0.00 0.00 34.57 4.40
471 474 0.391661 TCTGCAACGAGAAGGGCATC 60.392 55.000 0.00 0.00 34.57 3.91
472 475 1.372087 CTGCAACGAGAAGGGCATCC 61.372 60.000 0.00 0.00 34.57 3.51
474 477 1.372087 GCAACGAGAAGGGCATCCTG 61.372 60.000 0.00 0.00 44.07 3.86
475 478 0.745845 CAACGAGAAGGGCATCCTGG 60.746 60.000 0.00 0.00 44.07 4.45
476 479 2.203126 CGAGAAGGGCATCCTGGC 60.203 66.667 0.00 0.00 44.07 4.85
477 480 2.739996 CGAGAAGGGCATCCTGGCT 61.740 63.158 0.55 0.00 44.07 4.75
478 481 1.153005 GAGAAGGGCATCCTGGCTG 60.153 63.158 0.55 0.00 44.07 4.85
479 482 2.123982 GAAGGGCATCCTGGCTGG 60.124 66.667 3.65 3.65 44.07 4.85
480 483 3.728292 GAAGGGCATCCTGGCTGGG 62.728 68.421 10.79 0.45 44.07 4.45
483 486 4.512914 GGCATCCTGGCTGGGGTC 62.513 72.222 10.79 1.34 40.14 4.46
484 487 3.731728 GCATCCTGGCTGGGGTCA 61.732 66.667 10.79 0.00 36.20 4.02
485 488 2.273449 CATCCTGGCTGGGGTCAC 59.727 66.667 10.79 0.00 36.20 3.67
486 489 3.017581 ATCCTGGCTGGGGTCACC 61.018 66.667 10.79 0.00 40.81 4.02
513 516 2.740826 GCGGCGGCTGAACTTGTA 60.741 61.111 14.15 0.00 35.83 2.41
514 517 2.106683 GCGGCGGCTGAACTTGTAT 61.107 57.895 14.15 0.00 35.83 2.29
515 518 2.006772 CGGCGGCTGAACTTGTATC 58.993 57.895 7.61 0.00 0.00 2.24
516 519 1.429148 CGGCGGCTGAACTTGTATCC 61.429 60.000 7.61 0.00 0.00 2.59
517 520 0.107654 GGCGGCTGAACTTGTATCCT 60.108 55.000 0.00 0.00 0.00 3.24
518 521 1.679032 GGCGGCTGAACTTGTATCCTT 60.679 52.381 0.00 0.00 0.00 3.36
519 522 2.084546 GCGGCTGAACTTGTATCCTTT 58.915 47.619 0.00 0.00 0.00 3.11
520 523 2.096013 GCGGCTGAACTTGTATCCTTTC 59.904 50.000 0.00 0.00 0.00 2.62
521 524 2.678336 CGGCTGAACTTGTATCCTTTCC 59.322 50.000 0.00 0.00 0.00 3.13
522 525 3.017442 GGCTGAACTTGTATCCTTTCCC 58.983 50.000 0.00 0.00 0.00 3.97
523 526 3.017442 GCTGAACTTGTATCCTTTCCCC 58.983 50.000 0.00 0.00 0.00 4.81
524 527 3.308473 GCTGAACTTGTATCCTTTCCCCT 60.308 47.826 0.00 0.00 0.00 4.79
556 559 0.033991 TCCTCCTCAAGACTCCCTCG 60.034 60.000 0.00 0.00 0.00 4.63
982 2472 1.563173 GCACAAACACCGACTCGTC 59.437 57.895 0.00 0.00 0.00 4.20
997 2487 3.270877 ACTCGTCACTTTTGAAAGCAGT 58.729 40.909 3.48 0.00 39.63 4.40
1008 2498 4.437682 TTGAAAGCAGTATATGGAGGGG 57.562 45.455 0.00 0.00 0.00 4.79
1051 2541 4.301027 CAGAGGATACCGGCGGGC 62.301 72.222 31.78 18.48 36.48 6.13
1324 2814 4.504858 CCACTACCCTTACAACTAGCAAG 58.495 47.826 0.00 0.00 0.00 4.01
1325 2815 3.933332 CACTACCCTTACAACTAGCAAGC 59.067 47.826 0.00 0.00 0.00 4.01
1326 2816 2.491675 ACCCTTACAACTAGCAAGCC 57.508 50.000 0.00 0.00 0.00 4.35
1327 2817 1.338769 ACCCTTACAACTAGCAAGCCG 60.339 52.381 0.00 0.00 0.00 5.52
1328 2818 1.369625 CCTTACAACTAGCAAGCCGG 58.630 55.000 0.00 0.00 0.00 6.13
1329 2819 0.727398 CTTACAACTAGCAAGCCGGC 59.273 55.000 21.89 21.89 0.00 6.13
1331 2821 0.391130 TACAACTAGCAAGCCGGCTG 60.391 55.000 33.60 24.31 45.44 4.85
1411 2913 2.159234 GCTATACGGTACTCGCCAGTAG 59.841 54.545 0.00 3.62 43.89 2.57
1412 2914 2.338577 ATACGGTACTCGCCAGTAGT 57.661 50.000 0.00 0.00 43.89 2.73
1413 2915 2.979814 TACGGTACTCGCCAGTAGTA 57.020 50.000 0.00 0.00 43.89 1.82
1434 2936 6.415573 AGTACTGATTTGGTAGGTCATTTCC 58.584 40.000 0.00 0.00 0.00 3.13
1527 3029 8.706936 CGAATGAAAGTAATGGATCAGAGTATG 58.293 37.037 0.00 0.00 0.00 2.39
1564 3066 3.492313 GACGCTGATGTGTGATTTTTCC 58.508 45.455 0.00 0.00 37.00 3.13
1629 3131 2.948600 GCCCATTAGTCCCGGTTCATTT 60.949 50.000 0.00 0.00 0.00 2.32
1743 3255 1.227823 CTGGTTCCTGGCACGAACA 60.228 57.895 24.14 13.24 41.16 3.18
1811 3323 2.182030 GCTCGAACCGGGACAGAG 59.818 66.667 6.32 10.19 0.00 3.35
1836 3351 1.703513 AGCTTTAGTCCCGGTTCCTTT 59.296 47.619 0.00 0.00 0.00 3.11
1984 3504 4.392754 CACATGAGGTGTTCGATGAAATGA 59.607 41.667 0.00 0.00 42.75 2.57
2100 3621 0.595310 GTCTCTATCTTCACCGCCGC 60.595 60.000 0.00 0.00 0.00 6.53
2281 3821 2.959030 CCCTCGTCCTGTCTATGATTCA 59.041 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.823989 CCTATCACTCACCCATCAAATTCC 59.176 45.833 0.00 0.00 0.00 3.01
18 19 3.843027 CCAGGCATCCTTATCCTATCACT 59.157 47.826 0.00 0.00 0.00 3.41
20 21 3.874316 ACCAGGCATCCTTATCCTATCA 58.126 45.455 0.00 0.00 0.00 2.15
23 24 3.173965 GCTACCAGGCATCCTTATCCTA 58.826 50.000 0.00 0.00 0.00 2.94
92 93 3.263425 TGTGGACCCACTCTTTCCTTATC 59.737 47.826 18.81 0.00 46.30 1.75
93 94 3.256704 TGTGGACCCACTCTTTCCTTAT 58.743 45.455 18.81 0.00 46.30 1.73
94 95 2.637872 CTGTGGACCCACTCTTTCCTTA 59.362 50.000 18.81 0.00 46.30 2.69
122 123 2.492449 CTTCCGCTCTTGTCGCCTCA 62.492 60.000 0.00 0.00 0.00 3.86
128 129 1.021920 GGCTTCCTTCCGCTCTTGTC 61.022 60.000 0.00 0.00 0.00 3.18
182 183 9.628500 ACATCCTATCTAATTGTAAAGGGAAAC 57.372 33.333 0.00 0.00 0.00 2.78
206 207 1.079405 GCGATTCGAACCTGGGACA 60.079 57.895 10.88 0.00 0.00 4.02
453 456 1.372087 GGATGCCCTTCTCGTTGCAG 61.372 60.000 0.00 0.00 37.12 4.41
454 457 1.377202 GGATGCCCTTCTCGTTGCA 60.377 57.895 0.00 0.00 38.23 4.08
455 458 1.078143 AGGATGCCCTTCTCGTTGC 60.078 57.895 0.00 0.00 40.78 4.17
456 459 0.745845 CCAGGATGCCCTTCTCGTTG 60.746 60.000 0.00 0.00 42.02 4.10
457 460 1.604378 CCAGGATGCCCTTCTCGTT 59.396 57.895 0.00 0.00 42.02 3.85
458 461 3.036429 GCCAGGATGCCCTTCTCGT 62.036 63.158 0.00 0.00 42.02 4.18
459 462 2.203126 GCCAGGATGCCCTTCTCG 60.203 66.667 0.00 0.00 42.02 4.04
460 463 1.153005 CAGCCAGGATGCCCTTCTC 60.153 63.158 0.00 0.00 42.02 2.87
461 464 2.687610 CCAGCCAGGATGCCCTTCT 61.688 63.158 0.00 0.00 42.02 2.85
462 465 2.123982 CCAGCCAGGATGCCCTTC 60.124 66.667 0.00 0.00 42.02 3.46
463 466 3.747579 CCCAGCCAGGATGCCCTT 61.748 66.667 0.00 0.00 42.02 3.95
466 469 4.512914 GACCCCAGCCAGGATGCC 62.513 72.222 0.00 0.00 41.22 4.40
467 470 3.731728 TGACCCCAGCCAGGATGC 61.732 66.667 0.00 0.00 41.22 3.91
468 471 2.273449 GTGACCCCAGCCAGGATG 59.727 66.667 0.00 0.00 41.22 3.51
469 472 3.017581 GGTGACCCCAGCCAGGAT 61.018 66.667 0.00 0.00 41.22 3.24
470 473 4.590553 TGGTGACCCCAGCCAGGA 62.591 66.667 0.00 0.00 38.72 3.86
471 474 3.579302 TTGGTGACCCCAGCCAGG 61.579 66.667 0.00 0.00 46.31 4.45
472 475 2.282462 GTTGGTGACCCCAGCCAG 60.282 66.667 0.00 0.00 46.31 4.85
473 476 4.263572 CGTTGGTGACCCCAGCCA 62.264 66.667 0.00 0.00 46.31 4.75
476 479 4.263572 TGCCGTTGGTGACCCCAG 62.264 66.667 0.00 0.00 46.31 4.45
477 480 4.572571 GTGCCGTTGGTGACCCCA 62.573 66.667 0.00 0.00 43.27 4.96
496 499 2.036764 GATACAAGTTCAGCCGCCGC 62.037 60.000 0.00 0.00 0.00 6.53
497 500 1.429148 GGATACAAGTTCAGCCGCCG 61.429 60.000 0.00 0.00 0.00 6.46
498 501 0.107654 AGGATACAAGTTCAGCCGCC 60.108 55.000 0.00 0.00 41.41 6.13
499 502 1.739067 AAGGATACAAGTTCAGCCGC 58.261 50.000 0.00 0.00 41.41 6.53
500 503 2.678336 GGAAAGGATACAAGTTCAGCCG 59.322 50.000 0.00 0.00 41.41 5.52
501 504 3.017442 GGGAAAGGATACAAGTTCAGCC 58.983 50.000 0.00 0.00 41.41 4.85
502 505 3.017442 GGGGAAAGGATACAAGTTCAGC 58.983 50.000 0.00 0.00 41.41 4.26
503 506 4.576330 AGGGGAAAGGATACAAGTTCAG 57.424 45.455 0.00 0.00 41.41 3.02
504 507 5.074515 AGAAAGGGGAAAGGATACAAGTTCA 59.925 40.000 0.00 0.00 41.41 3.18
505 508 5.416013 CAGAAAGGGGAAAGGATACAAGTTC 59.584 44.000 0.00 0.00 41.41 3.01
506 509 5.162980 ACAGAAAGGGGAAAGGATACAAGTT 60.163 40.000 0.00 0.00 41.41 2.66
507 510 4.354087 ACAGAAAGGGGAAAGGATACAAGT 59.646 41.667 0.00 0.00 41.41 3.16
508 511 4.923415 ACAGAAAGGGGAAAGGATACAAG 58.077 43.478 0.00 0.00 41.41 3.16
509 512 5.311121 TGTACAGAAAGGGGAAAGGATACAA 59.689 40.000 0.00 0.00 41.41 2.41
510 513 4.847512 TGTACAGAAAGGGGAAAGGATACA 59.152 41.667 0.00 0.00 41.41 2.29
511 514 5.183969 GTGTACAGAAAGGGGAAAGGATAC 58.816 45.833 0.00 0.00 0.00 2.24
512 515 4.226620 GGTGTACAGAAAGGGGAAAGGATA 59.773 45.833 0.00 0.00 0.00 2.59
513 516 3.010250 GGTGTACAGAAAGGGGAAAGGAT 59.990 47.826 0.00 0.00 0.00 3.24
514 517 2.374170 GGTGTACAGAAAGGGGAAAGGA 59.626 50.000 0.00 0.00 0.00 3.36
515 518 2.375509 AGGTGTACAGAAAGGGGAAAGG 59.624 50.000 0.00 0.00 0.00 3.11
516 519 3.790089 AGGTGTACAGAAAGGGGAAAG 57.210 47.619 0.00 0.00 0.00 2.62
517 520 3.181437 GGAAGGTGTACAGAAAGGGGAAA 60.181 47.826 0.00 0.00 0.00 3.13
518 521 2.374170 GGAAGGTGTACAGAAAGGGGAA 59.626 50.000 0.00 0.00 0.00 3.97
519 522 1.982958 GGAAGGTGTACAGAAAGGGGA 59.017 52.381 0.00 0.00 0.00 4.81
520 523 1.985895 AGGAAGGTGTACAGAAAGGGG 59.014 52.381 0.00 0.00 0.00 4.79
521 524 2.027100 GGAGGAAGGTGTACAGAAAGGG 60.027 54.545 0.00 0.00 0.00 3.95
522 525 2.907042 AGGAGGAAGGTGTACAGAAAGG 59.093 50.000 0.00 0.00 0.00 3.11
523 526 3.578716 TGAGGAGGAAGGTGTACAGAAAG 59.421 47.826 0.00 0.00 0.00 2.62
524 527 3.583228 TGAGGAGGAAGGTGTACAGAAA 58.417 45.455 0.00 0.00 0.00 2.52
556 559 5.596845 AGGAATTCTTCTCAGTAGCGATTC 58.403 41.667 5.23 0.00 0.00 2.52
982 2472 6.183360 CCCTCCATATACTGCTTTCAAAAGTG 60.183 42.308 4.54 1.45 38.28 3.16
1008 2498 2.035442 GCTCTTGTGGAAGTCGCCC 61.035 63.158 0.00 0.00 0.00 6.13
1011 2501 2.383527 GCCGCTCTTGTGGAAGTCG 61.384 63.158 0.00 0.00 46.34 4.18
1119 2609 1.750399 GATGTTCATGTGCCCGCCT 60.750 57.895 0.00 0.00 0.00 5.52
1212 2702 4.402528 TGATTCCCACCGGCACCG 62.403 66.667 0.00 1.02 39.44 4.94
1213 2703 2.438434 CTGATTCCCACCGGCACC 60.438 66.667 0.00 0.00 0.00 5.01
1214 2704 2.438434 CCTGATTCCCACCGGCAC 60.438 66.667 0.00 0.00 0.00 5.01
1411 2913 6.415573 AGGAAATGACCTACCAAATCAGTAC 58.584 40.000 0.00 0.00 38.65 2.73
1412 2914 6.636454 AGGAAATGACCTACCAAATCAGTA 57.364 37.500 0.00 0.00 38.65 2.74
1413 2915 5.520748 AGGAAATGACCTACCAAATCAGT 57.479 39.130 0.00 0.00 38.65 3.41
1496 2998 8.421002 TCTGATCCATTACTTTCATTCGTATCA 58.579 33.333 0.00 0.00 0.00 2.15
1497 2999 8.818141 TCTGATCCATTACTTTCATTCGTATC 57.182 34.615 0.00 0.00 0.00 2.24
1527 3029 1.859080 GCGTCCTCGATTATTGGTCAC 59.141 52.381 0.00 0.00 39.71 3.67
1564 3066 5.638234 GCCCTGTTTTCTACTAGTGTTACAG 59.362 44.000 5.39 11.07 33.39 2.74
1629 3131 2.360767 CCATGGGTCCCGGTTCGTA 61.361 63.158 2.85 0.00 0.00 3.43
1703 3213 3.194005 ACAAATGTGTCCAGACGAACT 57.806 42.857 0.00 0.00 29.49 3.01
1743 3255 3.411517 CGAGGCCCATTGGTCCCT 61.412 66.667 10.93 10.93 36.69 4.20
1775 3287 1.004320 CACGAACCGGGACCAATGA 60.004 57.895 6.32 0.00 28.17 2.57
1811 3323 2.743179 CCGGGACTAAAGCTCCCCC 61.743 68.421 2.50 1.31 44.40 5.40
1836 3351 0.393448 TCATTTGTCCCGGTTCGTGA 59.607 50.000 0.00 0.00 0.00 4.35
1984 3504 3.097614 AGATTAACTAGTGTGGCTCGGT 58.902 45.455 0.00 0.00 0.00 4.69
2084 3605 2.812499 GGCGGCGGTGAAGATAGA 59.188 61.111 9.78 0.00 0.00 1.98
2086 3607 2.416244 GATCGGCGGCGGTGAAGATA 62.416 60.000 31.73 9.79 0.00 1.98
2115 3649 2.591715 GCTCACCACGGTTGTGCT 60.592 61.111 7.44 0.00 45.04 4.40


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

AutoCloner maintained by Alex Coulton.