Multiple sequence alignment - TraesCS4B01G116500

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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 TraesCS4B01G116500 chr4B 100.000 2767 0 0 1 2767 134588800 134591566 0.000000e+00 5110
1 TraesCS4B01G116500 chr4A 94.308 2196 68 25 608 2767 485285496 485283322 0.000000e+00 3310
2 TraesCS4B01G116500 chr4D 95.638 1582 44 11 1204 2767 95129179 95130753 0.000000e+00 2516
3 TraesCS4B01G116500 chr4D 97.543 407 9 1 607 1012 95128520 95128926 0.000000e+00 695
4 TraesCS4B01G116500 chr4D 84.119 636 61 16 1 605 95127925 95128551 1.850000e-161 579


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 TraesCS4B01G116500 chr4B 134588800 134591566 2766 False 5110.000000 5110 100.000000 1 2767 1 chr4B.!!$F1 2766
1 TraesCS4B01G116500 chr4A 485283322 485285496 2174 True 3310.000000 3310 94.308000 608 2767 1 chr4A.!!$R1 2159
2 TraesCS4B01G116500 chr4D 95127925 95130753 2828 False 1263.333333 2516 92.433333 1 2767 3 chr4D.!!$F1 2766

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
355 371 0.032515 TTCTAGTCTGGGATGGGCGA 60.033 55.0 0.0 0.0 0.0 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2064 2213 0.529378 CAAGTACTAACTCGCCGGGT 59.471 55.0 2.18 0.0 33.75 5.28 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
25 26 5.687166 TGGTTCCGATCAGTAAAGGTATT 57.313 39.130 0.00 0.00 0.00 1.89
81 82 6.942532 AACTTGAATACAACTGAAAGCTGA 57.057 33.333 0.00 0.00 37.60 4.26
83 84 7.333528 ACTTGAATACAACTGAAAGCTGAAA 57.666 32.000 0.00 0.00 37.60 2.69
95 96 1.211456 AGCTGAAAGGGAGATGGAGG 58.789 55.000 0.00 0.00 0.00 4.30
141 142 2.614057 CCGGAGAAGAATAACATGTGGC 59.386 50.000 0.00 0.00 0.00 5.01
147 148 3.080300 AGAATAACATGTGGCCCGAAA 57.920 42.857 0.00 0.00 0.00 3.46
155 156 0.467290 TGTGGCCCGAAAAAGAAGCT 60.467 50.000 0.00 0.00 0.00 3.74
160 161 0.667993 CCCGAAAAAGAAGCTGCACA 59.332 50.000 1.02 0.00 0.00 4.57
184 185 1.489649 AGTAGAGAAGGGGATCGACGA 59.510 52.381 0.00 0.00 0.00 4.20
188 189 3.153270 GAAGGGGATCGACGAGGGC 62.153 68.421 3.01 0.00 0.00 5.19
207 208 1.973281 CACCATTGTGGCGCTCCTT 60.973 57.895 7.64 0.00 42.67 3.36
248 249 0.787084 TTTTCCATTGCCACCCCCTA 59.213 50.000 0.00 0.00 0.00 3.53
249 250 0.040499 TTTCCATTGCCACCCCCTAC 59.960 55.000 0.00 0.00 0.00 3.18
251 252 2.124320 CATTGCCACCCCCTACGG 60.124 66.667 0.00 0.00 0.00 4.02
264 265 1.737793 CCCTACGGCACTTGATTTGAC 59.262 52.381 0.00 0.00 0.00 3.18
299 315 1.805869 CAGAGGGGATCGATCAATGC 58.194 55.000 25.93 12.56 0.00 3.56
306 322 1.261619 GGATCGATCAATGCAACCGTC 59.738 52.381 25.93 1.16 0.00 4.79
307 323 0.930310 ATCGATCAATGCAACCGTCG 59.070 50.000 0.00 0.00 0.00 5.12
308 324 1.296867 CGATCAATGCAACCGTCGC 60.297 57.895 0.00 0.00 0.00 5.19
309 325 1.062525 GATCAATGCAACCGTCGCC 59.937 57.895 0.00 0.00 0.00 5.54
310 326 2.631696 GATCAATGCAACCGTCGCCG 62.632 60.000 0.00 0.00 0.00 6.46
355 371 0.032515 TTCTAGTCTGGGATGGGCGA 60.033 55.000 0.00 0.00 0.00 5.54
356 372 0.032515 TCTAGTCTGGGATGGGCGAA 60.033 55.000 0.00 0.00 0.00 4.70
357 373 0.830648 CTAGTCTGGGATGGGCGAAA 59.169 55.000 0.00 0.00 0.00 3.46
358 374 1.209504 CTAGTCTGGGATGGGCGAAAA 59.790 52.381 0.00 0.00 0.00 2.29
359 375 0.625849 AGTCTGGGATGGGCGAAAAT 59.374 50.000 0.00 0.00 0.00 1.82
360 376 0.740737 GTCTGGGATGGGCGAAAATG 59.259 55.000 0.00 0.00 0.00 2.32
361 377 1.037030 TCTGGGATGGGCGAAAATGC 61.037 55.000 0.00 0.00 0.00 3.56
362 378 2.340453 CTGGGATGGGCGAAAATGCG 62.340 60.000 0.00 0.00 35.06 4.73
363 379 2.118404 GGGATGGGCGAAAATGCGA 61.118 57.895 0.00 0.00 35.06 5.10
372 388 1.465020 GCGAAAATGCGAAATCGACCA 60.465 47.619 7.06 0.00 43.02 4.02
384 400 0.250513 ATCGACCAAGACTTGAGGGC 59.749 55.000 16.99 1.84 0.00 5.19
393 409 2.672098 AGACTTGAGGGCGTGATCTAT 58.328 47.619 0.00 0.00 0.00 1.98
397 413 5.128827 AGACTTGAGGGCGTGATCTATTTAA 59.871 40.000 0.00 0.00 0.00 1.52
400 416 3.709653 TGAGGGCGTGATCTATTTAACCT 59.290 43.478 0.00 0.00 0.00 3.50
406 422 6.073222 GGGCGTGATCTATTTAACCTGTATTG 60.073 42.308 0.00 0.00 0.00 1.90
431 447 0.041312 CGAGCTGACCAAACCAAACG 60.041 55.000 0.00 0.00 0.00 3.60
432 448 1.021968 GAGCTGACCAAACCAAACGT 58.978 50.000 0.00 0.00 0.00 3.99
439 474 3.181495 TGACCAAACCAAACGTGATTGTC 60.181 43.478 0.00 0.00 0.00 3.18
453 488 6.042777 ACGTGATTGTCATCAGATAACGATT 58.957 36.000 0.00 0.00 40.28 3.34
461 496 7.696755 TGTCATCAGATAACGATTCAAATTGG 58.303 34.615 0.00 0.00 0.00 3.16
482 517 3.522553 GTCGAATCAAACACCTCCCTAG 58.477 50.000 0.00 0.00 0.00 3.02
493 528 2.099921 CACCTCCCTAGAGTTGACGATG 59.900 54.545 0.00 0.00 34.57 3.84
508 547 0.737715 CGATGGCTAGCTATTCGGGC 60.738 60.000 15.41 0.92 0.00 6.13
519 558 2.222027 CTATTCGGGCCCTTCATCAAC 58.778 52.381 22.43 0.00 0.00 3.18
520 559 0.331278 ATTCGGGCCCTTCATCAACA 59.669 50.000 22.43 0.00 0.00 3.33
523 562 1.134220 TCGGGCCCTTCATCAACATAC 60.134 52.381 22.43 0.00 0.00 2.39
532 571 5.526479 CCCTTCATCAACATACATGTCTCTG 59.474 44.000 0.00 1.19 40.80 3.35
534 573 5.088680 TCATCAACATACATGTCTCTGCA 57.911 39.130 0.00 0.00 40.80 4.41
570 609 3.871006 GGCCACTTTTCTTTTCTTTGGTG 59.129 43.478 0.00 0.00 0.00 4.17
574 613 6.627287 GCCACTTTTCTTTTCTTTGGTGTACT 60.627 38.462 0.00 0.00 0.00 2.73
575 614 7.320399 CCACTTTTCTTTTCTTTGGTGTACTT 58.680 34.615 0.00 0.00 0.00 2.24
576 615 7.817478 CCACTTTTCTTTTCTTTGGTGTACTTT 59.183 33.333 0.00 0.00 0.00 2.66
577 616 8.860128 CACTTTTCTTTTCTTTGGTGTACTTTC 58.140 33.333 0.00 0.00 0.00 2.62
578 617 8.803235 ACTTTTCTTTTCTTTGGTGTACTTTCT 58.197 29.630 0.00 0.00 0.00 2.52
579 618 9.290483 CTTTTCTTTTCTTTGGTGTACTTTCTC 57.710 33.333 0.00 0.00 0.00 2.87
580 619 6.937436 TCTTTTCTTTGGTGTACTTTCTCC 57.063 37.500 0.00 0.00 0.00 3.71
581 620 5.526111 TCTTTTCTTTGGTGTACTTTCTCCG 59.474 40.000 0.00 0.00 0.00 4.63
582 621 2.762745 TCTTTGGTGTACTTTCTCCGC 58.237 47.619 0.00 0.00 0.00 5.54
583 622 2.103432 TCTTTGGTGTACTTTCTCCGCA 59.897 45.455 0.00 0.00 0.00 5.69
584 623 2.851263 TTGGTGTACTTTCTCCGCAT 57.149 45.000 0.00 0.00 0.00 4.73
585 624 2.851263 TGGTGTACTTTCTCCGCATT 57.149 45.000 0.00 0.00 0.00 3.56
586 625 2.422597 TGGTGTACTTTCTCCGCATTG 58.577 47.619 0.00 0.00 0.00 2.82
587 626 2.224426 TGGTGTACTTTCTCCGCATTGT 60.224 45.455 0.00 0.00 0.00 2.71
588 627 3.007074 TGGTGTACTTTCTCCGCATTGTA 59.993 43.478 0.00 0.00 0.00 2.41
589 628 3.998341 GGTGTACTTTCTCCGCATTGTAA 59.002 43.478 0.00 0.00 0.00 2.41
590 629 4.142966 GGTGTACTTTCTCCGCATTGTAAC 60.143 45.833 0.00 0.00 0.00 2.50
591 630 3.998341 TGTACTTTCTCCGCATTGTAACC 59.002 43.478 0.00 0.00 0.00 2.85
592 631 3.134574 ACTTTCTCCGCATTGTAACCA 57.865 42.857 0.00 0.00 0.00 3.67
593 632 3.686016 ACTTTCTCCGCATTGTAACCAT 58.314 40.909 0.00 0.00 0.00 3.55
594 633 3.689649 ACTTTCTCCGCATTGTAACCATC 59.310 43.478 0.00 0.00 0.00 3.51
595 634 3.627395 TTCTCCGCATTGTAACCATCT 57.373 42.857 0.00 0.00 0.00 2.90
596 635 3.179443 TCTCCGCATTGTAACCATCTC 57.821 47.619 0.00 0.00 0.00 2.75
597 636 2.766263 TCTCCGCATTGTAACCATCTCT 59.234 45.455 0.00 0.00 0.00 3.10
598 637 3.126831 CTCCGCATTGTAACCATCTCTC 58.873 50.000 0.00 0.00 0.00 3.20
599 638 1.860950 CCGCATTGTAACCATCTCTCG 59.139 52.381 0.00 0.00 0.00 4.04
600 639 1.258982 CGCATTGTAACCATCTCTCGC 59.741 52.381 0.00 0.00 0.00 5.03
601 640 2.555199 GCATTGTAACCATCTCTCGCT 58.445 47.619 0.00 0.00 0.00 4.93
602 641 2.939103 GCATTGTAACCATCTCTCGCTT 59.061 45.455 0.00 0.00 0.00 4.68
603 642 3.375299 GCATTGTAACCATCTCTCGCTTT 59.625 43.478 0.00 0.00 0.00 3.51
604 643 4.494855 GCATTGTAACCATCTCTCGCTTTC 60.495 45.833 0.00 0.00 0.00 2.62
605 644 3.247006 TGTAACCATCTCTCGCTTTCC 57.753 47.619 0.00 0.00 0.00 3.13
606 645 2.093658 TGTAACCATCTCTCGCTTTCCC 60.094 50.000 0.00 0.00 0.00 3.97
720 765 0.034574 ACAAATAGCCGTGGCCATGA 60.035 50.000 27.13 6.93 43.17 3.07
1002 1054 6.392625 TCTGGAATTATTCGTCTCCACTAG 57.607 41.667 0.00 0.00 34.28 2.57
1250 1363 1.900545 GCCCGGCCAAGAAGAGTAGT 61.901 60.000 2.24 0.00 0.00 2.73
1655 1789 5.068329 CAGTCCTTTTTCTTGCTCTTTTCCT 59.932 40.000 0.00 0.00 0.00 3.36
1781 1922 1.269051 GCAACACCAACACAAGGCTAC 60.269 52.381 0.00 0.00 0.00 3.58
1860 2001 0.527600 TGATGGCGATCCGAAGAACG 60.528 55.000 6.23 0.00 40.91 3.95
1953 2094 5.965334 GTGACACAAGTGTAAACTTCACATG 59.035 40.000 5.74 0.00 45.05 3.21
2005 2151 4.160252 ACATGTGCCTTCTTTCACTGTTTT 59.840 37.500 0.00 0.00 34.49 2.43
2064 2213 2.972713 ACTTGCCTGGAGAACTACTTCA 59.027 45.455 0.00 0.00 32.52 3.02
2072 2221 0.896940 AGAACTACTTCACCCGGCGA 60.897 55.000 9.30 0.00 0.00 5.54
2098 2247 1.037493 ACTTGCCACTGTACTGTCGA 58.963 50.000 1.89 0.00 0.00 4.20
2146 2295 3.043999 GCGGATAACCTGGGCCACT 62.044 63.158 0.00 0.00 0.00 4.00
2261 2410 2.036089 GACGACTTCTTGTTCCTCTGGT 59.964 50.000 0.00 0.00 0.00 4.00
2461 2610 0.739813 ACGACGGCTTCCTATGTTGC 60.740 55.000 0.00 0.00 0.00 4.17
2476 2625 4.662961 TGCCCGTCGCTGTCTGTG 62.663 66.667 0.00 0.00 38.78 3.66
2556 2706 3.750130 GTGCTTGGGCTAGATATGTCATG 59.250 47.826 0.00 0.00 39.59 3.07
2623 2776 1.269726 CGAAGCTGTGCACCCAATTTT 60.270 47.619 15.69 0.07 0.00 1.82
2689 2845 5.301551 CAGAGGTGCTACATCTAGTCTGATT 59.698 44.000 3.72 0.00 37.10 2.57
2738 2894 1.071814 TGCGGGTAGTGGGTTTCAC 59.928 57.895 0.00 0.00 46.39 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 8.316640 TCAAGTTTTATTGCACAAACAAAAGT 57.683 26.923 14.63 7.06 35.66 2.66
77 78 1.134250 GTCCTCCATCTCCCTTTCAGC 60.134 57.143 0.00 0.00 0.00 4.26
78 79 2.191400 TGTCCTCCATCTCCCTTTCAG 58.809 52.381 0.00 0.00 0.00 3.02
81 82 2.637165 AGTTGTCCTCCATCTCCCTTT 58.363 47.619 0.00 0.00 0.00 3.11
83 84 2.587777 TCTAGTTGTCCTCCATCTCCCT 59.412 50.000 0.00 0.00 0.00 4.20
95 96 3.011119 TCTCTTCCGCTCTCTAGTTGTC 58.989 50.000 0.00 0.00 0.00 3.18
141 142 0.667993 TGTGCAGCTTCTTTTTCGGG 59.332 50.000 0.00 0.00 0.00 5.14
155 156 0.528017 CCTTCTCTACTCGCTGTGCA 59.472 55.000 0.00 0.00 0.00 4.57
160 161 1.816183 CGATCCCCTTCTCTACTCGCT 60.816 57.143 0.00 0.00 0.00 4.93
207 208 2.874648 GATCTCGGTGGTGCCATGCA 62.875 60.000 0.00 0.00 36.97 3.96
248 249 2.066262 CTACGTCAAATCAAGTGCCGT 58.934 47.619 0.00 0.00 0.00 5.68
249 250 2.333926 TCTACGTCAAATCAAGTGCCG 58.666 47.619 0.00 0.00 0.00 5.69
251 252 5.591643 TTCTTCTACGTCAAATCAAGTGC 57.408 39.130 0.00 0.00 0.00 4.40
253 254 5.577164 CCGATTCTTCTACGTCAAATCAAGT 59.423 40.000 0.00 0.00 0.00 3.16
264 265 0.744874 TCTGCCCCGATTCTTCTACG 59.255 55.000 0.00 0.00 0.00 3.51
307 323 2.028733 TTACCGCTTCGTTTCCGGC 61.029 57.895 0.00 0.00 45.58 6.13
308 324 1.783434 GTTACCGCTTCGTTTCCGG 59.217 57.895 0.00 0.00 46.97 5.14
309 325 1.413368 CGTTACCGCTTCGTTTCCG 59.587 57.895 0.00 0.00 0.00 4.30
310 326 1.629345 CCCGTTACCGCTTCGTTTCC 61.629 60.000 0.00 0.00 0.00 3.13
311 327 0.667184 TCCCGTTACCGCTTCGTTTC 60.667 55.000 0.00 0.00 0.00 2.78
312 328 0.037046 ATCCCGTTACCGCTTCGTTT 60.037 50.000 0.00 0.00 0.00 3.60
313 329 0.037046 AATCCCGTTACCGCTTCGTT 60.037 50.000 0.00 0.00 0.00 3.85
330 346 4.860022 CCCATCCCAGACTAGAAACAAAT 58.140 43.478 0.00 0.00 0.00 2.32
332 348 2.026262 GCCCATCCCAGACTAGAAACAA 60.026 50.000 0.00 0.00 0.00 2.83
339 355 1.281419 TTTTCGCCCATCCCAGACTA 58.719 50.000 0.00 0.00 0.00 2.59
340 356 0.625849 ATTTTCGCCCATCCCAGACT 59.374 50.000 0.00 0.00 0.00 3.24
341 357 0.740737 CATTTTCGCCCATCCCAGAC 59.259 55.000 0.00 0.00 0.00 3.51
355 371 3.502211 AGTCTTGGTCGATTTCGCATTTT 59.498 39.130 0.00 0.00 39.60 1.82
356 372 3.074412 AGTCTTGGTCGATTTCGCATTT 58.926 40.909 0.00 0.00 39.60 2.32
357 373 2.699954 AGTCTTGGTCGATTTCGCATT 58.300 42.857 0.00 0.00 39.60 3.56
358 374 2.386661 AGTCTTGGTCGATTTCGCAT 57.613 45.000 0.00 0.00 39.60 4.73
359 375 1.798223 CAAGTCTTGGTCGATTTCGCA 59.202 47.619 4.52 0.00 39.60 5.10
360 376 2.066262 TCAAGTCTTGGTCGATTTCGC 58.934 47.619 12.66 0.00 39.60 4.70
361 377 2.668457 CCTCAAGTCTTGGTCGATTTCG 59.332 50.000 12.66 0.00 41.45 3.46
362 378 3.003480 CCCTCAAGTCTTGGTCGATTTC 58.997 50.000 12.66 0.00 0.00 2.17
363 379 2.876079 GCCCTCAAGTCTTGGTCGATTT 60.876 50.000 12.66 0.00 0.00 2.17
372 388 1.270907 AGATCACGCCCTCAAGTCTT 58.729 50.000 0.00 0.00 0.00 3.01
397 413 1.165270 GCTCGCAAACCAATACAGGT 58.835 50.000 0.00 0.00 45.91 4.00
400 416 1.804151 GTCAGCTCGCAAACCAATACA 59.196 47.619 0.00 0.00 0.00 2.29
406 422 0.317854 GTTTGGTCAGCTCGCAAACC 60.318 55.000 0.00 5.95 31.72 3.27
411 427 0.317854 GTTTGGTTTGGTCAGCTCGC 60.318 55.000 0.00 0.00 0.00 5.03
431 447 7.468922 TGAATCGTTATCTGATGACAATCAC 57.531 36.000 12.31 0.36 37.91 3.06
432 448 8.491331 TTTGAATCGTTATCTGATGACAATCA 57.509 30.769 12.31 9.56 40.61 2.57
439 474 6.847792 CGACCAATTTGAATCGTTATCTGATG 59.152 38.462 12.28 0.00 0.00 3.07
453 488 4.582656 AGGTGTTTGATTCGACCAATTTGA 59.417 37.500 0.00 0.00 0.00 2.69
461 496 2.474410 AGGGAGGTGTTTGATTCGAC 57.526 50.000 0.00 0.00 0.00 4.20
482 517 3.651803 ATAGCTAGCCATCGTCAACTC 57.348 47.619 12.13 0.00 0.00 3.01
493 528 1.769716 AAGGGCCCGAATAGCTAGCC 61.770 60.000 18.44 11.57 43.09 3.93
508 547 5.526479 CAGAGACATGTATGTTGATGAAGGG 59.474 44.000 0.00 0.00 41.95 3.95
543 582 2.959030 AGAAAAGAAAAGTGGCCAGACC 59.041 45.455 5.11 0.00 39.84 3.85
554 593 8.248253 GGAGAAAGTACACCAAAGAAAAGAAAA 58.752 33.333 0.00 0.00 0.00 2.29
570 609 3.998341 TGGTTACAATGCGGAGAAAGTAC 59.002 43.478 0.00 0.00 0.00 2.73
574 613 3.938963 GAGATGGTTACAATGCGGAGAAA 59.061 43.478 0.00 0.00 0.00 2.52
575 614 3.197766 AGAGATGGTTACAATGCGGAGAA 59.802 43.478 0.00 0.00 0.00 2.87
576 615 2.766263 AGAGATGGTTACAATGCGGAGA 59.234 45.455 0.00 0.00 0.00 3.71
577 616 3.126831 GAGAGATGGTTACAATGCGGAG 58.873 50.000 0.00 0.00 0.00 4.63
578 617 2.481276 CGAGAGATGGTTACAATGCGGA 60.481 50.000 0.00 0.00 0.00 5.54
579 618 1.860950 CGAGAGATGGTTACAATGCGG 59.139 52.381 0.00 0.00 0.00 5.69
580 619 1.258982 GCGAGAGATGGTTACAATGCG 59.741 52.381 0.00 0.00 0.00 4.73
581 620 2.555199 AGCGAGAGATGGTTACAATGC 58.445 47.619 0.00 0.00 0.00 3.56
582 621 4.034510 GGAAAGCGAGAGATGGTTACAATG 59.965 45.833 0.00 0.00 0.00 2.82
583 622 4.192317 GGAAAGCGAGAGATGGTTACAAT 58.808 43.478 0.00 0.00 0.00 2.71
584 623 3.596214 GGAAAGCGAGAGATGGTTACAA 58.404 45.455 0.00 0.00 0.00 2.41
585 624 2.093658 GGGAAAGCGAGAGATGGTTACA 60.094 50.000 0.00 0.00 0.00 2.41
586 625 2.168728 AGGGAAAGCGAGAGATGGTTAC 59.831 50.000 0.00 0.00 0.00 2.50
587 626 2.467880 AGGGAAAGCGAGAGATGGTTA 58.532 47.619 0.00 0.00 0.00 2.85
588 627 1.280457 AGGGAAAGCGAGAGATGGTT 58.720 50.000 0.00 0.00 0.00 3.67
589 628 1.280457 AAGGGAAAGCGAGAGATGGT 58.720 50.000 0.00 0.00 0.00 3.55
590 629 2.409948 AAAGGGAAAGCGAGAGATGG 57.590 50.000 0.00 0.00 0.00 3.51
591 630 3.127721 GGAAAAAGGGAAAGCGAGAGATG 59.872 47.826 0.00 0.00 0.00 2.90
592 631 3.348119 GGAAAAAGGGAAAGCGAGAGAT 58.652 45.455 0.00 0.00 0.00 2.75
593 632 2.779506 GGAAAAAGGGAAAGCGAGAGA 58.220 47.619 0.00 0.00 0.00 3.10
594 633 1.464997 CGGAAAAAGGGAAAGCGAGAG 59.535 52.381 0.00 0.00 0.00 3.20
595 634 1.519408 CGGAAAAAGGGAAAGCGAGA 58.481 50.000 0.00 0.00 0.00 4.04
596 635 0.109735 GCGGAAAAAGGGAAAGCGAG 60.110 55.000 0.00 0.00 0.00 5.03
597 636 1.953772 GCGGAAAAAGGGAAAGCGA 59.046 52.632 0.00 0.00 0.00 4.93
598 637 1.442017 CGCGGAAAAAGGGAAAGCG 60.442 57.895 0.00 0.00 40.14 4.68
599 638 0.031585 AACGCGGAAAAAGGGAAAGC 59.968 50.000 12.47 0.00 0.00 3.51
600 639 1.066454 ACAACGCGGAAAAAGGGAAAG 59.934 47.619 12.47 0.00 0.00 2.62
601 640 1.104630 ACAACGCGGAAAAAGGGAAA 58.895 45.000 12.47 0.00 0.00 3.13
602 641 1.964552 TACAACGCGGAAAAAGGGAA 58.035 45.000 12.47 0.00 0.00 3.97
603 642 1.603326 GTTACAACGCGGAAAAAGGGA 59.397 47.619 12.47 0.00 0.00 4.20
604 643 1.335233 GGTTACAACGCGGAAAAAGGG 60.335 52.381 12.47 0.00 0.00 3.95
605 644 1.334243 TGGTTACAACGCGGAAAAAGG 59.666 47.619 12.47 0.00 0.00 3.11
606 645 2.759538 TGGTTACAACGCGGAAAAAG 57.240 45.000 12.47 0.00 0.00 2.27
720 765 2.969300 ATTGTTGGGCCCACGTCGTT 62.969 55.000 28.70 4.40 0.00 3.85
942 988 4.440839 AGCAGGTTTGTTTTATAGCAGC 57.559 40.909 0.00 0.00 0.00 5.25
1250 1363 2.363975 CCCCTTCATCCCGGACGAA 61.364 63.158 0.73 0.97 0.00 3.85
1514 1645 4.697756 CCGAGGACAAGGCGGCAA 62.698 66.667 13.08 0.00 38.46 4.52
1609 1743 1.967319 AAAGACGAGCAAGAAAGGCA 58.033 45.000 0.00 0.00 0.00 4.75
1622 1756 5.273944 CAAGAAAAAGGACTGGAAAAGACG 58.726 41.667 0.00 0.00 0.00 4.18
1655 1789 4.216042 TCTGTTCTAAATACACGGACACGA 59.784 41.667 0.00 0.00 44.60 4.35
1860 2001 3.126831 CTCGTATTCTCCTGCACAATCC 58.873 50.000 0.00 0.00 0.00 3.01
1953 2094 7.719633 TGGAGAGTACATAGCAAATTAAATCCC 59.280 37.037 0.00 0.00 0.00 3.85
1983 2124 3.996150 AACAGTGAAAGAAGGCACATG 57.004 42.857 0.00 0.00 37.48 3.21
2005 2151 8.708378 GGGATGATCATGTACATAGATTGGATA 58.292 37.037 14.30 1.93 0.00 2.59
2064 2213 0.529378 CAAGTACTAACTCGCCGGGT 59.471 55.000 2.18 0.00 33.75 5.28
2072 2221 4.587684 ACAGTACAGTGGCAAGTACTAACT 59.412 41.667 24.75 13.09 46.67 2.24
2305 2454 7.110155 ACTAGGGACGATGTTATTTGACAATT 58.890 34.615 0.00 0.00 32.47 2.32
2461 2610 4.363990 AGCACAGACAGCGACGGG 62.364 66.667 0.00 0.00 37.01 5.28
2556 2706 3.918591 TGTGCTCGATCTTTTAACTCGTC 59.081 43.478 0.00 0.00 34.19 4.20
2658 2814 5.683876 AGATGTAGCACCTCTGTTATGTT 57.316 39.130 0.00 0.00 0.00 2.71
2723 2879 3.434940 AGAATGTGAAACCCACTACCC 57.565 47.619 0.00 0.00 45.86 3.69
2738 2894 4.882671 AAAATCGATGACCCGAAGAATG 57.117 40.909 0.00 0.00 42.22 2.67
2740 2896 4.575885 AGAAAAATCGATGACCCGAAGAA 58.424 39.130 0.00 0.00 42.22 2.52


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

AutoCloner maintained by Alex Coulton.