Multiple sequence alignment - TraesCS4A01G174300

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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 TraesCS4A01G174300 chr4A 100.000 2696 0 0 1 2696 444862044 444864739 0.000000e+00 4979.0
1 TraesCS4A01G174300 chr4B 96.604 1914 54 5 788 2696 189153196 189151289 0.000000e+00 3164.0
2 TraesCS4A01G174300 chr4B 94.323 229 10 3 117 343 189153819 189153592 5.520000e-92 348.0
3 TraesCS4A01G174300 chr4B 96.748 123 4 0 1 123 189417080 189416958 3.520000e-49 206.0
4 TraesCS4A01G174300 chr4B 87.736 106 4 1 708 804 189153443 189153338 6.100000e-22 115.0
5 TraesCS4A01G174300 chr4D 96.709 1884 40 7 825 2696 125232383 125230510 0.000000e+00 3116.0
6 TraesCS4A01G174300 chr4D 93.562 233 14 1 1 233 125233478 125233247 1.990000e-91 346.0
7 TraesCS4A01G174300 chr4D 90.040 251 14 5 585 825 125232901 125232652 5.600000e-82 315.0
8 TraesCS4A01G174300 chr6D 73.559 295 63 11 1397 1679 276903075 276903366 6.140000e-17 99.0
9 TraesCS4A01G174300 chr5D 73.401 297 60 14 1397 1679 103654432 103654141 2.860000e-15 93.5
10 TraesCS4A01G174300 chr5B 72.881 295 65 11 1397 1679 112586979 112586688 1.330000e-13 87.9
11 TraesCS4A01G174300 chr3B 96.970 33 1 0 478 510 507500808 507500840 3.750000e-04 56.5
12 TraesCS4A01G174300 chr7B 92.308 39 2 1 478 516 636433826 636433789 1.000000e-03 54.7


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 TraesCS4A01G174300 chr4A 444862044 444864739 2695 False 4979 4979 100.000000 1 2696 1 chr4A.!!$F1 2695
1 TraesCS4A01G174300 chr4B 189151289 189153819 2530 True 1209 3164 92.887667 117 2696 3 chr4B.!!$R2 2579
2 TraesCS4A01G174300 chr4D 125230510 125233478 2968 True 1259 3116 93.437000 1 2696 3 chr4D.!!$R1 2695

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
574 672 0.035439 GGAGGGAGTCCATCGCAAAA 60.035 55.0 17.24 0.0 46.1 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2015 2558 0.370273 CGATGGTTACGAAGCTGCAC 59.63 55.0 1.02 0.0 0.0 4.57 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
40 41 7.147915 TGGATATTAGCCACCTTTTCATGTTTC 60.148 37.037 0.00 0.00 0.00 2.78
95 96 5.943416 TGTCTCATTTTCACGGACCAATAAT 59.057 36.000 0.00 0.00 0.00 1.28
104 105 4.461081 TCACGGACCAATAATTTTTCCTGG 59.539 41.667 0.00 0.00 0.00 4.45
174 175 6.756542 CACATCATTTGACGTCTTCATACCTA 59.243 38.462 17.92 0.00 32.84 3.08
339 437 7.399765 TGATGATTTCTTTCATTGGGGTTATGT 59.600 33.333 0.00 0.00 36.48 2.29
344 442 6.773976 TCTTTCATTGGGGTTATGTGAATC 57.226 37.500 0.00 0.00 0.00 2.52
345 443 6.493166 TCTTTCATTGGGGTTATGTGAATCT 58.507 36.000 0.00 0.00 0.00 2.40
346 444 6.953520 TCTTTCATTGGGGTTATGTGAATCTT 59.046 34.615 0.00 0.00 0.00 2.40
347 445 7.454380 TCTTTCATTGGGGTTATGTGAATCTTT 59.546 33.333 0.00 0.00 0.00 2.52
348 446 7.552050 TTCATTGGGGTTATGTGAATCTTTT 57.448 32.000 0.00 0.00 0.00 2.27
349 447 7.169158 TCATTGGGGTTATGTGAATCTTTTC 57.831 36.000 0.00 0.00 0.00 2.29
350 448 5.993748 TTGGGGTTATGTGAATCTTTTCC 57.006 39.130 0.00 0.00 0.00 3.13
351 449 4.349365 TGGGGTTATGTGAATCTTTTCCC 58.651 43.478 0.00 0.00 0.00 3.97
352 450 4.202727 TGGGGTTATGTGAATCTTTTCCCA 60.203 41.667 0.00 0.00 38.27 4.37
353 451 4.962362 GGGGTTATGTGAATCTTTTCCCAT 59.038 41.667 0.00 0.00 34.77 4.00
354 452 5.069119 GGGGTTATGTGAATCTTTTCCCATC 59.931 44.000 0.00 0.00 32.95 3.51
355 453 5.893824 GGGTTATGTGAATCTTTTCCCATCT 59.106 40.000 0.00 0.00 32.95 2.90
356 454 6.039829 GGGTTATGTGAATCTTTTCCCATCTC 59.960 42.308 0.00 0.00 32.95 2.75
357 455 6.830838 GGTTATGTGAATCTTTTCCCATCTCT 59.169 38.462 0.00 0.00 32.95 3.10
358 456 7.012799 GGTTATGTGAATCTTTTCCCATCTCTC 59.987 40.741 0.00 0.00 32.95 3.20
359 457 5.768980 TGTGAATCTTTTCCCATCTCTCT 57.231 39.130 0.00 0.00 0.00 3.10
360 458 5.738909 TGTGAATCTTTTCCCATCTCTCTC 58.261 41.667 0.00 0.00 0.00 3.20
361 459 5.486775 TGTGAATCTTTTCCCATCTCTCTCT 59.513 40.000 0.00 0.00 0.00 3.10
362 460 6.048509 GTGAATCTTTTCCCATCTCTCTCTC 58.951 44.000 0.00 0.00 0.00 3.20
363 461 5.963253 TGAATCTTTTCCCATCTCTCTCTCT 59.037 40.000 0.00 0.00 0.00 3.10
364 462 6.098124 TGAATCTTTTCCCATCTCTCTCTCTC 59.902 42.308 0.00 0.00 0.00 3.20
365 463 5.205517 TCTTTTCCCATCTCTCTCTCTCT 57.794 43.478 0.00 0.00 0.00 3.10
366 464 5.200483 TCTTTTCCCATCTCTCTCTCTCTC 58.800 45.833 0.00 0.00 0.00 3.20
367 465 4.879295 TTTCCCATCTCTCTCTCTCTCT 57.121 45.455 0.00 0.00 0.00 3.10
368 466 4.437682 TTCCCATCTCTCTCTCTCTCTC 57.562 50.000 0.00 0.00 0.00 3.20
369 467 3.668821 TCCCATCTCTCTCTCTCTCTCT 58.331 50.000 0.00 0.00 0.00 3.10
370 468 3.648067 TCCCATCTCTCTCTCTCTCTCTC 59.352 52.174 0.00 0.00 0.00 3.20
371 469 3.649981 CCCATCTCTCTCTCTCTCTCTCT 59.350 52.174 0.00 0.00 0.00 3.10
372 470 4.262808 CCCATCTCTCTCTCTCTCTCTCTC 60.263 54.167 0.00 0.00 0.00 3.20
373 471 4.346127 CCATCTCTCTCTCTCTCTCTCTCA 59.654 50.000 0.00 0.00 0.00 3.27
374 472 5.295950 CATCTCTCTCTCTCTCTCTCTCAC 58.704 50.000 0.00 0.00 0.00 3.51
375 473 4.614475 TCTCTCTCTCTCTCTCTCTCACT 58.386 47.826 0.00 0.00 0.00 3.41
376 474 4.646945 TCTCTCTCTCTCTCTCTCTCACTC 59.353 50.000 0.00 0.00 0.00 3.51
400 498 4.478317 TCTCTCTCTCTCTCTCCTCCAAAT 59.522 45.833 0.00 0.00 0.00 2.32
439 537 8.432805 CAGGTTCATACTATTTGATACTCCCTT 58.567 37.037 0.00 0.00 0.00 3.95
443 541 8.246430 TCATACTATTTGATACTCCCTTCGTT 57.754 34.615 0.00 0.00 0.00 3.85
446 544 7.125792 ACTATTTGATACTCCCTTCGTTCAT 57.874 36.000 0.00 0.00 0.00 2.57
476 574 6.976934 AAGGTGGTGTTTTCAATATGAACT 57.023 33.333 0.00 0.00 35.89 3.01
556 654 6.721571 AGAACACATTGTAATAGTGAACGG 57.278 37.500 0.00 0.00 37.05 4.44
557 655 6.460781 AGAACACATTGTAATAGTGAACGGA 58.539 36.000 0.00 0.00 37.05 4.69
558 656 6.590292 AGAACACATTGTAATAGTGAACGGAG 59.410 38.462 0.00 0.00 37.05 4.63
559 657 5.175859 ACACATTGTAATAGTGAACGGAGG 58.824 41.667 0.00 0.00 37.05 4.30
560 658 4.570772 CACATTGTAATAGTGAACGGAGGG 59.429 45.833 0.00 0.00 35.33 4.30
561 659 4.468510 ACATTGTAATAGTGAACGGAGGGA 59.531 41.667 0.00 0.00 0.00 4.20
562 660 4.730949 TTGTAATAGTGAACGGAGGGAG 57.269 45.455 0.00 0.00 0.00 4.30
563 661 3.705051 TGTAATAGTGAACGGAGGGAGT 58.295 45.455 0.00 0.00 0.00 3.85
564 662 3.698040 TGTAATAGTGAACGGAGGGAGTC 59.302 47.826 0.00 0.00 0.00 3.36
565 663 1.777941 ATAGTGAACGGAGGGAGTCC 58.222 55.000 0.00 0.00 42.85 3.85
572 670 3.309582 GGAGGGAGTCCATCGCAA 58.690 61.111 17.24 0.00 46.10 4.85
573 671 1.602237 GGAGGGAGTCCATCGCAAA 59.398 57.895 17.24 0.00 46.10 3.68
574 672 0.035439 GGAGGGAGTCCATCGCAAAA 60.035 55.000 17.24 0.00 46.10 2.44
575 673 1.613255 GGAGGGAGTCCATCGCAAAAA 60.613 52.381 17.24 0.00 46.10 1.94
620 718 2.839975 TGTTATGACAACTTGCCGTCA 58.160 42.857 0.00 0.00 45.62 4.35
662 760 1.694844 TGTACGGATTCGGGCTATGA 58.305 50.000 0.00 0.00 41.39 2.15
676 774 2.290960 GGCTATGAAAGGTGAACCCACT 60.291 50.000 0.00 0.00 42.77 4.00
704 802 5.818678 TTTGGCAACTAGATATATCGGGT 57.181 39.130 0.00 7.31 37.61 5.28
705 803 5.818678 TTGGCAACTAGATATATCGGGTT 57.181 39.130 15.60 15.60 37.61 4.11
706 804 5.818678 TGGCAACTAGATATATCGGGTTT 57.181 39.130 17.52 5.36 37.61 3.27
782 890 6.647334 TTTGTGGTTGATCAAGAGCATAAA 57.353 33.333 8.80 12.14 33.85 1.40
792 900 9.844790 TTGATCAAGAGCATAAACAATTAGTTG 57.155 29.630 3.38 0.00 41.19 3.16
951 1487 6.498538 ACCTCTCTTATATACTCCATGAGGG 58.501 44.000 0.00 0.00 41.83 4.30
952 1488 5.896678 CCTCTCTTATATACTCCATGAGGGG 59.103 48.000 0.00 0.00 43.03 4.79
953 1489 5.843469 TCTCTTATATACTCCATGAGGGGG 58.157 45.833 0.00 0.00 45.74 5.40
969 1505 1.813513 GGGGGCTATGATCAACATCG 58.186 55.000 0.00 0.00 40.07 3.84
976 1512 5.279306 GGGCTATGATCAACATCGGTACTTA 60.279 44.000 0.00 0.00 40.07 2.24
1113 1652 3.622826 AACCTGTGCGCGTACCCT 61.623 61.111 24.54 3.77 0.00 4.34
1312 1851 3.430497 CCCCCTCCTCCTCCTCGA 61.430 72.222 0.00 0.00 0.00 4.04
1690 2229 0.811616 CTTCTGCCCCGATTCTTCCG 60.812 60.000 0.00 0.00 0.00 4.30
1770 2312 6.976349 CACGATGCCGGTTATATAATAAGCTA 59.024 38.462 1.90 0.00 40.78 3.32
1891 2433 3.198409 TGATCTCGCCATGTTTAGCAT 57.802 42.857 0.00 0.00 38.60 3.79
1892 2434 4.335400 TGATCTCGCCATGTTTAGCATA 57.665 40.909 0.00 0.00 35.74 3.14
1893 2435 4.309933 TGATCTCGCCATGTTTAGCATAG 58.690 43.478 0.00 0.00 35.74 2.23
1913 2456 9.489084 AGCATAGAAAAACAAGGAAAATAAACC 57.511 29.630 0.00 0.00 0.00 3.27
2441 2990 3.749064 GAGTGGAGCGAGCCGACA 61.749 66.667 0.00 0.00 0.00 4.35
2627 3176 2.813726 CGGGTCACTCCACCACCAA 61.814 63.158 0.00 0.00 38.32 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 7.615365 TCATAGAAACATGAAAAGGTGGCTAAT 59.385 33.333 0.00 0.00 32.01 1.73
40 41 5.942236 CCTATCCAAACCCATGACATCATAG 59.058 44.000 0.00 0.00 34.26 2.23
95 96 6.220201 GCTATAAGCAACAAACCAGGAAAAA 58.780 36.000 0.00 0.00 41.89 1.94
181 182 5.249393 ACATGTTGGAAAGACCTCTCTGTAT 59.751 40.000 0.00 0.00 39.86 2.29
232 326 0.537371 GCAAGTGGGCTAACACCTGT 60.537 55.000 0.00 0.00 42.28 4.00
233 327 0.537143 TGCAAGTGGGCTAACACCTG 60.537 55.000 0.00 0.00 42.28 4.00
262 356 3.248266 CAGCAATACAAGAAGCAAAGGC 58.752 45.455 0.00 0.00 41.61 4.35
339 437 5.963253 AGAGAGAGAGATGGGAAAAGATTCA 59.037 40.000 0.00 0.00 37.29 2.57
344 442 5.203528 AGAGAGAGAGAGAGATGGGAAAAG 58.796 45.833 0.00 0.00 0.00 2.27
345 443 5.044179 AGAGAGAGAGAGAGAGATGGGAAAA 60.044 44.000 0.00 0.00 0.00 2.29
346 444 4.478317 AGAGAGAGAGAGAGAGATGGGAAA 59.522 45.833 0.00 0.00 0.00 3.13
347 445 4.047166 AGAGAGAGAGAGAGAGATGGGAA 58.953 47.826 0.00 0.00 0.00 3.97
348 446 3.648067 GAGAGAGAGAGAGAGAGATGGGA 59.352 52.174 0.00 0.00 0.00 4.37
349 447 3.649981 AGAGAGAGAGAGAGAGAGATGGG 59.350 52.174 0.00 0.00 0.00 4.00
350 448 4.346127 TGAGAGAGAGAGAGAGAGAGATGG 59.654 50.000 0.00 0.00 0.00 3.51
351 449 5.070180 AGTGAGAGAGAGAGAGAGAGAGATG 59.930 48.000 0.00 0.00 0.00 2.90
352 450 5.215069 AGTGAGAGAGAGAGAGAGAGAGAT 58.785 45.833 0.00 0.00 0.00 2.75
353 451 4.614475 AGTGAGAGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
354 452 4.648762 AGAGTGAGAGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
355 453 4.614475 AGAGTGAGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
356 454 4.648762 AGAGAGTGAGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
357 455 4.614475 AGAGAGTGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
358 456 4.648762 AGAGAGAGTGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
359 457 4.614475 AGAGAGAGTGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
360 458 4.648762 AGAGAGAGAGTGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
361 459 4.614475 AGAGAGAGAGTGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
362 460 4.648762 AGAGAGAGAGAGTGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
363 461 4.614475 AGAGAGAGAGAGTGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
364 462 4.648762 AGAGAGAGAGAGAGTGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
365 463 4.614475 AGAGAGAGAGAGAGTGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
366 464 4.648762 AGAGAGAGAGAGAGAGTGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
367 465 4.614475 AGAGAGAGAGAGAGAGTGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
368 466 4.648762 AGAGAGAGAGAGAGAGAGTGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
369 467 4.614475 AGAGAGAGAGAGAGAGAGTGAGA 58.386 47.826 0.00 0.00 0.00 3.27
370 468 4.202202 GGAGAGAGAGAGAGAGAGAGTGAG 60.202 54.167 0.00 0.00 0.00 3.51
371 469 3.706594 GGAGAGAGAGAGAGAGAGAGTGA 59.293 52.174 0.00 0.00 0.00 3.41
372 470 3.708631 AGGAGAGAGAGAGAGAGAGAGTG 59.291 52.174 0.00 0.00 0.00 3.51
373 471 3.964031 GAGGAGAGAGAGAGAGAGAGAGT 59.036 52.174 0.00 0.00 0.00 3.24
374 472 3.323403 GGAGGAGAGAGAGAGAGAGAGAG 59.677 56.522 0.00 0.00 0.00 3.20
375 473 3.309296 GGAGGAGAGAGAGAGAGAGAGA 58.691 54.545 0.00 0.00 0.00 3.10
376 474 3.041211 TGGAGGAGAGAGAGAGAGAGAG 58.959 54.545 0.00 0.00 0.00 3.20
423 521 9.712305 ATAATGAACGAAGGGAGTATCAAATAG 57.288 33.333 0.00 0.00 36.25 1.73
439 537 8.795842 AAACACCACCTTATAATAATGAACGA 57.204 30.769 0.00 0.00 0.00 3.85
532 630 7.604549 TCCGTTCACTATTACAATGTGTTCTA 58.395 34.615 0.00 0.00 33.82 2.10
534 632 6.183360 CCTCCGTTCACTATTACAATGTGTTC 60.183 42.308 0.00 0.00 33.82 3.18
535 633 5.642063 CCTCCGTTCACTATTACAATGTGTT 59.358 40.000 0.00 0.00 33.82 3.32
536 634 5.175859 CCTCCGTTCACTATTACAATGTGT 58.824 41.667 0.00 0.00 33.82 3.72
537 635 4.570772 CCCTCCGTTCACTATTACAATGTG 59.429 45.833 0.00 0.00 0.00 3.21
539 637 5.018539 TCCCTCCGTTCACTATTACAATG 57.981 43.478 0.00 0.00 0.00 2.82
541 639 4.091549 ACTCCCTCCGTTCACTATTACAA 58.908 43.478 0.00 0.00 0.00 2.41
542 640 3.698040 GACTCCCTCCGTTCACTATTACA 59.302 47.826 0.00 0.00 0.00 2.41
543 641 3.067883 GGACTCCCTCCGTTCACTATTAC 59.932 52.174 0.00 0.00 0.00 1.89
544 642 3.294214 GGACTCCCTCCGTTCACTATTA 58.706 50.000 0.00 0.00 0.00 0.98
545 643 2.108970 GGACTCCCTCCGTTCACTATT 58.891 52.381 0.00 0.00 0.00 1.73
546 644 1.006758 TGGACTCCCTCCGTTCACTAT 59.993 52.381 0.00 0.00 43.03 2.12
547 645 0.406750 TGGACTCCCTCCGTTCACTA 59.593 55.000 0.00 0.00 43.03 2.74
548 646 0.252284 ATGGACTCCCTCCGTTCACT 60.252 55.000 0.00 0.00 43.03 3.41
549 647 0.175989 GATGGACTCCCTCCGTTCAC 59.824 60.000 0.00 0.00 43.03 3.18
550 648 1.320344 CGATGGACTCCCTCCGTTCA 61.320 60.000 0.00 0.00 43.03 3.18
551 649 1.437986 CGATGGACTCCCTCCGTTC 59.562 63.158 0.00 0.00 43.03 3.95
552 650 2.722201 GCGATGGACTCCCTCCGTT 61.722 63.158 0.00 0.00 43.03 4.44
553 651 3.148279 GCGATGGACTCCCTCCGT 61.148 66.667 0.00 0.00 43.03 4.69
554 652 2.238847 TTTGCGATGGACTCCCTCCG 62.239 60.000 0.00 0.00 43.03 4.63
555 653 0.035439 TTTTGCGATGGACTCCCTCC 60.035 55.000 0.00 0.00 39.97 4.30
556 654 1.821216 TTTTTGCGATGGACTCCCTC 58.179 50.000 0.00 0.00 0.00 4.30
574 672 4.533815 ACTCCCTCCGTTCTTTTCTTTTT 58.466 39.130 0.00 0.00 0.00 1.94
575 673 4.166246 ACTCCCTCCGTTCTTTTCTTTT 57.834 40.909 0.00 0.00 0.00 2.27
576 674 3.859061 ACTCCCTCCGTTCTTTTCTTT 57.141 42.857 0.00 0.00 0.00 2.52
577 675 3.902467 AGTACTCCCTCCGTTCTTTTCTT 59.098 43.478 0.00 0.00 0.00 2.52
578 676 3.508426 AGTACTCCCTCCGTTCTTTTCT 58.492 45.455 0.00 0.00 0.00 2.52
579 677 3.957591 AGTACTCCCTCCGTTCTTTTC 57.042 47.619 0.00 0.00 0.00 2.29
580 678 3.390311 ACAAGTACTCCCTCCGTTCTTTT 59.610 43.478 0.00 0.00 0.00 2.27
583 681 2.305858 ACAAGTACTCCCTCCGTTCT 57.694 50.000 0.00 0.00 0.00 3.01
592 690 5.106673 GGCAAGTTGTCATAACAAGTACTCC 60.107 44.000 1.68 0.00 46.10 3.85
620 718 8.450578 ACATAAACATCGGTGAATGTGAATAT 57.549 30.769 0.65 0.00 39.76 1.28
662 760 2.838637 TTTGGAGTGGGTTCACCTTT 57.161 45.000 0.00 0.00 44.64 3.11
733 832 7.653647 TCTGTATTTACATTTGAACACCAACC 58.346 34.615 0.00 0.00 35.36 3.77
792 900 2.806945 TGGATGGACAGTGGAAATCC 57.193 50.000 11.40 11.40 37.83 3.01
845 1381 0.534427 CATGCATCCATCGGCAGAGT 60.534 55.000 0.00 0.00 44.24 3.24
902 1438 0.259065 TGTGGTGGTTAGGTGGCAAA 59.741 50.000 0.00 0.00 0.00 3.68
951 1487 1.072331 ACCGATGTTGATCATAGCCCC 59.928 52.381 0.00 0.00 36.83 5.80
952 1488 2.550830 ACCGATGTTGATCATAGCCC 57.449 50.000 0.00 0.00 36.83 5.19
953 1489 4.258702 AGTACCGATGTTGATCATAGCC 57.741 45.455 0.00 0.00 36.83 3.93
954 1490 5.864474 CCTAAGTACCGATGTTGATCATAGC 59.136 44.000 0.00 0.00 36.83 2.97
969 1505 4.224370 TGAAGGGATCACAACCTAAGTACC 59.776 45.833 0.00 0.00 35.64 3.34
1113 1652 2.358615 GTGATGAGCGGCCACACA 60.359 61.111 2.24 0.00 0.00 3.72
1500 2039 3.359523 TCCACGTCGAGGTCCACG 61.360 66.667 7.99 1.78 41.90 4.94
1566 2105 0.401738 CCTTGAAGAAGTGCCCCTGA 59.598 55.000 0.00 0.00 0.00 3.86
1690 2229 3.005472 TGTGTGGTAGCAAGTGACTAGTC 59.995 47.826 16.32 16.32 0.00 2.59
1770 2312 3.329743 CGAATCAGCAATCAATCGCTT 57.670 42.857 0.00 0.00 35.96 4.68
1828 2370 1.902508 AGATCAGTCCAAGCGGAAGAA 59.097 47.619 0.00 0.00 45.20 2.52
1892 2434 7.650504 GCTACGGTTTATTTTCCTTGTTTTTCT 59.349 33.333 0.00 0.00 0.00 2.52
1893 2435 7.435784 TGCTACGGTTTATTTTCCTTGTTTTTC 59.564 33.333 0.00 0.00 0.00 2.29
1913 2456 2.413837 ACACAAACTAAGCCTGCTACG 58.586 47.619 0.00 0.00 0.00 3.51
2015 2558 0.370273 CGATGGTTACGAAGCTGCAC 59.630 55.000 1.02 0.00 0.00 4.57
2327 2876 1.004560 CTCTTCCGGCTGCTGTTCA 60.005 57.895 7.82 0.00 0.00 3.18
2627 3176 0.106419 GGGAGATGTCGAGGGAGAGT 60.106 60.000 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.