Multiple sequence alignment - TraesCS1D01G300100

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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 TraesCS1D01G300100 chr1D 100.000 2641 0 0 1 2641 398383100 398380460 0.000000e+00 4878
1 TraesCS1D01G300100 chr1B 87.752 2678 206 44 3 2639 533818577 533815981 0.000000e+00 3016
2 TraesCS1D01G300100 chr1A 90.303 2145 133 30 537 2641 495335180 495333071 0.000000e+00 2739
3 TraesCS1D01G300100 chr1A 88.889 459 44 6 1 456 495335651 495335197 2.300000e-155 558


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 TraesCS1D01G300100 chr1D 398380460 398383100 2640 True 4878.0 4878 100.000 1 2641 1 chr1D.!!$R1 2640
1 TraesCS1D01G300100 chr1B 533815981 533818577 2596 True 3016.0 3016 87.752 3 2639 1 chr1B.!!$R1 2636
2 TraesCS1D01G300100 chr1A 495333071 495335651 2580 True 1648.5 2739 89.596 1 2641 2 chr1A.!!$R1 2640

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
507 519 0.386731 GACATTTGCGGACGGTTTGG 60.387 55.0 0.0 0.0 0.0 3.28 F
768 780 0.601558 CGTATATCACAGGTCCCCGG 59.398 60.0 0.0 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1356 1393 0.319555 TCGCCACGACCTTCTTTCTG 60.320 55.0 0.0 0.0 0.00 3.02 R
2516 2576 0.171007 GCGCTGCTTGCTAATGGAAA 59.829 50.0 0.0 0.0 40.11 3.13 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
21 22 2.441001 GGTTGATGGAGGTGGAGATGAT 59.559 50.000 0.00 0.00 0.00 2.45
27 28 3.117745 TGGAGGTGGAGATGATGTTGAT 58.882 45.455 0.00 0.00 0.00 2.57
30 31 4.125703 GAGGTGGAGATGATGTTGATGTC 58.874 47.826 0.00 0.00 0.00 3.06
32 33 3.525537 GTGGAGATGATGTTGATGTCGT 58.474 45.455 0.00 0.00 0.00 4.34
39 40 4.192429 TGATGTTGATGTCGTCACTCAT 57.808 40.909 10.08 10.08 36.32 2.90
47 48 2.944557 CGTCACTCATCGTCGCCG 60.945 66.667 0.00 0.00 0.00 6.46
66 69 2.290705 CCGGAAACCCTTTGAGTATGGT 60.291 50.000 0.00 0.00 0.00 3.55
79 82 3.780294 TGAGTATGGTTGAGTAAGGGCAT 59.220 43.478 0.00 0.00 0.00 4.40
84 87 2.301346 GGTTGAGTAAGGGCATCCATG 58.699 52.381 0.00 0.00 34.83 3.66
175 178 1.502231 ATGAGATGTTCGCGGCATAC 58.498 50.000 6.13 9.64 0.00 2.39
203 206 3.973516 TGTTCGAGGACGCGTGCT 61.974 61.111 34.00 34.00 39.58 4.40
226 230 3.002583 TGGCCGCTCTCATCCACA 61.003 61.111 0.00 0.00 0.00 4.17
262 266 1.864711 TCAAAGAAAGACTTGACGCGG 59.135 47.619 12.47 0.00 38.98 6.46
287 291 2.593346 TTTGTTGTTGCAGCGGAAAT 57.407 40.000 0.00 0.00 0.00 2.17
333 343 2.846206 AGGCTCTGTCATGGTTTGGATA 59.154 45.455 0.00 0.00 0.00 2.59
354 364 2.032634 TCCGCGTTGTTGGATGCTC 61.033 57.895 4.92 0.00 0.00 4.26
375 385 1.355210 GTGGTGGACGTGCACAAAG 59.645 57.895 35.92 2.84 0.00 2.77
433 445 8.260818 TGGAACAATCCTAAAAATTTGTTGACA 58.739 29.630 4.77 2.14 46.70 3.58
438 450 7.581011 ATCCTAAAAATTTGTTGACAATCGC 57.419 32.000 0.00 0.00 35.55 4.58
504 516 2.396590 ATAGACATTTGCGGACGGTT 57.603 45.000 0.00 0.00 0.00 4.44
505 517 2.172851 TAGACATTTGCGGACGGTTT 57.827 45.000 0.00 0.00 0.00 3.27
506 518 0.591170 AGACATTTGCGGACGGTTTG 59.409 50.000 0.00 0.00 0.00 2.93
507 519 0.386731 GACATTTGCGGACGGTTTGG 60.387 55.000 0.00 0.00 0.00 3.28
508 520 1.104577 ACATTTGCGGACGGTTTGGT 61.105 50.000 0.00 0.00 0.00 3.67
509 521 0.662970 CATTTGCGGACGGTTTGGTG 60.663 55.000 0.00 0.00 0.00 4.17
510 522 0.820074 ATTTGCGGACGGTTTGGTGA 60.820 50.000 0.00 0.00 0.00 4.02
511 523 0.820074 TTTGCGGACGGTTTGGTGAT 60.820 50.000 0.00 0.00 0.00 3.06
512 524 0.820074 TTGCGGACGGTTTGGTGATT 60.820 50.000 0.00 0.00 0.00 2.57
513 525 1.209127 GCGGACGGTTTGGTGATTG 59.791 57.895 0.00 0.00 0.00 2.67
514 526 1.209127 CGGACGGTTTGGTGATTGC 59.791 57.895 0.00 0.00 0.00 3.56
515 527 1.584495 GGACGGTTTGGTGATTGCC 59.416 57.895 0.00 0.00 0.00 4.52
516 528 1.584495 GACGGTTTGGTGATTGCCC 59.416 57.895 0.00 0.00 0.00 5.36
517 529 0.893727 GACGGTTTGGTGATTGCCCT 60.894 55.000 0.00 0.00 0.00 5.19
518 530 1.178534 ACGGTTTGGTGATTGCCCTG 61.179 55.000 0.00 0.00 0.00 4.45
519 531 0.893270 CGGTTTGGTGATTGCCCTGA 60.893 55.000 0.00 0.00 0.00 3.86
520 532 0.890683 GGTTTGGTGATTGCCCTGAG 59.109 55.000 0.00 0.00 0.00 3.35
521 533 1.547675 GGTTTGGTGATTGCCCTGAGA 60.548 52.381 0.00 0.00 0.00 3.27
522 534 2.238521 GTTTGGTGATTGCCCTGAGAA 58.761 47.619 0.00 0.00 0.00 2.87
523 535 2.205022 TTGGTGATTGCCCTGAGAAG 57.795 50.000 0.00 0.00 0.00 2.85
524 536 1.361204 TGGTGATTGCCCTGAGAAGA 58.639 50.000 0.00 0.00 0.00 2.87
525 537 1.003580 TGGTGATTGCCCTGAGAAGAC 59.996 52.381 0.00 0.00 0.00 3.01
526 538 1.280421 GGTGATTGCCCTGAGAAGACT 59.720 52.381 0.00 0.00 0.00 3.24
527 539 2.501723 GGTGATTGCCCTGAGAAGACTA 59.498 50.000 0.00 0.00 0.00 2.59
528 540 3.135530 GGTGATTGCCCTGAGAAGACTAT 59.864 47.826 0.00 0.00 0.00 2.12
529 541 4.125703 GTGATTGCCCTGAGAAGACTATG 58.874 47.826 0.00 0.00 0.00 2.23
635 647 6.490381 AGAAGGAATTTTCTCTGTTGGGTAAC 59.510 38.462 0.00 0.00 31.97 2.50
668 680 4.890581 AGAGCTGGAATCTCGTACTACAAT 59.109 41.667 0.00 0.00 35.79 2.71
725 737 3.005367 CCCTTTGTCAATAAGGCAACGTT 59.995 43.478 0.00 0.00 42.54 3.99
755 767 4.155280 GGTTGTGTTGTTCCTTGCGTATAT 59.845 41.667 0.00 0.00 0.00 0.86
756 768 5.321516 GTTGTGTTGTTCCTTGCGTATATC 58.678 41.667 0.00 0.00 0.00 1.63
758 770 4.390603 TGTGTTGTTCCTTGCGTATATCAC 59.609 41.667 0.00 0.00 0.00 3.06
768 780 0.601558 CGTATATCACAGGTCCCCGG 59.398 60.000 0.00 0.00 0.00 5.73
786 798 1.374758 GAGCGAGTGGGTCAACAGG 60.375 63.158 0.00 0.00 42.75 4.00
805 817 3.672295 GAAGGAGGCAGCGAGTGGG 62.672 68.421 0.00 0.00 0.00 4.61
849 864 1.078426 AGGCCGTAGACATTGCCAC 60.078 57.895 0.00 0.00 46.45 5.01
864 888 0.885196 GCCACGCACCCTTTGATTTA 59.115 50.000 0.00 0.00 0.00 1.40
891 915 1.226717 GAGCCGTACGGAGCAAGAG 60.227 63.158 37.62 9.06 37.50 2.85
1046 1074 2.101965 GTGGCATTGCGCGCATAA 59.898 55.556 36.83 22.63 43.84 1.90
1363 1400 4.388499 GACCCGGCGGCAGAAAGA 62.388 66.667 23.20 0.00 0.00 2.52
1544 1585 8.897752 ACTACCTATGTTAAGTTAGTTACTCCG 58.102 37.037 0.00 0.00 35.54 4.63
1550 1591 3.391506 AAGTTAGTTACTCCGCCGTTT 57.608 42.857 0.00 0.00 35.54 3.60
1564 1605 2.742774 GCCGTTTTGCTTCTGAATGTT 58.257 42.857 0.00 0.00 0.00 2.71
1566 1607 4.295051 GCCGTTTTGCTTCTGAATGTTTA 58.705 39.130 0.00 0.00 0.00 2.01
1569 1610 5.345741 CCGTTTTGCTTCTGAATGTTTATGG 59.654 40.000 0.00 0.00 0.00 2.74
1590 1631 1.378360 CGCGTGCGATTTTTGTCGTC 61.378 55.000 8.89 0.00 43.27 4.20
1596 1637 1.960549 GCGATTTTTGTCGTCGTTGTC 59.039 47.619 0.00 0.00 43.27 3.18
1597 1638 2.211248 CGATTTTTGTCGTCGTTGTCG 58.789 47.619 0.00 0.00 36.88 4.35
1598 1639 1.960549 GATTTTTGTCGTCGTTGTCGC 59.039 47.619 0.00 0.00 36.96 5.19
1603 1644 1.443872 GTCGTCGTTGTCGCTGGAT 60.444 57.895 0.00 0.00 36.96 3.41
1605 1646 1.443702 CGTCGTTGTCGCTGGATGA 60.444 57.895 0.00 0.00 36.96 2.92
1750 1799 2.093973 AGCTAGACCGTCCAATCAACAG 60.094 50.000 0.00 0.00 0.00 3.16
1783 1832 2.214376 TGATTCATGGTTGGGTGGTC 57.786 50.000 0.00 0.00 0.00 4.02
1855 1905 0.537371 CGGAAGTGGCCACCTTTTCT 60.537 55.000 32.29 10.03 0.00 2.52
1862 1912 2.038659 TGGCCACCTTTTCTTCCTTTG 58.961 47.619 0.00 0.00 0.00 2.77
2441 2501 6.503524 TGATCCAGCAAAACTTTTTACTCAC 58.496 36.000 0.00 0.00 0.00 3.51
2452 2512 3.380479 TTTTACTCACGGTCTGTCAGG 57.620 47.619 0.00 0.00 0.00 3.86
2516 2576 4.428209 CAGTTGAGCACTTCGATCATACT 58.572 43.478 0.00 0.00 30.92 2.12
2522 2585 5.028549 AGCACTTCGATCATACTTTCCAT 57.971 39.130 0.00 0.00 0.00 3.41
2580 2649 2.612219 GATGCCGGAAAATGGTGCCG 62.612 60.000 5.05 0.00 44.42 5.69
2609 2678 1.450848 GGCATGCAGAGCTGTGCTA 60.451 57.895 32.77 20.90 44.32 3.49
2616 2685 1.879796 GCAGAGCTGTGCTACCTTGTT 60.880 52.381 27.35 0.00 39.88 2.83
2625 2694 1.308998 GCTACCTTGTTGTGCTGTGT 58.691 50.000 0.00 0.00 0.00 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 3.195396 TGACGACATCAACATCATCTCCA 59.805 43.478 0.00 0.00 33.02 3.86
21 22 2.030274 ACGATGAGTGACGACATCAACA 60.030 45.455 19.28 0.00 41.75 3.33
27 28 1.154282 GCGACGATGAGTGACGACA 60.154 57.895 0.00 0.00 0.00 4.35
47 48 4.403734 TCAACCATACTCAAAGGGTTTCC 58.596 43.478 0.00 0.00 41.49 3.13
66 69 1.410083 GCCATGGATGCCCTTACTCAA 60.410 52.381 18.40 0.00 0.00 3.02
79 82 0.916086 AGGTCGGTAATTGCCATGGA 59.084 50.000 18.40 0.00 0.00 3.41
84 87 3.255969 TCTACAAGGTCGGTAATTGCC 57.744 47.619 1.83 1.83 0.00 4.52
93 96 1.135083 ACCTCGCAATCTACAAGGTCG 60.135 52.381 0.00 0.00 35.42 4.79
118 121 1.051812 CCGCTGGGACTTCTCCATAT 58.948 55.000 0.00 0.00 38.52 1.78
145 148 4.697514 CGAACATCTCATACTTCCATGGT 58.302 43.478 12.58 0.00 0.00 3.55
175 178 0.443869 CCTCGAACACGATTGGCAAG 59.556 55.000 5.96 0.00 35.51 4.01
183 186 3.653009 ACGCGTCCTCGAACACGA 61.653 61.111 17.57 0.00 38.32 4.35
203 206 2.835701 GATGAGAGCGGCCACGACAA 62.836 60.000 2.24 0.00 44.60 3.18
226 230 4.473444 TCTTTGAAGAAAACTCATGCCCT 58.527 39.130 0.00 0.00 30.73 5.19
262 266 4.233789 TCCGCTGCAACAACAAAATTATC 58.766 39.130 0.00 0.00 0.00 1.75
287 291 3.366883 GCATTTGGACATTTTCGCCACTA 60.367 43.478 0.00 0.00 0.00 2.74
333 343 1.671054 CATCCAACAACGCGGACCT 60.671 57.895 12.47 0.00 33.05 3.85
354 364 1.443322 TTGTGCACGTCCACCACATG 61.443 55.000 13.13 0.00 39.03 3.21
375 385 1.200020 CCGAAATCAAACTGGAGGTGC 59.800 52.381 0.00 0.00 0.00 5.01
377 387 2.951229 ACCGAAATCAAACTGGAGGT 57.049 45.000 0.00 0.00 0.00 3.85
421 431 4.582701 TCCAGCGATTGTCAACAAATTT 57.417 36.364 0.00 0.00 39.55 1.82
470 482 7.863375 GCAAATGTCTATATCGAACAGTCTAGT 59.137 37.037 0.00 0.00 0.00 2.57
485 497 2.396590 AACCGTCCGCAAATGTCTAT 57.603 45.000 0.00 0.00 0.00 1.98
504 516 1.704628 TCTTCTCAGGGCAATCACCAA 59.295 47.619 0.00 0.00 0.00 3.67
505 517 1.003580 GTCTTCTCAGGGCAATCACCA 59.996 52.381 0.00 0.00 0.00 4.17
506 518 1.280421 AGTCTTCTCAGGGCAATCACC 59.720 52.381 0.00 0.00 0.00 4.02
507 519 2.777832 AGTCTTCTCAGGGCAATCAC 57.222 50.000 0.00 0.00 0.00 3.06
508 520 3.776969 ACATAGTCTTCTCAGGGCAATCA 59.223 43.478 0.00 0.00 0.00 2.57
509 521 4.414337 ACATAGTCTTCTCAGGGCAATC 57.586 45.455 0.00 0.00 0.00 2.67
510 522 4.521146 CAACATAGTCTTCTCAGGGCAAT 58.479 43.478 0.00 0.00 0.00 3.56
511 523 3.307691 CCAACATAGTCTTCTCAGGGCAA 60.308 47.826 0.00 0.00 0.00 4.52
512 524 2.237143 CCAACATAGTCTTCTCAGGGCA 59.763 50.000 0.00 0.00 0.00 5.36
513 525 2.911484 CCAACATAGTCTTCTCAGGGC 58.089 52.381 0.00 0.00 0.00 5.19
514 526 2.237143 TGCCAACATAGTCTTCTCAGGG 59.763 50.000 0.00 0.00 0.00 4.45
515 527 3.616956 TGCCAACATAGTCTTCTCAGG 57.383 47.619 0.00 0.00 0.00 3.86
516 528 4.269603 CGATTGCCAACATAGTCTTCTCAG 59.730 45.833 0.00 0.00 0.00 3.35
517 529 4.081697 TCGATTGCCAACATAGTCTTCTCA 60.082 41.667 0.00 0.00 0.00 3.27
518 530 4.433615 TCGATTGCCAACATAGTCTTCTC 58.566 43.478 0.00 0.00 0.00 2.87
519 531 4.437239 CTCGATTGCCAACATAGTCTTCT 58.563 43.478 0.00 0.00 0.00 2.85
520 532 3.001736 GCTCGATTGCCAACATAGTCTTC 59.998 47.826 0.00 0.00 0.00 2.87
521 533 2.939103 GCTCGATTGCCAACATAGTCTT 59.061 45.455 0.00 0.00 0.00 3.01
522 534 2.093500 TGCTCGATTGCCAACATAGTCT 60.093 45.455 0.00 0.00 0.00 3.24
523 535 2.279741 TGCTCGATTGCCAACATAGTC 58.720 47.619 0.00 0.00 0.00 2.59
524 536 2.093500 TCTGCTCGATTGCCAACATAGT 60.093 45.455 0.00 0.00 0.00 2.12
525 537 2.554142 TCTGCTCGATTGCCAACATAG 58.446 47.619 0.00 0.00 0.00 2.23
526 538 2.689553 TCTGCTCGATTGCCAACATA 57.310 45.000 0.00 0.00 0.00 2.29
527 539 2.048444 ATCTGCTCGATTGCCAACAT 57.952 45.000 0.00 0.00 0.00 2.71
528 540 1.825090 AATCTGCTCGATTGCCAACA 58.175 45.000 1.77 0.00 40.76 3.33
635 647 2.370281 TTCCAGCTCTGTCGCTTTAG 57.630 50.000 0.00 0.00 38.41 1.85
651 663 6.422223 CAATTGCATTGTAGTACGAGATTCC 58.578 40.000 0.00 0.00 35.57 3.01
668 680 2.166050 ACTGTGCTTCACAACAATTGCA 59.834 40.909 5.05 0.00 44.08 4.08
677 689 1.462616 ACTTTGCACTGTGCTTCACA 58.537 45.000 30.43 9.89 45.31 3.58
725 737 2.820787 AGGAACAACACAACCGAACAAA 59.179 40.909 0.00 0.00 0.00 2.83
768 780 1.374758 CCTGTTGACCCACTCGCTC 60.375 63.158 0.00 0.00 0.00 5.03
772 784 0.036875 CCTTCCCTGTTGACCCACTC 59.963 60.000 0.00 0.00 0.00 3.51
773 785 0.401395 TCCTTCCCTGTTGACCCACT 60.401 55.000 0.00 0.00 0.00 4.00
774 786 0.036875 CTCCTTCCCTGTTGACCCAC 59.963 60.000 0.00 0.00 0.00 4.61
775 787 1.133809 CCTCCTTCCCTGTTGACCCA 61.134 60.000 0.00 0.00 0.00 4.51
776 788 1.685820 CCTCCTTCCCTGTTGACCC 59.314 63.158 0.00 0.00 0.00 4.46
777 789 1.002011 GCCTCCTTCCCTGTTGACC 60.002 63.158 0.00 0.00 0.00 4.02
778 790 0.322008 CTGCCTCCTTCCCTGTTGAC 60.322 60.000 0.00 0.00 0.00 3.18
779 791 2.069776 CTGCCTCCTTCCCTGTTGA 58.930 57.895 0.00 0.00 0.00 3.18
786 798 2.125350 CACTCGCTGCCTCCTTCC 60.125 66.667 0.00 0.00 0.00 3.46
805 817 3.133691 TGAAGAGCACATCACTGTTGAC 58.866 45.455 0.00 0.00 33.38 3.18
849 864 5.092781 GTGTAATGTAAATCAAAGGGTGCG 58.907 41.667 0.00 0.00 0.00 5.34
864 888 0.179156 CCGTACGGCTCGTGTAATGT 60.179 55.000 23.44 0.00 41.39 2.71
953 977 0.040603 GCAGCGCATTATTCTGAGCC 60.041 55.000 11.47 0.00 42.15 4.70
1043 1071 1.721664 TACTGTCGCGCCGCTCTTAT 61.722 55.000 7.78 0.00 0.00 1.73
1046 1074 4.477975 GTACTGTCGCGCCGCTCT 62.478 66.667 7.78 0.00 0.00 4.09
1267 1304 2.046604 GGGTGTACGAACCTGGCC 60.047 66.667 0.00 0.00 40.35 5.36
1318 1355 2.264794 CCGTTTCCCTCTGTCCCG 59.735 66.667 0.00 0.00 0.00 5.14
1356 1393 0.319555 TCGCCACGACCTTCTTTCTG 60.320 55.000 0.00 0.00 0.00 3.02
1357 1394 2.046938 TCGCCACGACCTTCTTTCT 58.953 52.632 0.00 0.00 0.00 2.52
1404 1441 1.838568 GAACACCGGCTTCAACGACC 61.839 60.000 0.00 0.00 0.00 4.79
1539 1576 1.227853 AGAAGCAAAACGGCGGAGT 60.228 52.632 13.24 0.00 39.27 3.85
1544 1585 2.422276 ACATTCAGAAGCAAAACGGC 57.578 45.000 0.00 0.00 0.00 5.68
1550 1591 4.379394 GCGACCATAAACATTCAGAAGCAA 60.379 41.667 0.00 0.00 0.00 3.91
1590 1631 2.900122 AATTTCATCCAGCGACAACG 57.100 45.000 0.00 0.00 42.93 4.10
1596 1637 5.287752 CAGATCAAACAAATTTCATCCAGCG 59.712 40.000 0.00 0.00 0.00 5.18
1597 1638 6.161381 ACAGATCAAACAAATTTCATCCAGC 58.839 36.000 0.00 0.00 0.00 4.85
1630 1671 4.617253 TGGAGCTCTTTACAGTTGCTTA 57.383 40.909 14.64 0.00 33.33 3.09
1636 1677 4.397417 GCAAATGATGGAGCTCTTTACAGT 59.603 41.667 14.64 5.86 0.00 3.55
1637 1678 4.639310 AGCAAATGATGGAGCTCTTTACAG 59.361 41.667 14.64 0.00 30.05 2.74
1750 1799 5.409520 ACCATGAATCATCACGTATACATGC 59.590 40.000 3.32 0.00 38.69 4.06
1783 1832 3.570125 TGGTGGCTCGATTACTCTATCTG 59.430 47.826 0.00 0.00 0.00 2.90
1847 1897 2.039418 GTGGCCAAAGGAAGAAAAGGT 58.961 47.619 7.24 0.00 0.00 3.50
1849 1899 1.000274 CCGTGGCCAAAGGAAGAAAAG 60.000 52.381 20.78 0.00 0.00 2.27
1855 1905 0.821711 CACTTCCGTGGCCAAAGGAA 60.822 55.000 30.76 30.76 41.28 3.36
1878 1928 4.601406 AACTATCTCAGGAGTCAGGAGT 57.399 45.455 9.35 2.20 0.00 3.85
1879 1929 5.930837 AAAACTATCTCAGGAGTCAGGAG 57.069 43.478 4.38 4.38 0.00 3.69
1880 1930 6.494952 ACTAAAACTATCTCAGGAGTCAGGA 58.505 40.000 0.00 0.00 0.00 3.86
1881 1931 6.459024 CGACTAAAACTATCTCAGGAGTCAGG 60.459 46.154 0.00 0.00 33.28 3.86
1882 1932 6.459024 CCGACTAAAACTATCTCAGGAGTCAG 60.459 46.154 0.00 0.00 33.28 3.51
1883 1933 5.357314 CCGACTAAAACTATCTCAGGAGTCA 59.643 44.000 0.00 0.00 33.28 3.41
1884 1934 5.733937 GCCGACTAAAACTATCTCAGGAGTC 60.734 48.000 0.00 0.00 0.00 3.36
1972 2026 1.947456 GTTCAGTTCAACCACCTGGAC 59.053 52.381 0.00 0.00 38.94 4.02
2078 2135 4.778415 CCAGCTCCGTCCGTCGTG 62.778 72.222 0.00 0.00 37.94 4.35
2441 2501 2.425592 TGGCAACCTGACAGACCG 59.574 61.111 3.32 0.00 28.05 4.79
2452 2512 1.264288 GCAGAACACTGTACTGGCAAC 59.736 52.381 4.66 0.00 34.51 4.17
2516 2576 0.171007 GCGCTGCTTGCTAATGGAAA 59.829 50.000 0.00 0.00 40.11 3.13
2522 2585 2.747460 CCAGGCGCTGCTTGCTAA 60.747 61.111 7.64 0.00 40.11 3.09
2546 2615 0.382873 GCATCGATTGGCATGCTTCA 59.617 50.000 18.92 4.93 41.93 3.02
2547 2616 3.174790 GCATCGATTGGCATGCTTC 57.825 52.632 18.92 11.24 41.93 3.86
2555 2624 1.269206 CCATTTTCCGGCATCGATTGG 60.269 52.381 0.00 0.00 39.00 3.16
2580 2649 4.462280 GCATGCCCAAGCCCTTGC 62.462 66.667 6.36 0.00 39.16 4.01
2609 2678 1.095228 CGGACACAGCACAACAAGGT 61.095 55.000 0.00 0.00 0.00 3.50
2616 2685 4.624364 CCTGCCGGACACAGCACA 62.624 66.667 5.05 0.00 34.68 4.57


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

AutoCloner maintained by Alex Coulton.