Multiple sequence alignment - TraesCS1B01G138700

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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 TraesCS1B01G138700 chr1B 100.000 3332 0 0 1 3332 180405006 180408337 0.000000e+00 6154.0
1 TraesCS1B01G138700 chr1B 88.433 536 50 4 1 525 262916580 262916046 1.300000e-178 636.0
2 TraesCS1B01G138700 chr1D 96.688 1993 46 11 564 2547 118510224 118512205 0.000000e+00 3297.0
3 TraesCS1B01G138700 chr1D 87.850 535 50 15 1 527 66996184 66996711 6.110000e-172 614.0
4 TraesCS1B01G138700 chr1D 83.871 124 18 2 2982 3103 1250109 1249986 2.100000e-22 117.0
5 TraesCS1B01G138700 chr1A 95.838 1970 52 13 639 2594 130149032 130150985 0.000000e+00 3157.0
6 TraesCS1B01G138700 chr1A 86.528 772 67 23 2587 3332 144559879 144560639 0.000000e+00 815.0
7 TraesCS1B01G138700 chr1A 86.095 525 62 10 1 516 117976594 117977116 3.760000e-154 555.0
8 TraesCS1B01G138700 chr2B 95.687 742 27 3 2594 3331 560470738 560469998 0.000000e+00 1188.0
9 TraesCS1B01G138700 chr2B 95.418 742 30 2 2594 3331 560466983 560466242 0.000000e+00 1179.0
10 TraesCS1B01G138700 chr5B 95.559 743 27 4 2594 3331 13771166 13770425 0.000000e+00 1184.0
11 TraesCS1B01G138700 chr5B 86.998 523 58 10 1 516 280386005 280385486 6.200000e-162 580.0
12 TraesCS1B01G138700 chr6A 86.815 766 67 17 2594 3331 422269684 422268925 0.000000e+00 824.0
13 TraesCS1B01G138700 chr6A 82.673 202 19 10 3044 3233 535860536 535860339 7.400000e-37 165.0
14 TraesCS1B01G138700 chr7A 86.252 771 68 19 2593 3331 672985608 672984844 0.000000e+00 802.0
15 TraesCS1B01G138700 chr7A 79.842 253 42 8 1947 2196 543432112 543432358 3.420000e-40 176.0
16 TraesCS1B01G138700 chr5A 86.482 651 57 17 2706 3331 598349580 598350224 0.000000e+00 686.0
17 TraesCS1B01G138700 chr5A 77.419 217 27 9 3038 3233 400410333 400410548 3.510000e-20 110.0
18 TraesCS1B01G138700 chr5D 88.180 533 49 6 1 520 271481710 271482241 1.020000e-174 623.0
19 TraesCS1B01G138700 chr3D 87.121 528 52 7 3 516 435290291 435290816 4.790000e-163 584.0
20 TraesCS1B01G138700 chr3D 85.855 509 58 12 3 505 18895848 18896348 2.280000e-146 529.0
21 TraesCS1B01G138700 chr3D 80.317 315 58 4 1907 2218 75947821 75948134 5.560000e-58 235.0
22 TraesCS1B01G138700 chr3D 78.635 337 64 6 1943 2275 75963171 75963503 2.010000e-52 217.0
23 TraesCS1B01G138700 chr3D 86.667 75 5 3 2591 2661 253533513 253533440 9.910000e-11 78.7
24 TraesCS1B01G138700 chr3A 85.472 530 59 10 1 516 230094374 230093849 1.360000e-148 536.0
25 TraesCS1B01G138700 chr3A 80.119 337 59 6 1943 2275 90365158 90365490 9.230000e-61 244.0
26 TraesCS1B01G138700 chr3A 71.820 1022 219 56 860 1852 90364125 90365106 9.300000e-56 228.0
27 TraesCS1B01G138700 chr3A 79.683 315 60 4 1907 2218 90294326 90294639 1.200000e-54 224.0
28 TraesCS1B01G138700 chr3A 75.806 248 35 12 3011 3234 621234339 621234093 5.880000e-18 102.0
29 TraesCS1B01G138700 chr7B 87.309 457 44 12 1 447 677746701 677746249 8.250000e-141 510.0
30 TraesCS1B01G138700 chr7B 85.135 74 9 2 2593 2666 741682581 741682510 1.280000e-09 75.0
31 TraesCS1B01G138700 chr3B 86.842 456 46 11 1 445 519063304 519063756 6.420000e-137 497.0
32 TraesCS1B01G138700 chr3B 85.556 450 52 13 1 444 169668376 169668818 3.030000e-125 459.0
33 TraesCS1B01G138700 chr3B 78.457 376 69 10 1907 2275 123034343 123034713 5.560000e-58 235.0
34 TraesCS1B01G138700 chr3B 78.730 315 63 4 1907 2218 122827291 122827604 1.210000e-49 207.0
35 TraesCS1B01G138700 chr3B 77.928 222 25 11 3037 3234 63472780 63472559 2.100000e-22 117.0
36 TraesCS1B01G138700 chr4D 87.500 384 36 11 2597 2974 49821762 49822139 1.840000e-117 433.0
37 TraesCS1B01G138700 chr4B 77.273 220 28 9 3038 3235 542036380 542036599 3.510000e-20 110.0
38 TraesCS1B01G138700 chr6D 72.727 352 74 15 1543 1877 3038309 3037963 7.610000e-17 99.0
39 TraesCS1B01G138700 chr6D 87.879 66 7 1 860 925 3040175 3040111 3.560000e-10 76.8
40 TraesCS1B01G138700 chr6B 70.981 479 94 38 860 1327 6213362 6212918 4.610000e-09 73.1


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 TraesCS1B01G138700 chr1B 180405006 180408337 3331 False 6154.0 6154 100.0000 1 3332 1 chr1B.!!$F1 3331
1 TraesCS1B01G138700 chr1B 262916046 262916580 534 True 636.0 636 88.4330 1 525 1 chr1B.!!$R1 524
2 TraesCS1B01G138700 chr1D 118510224 118512205 1981 False 3297.0 3297 96.6880 564 2547 1 chr1D.!!$F2 1983
3 TraesCS1B01G138700 chr1D 66996184 66996711 527 False 614.0 614 87.8500 1 527 1 chr1D.!!$F1 526
4 TraesCS1B01G138700 chr1A 130149032 130150985 1953 False 3157.0 3157 95.8380 639 2594 1 chr1A.!!$F2 1955
5 TraesCS1B01G138700 chr1A 144559879 144560639 760 False 815.0 815 86.5280 2587 3332 1 chr1A.!!$F3 745
6 TraesCS1B01G138700 chr1A 117976594 117977116 522 False 555.0 555 86.0950 1 516 1 chr1A.!!$F1 515
7 TraesCS1B01G138700 chr2B 560466242 560470738 4496 True 1183.5 1188 95.5525 2594 3331 2 chr2B.!!$R1 737
8 TraesCS1B01G138700 chr5B 13770425 13771166 741 True 1184.0 1184 95.5590 2594 3331 1 chr5B.!!$R1 737
9 TraesCS1B01G138700 chr5B 280385486 280386005 519 True 580.0 580 86.9980 1 516 1 chr5B.!!$R2 515
10 TraesCS1B01G138700 chr6A 422268925 422269684 759 True 824.0 824 86.8150 2594 3331 1 chr6A.!!$R1 737
11 TraesCS1B01G138700 chr7A 672984844 672985608 764 True 802.0 802 86.2520 2593 3331 1 chr7A.!!$R1 738
12 TraesCS1B01G138700 chr5A 598349580 598350224 644 False 686.0 686 86.4820 2706 3331 1 chr5A.!!$F2 625
13 TraesCS1B01G138700 chr5D 271481710 271482241 531 False 623.0 623 88.1800 1 520 1 chr5D.!!$F1 519
14 TraesCS1B01G138700 chr3D 435290291 435290816 525 False 584.0 584 87.1210 3 516 1 chr3D.!!$F4 513
15 TraesCS1B01G138700 chr3D 18895848 18896348 500 False 529.0 529 85.8550 3 505 1 chr3D.!!$F1 502
16 TraesCS1B01G138700 chr3A 230093849 230094374 525 True 536.0 536 85.4720 1 516 1 chr3A.!!$R1 515
17 TraesCS1B01G138700 chr3A 90364125 90365490 1365 False 236.0 244 75.9695 860 2275 2 chr3A.!!$F2 1415

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
560 579 0.318762 GCATAGATCTGACGACCCCC 59.681 60.0 5.18 0.0 0.0 5.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2551 2603 0.179084 TACATAACTGCTCGCCTGCC 60.179 55.0 0.0 0.0 0.0 4.85 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
33 34 6.389906 AGTTTGTAGAGCATGGCAATTTTAC 58.610 36.000 0.00 0.0 0.00 2.01
66 67 4.098914 TGGCAATTCCAGTACTTTGACT 57.901 40.909 11.27 0.0 40.72 3.41
160 163 7.298854 GTTCATGGCAAGTCTAGTTTCTTAAC 58.701 38.462 0.00 0.0 34.36 2.01
226 231 4.542662 AAACAGCTCGAACATATCATGC 57.457 40.909 0.00 0.0 0.00 4.06
229 234 2.479275 CAGCTCGAACATATCATGCCAG 59.521 50.000 0.00 0.0 0.00 4.85
248 253 5.651576 TGCCAGCTTCAATGTAAACATCATA 59.348 36.000 0.00 0.0 35.10 2.15
251 256 7.629222 GCCAGCTTCAATGTAAACATCATAGTT 60.629 37.037 0.00 0.0 35.10 2.24
277 282 7.744087 TTCATATACAATAGACATGGCAACC 57.256 36.000 0.00 0.0 0.00 3.77
285 291 7.172342 ACAATAGACATGGCAACCTTTAACTA 58.828 34.615 0.00 0.0 0.00 2.24
371 388 9.657121 GATTTAACGGATCTTCAATCAGATTTC 57.343 33.333 0.00 0.0 33.36 2.17
375 392 5.814705 ACGGATCTTCAATCAGATTTCTCAC 59.185 40.000 0.00 0.0 33.36 3.51
432 451 4.778534 AAAAGTTCTCACATGGATGCAG 57.221 40.909 0.00 0.0 0.00 4.41
436 455 1.153309 CTCACATGGATGCAGGCGA 60.153 57.895 0.00 0.0 0.00 5.54
497 516 2.235016 GTTTGGCTTCCACCACATGTA 58.765 47.619 0.00 0.0 40.19 2.29
520 539 1.068816 GGCGTTAGCGTTGTCCAAAAT 60.069 47.619 0.00 0.0 46.35 1.82
526 545 5.562623 CGTTAGCGTTGTCCAAAATCTAAAC 59.437 40.000 0.00 0.0 0.00 2.01
527 546 6.565247 CGTTAGCGTTGTCCAAAATCTAAACT 60.565 38.462 0.00 0.0 0.00 2.66
528 547 7.359431 CGTTAGCGTTGTCCAAAATCTAAACTA 60.359 37.037 0.00 0.0 0.00 2.24
529 548 6.237313 AGCGTTGTCCAAAATCTAAACTAC 57.763 37.500 0.00 0.0 0.00 2.73
530 549 5.761234 AGCGTTGTCCAAAATCTAAACTACA 59.239 36.000 0.00 0.0 0.00 2.74
531 550 5.849604 GCGTTGTCCAAAATCTAAACTACAC 59.150 40.000 0.00 0.0 0.00 2.90
532 551 6.512091 GCGTTGTCCAAAATCTAAACTACACA 60.512 38.462 0.00 0.0 0.00 3.72
533 552 7.411274 CGTTGTCCAAAATCTAAACTACACAA 58.589 34.615 0.00 0.0 0.00 3.33
534 553 8.073768 CGTTGTCCAAAATCTAAACTACACAAT 58.926 33.333 0.00 0.0 0.00 2.71
535 554 9.744468 GTTGTCCAAAATCTAAACTACACAATT 57.256 29.630 0.00 0.0 0.00 2.32
536 555 9.959749 TTGTCCAAAATCTAAACTACACAATTC 57.040 29.630 0.00 0.0 0.00 2.17
537 556 9.126151 TGTCCAAAATCTAAACTACACAATTCA 57.874 29.630 0.00 0.0 0.00 2.57
538 557 9.394477 GTCCAAAATCTAAACTACACAATTCAC 57.606 33.333 0.00 0.0 0.00 3.18
539 558 9.126151 TCCAAAATCTAAACTACACAATTCACA 57.874 29.630 0.00 0.0 0.00 3.58
540 559 9.912634 CCAAAATCTAAACTACACAATTCACAT 57.087 29.630 0.00 0.0 0.00 3.21
542 561 8.970691 AAATCTAAACTACACAATTCACATGC 57.029 30.769 0.00 0.0 0.00 4.06
543 562 7.686438 ATCTAAACTACACAATTCACATGCA 57.314 32.000 0.00 0.0 0.00 3.96
544 563 7.686438 TCTAAACTACACAATTCACATGCAT 57.314 32.000 0.00 0.0 0.00 3.96
545 564 8.785329 TCTAAACTACACAATTCACATGCATA 57.215 30.769 0.00 0.0 0.00 3.14
546 565 8.882736 TCTAAACTACACAATTCACATGCATAG 58.117 33.333 0.00 0.0 0.00 2.23
547 566 7.686438 AAACTACACAATTCACATGCATAGA 57.314 32.000 0.00 0.0 0.00 1.98
548 567 7.870509 AACTACACAATTCACATGCATAGAT 57.129 32.000 0.00 0.0 0.00 1.98
549 568 7.488187 ACTACACAATTCACATGCATAGATC 57.512 36.000 0.00 0.0 0.00 2.75
550 569 7.278135 ACTACACAATTCACATGCATAGATCT 58.722 34.615 0.00 0.0 0.00 2.75
551 570 6.373186 ACACAATTCACATGCATAGATCTG 57.627 37.500 5.18 4.1 0.00 2.90
552 571 6.117488 ACACAATTCACATGCATAGATCTGA 58.883 36.000 5.18 0.0 0.00 3.27
553 572 6.037940 ACACAATTCACATGCATAGATCTGAC 59.962 38.462 5.18 0.0 0.00 3.51
554 573 5.235831 ACAATTCACATGCATAGATCTGACG 59.764 40.000 5.18 0.0 0.00 4.35
555 574 4.654091 TTCACATGCATAGATCTGACGA 57.346 40.909 5.18 0.0 0.00 4.20
556 575 3.969899 TCACATGCATAGATCTGACGAC 58.030 45.455 5.18 0.0 0.00 4.34
557 576 3.055591 CACATGCATAGATCTGACGACC 58.944 50.000 5.18 0.0 0.00 4.79
558 577 2.036475 ACATGCATAGATCTGACGACCC 59.964 50.000 5.18 0.0 0.00 4.46
559 578 1.040646 TGCATAGATCTGACGACCCC 58.959 55.000 5.18 0.0 0.00 4.95
560 579 0.318762 GCATAGATCTGACGACCCCC 59.681 60.000 5.18 0.0 0.00 5.40
619 638 4.493747 CGGCGAACGGACTCTCCC 62.494 72.222 0.00 0.0 39.42 4.30
622 641 2.885861 CGAACGGACTCTCCCAGG 59.114 66.667 0.00 0.0 31.13 4.45
624 643 3.003763 AACGGACTCTCCCAGGGC 61.004 66.667 0.00 0.0 31.13 5.19
637 657 2.203582 AGGGCGGGTGGGTTTTTC 60.204 61.111 0.00 0.0 0.00 2.29
640 660 2.338620 GCGGGTGGGTTTTTCAGC 59.661 61.111 0.00 0.0 0.00 4.26
672 692 2.361438 AGAGGAAAAACGACTCGTGTCT 59.639 45.455 15.02 0.0 39.99 3.41
709 729 2.985282 TTCGTCGCCAGGTACGGT 60.985 61.111 14.33 0.0 39.52 4.83
1086 1117 1.653115 CGCTTACTCCGACGGCTAT 59.347 57.895 9.66 0.0 0.00 2.97
1289 1320 3.164011 CGTCGTCGCGGTGTTCTC 61.164 66.667 6.13 0.0 0.00 2.87
1680 1723 1.663695 ACAGTCCAAACGACCTGTTG 58.336 50.000 0.00 0.0 43.08 3.33
1689 1732 1.292223 CGACCTGTTGGACCACGAT 59.708 57.895 0.00 0.0 37.04 3.73
2038 2081 0.667792 GTGGAACTCGACACTGGAGC 60.668 60.000 0.00 0.0 34.87 4.70
2196 2239 3.059982 CTGAGGAGGTGCGTGGAA 58.940 61.111 0.00 0.0 0.00 3.53
2253 2296 1.682684 GTGGAAGGAGGAGGCGAGA 60.683 63.158 0.00 0.0 0.00 4.04
2306 2349 0.111061 AGCCTGATGGAGTTTGTGCA 59.889 50.000 0.00 0.0 34.57 4.57
2490 2542 1.746220 CCGGATGTCTCTCTCTTTCGT 59.254 52.381 0.00 0.0 0.00 3.85
2491 2543 2.164624 CCGGATGTCTCTCTCTTTCGTT 59.835 50.000 0.00 0.0 0.00 3.85
2492 2544 3.430931 CGGATGTCTCTCTCTTTCGTTC 58.569 50.000 0.00 0.0 0.00 3.95
2493 2545 3.430931 GGATGTCTCTCTCTTTCGTTCG 58.569 50.000 0.00 0.0 0.00 3.95
2502 2554 4.022242 TCTCTCTTTCGTTCGGTCATTCTT 60.022 41.667 0.00 0.0 0.00 2.52
2548 2600 2.009774 GAGATGCACAAAGCCGTATGT 58.990 47.619 0.00 0.0 44.83 2.29
2549 2601 3.194861 GAGATGCACAAAGCCGTATGTA 58.805 45.455 0.00 0.0 44.83 2.29
2550 2602 3.808728 AGATGCACAAAGCCGTATGTAT 58.191 40.909 0.00 0.0 44.83 2.29
2551 2603 3.561310 AGATGCACAAAGCCGTATGTATG 59.439 43.478 0.00 0.0 44.83 2.39
2888 2946 6.365789 GGATTGCAATTTTGATCTTCGTTGAA 59.634 34.615 14.33 0.0 0.00 2.69
2932 2991 0.250124 AGTCAATCCGAACACGCCAA 60.250 50.000 0.00 0.0 0.00 4.52
2957 3016 4.608948 AAAAATGACCAAAACGGCCATA 57.391 36.364 2.24 0.0 36.74 2.74
2974 3033 7.425606 ACGGCCATACATAGAAAAATGAATTC 58.574 34.615 2.24 0.0 0.00 2.17
3018 3077 3.134804 GTGGACAGTAGTATTCCCAGCAT 59.865 47.826 0.00 0.0 0.00 3.79
3140 6967 3.204597 CGATATGTCGGCTAAGTCTCC 57.795 52.381 3.61 0.0 44.00 3.71
3213 7042 3.270027 GTGCTATATGTGAGTGGTTGCA 58.730 45.455 0.00 0.0 0.00 4.08
3318 7158 2.798283 TGCGTGCAGTACTTGTTACTTC 59.202 45.455 0.00 0.0 39.18 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
208 213 2.479275 CTGGCATGATATGTTCGAGCTG 59.521 50.000 0.00 0.00 0.00 4.24
213 218 2.874086 TGAAGCTGGCATGATATGTTCG 59.126 45.455 0.00 0.00 0.00 3.95
214 219 4.906065 TTGAAGCTGGCATGATATGTTC 57.094 40.909 0.00 0.00 0.00 3.18
226 231 7.325660 ACTATGATGTTTACATTGAAGCTGG 57.674 36.000 0.00 0.00 36.57 4.85
251 256 9.448438 GGTTGCCATGTCTATTGTATATGAATA 57.552 33.333 0.00 0.00 0.00 1.75
260 265 6.010219 AGTTAAAGGTTGCCATGTCTATTGT 58.990 36.000 0.00 0.00 0.00 2.71
426 445 2.528743 CCACGTCATCGCCTGCATC 61.529 63.158 0.00 0.00 41.18 3.91
436 455 2.048222 CAGACCGTGCCACGTCAT 60.048 61.111 16.99 0.63 40.58 3.06
448 467 3.744426 ACACGCTTTATAACACACAGACC 59.256 43.478 0.00 0.00 0.00 3.85
497 516 1.743995 GGACAACGCTAACGCCCAT 60.744 57.895 0.00 0.00 45.53 4.00
520 539 7.686438 ATGCATGTGAATTGTGTAGTTTAGA 57.314 32.000 0.00 0.00 0.00 2.10
526 545 7.440255 TCAGATCTATGCATGTGAATTGTGTAG 59.560 37.037 10.16 0.00 0.00 2.74
527 546 7.225341 GTCAGATCTATGCATGTGAATTGTGTA 59.775 37.037 10.16 0.00 28.42 2.90
528 547 6.037940 GTCAGATCTATGCATGTGAATTGTGT 59.962 38.462 10.16 0.00 28.42 3.72
529 548 6.427974 GTCAGATCTATGCATGTGAATTGTG 58.572 40.000 10.16 3.21 28.42 3.33
530 549 5.235831 CGTCAGATCTATGCATGTGAATTGT 59.764 40.000 10.16 0.00 28.42 2.71
531 550 5.464389 TCGTCAGATCTATGCATGTGAATTG 59.536 40.000 10.16 9.99 28.42 2.32
532 551 5.464722 GTCGTCAGATCTATGCATGTGAATT 59.535 40.000 10.16 0.00 28.42 2.17
533 552 4.987285 GTCGTCAGATCTATGCATGTGAAT 59.013 41.667 10.16 0.00 28.42 2.57
534 553 4.363138 GTCGTCAGATCTATGCATGTGAA 58.637 43.478 10.16 0.00 28.42 3.18
535 554 3.243535 GGTCGTCAGATCTATGCATGTGA 60.244 47.826 10.16 8.07 0.00 3.58
536 555 3.055591 GGTCGTCAGATCTATGCATGTG 58.944 50.000 10.16 2.07 0.00 3.21
537 556 2.036475 GGGTCGTCAGATCTATGCATGT 59.964 50.000 10.16 0.00 0.00 3.21
538 557 2.611473 GGGGTCGTCAGATCTATGCATG 60.611 54.545 10.16 0.00 0.00 4.06
539 558 1.620819 GGGGTCGTCAGATCTATGCAT 59.379 52.381 3.79 3.79 0.00 3.96
540 559 1.040646 GGGGTCGTCAGATCTATGCA 58.959 55.000 0.00 0.00 0.00 3.96
541 560 0.318762 GGGGGTCGTCAGATCTATGC 59.681 60.000 0.00 0.00 0.00 3.14
619 638 2.523168 AAAAACCCACCCGCCCTG 60.523 61.111 0.00 0.00 0.00 4.45
622 641 3.047735 CTGAAAAACCCACCCGCC 58.952 61.111 0.00 0.00 0.00 6.13
624 643 2.914908 CGGCTGAAAAACCCACCCG 61.915 63.158 0.00 0.00 0.00 5.28
625 644 2.570284 CCGGCTGAAAAACCCACCC 61.570 63.158 0.00 0.00 0.00 4.61
628 647 2.915137 GGCCGGCTGAAAAACCCA 60.915 61.111 28.56 0.00 0.00 4.51
629 648 4.050934 CGGCCGGCTGAAAAACCC 62.051 66.667 32.31 6.43 0.00 4.11
672 692 4.335315 CGAAGCATATCAACCTTTGGCTAA 59.665 41.667 0.00 0.00 0.00 3.09
1289 1320 4.873129 CGGTGACCGGCTGGATCG 62.873 72.222 21.41 4.77 44.15 3.69
1680 1723 2.511600 CCTTCGCCATCGTGGTCC 60.512 66.667 6.02 0.00 40.46 4.46
1689 1732 2.284331 TGGAGGTAGCCTTCGCCA 60.284 61.111 0.00 0.00 29.90 5.69
1916 1959 4.400776 CGTCGTCGTCGTCGTCGT 62.401 66.667 18.87 0.00 45.27 4.34
1917 1960 4.108437 TCGTCGTCGTCGTCGTCG 62.108 66.667 20.39 20.39 45.27 5.12
1918 1961 2.566765 GTCGTCGTCGTCGTCGTC 60.567 66.667 18.44 11.28 45.27 4.20
1919 1962 4.400776 CGTCGTCGTCGTCGTCGT 62.401 66.667 18.87 0.00 45.27 4.34
2196 2239 2.412112 GCCTCCGACGTAGCGATT 59.588 61.111 0.00 0.00 0.00 3.34
2306 2349 3.740128 CTACCGCCTGCAATCCGCT 62.740 63.158 0.00 0.00 43.06 5.52
2490 2542 3.119245 CCTCCGTCTTAAGAATGACCGAA 60.119 47.826 6.78 0.00 0.00 4.30
2491 2543 2.426024 CCTCCGTCTTAAGAATGACCGA 59.574 50.000 6.78 0.00 0.00 4.69
2492 2544 2.426024 TCCTCCGTCTTAAGAATGACCG 59.574 50.000 6.78 6.11 0.00 4.79
2493 2545 3.194968 TGTCCTCCGTCTTAAGAATGACC 59.805 47.826 6.78 0.00 0.00 4.02
2502 2554 2.050350 CGCCCTGTCCTCCGTCTTA 61.050 63.158 0.00 0.00 0.00 2.10
2548 2600 0.758734 ATAACTGCTCGCCTGCCATA 59.241 50.000 0.00 0.00 0.00 2.74
2549 2601 0.816825 CATAACTGCTCGCCTGCCAT 60.817 55.000 0.00 0.00 0.00 4.40
2550 2602 1.450134 CATAACTGCTCGCCTGCCA 60.450 57.895 0.00 0.00 0.00 4.92
2551 2603 0.179084 TACATAACTGCTCGCCTGCC 60.179 55.000 0.00 0.00 0.00 4.85
2758 2813 7.655732 GGCAAAAATAACACTAACCACATTCTT 59.344 33.333 0.00 0.00 0.00 2.52
2801 2859 5.344884 CAACCAAACAACCATTTTACTCGT 58.655 37.500 0.00 0.00 0.00 4.18
2808 2866 1.843206 AGGCCAACCAAACAACCATTT 59.157 42.857 5.01 0.00 39.06 2.32
2854 2912 6.024552 TCAAAATTGCAATCCTCCTTACAC 57.975 37.500 13.38 0.00 0.00 2.90
2888 2946 9.449719 CTCTTTTGTGGGTAGAACTTGTATTAT 57.550 33.333 0.00 0.00 0.00 1.28
2932 2991 5.933187 GGCCGTTTTGGTCATTTTTAATT 57.067 34.783 0.00 0.00 44.04 1.40
2957 3016 9.826574 CCATCCAATGAATTCATTTTTCTATGT 57.173 29.630 27.30 4.46 43.48 2.29
2974 3033 5.532406 CACCTAACTATCCAACCATCCAATG 59.468 44.000 0.00 0.00 0.00 2.82
3018 3077 4.168101 AGGATGAGACTTGAACCTTGGTA 58.832 43.478 0.00 0.00 0.00 3.25
3140 6967 3.260380 CCCTATCCTATGAGCACTTCCAG 59.740 52.174 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.