Multiple sequence alignment - TraesCS6B01G052400

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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 TraesCS6B01G052400 chr6B 100.000 5206 0 0 1 5206 31691403 31686198 0.000000e+00 9614.0
1 TraesCS6B01G052400 chr6B 96.927 4523 125 10 690 5206 30889410 30893924 0.000000e+00 7570.0
2 TraesCS6B01G052400 chr6B 89.081 577 22 19 1 551 30888512 30889073 0.000000e+00 678.0
3 TraesCS6B01G052400 chr6B 95.238 126 5 1 564 688 30889194 30889319 1.140000e-46 198.0
4 TraesCS6B01G052400 chr6B 92.308 65 5 0 690 754 130075283 130075219 5.550000e-15 93.5
5 TraesCS6B01G052400 chr6B 90.000 70 7 0 683 752 585810919 585810850 2.000000e-14 91.6
6 TraesCS6B01G052400 chr6D 94.164 4095 213 19 802 4882 17500077 17504159 0.000000e+00 6215.0
7 TraesCS6B01G052400 chr6D 81.293 3357 570 43 922 4252 456424391 456427715 0.000000e+00 2667.0
8 TraesCS6B01G052400 chr6D 79.320 3322 622 50 952 4251 456408471 456411749 0.000000e+00 2268.0
9 TraesCS6B01G052400 chr6D 93.701 254 14 2 4953 5206 17504158 17504409 3.800000e-101 379.0
10 TraesCS6B01G052400 chr6A 92.690 3721 247 20 775 4480 18460914 18464624 0.000000e+00 5341.0
11 TraesCS6B01G052400 chr6A 81.109 3319 581 41 956 4252 603091680 603094974 0.000000e+00 2614.0
12 TraesCS6B01G052400 chr6A 80.679 3359 588 46 922 4252 603081507 603084832 0.000000e+00 2551.0
13 TraesCS6B01G052400 chr6A 83.300 2006 302 21 2259 4252 603101956 603103940 0.000000e+00 1818.0
14 TraesCS6B01G052400 chr6A 93.579 732 37 6 4479 5206 18464788 18465513 0.000000e+00 1083.0
15 TraesCS6B01G052400 chr6A 76.647 1169 242 23 925 2079 603100756 603101907 7.410000e-173 617.0
16 TraesCS6B01G052400 chr6A 92.188 64 5 0 690 753 60987362 60987299 2.000000e-14 91.6
17 TraesCS6B01G052400 chr7A 82.034 2566 405 44 1673 4202 725447751 725445206 0.000000e+00 2134.0
18 TraesCS6B01G052400 chr7A 93.651 63 4 0 690 752 691723749 691723811 1.540000e-15 95.3
19 TraesCS6B01G052400 chr7D 82.847 2332 354 36 1902 4202 629393865 629391549 0.000000e+00 2049.0
20 TraesCS6B01G052400 chr7D 85.542 83 9 3 690 772 614669081 614669160 3.340000e-12 84.2
21 TraesCS6B01G052400 chr3A 90.541 74 5 2 691 762 17335731 17335658 4.290000e-16 97.1
22 TraesCS6B01G052400 chr4B 93.443 61 4 0 694 754 171627403 171627463 2.000000e-14 91.6
23 TraesCS6B01G052400 chr4B 92.188 64 5 0 690 753 474400533 474400596 2.000000e-14 91.6


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 TraesCS6B01G052400 chr6B 31686198 31691403 5205 True 9614.000000 9614 100.000000 1 5206 1 chr6B.!!$R1 5205
1 TraesCS6B01G052400 chr6B 30888512 30893924 5412 False 2815.333333 7570 93.748667 1 5206 3 chr6B.!!$F1 5205
2 TraesCS6B01G052400 chr6D 17500077 17504409 4332 False 3297.000000 6215 93.932500 802 5206 2 chr6D.!!$F3 4404
3 TraesCS6B01G052400 chr6D 456424391 456427715 3324 False 2667.000000 2667 81.293000 922 4252 1 chr6D.!!$F2 3330
4 TraesCS6B01G052400 chr6D 456408471 456411749 3278 False 2268.000000 2268 79.320000 952 4251 1 chr6D.!!$F1 3299
5 TraesCS6B01G052400 chr6A 18460914 18465513 4599 False 3212.000000 5341 93.134500 775 5206 2 chr6A.!!$F3 4431
6 TraesCS6B01G052400 chr6A 603091680 603094974 3294 False 2614.000000 2614 81.109000 956 4252 1 chr6A.!!$F2 3296
7 TraesCS6B01G052400 chr6A 603081507 603084832 3325 False 2551.000000 2551 80.679000 922 4252 1 chr6A.!!$F1 3330
8 TraesCS6B01G052400 chr6A 603100756 603103940 3184 False 1217.500000 1818 79.973500 925 4252 2 chr6A.!!$F4 3327
9 TraesCS6B01G052400 chr7A 725445206 725447751 2545 True 2134.000000 2134 82.034000 1673 4202 1 chr7A.!!$R1 2529
10 TraesCS6B01G052400 chr7D 629391549 629393865 2316 True 2049.000000 2049 82.847000 1902 4202 1 chr7D.!!$R1 2300

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
83 84 0.035458 AGTTGAAGCAAGTCCCCTCG 59.965 55.000 0.00 0.0 0.00 4.63 F
267 268 0.456312 CCTCGTCGAGTTTCCCTTCG 60.456 60.000 20.37 0.0 0.00 3.79 F
1477 1726 0.551131 AGGAGAAATCCCTGCCTGGT 60.551 55.000 0.00 0.0 31.66 4.00 F
2226 2475 0.405198 TGCCTGAAAGCATGGGAAGA 59.595 50.000 0.00 0.0 38.00 2.87 F
2504 2753 1.873591 CTTTGTTGGTCCTCTTCCACG 59.126 52.381 0.00 0.0 34.45 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2045 2294 1.073199 GGCAACACACCACCTAGCT 59.927 57.895 0.0 0.0 0.00 3.32 R
2141 2390 3.429822 CCCAACAAGATTGCTTATGCCAG 60.430 47.826 0.0 0.0 38.71 4.85 R
2955 3204 1.004161 TGTTCCATTGATTCTGGCGGA 59.996 47.619 0.0 0.0 33.56 5.54 R
3336 3588 4.488126 AATCAAATTACGATGGCGGATG 57.512 40.909 0.0 0.0 43.17 3.51 R
4255 4533 0.524862 CTGGATGTTTCAGGTGCTGC 59.475 55.000 0.0 0.0 0.00 5.25 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
29 30 3.490759 CGTGCACACATCCGGCTC 61.491 66.667 18.64 0.00 0.00 4.70
30 31 3.127533 GTGCACACATCCGGCTCC 61.128 66.667 13.17 0.00 0.00 4.70
31 32 3.321648 TGCACACATCCGGCTCCT 61.322 61.111 0.00 0.00 0.00 3.69
32 33 2.821366 GCACACATCCGGCTCCTG 60.821 66.667 0.00 0.00 0.00 3.86
33 34 2.821366 CACACATCCGGCTCCTGC 60.821 66.667 0.00 0.00 38.76 4.85
34 35 3.321648 ACACATCCGGCTCCTGCA 61.322 61.111 0.00 0.00 41.91 4.41
60 61 4.083862 GACACCGACTGGCCCCTC 62.084 72.222 0.00 0.00 39.70 4.30
69 70 3.551496 CTGGCCCCTCGCAAGTTGA 62.551 63.158 7.16 0.00 40.31 3.18
77 78 1.069636 CCTCGCAAGTTGAAGCAAGTC 60.070 52.381 7.16 0.00 39.48 3.01
83 84 0.035458 AGTTGAAGCAAGTCCCCTCG 59.965 55.000 0.00 0.00 0.00 4.63
127 128 5.995565 CATGGCAATTTCATGGAGGATAT 57.004 39.130 9.54 0.00 38.55 1.63
204 205 1.902508 AGGACGCCATCTTCTCTTCAA 59.097 47.619 0.00 0.00 0.00 2.69
243 244 7.336931 AGGATACAACAAACAAGGTATGTGATC 59.663 37.037 0.00 0.00 40.70 2.92
266 267 0.736672 GCCTCGTCGAGTTTCCCTTC 60.737 60.000 20.37 0.00 0.00 3.46
267 268 0.456312 CCTCGTCGAGTTTCCCTTCG 60.456 60.000 20.37 0.00 0.00 3.79
315 318 2.450476 GGTGAAGGGATGTGCAATCTT 58.550 47.619 0.00 0.00 0.00 2.40
316 319 2.165030 GGTGAAGGGATGTGCAATCTTG 59.835 50.000 0.00 0.00 0.00 3.02
317 320 2.821969 GTGAAGGGATGTGCAATCTTGT 59.178 45.455 0.00 0.00 0.00 3.16
318 321 4.009675 GTGAAGGGATGTGCAATCTTGTA 58.990 43.478 0.00 0.00 0.00 2.41
354 357 7.753132 TGTGCAAACCAATACTTCGAAAATATC 59.247 33.333 0.00 0.00 0.00 1.63
366 369 2.652960 CGAAAATATCGTAGCGTGTGCG 60.653 50.000 0.00 0.00 46.08 5.34
416 419 1.334059 CGCATAACCATTGCCATCGAC 60.334 52.381 0.00 0.00 36.75 4.20
417 420 1.001378 GCATAACCATTGCCATCGACC 60.001 52.381 0.00 0.00 33.95 4.79
418 421 2.296792 CATAACCATTGCCATCGACCA 58.703 47.619 0.00 0.00 0.00 4.02
419 422 2.727123 TAACCATTGCCATCGACCAT 57.273 45.000 0.00 0.00 0.00 3.55
420 423 1.392589 AACCATTGCCATCGACCATC 58.607 50.000 0.00 0.00 0.00 3.51
421 424 0.815213 ACCATTGCCATCGACCATCG 60.815 55.000 0.00 0.00 42.10 3.84
422 425 1.280746 CATTGCCATCGACCATCGC 59.719 57.895 0.00 0.00 40.21 4.58
423 426 1.146930 ATTGCCATCGACCATCGCT 59.853 52.632 0.00 0.00 40.21 4.93
424 427 0.882042 ATTGCCATCGACCATCGCTC 60.882 55.000 0.00 0.00 40.21 5.03
425 428 3.032609 GCCATCGACCATCGCTCG 61.033 66.667 0.00 0.00 40.21 5.03
551 586 5.854010 AGCACAAGGATCGACTCTAATAA 57.146 39.130 0.00 0.00 0.00 1.40
552 587 5.593010 AGCACAAGGATCGACTCTAATAAC 58.407 41.667 0.00 0.00 0.00 1.89
553 588 4.745620 GCACAAGGATCGACTCTAATAACC 59.254 45.833 0.00 0.00 0.00 2.85
555 590 6.338146 CACAAGGATCGACTCTAATAACCAA 58.662 40.000 0.00 0.00 0.00 3.67
557 592 6.986817 ACAAGGATCGACTCTAATAACCAATG 59.013 38.462 0.00 0.00 0.00 2.82
560 703 7.967908 AGGATCGACTCTAATAACCAATGAAT 58.032 34.615 0.00 0.00 0.00 2.57
562 705 9.877178 GGATCGACTCTAATAACCAATGAATAT 57.123 33.333 0.00 0.00 0.00 1.28
577 720 7.448469 ACCAATGAATATTTAAGAATCGAGGGG 59.552 37.037 0.00 0.00 0.00 4.79
580 723 9.640952 AATGAATATTTAAGAATCGAGGGGAAA 57.359 29.630 0.00 0.00 0.00 3.13
588 731 4.470602 AGAATCGAGGGGAAAAAGTGTTT 58.529 39.130 0.00 0.00 0.00 2.83
589 732 4.278419 AGAATCGAGGGGAAAAAGTGTTTG 59.722 41.667 0.00 0.00 0.00 2.93
689 833 2.907458 CCAGGGAAAGGGATTTCAGT 57.093 50.000 3.41 0.00 32.77 3.41
690 834 2.728007 CCAGGGAAAGGGATTTCAGTC 58.272 52.381 3.41 0.00 32.77 3.51
691 835 2.621668 CCAGGGAAAGGGATTTCAGTCC 60.622 54.545 3.41 0.00 37.56 3.85
692 836 2.041620 CAGGGAAAGGGATTTCAGTCCA 59.958 50.000 3.41 0.00 40.17 4.02
696 840 5.073428 GGGAAAGGGATTTCAGTCCATATC 58.927 45.833 3.41 0.00 40.17 1.63
702 935 6.629156 AGGGATTTCAGTCCATATCTAGTCT 58.371 40.000 0.00 0.00 40.17 3.24
950 1199 1.181786 CACTGGTTTTGGGTGTGTGT 58.818 50.000 0.00 0.00 0.00 3.72
990 1239 4.216257 ACATTTCTTTCGTGATTCCCAGTG 59.784 41.667 0.00 0.00 0.00 3.66
991 1240 3.485463 TTCTTTCGTGATTCCCAGTGT 57.515 42.857 0.00 0.00 0.00 3.55
992 1241 3.040147 TCTTTCGTGATTCCCAGTGTC 57.960 47.619 0.00 0.00 0.00 3.67
1027 1276 0.887836 TGTTCTGCTGCTGCTTCTGG 60.888 55.000 17.00 2.61 40.48 3.86
1087 1336 3.014623 AGCAACATGACTGATGTGGATG 58.985 45.455 0.00 0.00 45.12 3.51
1313 1562 1.470098 CCTCAGCCAGAACAATTTCCG 59.530 52.381 0.00 0.00 31.28 4.30
1319 1568 1.335872 CCAGAACAATTTCCGTGGTGC 60.336 52.381 0.00 0.00 31.28 5.01
1444 1693 2.481903 TGAGAGCATCGATCTTGACG 57.518 50.000 0.00 0.00 42.67 4.35
1446 1695 1.066303 GAGAGCATCGATCTTGACGGT 59.934 52.381 0.00 0.00 42.67 4.83
1477 1726 0.551131 AGGAGAAATCCCTGCCTGGT 60.551 55.000 0.00 0.00 31.66 4.00
1635 1884 1.304381 GGGCCTTGGCAAGATGACA 60.304 57.895 28.18 0.00 30.30 3.58
1715 1964 6.148645 GCTTTCTTTAACCTTTCCTCTCTGAG 59.851 42.308 0.00 0.00 0.00 3.35
1770 2019 3.003173 CTGCCCTCGGACTTGGGA 61.003 66.667 5.04 0.00 46.15 4.37
2045 2294 6.147164 CGTGTATTAAAGCTCTCTGGAAACAA 59.853 38.462 0.00 0.00 42.06 2.83
2226 2475 0.405198 TGCCTGAAAGCATGGGAAGA 59.595 50.000 0.00 0.00 38.00 2.87
2244 2493 5.710567 GGGAAGACTAAATTTGCTACAAGGT 59.289 40.000 0.00 0.00 0.00 3.50
2275 2524 3.058224 GCATAATAATCTGTTGACCGGGC 60.058 47.826 6.32 1.57 0.00 6.13
2504 2753 1.873591 CTTTGTTGGTCCTCTTCCACG 59.126 52.381 0.00 0.00 34.45 4.94
2910 3159 5.670485 ACTGGATTTTTGTTTGAAGGGAAC 58.330 37.500 0.00 0.00 0.00 3.62
2955 3204 3.451902 CAGAATTACATTTGCCCCCATGT 59.548 43.478 0.00 0.00 37.40 3.21
3336 3588 1.740025 GAATGTGAGGCACTTGGTAGC 59.260 52.381 0.00 0.00 41.55 3.58
3360 3612 3.496884 TCCGCCATCGTAATTTGATTAGC 59.503 43.478 0.00 0.00 0.00 3.09
3435 3687 3.146066 TGTGTTGGAGTTCATGCCTAAC 58.854 45.455 0.00 0.00 0.00 2.34
3678 3933 0.179032 TTCTTTCCGAACCAGCAGCA 60.179 50.000 0.00 0.00 0.00 4.41
4281 4559 1.457346 CTGAAACATCCAGGTCAGGC 58.543 55.000 0.00 0.00 35.01 4.85
4346 4624 4.669206 ATGTTTTGCATTCCAAGTGTGA 57.331 36.364 0.00 0.00 33.14 3.58
4596 5041 3.627577 GCATTTGAGTTGGGATGTATCGT 59.372 43.478 0.00 0.00 0.00 3.73
4802 5251 3.708631 ACCATACTTCAGGAGGTCATCAG 59.291 47.826 0.00 0.00 0.00 2.90
4944 5394 5.715070 AGAGACTATAAGCACCATATTCGC 58.285 41.667 0.00 0.00 0.00 4.70
4971 5421 8.974060 ATTATTTTCCAACGTATATCAGTGGT 57.026 30.769 0.00 0.00 0.00 4.16
5044 5494 2.013400 CCTGTGCGCACATAAATACCA 58.987 47.619 40.50 16.97 41.01 3.25
5051 5501 4.035792 TGCGCACATAAATACCAATACCAC 59.964 41.667 5.66 0.00 0.00 4.16
5104 5554 1.878102 CGCAGGGCACTTTGTTCTAGT 60.878 52.381 0.00 0.00 0.00 2.57
5127 5577 3.008485 GGATGAACTTGTTCTCCCTGTCT 59.992 47.826 13.65 0.00 0.00 3.41
5145 5595 1.457267 TGGCTTGCCCTGCAGAAAA 60.457 52.632 17.39 5.40 40.61 2.29
5189 5639 1.750206 TGCACATAAATCCGCAAGCAT 59.250 42.857 0.00 0.00 0.00 3.79
5196 5646 3.683365 AAATCCGCAAGCATTTCCTTT 57.317 38.095 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 4.662961 TCGGTGTCGCTGCAGGTG 62.663 66.667 17.12 3.03 36.13 4.00
34 35 4.664677 GTCGGTGTCGCTGCAGGT 62.665 66.667 17.12 0.00 36.13 4.00
59 60 0.944386 GGACTTGCTTCAACTTGCGA 59.056 50.000 0.00 0.00 0.00 5.10
60 61 0.040067 GGGACTTGCTTCAACTTGCG 60.040 55.000 0.00 0.00 0.00 4.85
61 62 0.315251 GGGGACTTGCTTCAACTTGC 59.685 55.000 0.00 0.00 0.00 4.01
62 63 1.882623 GAGGGGACTTGCTTCAACTTG 59.117 52.381 0.00 0.00 44.43 3.16
83 84 0.675633 ATCACAACTTGGCCACTTGC 59.324 50.000 18.52 0.00 40.16 4.01
127 128 0.519519 CAAATGAGGCACCGCGTTTA 59.480 50.000 4.92 0.00 34.20 2.01
204 205 0.107654 GTATCCTTGCTGCCGGTTCT 60.108 55.000 1.90 0.00 0.00 3.01
243 244 1.084370 GGAAACTCGACGAGGCATGG 61.084 60.000 27.39 3.90 33.35 3.66
266 267 1.065418 AGTTCCCCTACAGAAATGCCG 60.065 52.381 0.00 0.00 0.00 5.69
267 268 2.808906 AGTTCCCCTACAGAAATGCC 57.191 50.000 0.00 0.00 0.00 4.40
315 318 7.511959 TTGGTTTGCACAAATACTACATACA 57.488 32.000 0.00 0.00 32.36 2.29
316 319 9.498307 GTATTGGTTTGCACAAATACTACATAC 57.502 33.333 7.15 2.60 42.97 2.39
366 369 1.069500 ACATGCGTTTTCCGTAACTGC 60.069 47.619 0.00 0.00 39.32 4.40
381 384 2.278142 GCGGATTGCGGAACATGC 60.278 61.111 0.00 0.00 0.00 4.06
416 419 1.413382 GCTTCTGTATCGAGCGATGG 58.587 55.000 15.02 5.96 36.17 3.51
421 424 1.951631 GCCCGCTTCTGTATCGAGC 60.952 63.158 0.00 0.00 0.00 5.03
422 425 1.658717 CGCCCGCTTCTGTATCGAG 60.659 63.158 0.00 0.00 0.00 4.04
423 426 2.411701 CGCCCGCTTCTGTATCGA 59.588 61.111 0.00 0.00 0.00 3.59
424 427 2.421877 ATCCGCCCGCTTCTGTATCG 62.422 60.000 0.00 0.00 0.00 2.92
425 428 0.667792 GATCCGCCCGCTTCTGTATC 60.668 60.000 0.00 0.00 0.00 2.24
450 453 9.710818 TTCCCTGTTCTAACTATATACTGAACT 57.289 33.333 0.00 0.00 35.99 3.01
523 558 5.133941 AGAGTCGATCCTTGTGCTTCTATA 58.866 41.667 0.00 0.00 0.00 1.31
525 560 3.357203 AGAGTCGATCCTTGTGCTTCTA 58.643 45.455 0.00 0.00 0.00 2.10
551 586 7.448469 CCCCTCGATTCTTAAATATTCATTGGT 59.552 37.037 0.00 0.00 0.00 3.67
552 587 7.665559 TCCCCTCGATTCTTAAATATTCATTGG 59.334 37.037 0.00 0.00 0.00 3.16
553 588 8.621532 TCCCCTCGATTCTTAAATATTCATTG 57.378 34.615 0.00 0.00 0.00 2.82
555 590 9.640952 TTTTCCCCTCGATTCTTAAATATTCAT 57.359 29.630 0.00 0.00 0.00 2.57
557 592 9.952188 CTTTTTCCCCTCGATTCTTAAATATTC 57.048 33.333 0.00 0.00 0.00 1.75
560 703 7.886446 ACACTTTTTCCCCTCGATTCTTAAATA 59.114 33.333 0.00 0.00 0.00 1.40
562 705 6.066032 ACACTTTTTCCCCTCGATTCTTAAA 58.934 36.000 0.00 0.00 0.00 1.52
566 709 3.790089 ACACTTTTTCCCCTCGATTCT 57.210 42.857 0.00 0.00 0.00 2.40
577 720 8.687824 TCTGTGAGATTTTCAAACACTTTTTC 57.312 30.769 0.00 0.00 37.61 2.29
580 723 7.761249 CCTTTCTGTGAGATTTTCAAACACTTT 59.239 33.333 0.00 0.00 37.61 2.66
588 731 7.335422 GCTATTCTCCTTTCTGTGAGATTTTCA 59.665 37.037 0.00 0.00 37.46 2.69
589 732 7.335422 TGCTATTCTCCTTTCTGTGAGATTTTC 59.665 37.037 0.00 0.00 37.46 2.29
735 968 5.084519 TGCTATCATATACTCCCTCCGTTT 58.915 41.667 0.00 0.00 0.00 3.60
739 972 6.859112 TTTCTGCTATCATATACTCCCTCC 57.141 41.667 0.00 0.00 0.00 4.30
978 1227 1.798813 GTTGACGACACTGGGAATCAC 59.201 52.381 0.00 0.00 0.00 3.06
992 1241 1.459592 GAACAGGGAACATCGTTGACG 59.540 52.381 0.00 0.00 41.45 4.35
1027 1276 3.499918 GCTGATTGGAGTACATATGGCAC 59.500 47.826 7.80 4.70 0.00 5.01
1319 1568 5.818136 ACGACCAATTGATGAAGGTATTG 57.182 39.130 7.12 0.00 33.77 1.90
1444 1693 5.163612 GGATTTCTCCTGTGAGCAAATTACC 60.164 44.000 0.00 0.00 38.65 2.85
1446 1695 4.949856 GGGATTTCTCCTGTGAGCAAATTA 59.050 41.667 0.00 0.00 41.74 1.40
1477 1726 3.831323 TCAGATTTGACAAGCCTCCAAA 58.169 40.909 0.00 0.00 34.76 3.28
1635 1884 3.578716 TCAGTCGAATGGAGGAAAGACTT 59.421 43.478 13.59 0.00 36.90 3.01
1770 2019 1.661463 TGAGATTTGGGAGGTGAGCT 58.339 50.000 0.00 0.00 0.00 4.09
1878 2127 4.574674 TCTACCAGTCAAGCCATTGAAT 57.425 40.909 0.00 0.00 46.75 2.57
2045 2294 1.073199 GGCAACACACCACCTAGCT 59.927 57.895 0.00 0.00 0.00 3.32
2141 2390 3.429822 CCCAACAAGATTGCTTATGCCAG 60.430 47.826 0.00 0.00 38.71 4.85
2271 2520 1.072159 GGAGGATGGAATGAGCCCG 59.928 63.158 0.00 0.00 0.00 6.13
2275 2524 1.144503 CCCAAGGGAGGATGGAATGAG 59.855 57.143 0.00 0.00 39.12 2.90
2412 2661 4.579869 TCTCTTTAGGCAATTGACCTGTC 58.420 43.478 23.56 1.64 38.26 3.51
2504 2753 2.351157 GCTGTCAGACTGCCAATTTCAC 60.351 50.000 19.23 0.00 37.12 3.18
2910 3159 3.703001 ATACCACCACAAAGTCCTGAG 57.297 47.619 0.00 0.00 0.00 3.35
2955 3204 1.004161 TGTTCCATTGATTCTGGCGGA 59.996 47.619 0.00 0.00 33.56 5.54
3336 3588 4.488126 AATCAAATTACGATGGCGGATG 57.512 40.909 0.00 0.00 43.17 3.51
3678 3933 5.066246 GCTCTTTGAATTAATCAGCTGCTCT 59.934 40.000 9.47 0.00 39.77 4.09
4070 4348 6.381481 TTCATGACAGACAATATGGCATTC 57.619 37.500 4.78 0.00 44.09 2.67
4255 4533 0.524862 CTGGATGTTTCAGGTGCTGC 59.475 55.000 0.00 0.00 0.00 5.25
4346 4624 9.547753 CTAGGCAGAAACTAACATATACAACAT 57.452 33.333 0.00 0.00 0.00 2.71
4564 5009 5.245751 TCCCAACTCAAATGCAATACAACAT 59.754 36.000 0.00 0.00 0.00 2.71
4596 5041 1.259609 AGAACAACATCGGACGGGTA 58.740 50.000 0.00 0.00 0.00 3.69
4802 5251 4.479619 GCATTTCACTTGAGATGGTGTTC 58.520 43.478 10.77 0.00 37.20 3.18
4864 5313 5.877564 GGTTCCTAATCTTGAAGTCAGAAGG 59.122 44.000 0.00 0.00 0.00 3.46
4944 5394 8.221100 CCACTGATATACGTTGGAAAATAATCG 58.779 37.037 0.00 0.00 0.00 3.34
4971 5421 3.259064 GTGCGGAGAAGTTACATTAGCA 58.741 45.455 0.00 0.00 0.00 3.49
5044 5494 1.768870 CGGAAGATGGAGGGTGGTATT 59.231 52.381 0.00 0.00 0.00 1.89
5051 5501 1.789523 TAAGGACGGAAGATGGAGGG 58.210 55.000 0.00 0.00 0.00 4.30
5104 5554 2.711009 ACAGGGAGAACAAGTTCATCCA 59.289 45.455 21.73 0.00 41.84 3.41
5127 5577 1.047596 TTTTTCTGCAGGGCAAGCCA 61.048 50.000 15.13 0.00 38.41 4.75
5145 5595 5.838521 AGGAGTGTGAATTTAAATGGTGGTT 59.161 36.000 0.39 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.