Multiple sequence alignment - TraesCS6B01G015700

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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 TraesCS6B01G015700 chr6B 100.000 3318 0 0 1 3318 9168684 9172001 0.000000e+00 6128
1 TraesCS6B01G015700 chr6B 91.586 2674 156 33 1 2638 8903331 8900691 0.000000e+00 3627
2 TraesCS6B01G015700 chr6B 88.523 880 66 20 2391 3250 8872977 8872113 0.000000e+00 1033
3 TraesCS6B01G015700 chr6B 86.993 592 48 15 2680 3250 136917643 136917060 1.000000e-179 640
4 TraesCS6B01G015700 chr6A 88.893 2449 193 37 239 2638 3912256 3914674 0.000000e+00 2942
5 TraesCS6B01G015700 chr6A 86.589 343 27 11 2926 3250 428596295 428596636 8.750000e-96 361
6 TraesCS6B01G015700 chr6A 86.589 343 27 9 2926 3250 428610449 428610790 8.750000e-96 361
7 TraesCS6B01G015700 chr6A 84.286 140 18 4 1224 1361 18931216 18931353 2.080000e-27 134
8 TraesCS6B01G015700 chr6D 89.764 2159 158 27 523 2638 4838274 4840412 0.000000e+00 2704
9 TraesCS6B01G015700 chr6D 87.576 491 45 8 1 487 4837801 4838279 3.740000e-154 555
10 TraesCS6B01G015700 chr5B 82.850 793 130 6 1472 2262 13497722 13496934 0.000000e+00 706
11 TraesCS6B01G015700 chr5B 96.250 80 3 0 3239 3318 635117487 635117408 7.470000e-27 132
12 TraesCS6B01G015700 chr7D 87.540 618 57 7 2639 3238 637385948 637386563 0.000000e+00 697
13 TraesCS6B01G015700 chr7D 84.456 193 26 4 2639 2829 637387098 637386908 1.570000e-43 187
14 TraesCS6B01G015700 chr5A 81.807 797 131 12 1440 2233 11134590 11133805 0.000000e+00 656
15 TraesCS6B01G015700 chr5D 81.463 793 131 12 1448 2233 14535649 14534866 1.300000e-178 636
16 TraesCS6B01G015700 chr1B 77.516 1063 199 23 1246 2285 21512756 21511711 1.320000e-168 603
17 TraesCS6B01G015700 chr1B 82.781 604 61 23 2639 3238 491436132 491436696 1.780000e-137 499
18 TraesCS6B01G015700 chr1B 96.250 80 2 1 3239 3318 357406632 357406710 2.690000e-26 130
19 TraesCS6B01G015700 chr1D 90.960 354 26 3 2891 3238 367146049 367146402 3.870000e-129 472
20 TraesCS6B01G015700 chr1A 85.714 343 29 12 2926 3250 466028305 466028645 8.810000e-91 344
21 TraesCS6B01G015700 chr1A 81.972 355 46 15 2885 3238 466282006 466282343 5.420000e-73 285
22 TraesCS6B01G015700 chr1A 96.296 81 3 0 3238 3318 63332656 63332736 2.080000e-27 134
23 TraesCS6B01G015700 chr1A 96.250 80 3 0 3239 3318 500065804 500065725 7.470000e-27 132
24 TraesCS6B01G015700 chrUn 96.250 80 3 0 3239 3318 263236430 263236509 7.470000e-27 132
25 TraesCS6B01G015700 chr7A 96.250 80 3 0 3239 3318 239042671 239042592 7.470000e-27 132
26 TraesCS6B01G015700 chr4B 95.238 84 3 1 3236 3318 53560037 53560120 7.470000e-27 132
27 TraesCS6B01G015700 chr4B 94.118 85 4 1 3235 3318 618541389 618541305 9.660000e-26 128
28 TraesCS6B01G015700 chr4A 96.250 80 3 0 3239 3318 613314938 613314859 7.470000e-27 132


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 TraesCS6B01G015700 chr6B 9168684 9172001 3317 False 6128.0 6128 100.000 1 3318 1 chr6B.!!$F1 3317
1 TraesCS6B01G015700 chr6B 8900691 8903331 2640 True 3627.0 3627 91.586 1 2638 1 chr6B.!!$R2 2637
2 TraesCS6B01G015700 chr6B 8872113 8872977 864 True 1033.0 1033 88.523 2391 3250 1 chr6B.!!$R1 859
3 TraesCS6B01G015700 chr6B 136917060 136917643 583 True 640.0 640 86.993 2680 3250 1 chr6B.!!$R3 570
4 TraesCS6B01G015700 chr6A 3912256 3914674 2418 False 2942.0 2942 88.893 239 2638 1 chr6A.!!$F1 2399
5 TraesCS6B01G015700 chr6D 4837801 4840412 2611 False 1629.5 2704 88.670 1 2638 2 chr6D.!!$F1 2637
6 TraesCS6B01G015700 chr5B 13496934 13497722 788 True 706.0 706 82.850 1472 2262 1 chr5B.!!$R1 790
7 TraesCS6B01G015700 chr7D 637385948 637386563 615 False 697.0 697 87.540 2639 3238 1 chr7D.!!$F1 599
8 TraesCS6B01G015700 chr5A 11133805 11134590 785 True 656.0 656 81.807 1440 2233 1 chr5A.!!$R1 793
9 TraesCS6B01G015700 chr5D 14534866 14535649 783 True 636.0 636 81.463 1448 2233 1 chr5D.!!$R1 785
10 TraesCS6B01G015700 chr1B 21511711 21512756 1045 True 603.0 603 77.516 1246 2285 1 chr1B.!!$R1 1039
11 TraesCS6B01G015700 chr1B 491436132 491436696 564 False 499.0 499 82.781 2639 3238 1 chr1B.!!$F2 599

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
686 717 0.112606 TGGAGGGCCGGTCTAGATAG 59.887 60.0 5.77 0.0 36.79 2.08 F
2249 2340 0.250295 CAAGTTGCCTCCTCCGTCAA 60.250 55.0 0.00 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2285 2376 0.532862 ATGATCCGTGAATCACCGCC 60.533 55.0 7.91 0.0 38.43 6.13 R
3277 3436 0.179018 CTTAGATTTCGGGGGCCCTG 60.179 60.0 26.50 26.5 0.00 4.45 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
59 60 0.388649 GATGGCCGGTCTAGTATGCG 60.389 60.000 7.97 0.00 0.00 4.73
72 73 4.827284 TCTAGTATGCGAGTCATTCATGGA 59.173 41.667 0.00 0.00 36.63 3.41
73 74 4.613925 AGTATGCGAGTCATTCATGGAT 57.386 40.909 0.00 0.00 36.63 3.41
74 75 4.313282 AGTATGCGAGTCATTCATGGATG 58.687 43.478 7.76 7.76 36.63 3.51
75 76 2.985957 TGCGAGTCATTCATGGATGA 57.014 45.000 12.97 12.97 33.81 2.92
76 77 2.830104 TGCGAGTCATTCATGGATGAG 58.170 47.619 17.39 7.11 36.76 2.90
77 78 1.530293 GCGAGTCATTCATGGATGAGC 59.470 52.381 17.39 13.27 36.76 4.26
78 79 2.830104 CGAGTCATTCATGGATGAGCA 58.170 47.619 17.39 0.00 36.76 4.26
79 80 3.400255 CGAGTCATTCATGGATGAGCAT 58.600 45.455 17.39 6.46 36.76 3.79
80 81 4.563061 CGAGTCATTCATGGATGAGCATA 58.437 43.478 17.39 0.00 36.76 3.14
93 100 2.635714 TGAGCATATTGGAGCACACAG 58.364 47.619 0.00 0.00 0.00 3.66
220 228 6.565234 AGGTCATATGCACGTATATAAGAGC 58.435 40.000 10.31 10.31 0.00 4.09
224 232 9.516314 GTCATATGCACGTATATAAGAGCAATA 57.484 33.333 20.42 14.44 37.49 1.90
228 236 8.694975 ATGCACGTATATAAGAGCAATAGAAG 57.305 34.615 20.42 0.00 37.49 2.85
247 257 6.770286 AGAAGAGAATGAAATATAGGGGCA 57.230 37.500 0.00 0.00 0.00 5.36
410 432 5.130705 TGGCCCAACACATATTGGTATAA 57.869 39.130 0.00 0.00 46.72 0.98
502 527 3.548770 ACACATGCACCTCCATAGATTG 58.451 45.455 0.00 0.00 0.00 2.67
526 551 0.250038 CAGGGCATGAGTGGATACCG 60.250 60.000 0.00 0.00 0.00 4.02
537 562 6.630444 TGAGTGGATACCGTTAATAGTCTC 57.370 41.667 0.00 0.00 0.00 3.36
552 577 3.223423 AGTCTCACTACAAGCATGTCG 57.777 47.619 0.00 0.00 41.05 4.35
570 595 5.801531 TGTCGGATGCTATAATGTAAGGT 57.198 39.130 0.00 0.00 0.00 3.50
574 599 6.807230 GTCGGATGCTATAATGTAAGGTACTG 59.193 42.308 0.00 0.00 40.86 2.74
582 607 9.152595 GCTATAATGTAAGGTACTGAATTAGCC 57.847 37.037 0.00 0.00 40.86 3.93
585 610 6.561519 ATGTAAGGTACTGAATTAGCCAGT 57.438 37.500 3.99 3.99 45.75 4.00
590 615 9.043079 GTAAGGTACTGAATTAGCCAGTTAATC 57.957 37.037 3.85 0.00 41.68 1.75
592 617 6.157994 AGGTACTGAATTAGCCAGTTAATCCA 59.842 38.462 3.85 0.00 41.68 3.41
603 628 6.423182 AGCCAGTTAATCCATGTAAAGCTAA 58.577 36.000 0.00 0.00 0.00 3.09
607 632 8.827677 CCAGTTAATCCATGTAAAGCTAACTAC 58.172 37.037 0.00 0.00 29.43 2.73
615 640 7.959718 CATGTAAAGCTAACTACATGCAAAG 57.040 36.000 21.31 6.86 44.92 2.77
629 654 6.600882 ACATGCAAAGATTCTTCCATTTCT 57.399 33.333 0.00 0.00 0.00 2.52
637 663 8.919661 CAAAGATTCTTCCATTTCTTTTGCTAC 58.080 33.333 0.00 0.00 36.54 3.58
647 673 7.922278 TCCATTTCTTTTGCTACATGATAATGC 59.078 33.333 0.00 0.00 0.00 3.56
660 686 7.042797 ACATGATAATGCCTTGTTCCATTAC 57.957 36.000 0.00 0.00 36.91 1.89
661 687 6.835488 ACATGATAATGCCTTGTTCCATTACT 59.165 34.615 0.00 0.00 36.91 2.24
671 702 6.349363 GCCTTGTTCCATTACTACTTTTGGAG 60.349 42.308 0.00 0.00 39.33 3.86
678 709 1.131928 ACTACTTTTGGAGGGCCGGT 61.132 55.000 1.90 0.00 36.79 5.28
686 717 0.112606 TGGAGGGCCGGTCTAGATAG 59.887 60.000 5.77 0.00 36.79 2.08
711 746 0.749091 GCCACTATGCCAGTCATGCA 60.749 55.000 0.00 0.00 43.97 3.96
722 757 1.137404 GTCATGCATGGCCGAACAC 59.863 57.895 25.97 11.41 0.00 3.32
735 770 2.741612 CCGAACACATTGCACACAAAT 58.258 42.857 0.00 0.00 39.77 2.32
855 892 4.447180 GGCCATAAATAGCCCTTCCACTAA 60.447 45.833 0.00 0.00 43.76 2.24
880 917 8.511604 ACATGTCTCTTGTTATAAATCAAGGG 57.488 34.615 13.14 11.00 41.77 3.95
1182 1222 1.871080 AAGAGAGGTTTGTGTCAGCG 58.129 50.000 0.00 0.00 0.00 5.18
1233 1291 7.867445 TTATTTTCAGAAAAGACGCCAATTC 57.133 32.000 13.71 0.00 33.22 2.17
1239 1297 3.253432 AGAAAAGACGCCAATTCCTGTTC 59.747 43.478 0.00 0.00 0.00 3.18
1353 1414 1.940613 GTGCCTTGCTCGGGTAATAAG 59.059 52.381 0.00 0.00 0.00 1.73
1354 1415 1.834896 TGCCTTGCTCGGGTAATAAGA 59.165 47.619 0.00 0.00 0.00 2.10
2249 2340 0.250295 CAAGTTGCCTCCTCCGTCAA 60.250 55.000 0.00 0.00 0.00 3.18
2272 2363 1.699656 CCAAGCTCGCGTTGGATGAG 61.700 60.000 19.23 2.78 46.53 2.90
2276 2367 1.424493 GCTCGCGTTGGATGAGGAAG 61.424 60.000 5.77 0.00 0.00 3.46
2285 2376 1.134189 TGGATGAGGAAGCAGAGCATG 60.134 52.381 0.00 0.00 0.00 4.06
2286 2377 1.595466 GATGAGGAAGCAGAGCATGG 58.405 55.000 0.00 0.00 0.00 3.66
2287 2378 0.465824 ATGAGGAAGCAGAGCATGGC 60.466 55.000 0.00 0.00 0.00 4.40
2464 2566 7.908601 GGAAATAATTCACGTGGATTAGTCAAC 59.091 37.037 28.34 20.57 37.29 3.18
2471 2573 2.858344 CGTGGATTAGTCAACGTGGATC 59.142 50.000 6.98 0.00 44.86 3.36
2491 2593 5.182380 GGATCATTGTTCAAACGGGTAAAGA 59.818 40.000 0.00 0.00 0.00 2.52
2522 2625 7.649057 ACTTTTCAATACAAGGCTTTACACTC 58.351 34.615 0.00 0.00 0.00 3.51
2523 2626 6.569179 TTTCAATACAAGGCTTTACACTCC 57.431 37.500 0.00 0.00 0.00 3.85
2524 2627 5.499004 TCAATACAAGGCTTTACACTCCT 57.501 39.130 0.00 0.00 0.00 3.69
2525 2628 5.488341 TCAATACAAGGCTTTACACTCCTC 58.512 41.667 0.00 0.00 0.00 3.71
2526 2629 2.457366 ACAAGGCTTTACACTCCTCG 57.543 50.000 0.00 0.00 0.00 4.63
2527 2630 1.002087 ACAAGGCTTTACACTCCTCGG 59.998 52.381 0.00 0.00 0.00 4.63
2528 2631 0.036294 AAGGCTTTACACTCCTCGGC 60.036 55.000 0.00 0.00 0.00 5.54
2611 2718 2.648059 AGCAGGAGATAAACATGTGGC 58.352 47.619 0.00 0.00 0.00 5.01
2648 2755 5.287226 CCACGTCGCCTTAGAGTATTTAAT 58.713 41.667 0.00 0.00 0.00 1.40
2657 2764 9.490663 CGCCTTAGAGTATTTAATCAAAAACTG 57.509 33.333 0.00 0.00 0.00 3.16
2675 2782 8.887717 CAAAAACTGTCCCATTTCATAAAAACA 58.112 29.630 0.00 0.00 0.00 2.83
2682 2789 6.813152 GTCCCATTTCATAAAAACATGTCCAG 59.187 38.462 0.00 0.00 0.00 3.86
2693 2800 7.823745 AAAAACATGTCCAGAAACTATCACT 57.176 32.000 0.00 0.00 0.00 3.41
2696 2803 8.918202 AAACATGTCCAGAAACTATCACTTTA 57.082 30.769 0.00 0.00 0.00 1.85
2697 2804 9.520515 AAACATGTCCAGAAACTATCACTTTAT 57.479 29.630 0.00 0.00 0.00 1.40
2848 2990 0.529773 AGTCAACAAGCGCACGAGAA 60.530 50.000 11.47 0.00 0.00 2.87
3184 3343 3.435186 GGCCCGCTTGCACTTCTC 61.435 66.667 0.00 0.00 0.00 2.87
3199 3358 1.520600 TTCTCCACGCGACAGCTACA 61.521 55.000 15.93 0.00 42.32 2.74
3202 3361 2.430751 CACGCGACAGCTACAGCA 60.431 61.111 15.93 0.00 45.16 4.41
3292 3451 4.522975 CCCAGGGCCCCCGAAATC 62.523 72.222 21.43 0.00 41.95 2.17
3293 3452 3.420482 CCAGGGCCCCCGAAATCT 61.420 66.667 21.43 0.00 41.95 2.40
3294 3453 2.076184 CCAGGGCCCCCGAAATCTA 61.076 63.158 21.43 0.00 41.95 1.98
3295 3454 1.641552 CCAGGGCCCCCGAAATCTAA 61.642 60.000 21.43 0.00 41.95 2.10
3296 3455 0.179018 CAGGGCCCCCGAAATCTAAG 60.179 60.000 21.43 0.00 41.95 2.18
3297 3456 1.150764 GGGCCCCCGAAATCTAAGG 59.849 63.158 12.23 0.00 0.00 2.69
3298 3457 1.150764 GGCCCCCGAAATCTAAGGG 59.849 63.158 0.00 0.00 44.67 3.95
3299 3458 4.900815 CCCCCGAAATCTAAGGGC 57.099 61.111 0.00 0.00 43.74 5.19
3300 3459 1.150764 CCCCCGAAATCTAAGGGCC 59.849 63.158 0.00 0.00 43.74 5.80
3301 3460 1.150764 CCCCGAAATCTAAGGGCCC 59.849 63.158 16.46 16.46 43.74 5.80
3302 3461 1.150764 CCCGAAATCTAAGGGCCCC 59.849 63.158 21.43 0.00 38.51 5.80
3303 3462 1.150764 CCGAAATCTAAGGGCCCCC 59.849 63.158 21.43 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 6.127980 CCAATATGCTCATCCATGAATGACTC 60.128 42.308 0.00 0.00 36.18 3.36
72 73 3.211865 CTGTGTGCTCCAATATGCTCAT 58.788 45.455 0.00 0.00 35.61 2.90
73 74 2.026915 ACTGTGTGCTCCAATATGCTCA 60.027 45.455 0.00 0.00 0.00 4.26
74 75 2.636830 ACTGTGTGCTCCAATATGCTC 58.363 47.619 0.00 0.00 0.00 4.26
75 76 2.795231 ACTGTGTGCTCCAATATGCT 57.205 45.000 0.00 0.00 0.00 3.79
76 77 3.855689 AAACTGTGTGCTCCAATATGC 57.144 42.857 0.00 0.00 0.00 3.14
181 189 7.013559 TGCATATGACCTCCAATTTCACATTAG 59.986 37.037 6.97 0.00 0.00 1.73
198 206 7.812309 TTGCTCTTATATACGTGCATATGAC 57.188 36.000 14.40 1.18 30.89 3.06
220 228 9.171877 GCCCCTATATTTCATTCTCTTCTATTG 57.828 37.037 0.00 0.00 0.00 1.90
224 232 6.770286 TGCCCCTATATTTCATTCTCTTCT 57.230 37.500 0.00 0.00 0.00 2.85
227 235 6.064717 GTGTTGCCCCTATATTTCATTCTCT 58.935 40.000 0.00 0.00 0.00 3.10
228 236 6.064717 AGTGTTGCCCCTATATTTCATTCTC 58.935 40.000 0.00 0.00 0.00 2.87
247 257 9.066892 TGCTTTGACAGATTTTATAGAAGTGTT 57.933 29.630 0.00 0.00 0.00 3.32
303 313 3.119137 CCAATTTAGTTGCAGCCCCTTAC 60.119 47.826 0.00 0.00 36.46 2.34
305 315 1.901833 CCAATTTAGTTGCAGCCCCTT 59.098 47.619 0.00 0.00 36.46 3.95
316 326 5.315109 AGGAAGACCCTAAACCCAATTTAGT 59.685 40.000 5.86 0.00 45.84 2.24
365 377 1.792367 TGCATGCACGATCGTATTAGC 59.208 47.619 22.26 19.96 0.00 3.09
410 432 7.491682 ACTTTAATTTGTGCACTGAAGAATGT 58.508 30.769 19.41 14.22 0.00 2.71
476 501 1.890876 TGGAGGTGCATGTGTACAAC 58.109 50.000 0.00 0.00 32.02 3.32
502 527 0.895100 TCCACTCATGCCCTGCAAAC 60.895 55.000 0.00 0.00 43.62 2.93
526 551 7.043986 CGACATGCTTGTAGTGAGACTATTAAC 60.044 40.741 5.05 0.00 35.79 2.01
537 562 1.328680 GCATCCGACATGCTTGTAGTG 59.671 52.381 5.05 2.65 41.52 2.74
552 577 9.726438 AATTCAGTACCTTACATTATAGCATCC 57.274 33.333 0.00 0.00 0.00 3.51
561 586 6.958767 ACTGGCTAATTCAGTACCTTACATT 58.041 36.000 0.00 0.00 42.91 2.71
564 589 8.959705 ATTAACTGGCTAATTCAGTACCTTAC 57.040 34.615 0.00 0.00 43.82 2.34
570 595 7.573710 ACATGGATTAACTGGCTAATTCAGTA 58.426 34.615 0.00 0.00 43.82 2.74
574 599 7.862873 GCTTTACATGGATTAACTGGCTAATTC 59.137 37.037 0.00 0.00 0.00 2.17
582 607 9.378551 TGTAGTTAGCTTTACATGGATTAACTG 57.621 33.333 0.00 0.00 33.43 3.16
592 617 7.921786 TCTTTGCATGTAGTTAGCTTTACAT 57.078 32.000 10.64 10.64 40.22 2.29
603 628 7.395489 AGAAATGGAAGAATCTTTGCATGTAGT 59.605 33.333 0.00 0.00 38.81 2.73
607 632 7.900782 AAAGAAATGGAAGAATCTTTGCATG 57.099 32.000 0.00 0.00 39.83 4.06
613 638 8.181904 TGTAGCAAAAGAAATGGAAGAATCTT 57.818 30.769 0.00 0.00 33.73 2.40
615 640 8.246180 TCATGTAGCAAAAGAAATGGAAGAATC 58.754 33.333 0.00 0.00 0.00 2.52
629 654 6.528537 ACAAGGCATTATCATGTAGCAAAA 57.471 33.333 0.00 0.00 32.28 2.44
660 686 0.392595 GACCGGCCCTCCAAAAGTAG 60.393 60.000 0.00 0.00 0.00 2.57
661 687 0.838987 AGACCGGCCCTCCAAAAGTA 60.839 55.000 0.00 0.00 0.00 2.24
671 702 1.920610 TTAGCTATCTAGACCGGCCC 58.079 55.000 0.00 0.00 0.00 5.80
678 709 5.127845 GGCATAGTGGCATTAGCTATCTAGA 59.872 44.000 0.00 0.00 43.14 2.43
711 746 1.177895 TGTGCAATGTGTTCGGCCAT 61.178 50.000 2.24 0.00 0.00 4.40
722 757 9.320406 CTATTTGCTTTAAATTTGTGTGCAATG 57.680 29.630 17.02 10.56 39.61 2.82
735 770 8.236586 CAGCAGTACATCACTATTTGCTTTAAA 58.763 33.333 0.00 0.00 34.98 1.52
793 830 5.434408 CAGACAATCTTTGGAGATCCATGA 58.566 41.667 1.61 5.11 46.97 3.07
855 892 7.067494 GCCCTTGATTTATAACAAGAGACATGT 59.933 37.037 14.38 0.00 43.98 3.21
1218 1276 3.253432 AGAACAGGAATTGGCGTCTTTTC 59.747 43.478 0.00 0.00 0.00 2.29
1887 1978 3.114616 CCGTGCTCAGCAGGAACG 61.115 66.667 21.05 10.66 45.68 3.95
2234 2325 1.613255 GGAATTTGACGGAGGAGGCAA 60.613 52.381 0.00 0.00 0.00 4.52
2249 2340 0.605319 TCCAACGCGAGCTTGGAATT 60.605 50.000 22.93 0.00 43.36 2.17
2272 2363 3.207669 CCGCCATGCTCTGCTTCC 61.208 66.667 0.00 0.00 0.00 3.46
2276 2367 2.056481 GAATCACCGCCATGCTCTGC 62.056 60.000 0.00 0.00 0.00 4.26
2285 2376 0.532862 ATGATCCGTGAATCACCGCC 60.533 55.000 7.91 0.00 38.43 6.13
2286 2377 0.583438 CATGATCCGTGAATCACCGC 59.417 55.000 7.91 0.00 38.43 5.68
2287 2378 0.583438 GCATGATCCGTGAATCACCG 59.417 55.000 7.91 1.30 38.43 4.94
2464 2566 2.414029 CCCGTTTGAACAATGATCCACG 60.414 50.000 5.68 5.68 0.00 4.94
2471 2573 7.707774 AAAATCTTTACCCGTTTGAACAATG 57.292 32.000 0.00 0.00 0.00 2.82
2522 2625 2.420058 ATTTAAAGTGAGGGCCGAGG 57.580 50.000 0.00 0.00 0.00 4.63
2523 2626 4.698304 TGTTAATTTAAAGTGAGGGCCGAG 59.302 41.667 0.00 0.00 0.00 4.63
2524 2627 4.653868 TGTTAATTTAAAGTGAGGGCCGA 58.346 39.130 0.00 0.00 0.00 5.54
2525 2628 5.379732 TTGTTAATTTAAAGTGAGGGCCG 57.620 39.130 0.00 0.00 0.00 6.13
2526 2629 5.637810 GCTTTGTTAATTTAAAGTGAGGGCC 59.362 40.000 0.00 0.00 36.52 5.80
2527 2630 6.455647 AGCTTTGTTAATTTAAAGTGAGGGC 58.544 36.000 0.00 0.00 36.52 5.19
2528 2631 7.886338 AGAGCTTTGTTAATTTAAAGTGAGGG 58.114 34.615 0.00 0.00 36.52 4.30
2611 2718 3.541713 GTGGGGCGGGAGAGCTAG 61.542 72.222 0.00 0.00 37.29 3.42
2657 2764 6.696411 TGGACATGTTTTTATGAAATGGGAC 58.304 36.000 0.00 0.00 0.00 4.46
2666 2773 9.559958 GTGATAGTTTCTGGACATGTTTTTATG 57.440 33.333 0.00 0.00 0.00 1.90
2669 2776 7.823745 AGTGATAGTTTCTGGACATGTTTTT 57.176 32.000 0.00 0.00 0.00 1.94
2848 2990 4.363990 CTGGCGTGCTCACCGTCT 62.364 66.667 0.00 0.00 0.00 4.18
3054 3196 4.988598 CGTGCTCCCGCTGGTTGT 62.989 66.667 0.00 0.00 36.97 3.32
3174 3333 1.954146 GTCGCGTGGAGAAGTGCAA 60.954 57.895 5.77 0.00 0.00 4.08
3175 3334 2.355837 GTCGCGTGGAGAAGTGCA 60.356 61.111 5.77 0.00 0.00 4.57
3184 3343 3.181967 GCTGTAGCTGTCGCGTGG 61.182 66.667 5.77 0.00 42.32 4.94
3275 3434 4.522975 GATTTCGGGGGCCCTGGG 62.523 72.222 31.01 16.35 0.00 4.45
3276 3435 1.641552 TTAGATTTCGGGGGCCCTGG 61.642 60.000 31.01 18.97 0.00 4.45
3277 3436 0.179018 CTTAGATTTCGGGGGCCCTG 60.179 60.000 26.50 26.50 0.00 4.45
3278 3437 1.353394 CCTTAGATTTCGGGGGCCCT 61.353 60.000 24.38 0.28 0.00 5.19
3279 3438 1.150764 CCTTAGATTTCGGGGGCCC 59.849 63.158 15.76 15.76 0.00 5.80
3280 3439 1.150764 CCCTTAGATTTCGGGGGCC 59.849 63.158 0.00 0.00 35.49 5.80
3281 3440 4.900815 CCCTTAGATTTCGGGGGC 57.099 61.111 0.00 0.00 35.49 5.80
3282 3441 1.150764 GGCCCTTAGATTTCGGGGG 59.849 63.158 0.00 0.00 39.27 5.40
3283 3442 1.150764 GGGCCCTTAGATTTCGGGG 59.849 63.158 17.04 0.00 41.64 5.73
3284 3443 1.150764 GGGGCCCTTAGATTTCGGG 59.849 63.158 24.38 0.00 41.06 5.14
3285 3444 1.150764 GGGGGCCCTTAGATTTCGG 59.849 63.158 24.38 0.00 0.00 4.30
3286 3445 2.231642 AGGGGGCCCTTAGATTTCG 58.768 57.895 24.38 0.00 45.70 3.46


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

AutoCloner maintained by Alex Coulton.