Multiple sequence alignment - TraesCS6B01G206300

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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 TraesCS6B01G206300 chr6B 100.000 3119 0 0 1 3119 259088429 259085311 0.000000e+00 5760
1 TraesCS6B01G206300 chr6B 90.307 423 33 3 2352 2767 406693975 406694396 5.880000e-152 547
2 TraesCS6B01G206300 chr6B 88.584 438 42 6 2351 2784 207562748 207562315 2.760000e-145 525
3 TraesCS6B01G206300 chr6B 86.739 460 51 8 2305 2757 483917827 483917371 1.290000e-138 503
4 TraesCS6B01G206300 chr6A 93.283 2367 84 29 9 2329 201090121 201087784 0.000000e+00 3421
5 TraesCS6B01G206300 chr6A 90.265 452 30 8 2351 2789 74229502 74229952 2.090000e-161 579
6 TraesCS6B01G206300 chr6D 97.036 1822 27 3 529 2341 144879107 144877304 0.000000e+00 3040
7 TraesCS6B01G206300 chr6D 94.030 536 6 3 1 536 144894966 144894457 0.000000e+00 789
8 TraesCS6B01G206300 chr6D 91.771 401 23 9 2721 3119 144877340 144876948 1.640000e-152 549
9 TraesCS6B01G206300 chr5B 90.227 440 38 3 2336 2771 113021549 113021987 1.260000e-158 569
10 TraesCS6B01G206300 chr4B 89.357 451 39 4 2332 2774 380995597 380995148 2.720000e-155 558
11 TraesCS6B01G206300 chr1B 88.989 445 45 2 2332 2773 9180546 9180989 5.880000e-152 547
12 TraesCS6B01G206300 chr1B 89.671 426 35 5 2351 2768 205151783 205152207 4.580000e-148 534
13 TraesCS6B01G206300 chr3A 87.973 449 45 5 2332 2772 523845203 523845650 3.560000e-144 521


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 TraesCS6B01G206300 chr6B 259085311 259088429 3118 True 5760.0 5760 100.0000 1 3119 1 chr6B.!!$R2 3118
1 TraesCS6B01G206300 chr6A 201087784 201090121 2337 True 3421.0 3421 93.2830 9 2329 1 chr6A.!!$R1 2320
2 TraesCS6B01G206300 chr6D 144876948 144879107 2159 True 1794.5 3040 94.4035 529 3119 2 chr6D.!!$R2 2590
3 TraesCS6B01G206300 chr6D 144894457 144894966 509 True 789.0 789 94.0300 1 536 1 chr6D.!!$R1 535

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
663 706 0.965866 AGAAGGCGACGTCTCCATGA 60.966 55.0 25.55 0.0 46.77 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2367 2426 0.552848 AACATATCCTGCACCCTGGG 59.447 55.0 12.28 12.28 0.0 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
121 122 4.686091 TCTTGAGCATTCAAACGAGTACAG 59.314 41.667 0.00 0.00 42.48 2.74
440 474 1.135527 CGTTTCCTGACCGCCAGTATA 59.864 52.381 3.03 0.00 41.33 1.47
610 648 2.264794 CGAAACTGGGGACGGAGG 59.735 66.667 0.00 0.00 41.09 4.30
661 704 4.019983 AGAAGGCGACGTCTCCAT 57.980 55.556 25.55 14.90 46.77 3.41
662 705 1.513158 AGAAGGCGACGTCTCCATG 59.487 57.895 25.55 5.19 46.77 3.66
663 706 0.965866 AGAAGGCGACGTCTCCATGA 60.966 55.000 25.55 0.00 46.77 3.07
868 913 1.202855 ACAACTCAGCTCAGCCACAAT 60.203 47.619 0.00 0.00 0.00 2.71
940 994 3.606687 AGCGGATTGTTATCGGTTCTTT 58.393 40.909 0.00 0.00 34.54 2.52
941 995 4.007659 AGCGGATTGTTATCGGTTCTTTT 58.992 39.130 0.00 0.00 34.54 2.27
942 996 4.094442 AGCGGATTGTTATCGGTTCTTTTC 59.906 41.667 0.00 0.00 34.54 2.29
943 997 4.574759 CGGATTGTTATCGGTTCTTTTCG 58.425 43.478 0.00 0.00 0.00 3.46
944 998 4.092383 CGGATTGTTATCGGTTCTTTTCGT 59.908 41.667 0.00 0.00 0.00 3.85
1539 1598 2.156051 GAGGAAGGGTGTTCGTCGCT 62.156 60.000 0.00 0.00 0.00 4.93
1753 1812 1.532604 ATTCGACACAGACGCCTGGA 61.533 55.000 3.10 0.00 44.60 3.86
2253 2312 7.555965 ACTGCAACATGTACTTAGATGATACA 58.444 34.615 0.00 0.00 33.54 2.29
2368 2427 9.515226 AGAGAGAGAGTATTACTATTCATCACC 57.485 37.037 0.00 0.00 0.00 4.02
2369 2428 8.644374 AGAGAGAGTATTACTATTCATCACCC 57.356 38.462 0.00 0.00 0.00 4.61
2370 2429 8.228206 AGAGAGAGTATTACTATTCATCACCCA 58.772 37.037 0.00 0.00 0.00 4.51
2371 2430 8.415950 AGAGAGTATTACTATTCATCACCCAG 57.584 38.462 0.00 0.00 0.00 4.45
2372 2431 7.453126 AGAGAGTATTACTATTCATCACCCAGG 59.547 40.741 0.00 0.00 0.00 4.45
2373 2432 6.498651 AGAGTATTACTATTCATCACCCAGGG 59.501 42.308 2.85 2.85 0.00 4.45
2374 2433 6.151049 AGTATTACTATTCATCACCCAGGGT 58.849 40.000 4.76 4.76 35.62 4.34
2383 2442 4.860835 ACCCAGGGTGCAGGATAT 57.139 55.556 11.70 0.00 32.98 1.63
2384 2443 2.234586 ACCCAGGGTGCAGGATATG 58.765 57.895 11.70 0.00 32.98 1.78
2385 2444 0.624500 ACCCAGGGTGCAGGATATGT 60.625 55.000 11.70 0.00 32.98 2.29
2386 2445 0.552848 CCCAGGGTGCAGGATATGTT 59.447 55.000 0.00 0.00 0.00 2.71
2387 2446 1.774254 CCCAGGGTGCAGGATATGTTA 59.226 52.381 0.00 0.00 0.00 2.41
2388 2447 2.376518 CCCAGGGTGCAGGATATGTTAT 59.623 50.000 0.00 0.00 0.00 1.89
2389 2448 3.181429 CCCAGGGTGCAGGATATGTTATT 60.181 47.826 0.00 0.00 0.00 1.40
2390 2449 4.074970 CCAGGGTGCAGGATATGTTATTC 58.925 47.826 0.00 0.00 0.00 1.75
2391 2450 4.202503 CCAGGGTGCAGGATATGTTATTCT 60.203 45.833 0.00 0.00 0.00 2.40
2392 2451 5.380043 CAGGGTGCAGGATATGTTATTCTT 58.620 41.667 0.00 0.00 0.00 2.52
2393 2452 5.471456 CAGGGTGCAGGATATGTTATTCTTC 59.529 44.000 0.00 0.00 0.00 2.87
2394 2453 5.132648 AGGGTGCAGGATATGTTATTCTTCA 59.867 40.000 0.00 0.00 0.00 3.02
2395 2454 6.006449 GGGTGCAGGATATGTTATTCTTCAT 58.994 40.000 0.00 0.00 0.00 2.57
2396 2455 6.150140 GGGTGCAGGATATGTTATTCTTCATC 59.850 42.308 0.00 0.00 0.00 2.92
2397 2456 6.939163 GGTGCAGGATATGTTATTCTTCATCT 59.061 38.462 0.00 0.00 0.00 2.90
2398 2457 7.094890 GGTGCAGGATATGTTATTCTTCATCTG 60.095 40.741 0.00 0.00 0.00 2.90
2399 2458 7.658982 GTGCAGGATATGTTATTCTTCATCTGA 59.341 37.037 0.00 0.00 0.00 3.27
2400 2459 7.876582 TGCAGGATATGTTATTCTTCATCTGAG 59.123 37.037 0.00 0.00 0.00 3.35
2401 2460 7.333921 GCAGGATATGTTATTCTTCATCTGAGG 59.666 40.741 0.00 0.00 0.00 3.86
2402 2461 8.373981 CAGGATATGTTATTCTTCATCTGAGGT 58.626 37.037 0.00 0.00 0.00 3.85
2403 2462 9.607333 AGGATATGTTATTCTTCATCTGAGGTA 57.393 33.333 0.00 0.00 0.00 3.08
2411 2470 9.967346 TTATTCTTCATCTGAGGTAATCTTACG 57.033 33.333 0.00 0.00 34.50 3.18
2412 2471 7.640597 TTCTTCATCTGAGGTAATCTTACGA 57.359 36.000 0.00 0.00 34.50 3.43
2413 2472 7.825331 TCTTCATCTGAGGTAATCTTACGAT 57.175 36.000 0.00 0.00 34.50 3.73
2414 2473 7.877003 TCTTCATCTGAGGTAATCTTACGATC 58.123 38.462 0.00 0.00 34.50 3.69
2415 2474 7.502561 TCTTCATCTGAGGTAATCTTACGATCA 59.497 37.037 0.00 6.51 34.50 2.92
2416 2475 7.767250 TCATCTGAGGTAATCTTACGATCAT 57.233 36.000 0.00 0.00 32.90 2.45
2417 2476 8.183104 TCATCTGAGGTAATCTTACGATCATT 57.817 34.615 0.00 0.00 32.90 2.57
2418 2477 8.642432 TCATCTGAGGTAATCTTACGATCATTT 58.358 33.333 0.00 0.00 32.90 2.32
2419 2478 8.920665 CATCTGAGGTAATCTTACGATCATTTC 58.079 37.037 0.00 0.00 32.90 2.17
2420 2479 8.007405 TCTGAGGTAATCTTACGATCATTTCA 57.993 34.615 0.00 0.00 32.90 2.69
2421 2480 8.642432 TCTGAGGTAATCTTACGATCATTTCAT 58.358 33.333 0.00 0.00 32.90 2.57
2422 2481 9.914131 CTGAGGTAATCTTACGATCATTTCATA 57.086 33.333 0.00 0.00 32.90 2.15
2516 2575 9.936759 AAAAGTCAAAAGACCAGAAAAATTACA 57.063 25.926 0.00 0.00 0.00 2.41
2676 2735 7.642669 ACGATGCATTGATGTTAAAATAGAGG 58.357 34.615 21.12 0.00 0.00 3.69
2677 2736 7.080099 CGATGCATTGATGTTAAAATAGAGGG 58.920 38.462 8.37 0.00 0.00 4.30
2678 2737 6.713762 TGCATTGATGTTAAAATAGAGGGG 57.286 37.500 0.00 0.00 0.00 4.79
2679 2738 5.598005 TGCATTGATGTTAAAATAGAGGGGG 59.402 40.000 0.00 0.00 0.00 5.40
2697 2756 4.519906 GGGGGTGAAGAATAATTCCTCA 57.480 45.455 0.00 0.00 0.00 3.86
2698 2757 4.207955 GGGGGTGAAGAATAATTCCTCAC 58.792 47.826 0.00 0.00 45.84 3.51
2703 2762 4.884164 GTGAAGAATAATTCCTCACCCAGG 59.116 45.833 0.00 0.00 42.55 4.45
2704 2763 4.079787 TGAAGAATAATTCCTCACCCAGGG 60.080 45.833 2.85 2.85 43.67 4.45
2705 2764 3.474920 AGAATAATTCCTCACCCAGGGT 58.525 45.455 4.76 4.76 43.67 4.34
2715 2774 1.905512 ACCCAGGGTGACGAATAGC 59.094 57.895 11.70 0.00 32.98 2.97
2716 2775 1.956629 ACCCAGGGTGACGAATAGCG 61.957 60.000 11.70 0.00 39.57 4.26
2717 2776 1.883084 CCAGGGTGACGAATAGCGC 60.883 63.158 0.00 0.00 46.04 5.92
2718 2777 2.104331 AGGGTGACGAATAGCGCG 59.896 61.111 0.00 0.00 46.04 6.86
2719 2778 2.202703 GGGTGACGAATAGCGCGT 60.203 61.111 8.43 0.00 46.04 6.01
2720 2779 1.064621 GGGTGACGAATAGCGCGTA 59.935 57.895 8.43 0.00 46.04 4.42
2721 2780 0.318445 GGGTGACGAATAGCGCGTAT 60.318 55.000 8.43 1.36 46.04 3.06
2722 2781 1.069022 GGGTGACGAATAGCGCGTATA 60.069 52.381 8.43 1.12 46.04 1.47
2723 2782 2.415090 GGGTGACGAATAGCGCGTATAT 60.415 50.000 8.43 3.88 46.04 0.86
2724 2783 3.181507 GGGTGACGAATAGCGCGTATATA 60.182 47.826 8.43 0.00 46.04 0.86
2725 2784 4.497006 GGGTGACGAATAGCGCGTATATAT 60.497 45.833 8.43 0.00 46.04 0.86
2726 2785 5.277490 GGGTGACGAATAGCGCGTATATATA 60.277 44.000 8.43 0.00 46.04 0.86
2727 2786 6.369005 GGTGACGAATAGCGCGTATATATAT 58.631 40.000 8.43 0.00 46.04 0.86
2728 2787 7.360353 GGGTGACGAATAGCGCGTATATATATA 60.360 40.741 8.43 0.00 46.04 0.86
2729 2788 8.173775 GGTGACGAATAGCGCGTATATATATAT 58.826 37.037 8.43 10.10 46.04 0.86
2908 2967 4.481112 CCATTGCGCCGGACAAGC 62.481 66.667 5.05 4.99 0.00 4.01
2941 3000 2.951745 GCTCTCCATCGTGCGTCG 60.952 66.667 0.00 0.00 41.41 5.12
2992 3052 7.849804 TTCTTTTCATTATCTTCTTCTCCCG 57.150 36.000 0.00 0.00 0.00 5.14
2993 3053 6.349300 TCTTTTCATTATCTTCTTCTCCCGG 58.651 40.000 0.00 0.00 0.00 5.73
3022 3082 2.550208 CGTAGCAACCACTCCTTTTCCT 60.550 50.000 0.00 0.00 0.00 3.36
3058 3118 3.857854 GCAGTGCATCGGCGTGAG 61.858 66.667 11.09 0.00 45.35 3.51
3063 3123 4.521062 GCATCGGCGTGAGGAGCT 62.521 66.667 6.85 0.00 34.52 4.09
3079 3139 2.355009 CTGTTTTGCTGCCACGGC 60.355 61.111 0.00 0.00 42.35 5.68
3081 3141 4.264638 GTTTTGCTGCCACGGCGT 62.265 61.111 6.77 6.77 45.51 5.68
3082 3142 3.522731 TTTTGCTGCCACGGCGTT 61.523 55.556 11.19 0.00 45.51 4.84
3083 3143 3.764810 TTTTGCTGCCACGGCGTTG 62.765 57.895 11.19 8.70 45.51 4.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
88 89 9.559958 CGTTTGAATGCTCAAGAGTATTTTATT 57.440 29.630 13.37 0.00 42.46 1.40
89 90 8.946085 TCGTTTGAATGCTCAAGAGTATTTTAT 58.054 29.630 13.37 0.00 42.46 1.40
90 91 8.317891 TCGTTTGAATGCTCAAGAGTATTTTA 57.682 30.769 13.37 5.21 42.46 1.52
282 316 1.766143 CGTAAGATTCTGCGGCTGCC 61.766 60.000 16.57 9.11 39.75 4.85
283 317 1.638467 CGTAAGATTCTGCGGCTGC 59.362 57.895 11.65 11.65 40.79 5.25
284 318 2.301505 CCGTAAGATTCTGCGGCTG 58.698 57.895 14.33 0.00 43.02 4.85
419 453 2.742372 CTGGCGGTCAGGAAACGG 60.742 66.667 0.55 0.00 39.76 4.44
433 467 4.184344 TGTCCGGACAGACAGTATACTGG 61.184 52.174 33.23 18.72 41.78 4.00
440 474 0.759436 AGGTTGTCCGGACAGACAGT 60.759 55.000 34.25 21.68 46.90 3.55
610 648 2.093783 GTGCGGCAGTACACTGTAATTC 59.906 50.000 1.18 0.00 45.45 2.17
647 690 2.885861 GTCATGGAGACGTCGCCT 59.114 61.111 33.69 19.33 37.53 5.52
656 699 1.415659 GGTCAGGATGGAGTCATGGAG 59.584 57.143 0.00 0.00 39.07 3.86
657 700 1.273781 TGGTCAGGATGGAGTCATGGA 60.274 52.381 0.00 0.00 39.07 3.41
658 701 1.206878 TGGTCAGGATGGAGTCATGG 58.793 55.000 0.00 0.00 39.07 3.66
659 702 3.572632 ATTGGTCAGGATGGAGTCATG 57.427 47.619 0.00 0.00 39.92 3.07
660 703 4.598036 AAATTGGTCAGGATGGAGTCAT 57.402 40.909 0.00 0.00 36.16 3.06
661 704 4.387026 AAAATTGGTCAGGATGGAGTCA 57.613 40.909 0.00 0.00 36.16 3.41
940 994 3.523547 TCACTCCTTCAAACGAAACGAA 58.476 40.909 0.00 0.00 0.00 3.85
941 995 3.120792 CTCACTCCTTCAAACGAAACGA 58.879 45.455 0.00 0.00 0.00 3.85
942 996 2.348591 GCTCACTCCTTCAAACGAAACG 60.349 50.000 0.00 0.00 0.00 3.60
943 997 2.348591 CGCTCACTCCTTCAAACGAAAC 60.349 50.000 0.00 0.00 0.00 2.78
944 998 1.864711 CGCTCACTCCTTCAAACGAAA 59.135 47.619 0.00 0.00 0.00 3.46
1753 1812 2.665000 CAGCACTGGATCCCACGT 59.335 61.111 9.90 0.54 0.00 4.49
2342 2401 9.515226 GGTGATGAATAGTAATACTCTCTCTCT 57.485 37.037 0.00 0.00 0.00 3.10
2343 2402 8.736244 GGGTGATGAATAGTAATACTCTCTCTC 58.264 40.741 0.00 0.00 0.00 3.20
2344 2403 8.228206 TGGGTGATGAATAGTAATACTCTCTCT 58.772 37.037 0.00 0.00 0.00 3.10
2345 2404 8.410673 TGGGTGATGAATAGTAATACTCTCTC 57.589 38.462 0.00 0.00 0.00 3.20
2346 2405 7.453126 CCTGGGTGATGAATAGTAATACTCTCT 59.547 40.741 0.00 0.00 0.00 3.10
2347 2406 7.310113 CCCTGGGTGATGAATAGTAATACTCTC 60.310 44.444 3.97 0.00 0.00 3.20
2348 2407 6.498651 CCCTGGGTGATGAATAGTAATACTCT 59.501 42.308 3.97 0.00 0.00 3.24
2349 2408 6.270231 ACCCTGGGTGATGAATAGTAATACTC 59.730 42.308 19.82 0.00 32.98 2.59
2350 2409 6.151049 ACCCTGGGTGATGAATAGTAATACT 58.849 40.000 19.82 0.00 32.98 2.12
2351 2410 6.435292 ACCCTGGGTGATGAATAGTAATAC 57.565 41.667 19.82 0.00 32.98 1.89
2366 2425 0.624500 ACATATCCTGCACCCTGGGT 60.625 55.000 14.05 14.05 35.62 4.51
2367 2426 0.552848 AACATATCCTGCACCCTGGG 59.447 55.000 12.28 12.28 0.00 4.45
2368 2427 3.795688 ATAACATATCCTGCACCCTGG 57.204 47.619 0.00 0.00 0.00 4.45
2369 2428 4.978099 AGAATAACATATCCTGCACCCTG 58.022 43.478 0.00 0.00 0.00 4.45
2370 2429 5.132648 TGAAGAATAACATATCCTGCACCCT 59.867 40.000 0.00 0.00 0.00 4.34
2371 2430 5.376625 TGAAGAATAACATATCCTGCACCC 58.623 41.667 0.00 0.00 0.00 4.61
2372 2431 6.939163 AGATGAAGAATAACATATCCTGCACC 59.061 38.462 0.00 0.00 0.00 5.01
2373 2432 7.658982 TCAGATGAAGAATAACATATCCTGCAC 59.341 37.037 0.00 0.00 0.00 4.57
2374 2433 7.738847 TCAGATGAAGAATAACATATCCTGCA 58.261 34.615 0.00 0.00 0.00 4.41
2375 2434 7.333921 CCTCAGATGAAGAATAACATATCCTGC 59.666 40.741 0.00 0.00 0.00 4.85
2376 2435 8.373981 ACCTCAGATGAAGAATAACATATCCTG 58.626 37.037 0.00 0.00 0.00 3.86
2377 2436 8.503428 ACCTCAGATGAAGAATAACATATCCT 57.497 34.615 0.00 0.00 0.00 3.24
2385 2444 9.967346 CGTAAGATTACCTCAGATGAAGAATAA 57.033 33.333 0.00 0.00 43.02 1.40
2386 2445 9.350951 TCGTAAGATTACCTCAGATGAAGAATA 57.649 33.333 0.00 0.00 45.01 1.75
2387 2446 8.239038 TCGTAAGATTACCTCAGATGAAGAAT 57.761 34.615 0.00 0.00 45.01 2.40
2388 2447 7.640597 TCGTAAGATTACCTCAGATGAAGAA 57.359 36.000 0.00 0.00 45.01 2.52
2650 2709 8.773645 CCTCTATTTTAACATCAATGCATCGTA 58.226 33.333 0.00 0.00 0.00 3.43
2651 2710 7.255242 CCCTCTATTTTAACATCAATGCATCGT 60.255 37.037 0.00 0.00 0.00 3.73
2652 2711 7.080099 CCCTCTATTTTAACATCAATGCATCG 58.920 38.462 0.00 0.00 0.00 3.84
2653 2712 7.373493 CCCCTCTATTTTAACATCAATGCATC 58.627 38.462 0.00 0.00 0.00 3.91
2654 2713 6.268387 CCCCCTCTATTTTAACATCAATGCAT 59.732 38.462 0.00 0.00 0.00 3.96
2655 2714 5.598005 CCCCCTCTATTTTAACATCAATGCA 59.402 40.000 0.00 0.00 0.00 3.96
2656 2715 6.089249 CCCCCTCTATTTTAACATCAATGC 57.911 41.667 0.00 0.00 0.00 3.56
2676 2735 4.519906 TGAGGAATTATTCTTCACCCCC 57.480 45.455 14.43 0.00 40.34 5.40
2681 2740 4.079787 CCCTGGGTGAGGAATTATTCTTCA 60.080 45.833 14.43 14.43 46.33 3.02
2682 2741 4.079730 ACCCTGGGTGAGGAATTATTCTTC 60.080 45.833 19.82 9.70 46.33 2.87
2683 2742 3.858638 ACCCTGGGTGAGGAATTATTCTT 59.141 43.478 19.82 0.00 46.33 2.52
2684 2743 3.474920 ACCCTGGGTGAGGAATTATTCT 58.525 45.455 19.82 0.00 46.33 2.40
2685 2744 3.953542 ACCCTGGGTGAGGAATTATTC 57.046 47.619 19.82 0.00 46.33 1.75
2697 2756 1.905512 GCTATTCGTCACCCTGGGT 59.094 57.895 14.05 14.05 35.62 4.51
2698 2757 1.227263 CGCTATTCGTCACCCTGGG 60.227 63.158 12.28 12.28 0.00 4.45
2699 2758 1.883084 GCGCTATTCGTCACCCTGG 60.883 63.158 0.00 0.00 41.07 4.45
2700 2759 2.230940 CGCGCTATTCGTCACCCTG 61.231 63.158 5.56 0.00 41.07 4.45
2701 2760 1.378882 TACGCGCTATTCGTCACCCT 61.379 55.000 5.73 0.00 40.89 4.34
2702 2761 0.318445 ATACGCGCTATTCGTCACCC 60.318 55.000 5.73 0.00 40.89 4.61
2703 2762 2.320805 TATACGCGCTATTCGTCACC 57.679 50.000 5.73 0.00 40.89 4.02
2807 2866 3.020984 GTGTGGGAAAAGTTCACCTCAA 58.979 45.455 0.00 0.00 30.75 3.02
2941 3000 1.522580 GGAAGGAGGAGTGATGCGC 60.523 63.158 0.00 0.00 0.00 6.09
2952 3011 7.054491 TGAAAAGAAAAAGGATTGGAAGGAG 57.946 36.000 0.00 0.00 0.00 3.69
2992 3052 4.130281 GTTGCTACGCGTCGTGCC 62.130 66.667 18.63 3.71 41.39 5.01
2993 3053 4.130281 GGTTGCTACGCGTCGTGC 62.130 66.667 18.63 19.55 41.39 5.34
3016 3076 1.220749 CGGCGGAGATGGAGGAAAA 59.779 57.895 0.00 0.00 0.00 2.29
3045 3105 4.819761 GCTCCTCACGCCGATGCA 62.820 66.667 0.00 0.00 37.32 3.96
3048 3108 2.172483 AAACAGCTCCTCACGCCGAT 62.172 55.000 0.00 0.00 0.00 4.18
3049 3109 2.377628 AAAACAGCTCCTCACGCCGA 62.378 55.000 0.00 0.00 0.00 5.54
3058 3118 1.006922 GTGGCAGCAAAACAGCTCC 60.007 57.895 0.00 0.00 44.54 4.70
3063 3123 4.263209 CGCCGTGGCAGCAAAACA 62.263 61.111 12.06 0.00 42.06 2.83
3092 3152 2.010582 ATGTCTTCTCTCGCCCTCGC 62.011 60.000 0.00 0.00 35.26 5.03


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

AutoCloner maintained by Alex Coulton.