Multiple sequence alignment - TraesCS3B01G216000

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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 TraesCS3B01G216000 chr3B 100.000 2766 0 0 1 2766 257104093 257101328 0.000000e+00 5108.0
1 TraesCS3B01G216000 chr3D 92.279 2163 97 20 1 2154 178659492 178657391 0.000000e+00 3005.0
2 TraesCS3B01G216000 chr3D 83.843 687 27 33 2150 2766 178657358 178656686 6.640000e-161 577.0
3 TraesCS3B01G216000 chr3A 92.996 2056 90 30 110 2154 221279801 221277789 0.000000e+00 2950.0
4 TraesCS3B01G216000 chr3A 87.059 340 22 4 2390 2707 221277556 221277217 5.630000e-97 364.0
5 TraesCS3B01G216000 chr3A 86.301 73 2 3 2150 2214 221277757 221277685 3.820000e-09 73.1
6 TraesCS3B01G216000 chr3A 100.000 31 0 0 2273 2303 221277641 221277611 1.070000e-04 58.4
7 TraesCS3B01G216000 chr6B 82.178 101 14 2 462 562 16271535 16271439 1.770000e-12 84.2
8 TraesCS3B01G216000 chr5B 85.333 75 7 2 488 562 556553913 556553983 1.060000e-09 75.0
9 TraesCS3B01G216000 chrUn 100.000 28 0 0 271 298 2363911 2363938 5.000000e-03 52.8


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 TraesCS3B01G216000 chr3B 257101328 257104093 2765 True 5108.000 5108 100.000 1 2766 1 chr3B.!!$R1 2765
1 TraesCS3B01G216000 chr3D 178656686 178659492 2806 True 1791.000 3005 88.061 1 2766 2 chr3D.!!$R1 2765
2 TraesCS3B01G216000 chr3A 221277217 221279801 2584 True 861.375 2950 91.589 110 2707 4 chr3A.!!$R1 2597

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
532 539 0.41027 AAGTTCGACCCCTCTCCTCT 59.59 55.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2343 2421 0.443869 GGCAGCAGAATGTGTGTACG 59.556 55.0 0.0 0.0 39.31 3.67 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
56 57 7.569639 TTGCAATACTTGTAACCAAACACTA 57.430 32.000 0.00 0.00 30.16 2.74
65 66 8.617809 ACTTGTAACCAAACACTAATACAACAG 58.382 33.333 0.00 0.00 31.92 3.16
66 67 6.961576 TGTAACCAAACACTAATACAACAGC 58.038 36.000 0.00 0.00 0.00 4.40
67 68 6.542735 TGTAACCAAACACTAATACAACAGCA 59.457 34.615 0.00 0.00 0.00 4.41
100 102 7.414266 AGAAAAGAGGATTATGGCTTTTACCT 58.586 34.615 0.00 0.00 39.77 3.08
106 108 5.134339 AGGATTATGGCTTTTACCTCCATCA 59.866 40.000 0.00 0.00 40.71 3.07
129 131 2.549349 GGGGGATCGCAAACACGTATAT 60.549 50.000 12.32 0.00 0.00 0.86
208 210 8.279970 TCTTAATGTCAGATTTAACACCATGG 57.720 34.615 11.19 11.19 0.00 3.66
215 217 7.777440 TGTCAGATTTAACACCATGGCATATAA 59.223 33.333 13.04 3.73 0.00 0.98
282 285 8.803235 CAAAATAATAGGGAGCCTAATAAACCC 58.197 37.037 0.00 0.00 39.77 4.11
439 446 8.740123 TCAAAGTTTGACACTAAATACAAGGA 57.260 30.769 14.35 0.00 32.94 3.36
457 464 7.164230 ACAAGGAAGACTAACATGAGAGTAG 57.836 40.000 0.00 0.00 0.00 2.57
460 467 6.971340 AGGAAGACTAACATGAGAGTAGGTA 58.029 40.000 0.00 0.00 0.00 3.08
495 502 2.161078 TAGTCATGGCGGCGTTGTGA 62.161 55.000 9.37 7.45 0.00 3.58
501 508 2.554272 GCGGCGTTGTGATTTCGT 59.446 55.556 9.37 0.00 0.00 3.85
528 535 1.750206 GACCTAAGTTCGACCCCTCTC 59.250 57.143 0.00 0.00 0.00 3.20
529 536 1.112950 CCTAAGTTCGACCCCTCTCC 58.887 60.000 0.00 0.00 0.00 3.71
532 539 0.410270 AAGTTCGACCCCTCTCCTCT 59.590 55.000 0.00 0.00 0.00 3.69
562 569 5.061933 CGAATTCTGTGTCTCACATTCTCTG 59.938 44.000 3.52 0.00 43.71 3.35
583 590 2.227149 GTCCGCGGTTGGTCTAATTTTT 59.773 45.455 27.15 0.00 0.00 1.94
659 666 1.039233 GCATGGATGTGACCAAGGGG 61.039 60.000 0.00 0.00 43.47 4.79
726 733 2.361610 AATCAGCGGCCTGGTTGG 60.362 61.111 0.00 0.00 40.81 3.77
734 741 1.076044 GGCCTGGTTGGTGCCATAT 60.076 57.895 0.00 0.00 44.70 1.78
938 945 3.925914 AACCTCTCCACCCTCCCGG 62.926 68.421 0.00 0.00 37.81 5.73
974 981 2.203422 ATCCGCTCCTCTCCTCGG 60.203 66.667 0.00 0.00 42.96 4.63
976 983 2.203422 CCGCTCCTCTCCTCGGAT 60.203 66.667 0.00 0.00 44.23 4.18
1227 1234 2.154462 GACAACATCTTCCAGTGGGTG 58.846 52.381 9.92 6.30 34.93 4.61
1317 1324 1.610554 GCGACTACCCCTACAAGCCA 61.611 60.000 0.00 0.00 0.00 4.75
1422 1429 2.360350 TCCTCCGCCTACGACGTT 60.360 61.111 5.50 0.00 43.93 3.99
1462 1469 3.073735 AGAGCCTGCTCGGAGGTG 61.074 66.667 13.11 0.00 46.90 4.00
1467 1474 4.749310 CTGCTCGGAGGTGCGCTT 62.749 66.667 9.73 0.00 0.00 4.68
1468 1475 4.742201 TGCTCGGAGGTGCGCTTC 62.742 66.667 9.73 0.00 0.00 3.86
1469 1476 4.443266 GCTCGGAGGTGCGCTTCT 62.443 66.667 9.73 5.78 0.00 2.85
1470 1477 2.262915 CTCGGAGGTGCGCTTCTT 59.737 61.111 9.73 0.00 0.00 2.52
1471 1478 1.511305 CTCGGAGGTGCGCTTCTTA 59.489 57.895 9.73 0.00 0.00 2.10
1472 1479 0.526524 CTCGGAGGTGCGCTTCTTAG 60.527 60.000 9.73 3.58 0.00 2.18
1473 1480 1.215647 CGGAGGTGCGCTTCTTAGT 59.784 57.895 9.73 0.00 0.00 2.24
1477 1484 2.613223 GGAGGTGCGCTTCTTAGTTCTT 60.613 50.000 9.73 0.00 0.00 2.52
1521 1528 3.055819 TCAGATCTGTCCCTACTTGTTGC 60.056 47.826 21.92 0.00 0.00 4.17
1562 1569 6.661777 TGATCTGTGATTCATTATTGGGACA 58.338 36.000 0.00 0.00 0.00 4.02
1582 1589 4.968197 GAGCCGAACAACGACTCT 57.032 55.556 0.00 0.00 45.43 3.24
1639 1646 2.910977 TCAAGAAGGTAAACTCCCCTCC 59.089 50.000 0.00 0.00 0.00 4.30
1644 1651 1.441553 AGGTAAACTCCCCTCCTCCTT 59.558 52.381 0.00 0.00 0.00 3.36
1701 1708 2.799017 TGGTTCTGAATCTGCATGCTT 58.201 42.857 20.33 4.59 0.00 3.91
1857 1864 4.760530 TGGATAGATTCTGGAGTGTTGG 57.239 45.455 0.00 0.00 0.00 3.77
1861 1868 3.045601 AGATTCTGGAGTGTTGGTTCG 57.954 47.619 0.00 0.00 0.00 3.95
1862 1869 2.632996 AGATTCTGGAGTGTTGGTTCGA 59.367 45.455 0.00 0.00 0.00 3.71
1877 1884 5.006153 TGGTTCGATACTTGGACATGTAG 57.994 43.478 0.00 0.00 0.00 2.74
1878 1885 3.802685 GGTTCGATACTTGGACATGTAGC 59.197 47.826 0.00 4.20 0.00 3.58
2008 2022 6.149633 GCGTTCCATAGATTTTCAACTGTTT 58.850 36.000 0.00 0.00 0.00 2.83
2014 2028 9.739276 TCCATAGATTTTCAACTGTTTGATACT 57.261 29.630 0.00 0.00 41.50 2.12
2015 2029 9.994432 CCATAGATTTTCAACTGTTTGATACTC 57.006 33.333 0.00 0.00 41.50 2.59
2016 2030 9.994432 CATAGATTTTCAACTGTTTGATACTCC 57.006 33.333 0.00 0.00 41.50 3.85
2026 2040 4.055360 TGTTTGATACTCCACTTGTGACG 58.945 43.478 1.89 0.00 0.00 4.35
2047 2061 5.970879 ACGTGTAACTGATTCGAGTTTTTC 58.029 37.500 0.00 0.00 37.38 2.29
2097 2115 0.387565 AACGTGGTTGGTTTCATGCC 59.612 50.000 0.00 0.00 0.00 4.40
2167 2222 8.356533 ACATGTAAAAACTCTCTGCAAATTTG 57.643 30.769 14.03 14.03 0.00 2.32
2178 2233 3.991773 TCTGCAAATTTGAGCAAAGCATC 59.008 39.130 22.31 0.55 40.73 3.91
2222 2287 3.214696 AGTGGAGTTTGTCAAGAAGGG 57.785 47.619 0.00 0.00 0.00 3.95
2240 2308 6.561294 AGAAGGGAAATGGATTTTTGGAGTA 58.439 36.000 0.00 0.00 0.00 2.59
2256 2324 2.911484 GAGTATCCCTTGCTTGTGGAG 58.089 52.381 0.00 0.00 0.00 3.86
2258 2326 2.644798 AGTATCCCTTGCTTGTGGAGTT 59.355 45.455 0.00 0.00 0.00 3.01
2259 2327 1.915141 ATCCCTTGCTTGTGGAGTTG 58.085 50.000 0.00 0.00 0.00 3.16
2260 2328 0.550914 TCCCTTGCTTGTGGAGTTGT 59.449 50.000 0.00 0.00 0.00 3.32
2261 2329 0.670162 CCCTTGCTTGTGGAGTTGTG 59.330 55.000 0.00 0.00 0.00 3.33
2263 2331 2.233271 CCTTGCTTGTGGAGTTGTGAT 58.767 47.619 0.00 0.00 0.00 3.06
2264 2332 3.411446 CCTTGCTTGTGGAGTTGTGATA 58.589 45.455 0.00 0.00 0.00 2.15
2265 2333 4.012374 CCTTGCTTGTGGAGTTGTGATAT 58.988 43.478 0.00 0.00 0.00 1.63
2266 2334 5.185454 CCTTGCTTGTGGAGTTGTGATATA 58.815 41.667 0.00 0.00 0.00 0.86
2268 2336 6.150976 CCTTGCTTGTGGAGTTGTGATATAAA 59.849 38.462 0.00 0.00 0.00 1.40
2269 2337 7.309133 CCTTGCTTGTGGAGTTGTGATATAAAA 60.309 37.037 0.00 0.00 0.00 1.52
2270 2338 7.517614 TGCTTGTGGAGTTGTGATATAAAAA 57.482 32.000 0.00 0.00 0.00 1.94
2271 2339 7.592938 TGCTTGTGGAGTTGTGATATAAAAAG 58.407 34.615 0.00 0.00 0.00 2.27
2343 2421 1.822581 AACACGAAACGAAAGCAAGC 58.177 45.000 0.00 0.00 0.00 4.01
2344 2422 0.315869 ACACGAAACGAAAGCAAGCG 60.316 50.000 0.00 0.00 0.00 4.68
2345 2423 0.315869 CACGAAACGAAAGCAAGCGT 60.316 50.000 0.00 0.00 43.39 5.07
2349 2427 2.295696 GAAACGAAAGCAAGCGTACAC 58.704 47.619 0.00 0.00 40.23 2.90
2350 2428 1.292061 AACGAAAGCAAGCGTACACA 58.708 45.000 0.00 0.00 40.23 3.72
2357 2451 1.800586 AGCAAGCGTACACACATTCTG 59.199 47.619 0.00 0.00 0.00 3.02
2369 2463 2.431782 ACACATTCTGCTGCCAAAAGTT 59.568 40.909 0.00 0.00 0.00 2.66
2372 2466 3.322828 ACATTCTGCTGCCAAAAGTTGAT 59.677 39.130 0.00 0.00 0.00 2.57
2374 2468 2.585330 TCTGCTGCCAAAAGTTGATCA 58.415 42.857 0.00 0.00 0.00 2.92
2386 2480 7.522073 GCCAAAAGTTGATCAGTTTCAGTCATA 60.522 37.037 0.00 0.00 0.00 2.15
2388 2482 9.903682 CAAAAGTTGATCAGTTTCAGTCATAAT 57.096 29.630 0.00 0.00 0.00 1.28
2418 2525 2.681848 GCCTTTCTGATGACACTCCATG 59.318 50.000 0.00 0.00 0.00 3.66
2515 2644 2.743928 GCAAGACAGGCCTGACGG 60.744 66.667 39.19 27.78 0.00 4.79
2576 2705 5.565695 CGGTAGTTCGGTCATAAATTTTGG 58.434 41.667 0.00 0.00 0.00 3.28
2600 2729 7.094248 TGGTGGTGTATTCTGAAAAATCATCAG 60.094 37.037 0.00 0.00 44.53 2.90
2611 2740 1.747709 AATCATCAGACTGCAGGCAC 58.252 50.000 24.55 10.95 0.00 5.01
2669 2798 1.627550 GACGAACCTTCCAAGCGCTC 61.628 60.000 12.06 0.00 0.00 5.03
2680 2809 1.966451 AAGCGCTCGGAAACTTGGG 60.966 57.895 12.06 0.00 0.00 4.12
2685 2814 1.866853 GCTCGGAAACTTGGGGCAAG 61.867 60.000 0.00 0.00 45.85 4.01
2715 2844 2.107378 TCTCCCCAGCAAATGTACACAA 59.893 45.455 0.00 0.00 0.00 3.33
2716 2845 2.228822 CTCCCCAGCAAATGTACACAAC 59.771 50.000 0.00 0.00 0.00 3.32
2717 2846 1.959985 CCCCAGCAAATGTACACAACA 59.040 47.619 0.00 0.00 43.86 3.33
2730 2859 6.109156 TGTACACAACATATGAAGGACAGT 57.891 37.500 10.38 1.50 31.22 3.55
2743 2872 1.202698 AGGACAGTTCTGCCAACAGTC 60.203 52.381 10.87 10.87 44.77 3.51
2749 2878 2.143122 GTTCTGCCAACAGTCGATCAA 58.857 47.619 0.00 0.00 44.77 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 8.508883 TGTTGTATTAGTGTTTGGTTACAAGT 57.491 30.769 0.00 0.00 37.97 3.16
40 41 7.589954 GCTGTTGTATTAGTGTTTGGTTACAAG 59.410 37.037 0.00 0.00 37.97 3.16
47 48 6.072112 AGTTGCTGTTGTATTAGTGTTTGG 57.928 37.500 0.00 0.00 0.00 3.28
56 57 1.726791 CTCGCGAGTTGCTGTTGTATT 59.273 47.619 27.79 0.00 43.27 1.89
65 66 0.440371 CCTCTTTTCTCGCGAGTTGC 59.560 55.000 33.33 0.00 41.47 4.17
66 67 2.065993 TCCTCTTTTCTCGCGAGTTG 57.934 50.000 33.33 21.04 0.00 3.16
67 68 3.320673 AATCCTCTTTTCTCGCGAGTT 57.679 42.857 33.33 15.64 0.00 3.01
100 102 1.278302 TTGCGATCCCCCTTGATGGA 61.278 55.000 0.00 0.00 38.35 3.41
106 108 1.674322 CGTGTTTGCGATCCCCCTT 60.674 57.895 0.00 0.00 0.00 3.95
116 118 4.153475 ACACAAGGACATATACGTGTTTGC 59.847 41.667 0.00 0.00 34.06 3.68
129 131 1.545428 GCAATGGAGGACACAAGGACA 60.545 52.381 0.00 0.00 0.00 4.02
233 235 6.851609 TGGATAAAAGTTTGACCATCGATTG 58.148 36.000 0.00 0.00 0.00 2.67
282 285 7.345192 CAAATCAATTATACTCTTTCCGTCCG 58.655 38.462 0.00 0.00 0.00 4.79
368 375 7.015098 TGTCACAGAAATTATGTGGTGGAAATT 59.985 33.333 18.96 0.00 46.43 1.82
419 426 8.379457 AGTCTTCCTTGTATTTAGTGTCAAAC 57.621 34.615 0.00 0.00 0.00 2.93
429 436 8.598041 ACTCTCATGTTAGTCTTCCTTGTATTT 58.402 33.333 0.00 0.00 0.00 1.40
439 446 7.504238 CCATCTACCTACTCTCATGTTAGTCTT 59.496 40.741 6.07 0.00 0.00 3.01
476 483 1.739929 CACAACGCCGCCATGACTA 60.740 57.895 0.00 0.00 0.00 2.59
485 492 1.225368 CGACGAAATCACAACGCCG 60.225 57.895 0.00 0.00 0.00 6.46
501 508 0.674581 TCGAACTTAGGTCGGCTCGA 60.675 55.000 19.95 0.00 31.36 4.04
513 520 0.410270 AGAGGAGAGGGGTCGAACTT 59.590 55.000 0.00 0.00 0.00 2.66
528 535 4.158764 AGACACAGAATTCGACCTAAGAGG 59.841 45.833 0.00 0.00 42.49 3.69
529 536 5.106118 TGAGACACAGAATTCGACCTAAGAG 60.106 44.000 0.00 0.00 0.00 2.85
532 539 4.279922 TGTGAGACACAGAATTCGACCTAA 59.720 41.667 0.00 0.00 39.62 2.69
562 569 1.445871 AAATTAGACCAACCGCGGAC 58.554 50.000 35.90 16.59 0.00 4.79
583 590 6.015772 GGCCAAATTGTTACTCTCCTGTTAAA 60.016 38.462 0.00 0.00 0.00 1.52
938 945 4.359455 GGATCGGATCGGGTCGGC 62.359 72.222 11.62 0.00 0.00 5.54
939 946 4.039357 CGGATCGGATCGGGTCGG 62.039 72.222 15.55 7.03 0.00 4.79
940 947 2.254703 GATCGGATCGGATCGGGTCG 62.255 65.000 22.80 13.43 34.07 4.79
941 948 1.507174 GATCGGATCGGATCGGGTC 59.493 63.158 22.80 19.05 34.07 4.46
942 949 1.977544 GGATCGGATCGGATCGGGT 60.978 63.158 27.38 16.36 43.00 5.28
943 950 2.885861 GGATCGGATCGGATCGGG 59.114 66.667 27.38 12.02 43.00 5.14
974 981 4.626081 CCGTGCGGGGGATGGATC 62.626 72.222 2.15 0.00 31.42 3.36
1155 1162 2.198287 GCCCATCATCAGCGCCATT 61.198 57.895 2.29 0.00 0.00 3.16
1227 1234 2.280186 GATCCGTCGATGGTGCCC 60.280 66.667 22.88 7.45 0.00 5.36
1317 1324 3.530910 CTCGAACCGCACCTTGGGT 62.531 63.158 0.00 0.00 38.44 4.51
1422 1429 1.758514 GGAGAGGAGGATGGTGCGA 60.759 63.158 0.00 0.00 0.00 5.10
1462 1469 4.112716 AGGAGTAAGAACTAAGAAGCGC 57.887 45.455 0.00 0.00 35.56 5.92
1467 1474 7.034967 AGAGAGGAAGGAGTAAGAACTAAGA 57.965 40.000 0.00 0.00 35.56 2.10
1468 1475 6.037830 CGAGAGAGGAAGGAGTAAGAACTAAG 59.962 46.154 0.00 0.00 35.56 2.18
1469 1476 5.881443 CGAGAGAGGAAGGAGTAAGAACTAA 59.119 44.000 0.00 0.00 35.56 2.24
1470 1477 5.045724 ACGAGAGAGGAAGGAGTAAGAACTA 60.046 44.000 0.00 0.00 35.56 2.24
1471 1478 4.263594 ACGAGAGAGGAAGGAGTAAGAACT 60.264 45.833 0.00 0.00 39.21 3.01
1472 1479 4.011698 ACGAGAGAGGAAGGAGTAAGAAC 58.988 47.826 0.00 0.00 0.00 3.01
1473 1480 4.263435 GACGAGAGAGGAAGGAGTAAGAA 58.737 47.826 0.00 0.00 0.00 2.52
1477 1484 1.212441 GGGACGAGAGAGGAAGGAGTA 59.788 57.143 0.00 0.00 0.00 2.59
1521 1528 3.197333 AGATCAGATCAGACCACACAAGG 59.803 47.826 13.14 0.00 0.00 3.61
1562 1569 4.338327 GTCGTTGTTCGGCTCTGT 57.662 55.556 0.00 0.00 41.33 3.41
1582 1589 2.836154 GCCTGTGTGTTGAGGGGA 59.164 61.111 0.00 0.00 0.00 4.81
1639 1646 2.185004 ACATGGGACGTTCAAAGGAG 57.815 50.000 0.00 0.00 0.00 3.69
1644 1651 3.481453 TCAATCAACATGGGACGTTCAA 58.519 40.909 0.00 0.00 0.00 2.69
1701 1708 1.865865 GCACACAAGAAGGAGAACGA 58.134 50.000 0.00 0.00 0.00 3.85
1857 1864 4.504461 CAGCTACATGTCCAAGTATCGAAC 59.496 45.833 0.00 0.00 0.00 3.95
1861 1868 4.408182 ACCAGCTACATGTCCAAGTATC 57.592 45.455 0.00 0.00 0.00 2.24
1862 1869 4.517285 CAACCAGCTACATGTCCAAGTAT 58.483 43.478 0.00 0.00 0.00 2.12
1877 1884 0.449388 CAATCGAAGCTCCAACCAGC 59.551 55.000 0.00 0.00 39.99 4.85
1878 1885 0.449388 GCAATCGAAGCTCCAACCAG 59.551 55.000 6.02 0.00 0.00 4.00
1919 1932 4.214971 AGAACAGCATGACATCAGAAACAC 59.785 41.667 0.00 0.00 39.69 3.32
1985 1998 7.359595 TCAAACAGTTGAAAATCTATGGAACG 58.640 34.615 0.00 0.00 40.87 3.95
1990 2003 9.994432 GGAGTATCAAACAGTTGAAAATCTATG 57.006 33.333 0.00 0.00 46.66 2.23
2008 2022 2.626266 ACACGTCACAAGTGGAGTATCA 59.374 45.455 0.00 0.00 43.41 2.15
2012 2026 2.429610 AGTTACACGTCACAAGTGGAGT 59.570 45.455 0.00 0.00 43.41 3.85
2013 2027 2.794910 CAGTTACACGTCACAAGTGGAG 59.205 50.000 0.00 0.00 43.41 3.86
2014 2028 2.427812 TCAGTTACACGTCACAAGTGGA 59.572 45.455 0.00 0.00 43.41 4.02
2015 2029 2.816689 TCAGTTACACGTCACAAGTGG 58.183 47.619 0.00 0.00 43.41 4.00
2016 2030 4.375005 CGAATCAGTTACACGTCACAAGTG 60.375 45.833 0.00 0.00 44.57 3.16
2026 2040 8.836959 AAAAGAAAAACTCGAATCAGTTACAC 57.163 30.769 0.00 0.00 35.45 2.90
2097 2115 4.279659 GTTGCTCTCGGTTTAAACAGTTG 58.720 43.478 19.57 12.54 0.00 3.16
2167 2222 3.559242 GTCCTATCACAGATGCTTTGCTC 59.441 47.826 0.00 0.00 0.00 4.26
2178 2233 8.047310 ACTTTTTATACCTTGGTCCTATCACAG 58.953 37.037 0.00 0.00 0.00 3.66
2222 2287 7.267857 CAAGGGATACTCCAAAAATCCATTTC 58.732 38.462 3.22 0.00 39.97 2.17
2240 2308 1.145738 ACAACTCCACAAGCAAGGGAT 59.854 47.619 0.00 0.00 0.00 3.85
2251 2319 7.816640 TCTTGCTTTTTATATCACAACTCCAC 58.183 34.615 0.00 0.00 0.00 4.02
2256 2324 9.899226 ACTCTTTCTTGCTTTTTATATCACAAC 57.101 29.630 0.00 0.00 0.00 3.32
2258 2326 9.507329 AGACTCTTTCTTGCTTTTTATATCACA 57.493 29.630 0.00 0.00 0.00 3.58
2266 2334 9.521503 GTTTGAATAGACTCTTTCTTGCTTTTT 57.478 29.630 0.00 0.00 35.55 1.94
2268 2336 7.285401 TGGTTTGAATAGACTCTTTCTTGCTTT 59.715 33.333 0.00 0.00 35.55 3.51
2269 2337 6.772716 TGGTTTGAATAGACTCTTTCTTGCTT 59.227 34.615 0.00 0.00 35.55 3.91
2270 2338 6.299141 TGGTTTGAATAGACTCTTTCTTGCT 58.701 36.000 0.00 0.00 35.55 3.91
2271 2339 6.348868 CCTGGTTTGAATAGACTCTTTCTTGC 60.349 42.308 0.00 0.00 35.55 4.01
2343 2421 0.443869 GGCAGCAGAATGTGTGTACG 59.556 55.000 0.00 0.00 39.31 3.67
2344 2422 1.522668 TGGCAGCAGAATGTGTGTAC 58.477 50.000 0.00 0.00 39.31 2.90
2345 2423 2.268762 TTGGCAGCAGAATGTGTGTA 57.731 45.000 0.00 0.00 39.31 2.90
2349 2427 2.798283 CAACTTTTGGCAGCAGAATGTG 59.202 45.455 0.00 0.00 39.31 3.21
2350 2428 2.694628 TCAACTTTTGGCAGCAGAATGT 59.305 40.909 0.00 0.00 39.31 2.71
2357 2451 3.375782 AACTGATCAACTTTTGGCAGC 57.624 42.857 0.00 0.00 37.14 5.25
2369 2463 9.755804 GATGACTATTATGACTGAAACTGATCA 57.244 33.333 0.00 0.00 0.00 2.92
2372 2466 7.203218 CCGATGACTATTATGACTGAAACTGA 58.797 38.462 0.00 0.00 0.00 3.41
2374 2468 5.986135 GCCGATGACTATTATGACTGAAACT 59.014 40.000 0.00 0.00 0.00 2.66
2386 2480 4.101585 TCATCAGAAAGGCCGATGACTATT 59.898 41.667 14.20 0.00 40.37 1.73
2388 2482 3.031013 TCATCAGAAAGGCCGATGACTA 58.969 45.455 14.20 0.56 40.37 2.59
2418 2525 2.746803 CCGGTGAATTTCGGCGGAC 61.747 63.158 7.21 0.00 39.78 4.79
2424 2531 1.374560 TATGTGCCCGGTGAATTTCG 58.625 50.000 0.00 0.00 0.00 3.46
2515 2644 0.944311 TTTGCGTCTCTCGGTTCAGC 60.944 55.000 0.00 0.00 40.26 4.26
2576 2705 8.044060 TCTGATGATTTTTCAGAATACACCAC 57.956 34.615 1.08 0.00 44.94 4.16
2600 2729 0.029834 CACAACTTGTGCCTGCAGTC 59.970 55.000 13.81 0.00 41.89 3.51
2611 2740 7.837202 ATAATTGATCATTTGCCACAACTTG 57.163 32.000 12.10 0.00 0.00 3.16
2680 2809 1.685148 GGGAGATTGGATGACTTGCC 58.315 55.000 0.00 0.00 0.00 4.52
2685 2814 0.548031 TGCTGGGGAGATTGGATGAC 59.452 55.000 0.00 0.00 0.00 3.06
2715 2844 3.264193 TGGCAGAACTGTCCTTCATATGT 59.736 43.478 1.90 0.00 33.48 2.29
2716 2845 3.877559 TGGCAGAACTGTCCTTCATATG 58.122 45.455 3.97 0.00 33.48 1.78
2717 2846 4.263462 TGTTGGCAGAACTGTCCTTCATAT 60.263 41.667 3.97 0.00 33.48 1.78
2718 2847 3.072330 TGTTGGCAGAACTGTCCTTCATA 59.928 43.478 3.97 0.00 33.48 2.15
2729 2858 1.795768 TGATCGACTGTTGGCAGAAC 58.204 50.000 1.30 0.00 45.28 3.01
2730 2859 2.542020 TTGATCGACTGTTGGCAGAA 57.458 45.000 1.30 0.00 45.28 3.02


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

AutoCloner maintained by Alex Coulton.