Multiple sequence alignment - TraesCS5A01G195300

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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 TraesCS5A01G195300 chr5A 100.000 2909 0 0 1 2909 398482353 398479445 0.000000e+00 5373.0
1 TraesCS5A01G195300 chr5A 95.602 2274 85 8 1 2270 524675876 524678138 0.000000e+00 3631.0
2 TraesCS5A01G195300 chr6A 96.744 2273 57 4 1 2270 494425301 494427559 0.000000e+00 3771.0
3 TraesCS5A01G195300 chr6A 96.612 2273 62 2 1 2270 554915089 554917349 0.000000e+00 3757.0
4 TraesCS5A01G195300 chr6A 95.599 1386 45 3 889 2270 591845756 591844383 0.000000e+00 2207.0
5 TraesCS5A01G195300 chr6A 95.530 1387 45 4 889 2270 480642668 480641294 0.000000e+00 2202.0
6 TraesCS5A01G195300 chr6A 95.523 1385 46 3 890 2270 87945940 87944568 0.000000e+00 2200.0
7 TraesCS5A01G195300 chr6A 98.301 471 8 0 2433 2903 608069916 608070386 0.000000e+00 826.0
8 TraesCS5A01G195300 chr6A 96.124 129 4 1 2305 2432 40644560 40644432 2.940000e-50 209.0
9 TraesCS5A01G195300 chr6A 96.124 129 4 1 2305 2432 87944569 87944441 2.940000e-50 209.0
10 TraesCS5A01G195300 chr6A 96.124 129 4 1 2305 2432 184603860 184603732 2.940000e-50 209.0
11 TraesCS5A01G195300 chr6A 96.124 129 4 1 2305 2432 494427558 494427686 2.940000e-50 209.0
12 TraesCS5A01G195300 chr6A 96.124 129 4 1 2305 2432 570893863 570893735 2.940000e-50 209.0
13 TraesCS5A01G195300 chr6A 84.974 193 26 3 2433 2623 457327744 457327553 2.960000e-45 193.0
14 TraesCS5A01G195300 chr2A 96.700 2273 52 7 1 2270 58510411 58508159 0.000000e+00 3760.0
15 TraesCS5A01G195300 chr2A 96.524 2273 64 5 1 2270 619881387 619879127 0.000000e+00 3746.0
16 TraesCS5A01G195300 chr2A 96.260 2273 67 5 1 2270 733070590 733072847 0.000000e+00 3711.0
17 TraesCS5A01G195300 chr2A 96.729 2018 49 4 1 2015 614204176 614206179 0.000000e+00 3345.0
18 TraesCS5A01G195300 chr2A 97.904 477 10 0 2433 2909 23986711 23986235 0.000000e+00 826.0
19 TraesCS5A01G195300 chr2A 98.097 473 8 1 2438 2909 497443854 497443382 0.000000e+00 822.0
20 TraesCS5A01G195300 chr2A 96.875 128 3 1 2305 2431 614220541 614220668 2.270000e-51 213.0
21 TraesCS5A01G195300 chr3A 96.394 2274 62 9 1 2270 745750331 745752588 0.000000e+00 3727.0
22 TraesCS5A01G195300 chr3A 85.714 196 25 3 2432 2626 631144851 631144658 1.370000e-48 204.0
23 TraesCS5A01G195300 chr5D 94.660 2191 99 14 85 2270 65964972 65967149 0.000000e+00 3382.0
24 TraesCS5A01G195300 chr2B 88.141 2243 195 39 40 2269 600066660 600064476 0.000000e+00 2603.0
25 TraesCS5A01G195300 chr2B 96.491 171 6 0 2738 2908 189610116 189610286 1.710000e-72 283.0
26 TraesCS5A01G195300 chr6B 95.671 1386 44 3 889 2270 21359701 21361074 0.000000e+00 2213.0
27 TraesCS5A01G195300 chr6B 91.904 457 23 5 2433 2875 9985349 9985805 6.840000e-176 627.0
28 TraesCS5A01G195300 chr6B 90.444 450 28 9 2433 2875 9497060 9496619 1.940000e-161 579.0
29 TraesCS5A01G195300 chr6B 100.000 43 0 0 2867 2909 9495395 9495353 2.400000e-11 80.5
30 TraesCS5A01G195300 chr4A 95.455 1386 47 3 889 2270 593047272 593048645 0.000000e+00 2196.0
31 TraesCS5A01G195300 chr4A 96.687 483 16 0 2427 2909 361830450 361830932 0.000000e+00 804.0
32 TraesCS5A01G195300 chr4A 96.899 129 3 1 2305 2432 66554744 66554872 6.310000e-52 215.0
33 TraesCS5A01G195300 chr7A 96.660 479 15 1 2432 2909 521917746 521918224 0.000000e+00 795.0
34 TraesCS5A01G195300 chrUn 91.685 457 24 5 2433 2875 75925406 75924950 3.180000e-174 621.0
35 TraesCS5A01G195300 chrUn 91.257 366 21 3 2433 2787 476308911 476308546 3.370000e-134 488.0
36 TraesCS5A01G195300 chrUn 96.124 129 4 1 2305 2432 422727139 422727267 2.940000e-50 209.0
37 TraesCS5A01G195300 chr3B 89.000 200 20 2 2433 2631 41040550 41040748 2.240000e-61 246.0
38 TraesCS5A01G195300 chr4B 96.124 129 4 1 2305 2432 14708371 14708499 2.940000e-50 209.0


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 TraesCS5A01G195300 chr5A 398479445 398482353 2908 True 5373.00 5373 100.0000 1 2909 1 chr5A.!!$R1 2908
1 TraesCS5A01G195300 chr5A 524675876 524678138 2262 False 3631.00 3631 95.6020 1 2270 1 chr5A.!!$F1 2269
2 TraesCS5A01G195300 chr6A 554915089 554917349 2260 False 3757.00 3757 96.6120 1 2270 1 chr6A.!!$F1 2269
3 TraesCS5A01G195300 chr6A 591844383 591845756 1373 True 2207.00 2207 95.5990 889 2270 1 chr6A.!!$R6 1381
4 TraesCS5A01G195300 chr6A 480641294 480642668 1374 True 2202.00 2202 95.5300 889 2270 1 chr6A.!!$R4 1381
5 TraesCS5A01G195300 chr6A 494425301 494427686 2385 False 1990.00 3771 96.4340 1 2432 2 chr6A.!!$F3 2431
6 TraesCS5A01G195300 chr6A 87944441 87945940 1499 True 1204.50 2200 95.8235 890 2432 2 chr6A.!!$R7 1542
7 TraesCS5A01G195300 chr2A 58508159 58510411 2252 True 3760.00 3760 96.7000 1 2270 1 chr2A.!!$R2 2269
8 TraesCS5A01G195300 chr2A 619879127 619881387 2260 True 3746.00 3746 96.5240 1 2270 1 chr2A.!!$R4 2269
9 TraesCS5A01G195300 chr2A 733070590 733072847 2257 False 3711.00 3711 96.2600 1 2270 1 chr2A.!!$F3 2269
10 TraesCS5A01G195300 chr2A 614204176 614206179 2003 False 3345.00 3345 96.7290 1 2015 1 chr2A.!!$F1 2014
11 TraesCS5A01G195300 chr3A 745750331 745752588 2257 False 3727.00 3727 96.3940 1 2270 1 chr3A.!!$F1 2269
12 TraesCS5A01G195300 chr5D 65964972 65967149 2177 False 3382.00 3382 94.6600 85 2270 1 chr5D.!!$F1 2185
13 TraesCS5A01G195300 chr2B 600064476 600066660 2184 True 2603.00 2603 88.1410 40 2269 1 chr2B.!!$R1 2229
14 TraesCS5A01G195300 chr6B 21359701 21361074 1373 False 2213.00 2213 95.6710 889 2270 1 chr6B.!!$F2 1381
15 TraesCS5A01G195300 chr6B 9495353 9497060 1707 True 329.75 579 95.2220 2433 2909 2 chr6B.!!$R1 476
16 TraesCS5A01G195300 chr4A 593047272 593048645 1373 False 2196.00 2196 95.4550 889 2270 1 chr4A.!!$F3 1381


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
337 343 0.379669 CATCCTGGCAATTGAGACGC 59.62 55.0 10.34 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2318 2363 0.457851 CTTTGGTCCAAACGGCACAA 59.542 50.0 13.26 0.0 0.0 3.33 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
337 343 0.379669 CATCCTGGCAATTGAGACGC 59.620 55.000 10.34 0.00 0.00 5.19
348 354 4.371786 CAATTGAGACGCCTATTCTAGCA 58.628 43.478 0.00 0.00 0.00 3.49
391 397 5.184096 TGCAACAGGAAAAACACAAGAACTA 59.816 36.000 0.00 0.00 0.00 2.24
392 398 5.743872 GCAACAGGAAAAACACAAGAACTAG 59.256 40.000 0.00 0.00 0.00 2.57
648 660 8.462016 GCAGAAAAATCTGAAAATAGCTCCTTA 58.538 33.333 9.89 0.00 39.99 2.69
778 791 8.615878 ACTGTGCAACTAACATAACAAATCTA 57.384 30.769 0.00 0.00 38.04 1.98
865 879 9.308000 TGGAACTAAGATTATCACAAAATGGTT 57.692 29.630 0.00 0.00 0.00 3.67
1100 1121 6.729690 ACAAGGAAATTGGACAGAAAATGA 57.270 33.333 0.00 0.00 43.68 2.57
1222 1243 2.039480 TCTTTGCAGTCAGAGAGCCATT 59.961 45.455 0.00 0.00 30.86 3.16
1454 1478 3.904717 AGATGAACACCTCTAGACGGAT 58.095 45.455 13.28 1.36 0.00 4.18
1665 1710 9.981114 AGTAAGAAGAAGAAGAAGAAGAAGAAG 57.019 33.333 0.00 0.00 0.00 2.85
1666 1711 9.974980 GTAAGAAGAAGAAGAAGAAGAAGAAGA 57.025 33.333 0.00 0.00 0.00 2.87
1668 1713 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1690 1735 3.449322 GCAAACGCGAGACAATAAAGA 57.551 42.857 15.93 0.00 0.00 2.52
1726 1771 2.664916 CGAAAATGTTGGTGAAGCTGG 58.335 47.619 0.00 0.00 0.00 4.85
2179 2224 3.600388 GTGTCCTATTACTGTGCAGCTT 58.400 45.455 0.00 0.00 0.00 3.74
2270 2315 5.439721 TGCATGTAATGGCAGAGTTCTATT 58.560 37.500 0.00 0.00 46.86 1.73
2272 2317 5.297776 GCATGTAATGGCAGAGTTCTATTGT 59.702 40.000 0.00 0.00 46.86 2.71
2273 2318 6.483307 GCATGTAATGGCAGAGTTCTATTGTA 59.517 38.462 0.00 0.00 46.86 2.41
2274 2319 7.519008 GCATGTAATGGCAGAGTTCTATTGTAC 60.519 40.741 0.00 0.00 46.86 2.90
2275 2320 6.346096 TGTAATGGCAGAGTTCTATTGTACC 58.654 40.000 0.00 0.00 0.00 3.34
2276 2321 3.520290 TGGCAGAGTTCTATTGTACCG 57.480 47.619 0.00 0.00 0.00 4.02
2277 2322 2.829720 TGGCAGAGTTCTATTGTACCGT 59.170 45.455 0.00 0.00 0.00 4.83
2278 2323 3.259876 TGGCAGAGTTCTATTGTACCGTT 59.740 43.478 0.00 0.00 0.00 4.44
2279 2324 4.251268 GGCAGAGTTCTATTGTACCGTTT 58.749 43.478 0.00 0.00 0.00 3.60
2280 2325 4.092968 GGCAGAGTTCTATTGTACCGTTTG 59.907 45.833 0.00 0.00 0.00 2.93
2281 2326 4.689345 GCAGAGTTCTATTGTACCGTTTGT 59.311 41.667 0.00 0.00 0.00 2.83
2282 2327 5.865552 GCAGAGTTCTATTGTACCGTTTGTA 59.134 40.000 0.00 0.00 0.00 2.41
2294 2339 4.924305 ACCGTTTGTACTTGACTACAGA 57.076 40.909 0.00 0.00 0.00 3.41
2295 2340 5.464030 ACCGTTTGTACTTGACTACAGAT 57.536 39.130 0.00 0.00 0.00 2.90
2296 2341 6.579666 ACCGTTTGTACTTGACTACAGATA 57.420 37.500 0.00 0.00 0.00 1.98
2297 2342 6.985117 ACCGTTTGTACTTGACTACAGATAA 58.015 36.000 0.00 0.00 0.00 1.75
2298 2343 7.609056 ACCGTTTGTACTTGACTACAGATAAT 58.391 34.615 0.00 0.00 0.00 1.28
2299 2344 7.544566 ACCGTTTGTACTTGACTACAGATAATG 59.455 37.037 0.00 0.00 0.00 1.90
2300 2345 7.758076 CCGTTTGTACTTGACTACAGATAATGA 59.242 37.037 0.00 0.00 0.00 2.57
2301 2346 9.302345 CGTTTGTACTTGACTACAGATAATGAT 57.698 33.333 0.00 0.00 0.00 2.45
2303 2348 8.648557 TTGTACTTGACTACAGATAATGATGC 57.351 34.615 0.00 0.00 0.00 3.91
2304 2349 7.781056 TGTACTTGACTACAGATAATGATGCA 58.219 34.615 0.00 0.00 0.00 3.96
2305 2350 8.424133 TGTACTTGACTACAGATAATGATGCAT 58.576 33.333 0.00 0.00 0.00 3.96
2306 2351 7.725818 ACTTGACTACAGATAATGATGCATG 57.274 36.000 2.46 0.00 0.00 4.06
2307 2352 7.278135 ACTTGACTACAGATAATGATGCATGT 58.722 34.615 2.46 0.00 0.00 3.21
2318 2363 8.541234 AGATAATGATGCATGTATCTGAGATGT 58.459 33.333 22.15 8.30 33.15 3.06
2328 2374 2.254546 TCTGAGATGTTGTGCCGTTT 57.745 45.000 0.00 0.00 0.00 3.60
2485 2531 8.887036 AAATTTTGTTTCCCTATTTGACACTC 57.113 30.769 0.00 0.00 0.00 3.51
2551 2597 6.040209 TGCCTTTTATAACACTTCCGTCTA 57.960 37.500 0.00 0.00 0.00 2.59
2552 2598 6.646267 TGCCTTTTATAACACTTCCGTCTAT 58.354 36.000 0.00 0.00 0.00 1.98
2553 2599 7.107542 TGCCTTTTATAACACTTCCGTCTATT 58.892 34.615 0.00 0.00 0.00 1.73
2554 2600 7.608761 TGCCTTTTATAACACTTCCGTCTATTT 59.391 33.333 0.00 0.00 0.00 1.40
2555 2601 8.456471 GCCTTTTATAACACTTCCGTCTATTTT 58.544 33.333 0.00 0.00 0.00 1.82
2556 2602 9.769093 CCTTTTATAACACTTCCGTCTATTTTG 57.231 33.333 0.00 0.00 0.00 2.44
2576 2622 7.507733 TTTTGAGCCTTAACGGTGTTAAATA 57.492 32.000 3.98 0.00 34.25 1.40
2577 2623 7.507733 TTTGAGCCTTAACGGTGTTAAATAA 57.492 32.000 3.98 0.00 34.25 1.40
2578 2624 6.484818 TGAGCCTTAACGGTGTTAAATAAC 57.515 37.500 3.98 0.00 36.74 1.89
2593 2639 8.528044 TGTTAAATAACACTTGAAAAGACCCT 57.472 30.769 1.96 0.00 43.08 4.34
2613 2659 4.714308 CCCTTTTGCCCCTAATGTGATTTA 59.286 41.667 0.00 0.00 0.00 1.40
2652 2702 7.991084 ATACTTGCATGCATGTATGATTAGT 57.009 32.000 38.25 28.69 42.11 2.24
2653 2703 6.309712 ACTTGCATGCATGTATGATTAGTC 57.690 37.500 31.27 11.08 33.44 2.59
2675 2725 2.158928 GGGTGTATTGGGTGTATACGCA 60.159 50.000 17.76 5.22 46.51 5.24
2684 2734 3.447944 TGGGTGTATACGCATACAAGACA 59.552 43.478 17.76 7.04 46.60 3.41
2705 2755 2.166870 AGCACACGAATACCCGAATACA 59.833 45.455 0.00 0.00 0.00 2.29
2729 2779 4.635769 CACATGGTATGGTGCGGT 57.364 55.556 0.00 0.00 33.60 5.68
2732 2782 0.546122 ACATGGTATGGTGCGGTCAT 59.454 50.000 0.00 0.00 33.60 3.06
2741 2791 1.160329 GGTGCGGTCATATGTGAGGC 61.160 60.000 1.90 8.07 34.36 4.70
2743 2793 0.251634 TGCGGTCATATGTGAGGCAA 59.748 50.000 13.52 1.42 40.18 4.52
2776 2826 0.112218 AGGTTACATGCAGCAACCCA 59.888 50.000 18.38 0.00 43.56 4.51
2779 2829 1.818060 GTTACATGCAGCAACCCATCA 59.182 47.619 0.00 0.00 0.00 3.07
2838 2889 1.695893 GCACGTACGAGCACATGCAT 61.696 55.000 28.84 0.00 45.16 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
210 214 7.719193 AGGTTGCATTTATTTTAGTTTTTGGCT 59.281 29.630 0.00 0.00 0.00 4.75
337 343 8.186821 CAGATTTCTGGTTTTTGCTAGAATAGG 58.813 37.037 0.00 0.00 38.56 2.57
348 354 7.894934 CTGTTGCACTACAGATTTCTGGTTTTT 60.895 37.037 12.35 0.00 46.72 1.94
391 397 2.648059 GCTTCATTAGCCATGGACACT 58.352 47.619 18.40 5.68 44.48 3.55
555 566 6.605119 AGAAGAAAGAAGAATTGGAGGACAA 58.395 36.000 0.00 0.00 44.54 3.18
639 651 4.224370 AGGTTTCCGTTTCATAAGGAGCTA 59.776 41.667 0.00 0.00 35.23 3.32
648 660 5.160607 TGATCTGTAGGTTTCCGTTTCAT 57.839 39.130 0.00 0.00 0.00 2.57
865 879 7.519032 AAACTTAGTAAATAGGCAGTTGCAA 57.481 32.000 6.43 0.00 44.36 4.08
1100 1121 5.276868 GCTTGCGTGTAATAAACAGATCGAT 60.277 40.000 0.00 0.00 39.29 3.59
1113 1134 2.980562 ACGACTTGCTTGCGTGTAA 58.019 47.368 0.00 0.00 36.83 2.41
1222 1243 2.029020 CGGTTCCTGTGTCATCAAGAGA 60.029 50.000 0.00 0.00 0.00 3.10
1454 1478 1.102154 CAATTCATTGGTGCGGGCTA 58.898 50.000 0.00 0.00 34.22 3.93
1551 1575 5.674035 AGATTTTGGATCTGGAATAGGGTCT 59.326 40.000 0.00 0.00 0.00 3.85
1690 1735 1.896220 TTCGCCTTGCATTCAGTCTT 58.104 45.000 0.00 0.00 0.00 3.01
1726 1771 1.122019 ACCTCCCATCGCCCATCTAC 61.122 60.000 0.00 0.00 0.00 2.59
2179 2224 4.556052 GCACAAATGCGCACATCA 57.444 50.000 14.90 0.00 43.33 3.07
2272 2317 6.579666 ATCTGTAGTCAAGTACAAACGGTA 57.420 37.500 0.00 0.00 32.49 4.02
2273 2318 4.924305 TCTGTAGTCAAGTACAAACGGT 57.076 40.909 0.00 0.00 32.49 4.83
2274 2319 7.758076 TCATTATCTGTAGTCAAGTACAAACGG 59.242 37.037 0.00 0.00 32.49 4.44
2275 2320 8.683550 TCATTATCTGTAGTCAAGTACAAACG 57.316 34.615 0.00 0.00 32.49 3.60
2277 2322 9.098355 GCATCATTATCTGTAGTCAAGTACAAA 57.902 33.333 0.00 0.00 32.49 2.83
2278 2323 8.257306 TGCATCATTATCTGTAGTCAAGTACAA 58.743 33.333 0.00 0.00 32.49 2.41
2279 2324 7.781056 TGCATCATTATCTGTAGTCAAGTACA 58.219 34.615 0.00 0.00 0.00 2.90
2280 2325 8.706936 CATGCATCATTATCTGTAGTCAAGTAC 58.293 37.037 0.00 0.00 0.00 2.73
2281 2326 8.424133 ACATGCATCATTATCTGTAGTCAAGTA 58.576 33.333 0.00 0.00 0.00 2.24
2282 2327 7.278135 ACATGCATCATTATCTGTAGTCAAGT 58.722 34.615 0.00 0.00 0.00 3.16
2283 2328 7.725818 ACATGCATCATTATCTGTAGTCAAG 57.274 36.000 0.00 0.00 0.00 3.02
2284 2329 9.428097 GATACATGCATCATTATCTGTAGTCAA 57.572 33.333 0.00 0.00 0.00 3.18
2285 2330 8.810041 AGATACATGCATCATTATCTGTAGTCA 58.190 33.333 16.22 0.00 30.73 3.41
2286 2331 9.085250 CAGATACATGCATCATTATCTGTAGTC 57.915 37.037 25.31 13.01 37.30 2.59
2287 2332 8.810041 TCAGATACATGCATCATTATCTGTAGT 58.190 33.333 28.56 13.08 39.47 2.73
2288 2333 9.303537 CTCAGATACATGCATCATTATCTGTAG 57.696 37.037 28.56 23.53 39.47 2.74
2289 2334 9.028284 TCTCAGATACATGCATCATTATCTGTA 57.972 33.333 28.56 21.56 39.47 2.74
2290 2335 7.904205 TCTCAGATACATGCATCATTATCTGT 58.096 34.615 28.56 15.73 39.47 3.41
2291 2336 8.821894 CATCTCAGATACATGCATCATTATCTG 58.178 37.037 26.49 26.49 39.60 2.90
2292 2337 8.541234 ACATCTCAGATACATGCATCATTATCT 58.459 33.333 8.63 13.04 31.31 1.98
2293 2338 8.719560 ACATCTCAGATACATGCATCATTATC 57.280 34.615 8.63 3.89 0.00 1.75
2294 2339 8.947115 CAACATCTCAGATACATGCATCATTAT 58.053 33.333 8.63 0.00 0.00 1.28
2295 2340 7.935210 ACAACATCTCAGATACATGCATCATTA 59.065 33.333 8.63 0.00 0.00 1.90
2296 2341 6.771267 ACAACATCTCAGATACATGCATCATT 59.229 34.615 8.63 0.00 0.00 2.57
2297 2342 6.204882 CACAACATCTCAGATACATGCATCAT 59.795 38.462 8.63 0.00 0.00 2.45
2298 2343 5.526111 CACAACATCTCAGATACATGCATCA 59.474 40.000 8.63 0.00 0.00 3.07
2299 2344 5.560375 GCACAACATCTCAGATACATGCATC 60.560 44.000 0.00 0.00 0.00 3.91
2300 2345 4.275196 GCACAACATCTCAGATACATGCAT 59.725 41.667 0.00 0.00 0.00 3.96
2301 2346 3.624410 GCACAACATCTCAGATACATGCA 59.376 43.478 7.25 0.00 0.00 3.96
2302 2347 3.003068 GGCACAACATCTCAGATACATGC 59.997 47.826 0.00 0.00 0.00 4.06
2303 2348 3.246936 CGGCACAACATCTCAGATACATG 59.753 47.826 0.00 0.00 0.00 3.21
2304 2349 3.118629 ACGGCACAACATCTCAGATACAT 60.119 43.478 0.00 0.00 0.00 2.29
2305 2350 2.233676 ACGGCACAACATCTCAGATACA 59.766 45.455 0.00 0.00 0.00 2.29
2306 2351 2.893637 ACGGCACAACATCTCAGATAC 58.106 47.619 0.00 0.00 0.00 2.24
2307 2352 3.610040 AACGGCACAACATCTCAGATA 57.390 42.857 0.00 0.00 0.00 1.98
2318 2363 0.457851 CTTTGGTCCAAACGGCACAA 59.542 50.000 13.26 0.00 0.00 3.33
2328 2374 4.837860 AGATTTGTTATTGCCTTTGGTCCA 59.162 37.500 0.00 0.00 0.00 4.02
2365 2411 3.515502 CCCTCCTTTGTGTCATCTCTACA 59.484 47.826 0.00 0.00 0.00 2.74
2451 2497 9.981114 AATAGGGAAACAAAATTTAAGACTGTG 57.019 29.630 0.00 0.00 0.00 3.66
2492 2538 8.826765 ACCTTGATGTTAGATAAGGAAGAGAAA 58.173 33.333 8.70 0.00 41.71 2.52
2509 2555 9.791801 AAAAGGCATAAAATTTAACCTTGATGT 57.208 25.926 18.26 5.92 37.57 3.06
2545 2591 3.308866 CCGTTAAGGCTCAAAATAGACGG 59.691 47.826 0.00 0.00 41.01 4.79
2551 2597 6.394025 TTTAACACCGTTAAGGCTCAAAAT 57.606 33.333 0.00 0.00 46.52 1.82
2552 2598 5.831702 TTTAACACCGTTAAGGCTCAAAA 57.168 34.783 0.00 0.00 46.52 2.44
2553 2599 7.013083 TGTTATTTAACACCGTTAAGGCTCAAA 59.987 33.333 0.00 0.00 40.93 2.69
2554 2600 6.485984 TGTTATTTAACACCGTTAAGGCTCAA 59.514 34.615 0.00 0.00 40.93 3.02
2555 2601 5.996513 TGTTATTTAACACCGTTAAGGCTCA 59.003 36.000 0.00 0.00 40.93 4.26
2556 2602 6.484818 TGTTATTTAACACCGTTAAGGCTC 57.515 37.500 0.00 0.00 40.93 4.70
2576 2622 4.503910 GCAAAAGGGTCTTTTCAAGTGTT 58.496 39.130 3.00 0.00 0.00 3.32
2577 2623 3.118775 GGCAAAAGGGTCTTTTCAAGTGT 60.119 43.478 3.00 0.00 0.00 3.55
2578 2624 3.457234 GGCAAAAGGGTCTTTTCAAGTG 58.543 45.455 3.00 0.00 0.00 3.16
2581 2627 1.765904 GGGGCAAAAGGGTCTTTTCAA 59.234 47.619 3.00 0.00 0.00 2.69
2593 2639 6.127196 GGTCATAAATCACATTAGGGGCAAAA 60.127 38.462 0.00 0.00 0.00 2.44
2632 2678 4.213906 CCGACTAATCATACATGCATGCAA 59.786 41.667 26.68 15.34 0.00 4.08
2652 2702 2.361757 CGTATACACCCAATACACCCGA 59.638 50.000 3.32 0.00 31.43 5.14
2653 2703 2.746269 CGTATACACCCAATACACCCG 58.254 52.381 3.32 0.00 31.43 5.28
2675 2725 4.181578 GGTATTCGTGTGCTGTCTTGTAT 58.818 43.478 0.00 0.00 0.00 2.29
2684 2734 2.166870 TGTATTCGGGTATTCGTGTGCT 59.833 45.455 0.00 0.00 0.00 4.40
2717 2767 2.143122 CACATATGACCGCACCATACC 58.857 52.381 10.38 0.00 30.26 2.73
2729 2779 6.205464 GCTAATTAGCTTTGCCTCACATATGA 59.795 38.462 26.79 0.00 45.62 2.15
2802 2852 4.375272 ACGTGCTATCTCTTGATGGATTG 58.625 43.478 0.00 0.00 33.64 2.67
2838 2889 3.609853 GATTGGTCATGAAGCTGGTGTA 58.390 45.455 0.00 0.00 0.00 2.90



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

AutoCloner maintained by Alex Coulton.