Multiple sequence alignment - TraesCS3B01G021800

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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 TraesCS3B01G021800 chr3B 100.000 2363 0 0 1 2363 9351059 9348697 0.000000e+00 4364
1 TraesCS3B01G021800 chr3B 97.582 2233 52 2 1 2232 809693435 809691204 0.000000e+00 3823
2 TraesCS3B01G021800 chr7B 97.923 2022 40 2 215 2235 64339550 64337530 0.000000e+00 3500
3 TraesCS3B01G021800 chr7B 93.065 2235 131 13 1 2232 707241844 707244057 0.000000e+00 3247
4 TraesCS3B01G021800 chr7B 88.550 131 15 0 2233 2363 634847262 634847392 2.430000e-35 159
5 TraesCS3B01G021800 chr5A 96.168 1905 70 3 330 2232 17083451 17085354 0.000000e+00 3110
6 TraesCS3B01G021800 chr7A 95.958 1905 74 3 330 2232 372242950 372241047 0.000000e+00 3088
7 TraesCS3B01G021800 chr6D 95.645 1906 71 6 330 2232 315864955 315863059 0.000000e+00 3049
8 TraesCS3B01G021800 chr6D 97.403 231 6 0 1 231 315865205 315864975 6.120000e-106 394
9 TraesCS3B01G021800 chr6D 89.313 131 14 0 2233 2363 119819435 119819305 5.220000e-37 165
10 TraesCS3B01G021800 chr6D 88.281 128 15 0 2233 2360 367124664 367124791 1.130000e-33 154
11 TraesCS3B01G021800 chr3A 94.692 1884 69 4 330 2209 160390699 160392555 0.000000e+00 2896
12 TraesCS3B01G021800 chr3A 95.808 1503 58 3 711 2208 160368049 160369551 0.000000e+00 2422
13 TraesCS3B01G021800 chr1B 97.786 1581 35 0 2 1582 596960103 596958523 0.000000e+00 2726
14 TraesCS3B01G021800 chr1B 88.295 2264 198 25 5 2232 563497181 563499413 0.000000e+00 2651
15 TraesCS3B01G021800 chr1B 90.126 1590 120 22 1 1575 646717492 646719059 0.000000e+00 2032
16 TraesCS3B01G021800 chr1B 87.786 131 16 0 2233 2363 121253969 121253839 1.130000e-33 154
17 TraesCS3B01G021800 chr4D 88.394 2266 196 26 1 2233 157629190 157631421 0.000000e+00 2665
18 TraesCS3B01G021800 chr4B 86.885 2196 199 45 88 2232 366674847 366672690 0.000000e+00 2377
19 TraesCS3B01G021800 chr4B 89.313 131 14 0 2233 2363 107850931 107850801 5.220000e-37 165
20 TraesCS3B01G021800 chr3D 94.996 1219 32 3 1020 2236 555289882 555291073 0.000000e+00 1886
21 TraesCS3B01G021800 chr3D 98.701 231 3 0 1 231 555286873 555287103 6.080000e-111 411
22 TraesCS3B01G021800 chr1A 89.357 855 75 6 1 844 139174214 139175063 0.000000e+00 1061
23 TraesCS3B01G021800 chr4A 87.719 171 18 3 512 681 228137462 228137630 1.850000e-46 196
24 TraesCS3B01G021800 chr6A 90.152 132 12 1 2233 2363 147992572 147992441 1.120000e-38 171
25 TraesCS3B01G021800 chr6A 87.786 131 16 0 2233 2363 555938072 555937942 1.130000e-33 154
26 TraesCS3B01G021800 chr1D 88.550 131 15 0 2233 2363 47929440 47929310 2.430000e-35 159
27 TraesCS3B01G021800 chr7D 87.786 131 16 0 2233 2363 615930249 615930379 1.130000e-33 154


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 TraesCS3B01G021800 chr3B 9348697 9351059 2362 True 4364.0 4364 100.0000 1 2363 1 chr3B.!!$R1 2362
1 TraesCS3B01G021800 chr3B 809691204 809693435 2231 True 3823.0 3823 97.5820 1 2232 1 chr3B.!!$R2 2231
2 TraesCS3B01G021800 chr7B 64337530 64339550 2020 True 3500.0 3500 97.9230 215 2235 1 chr7B.!!$R1 2020
3 TraesCS3B01G021800 chr7B 707241844 707244057 2213 False 3247.0 3247 93.0650 1 2232 1 chr7B.!!$F2 2231
4 TraesCS3B01G021800 chr5A 17083451 17085354 1903 False 3110.0 3110 96.1680 330 2232 1 chr5A.!!$F1 1902
5 TraesCS3B01G021800 chr7A 372241047 372242950 1903 True 3088.0 3088 95.9580 330 2232 1 chr7A.!!$R1 1902
6 TraesCS3B01G021800 chr6D 315863059 315865205 2146 True 1721.5 3049 96.5240 1 2232 2 chr6D.!!$R2 2231
7 TraesCS3B01G021800 chr3A 160390699 160392555 1856 False 2896.0 2896 94.6920 330 2209 1 chr3A.!!$F2 1879
8 TraesCS3B01G021800 chr3A 160368049 160369551 1502 False 2422.0 2422 95.8080 711 2208 1 chr3A.!!$F1 1497
9 TraesCS3B01G021800 chr1B 596958523 596960103 1580 True 2726.0 2726 97.7860 2 1582 1 chr1B.!!$R2 1580
10 TraesCS3B01G021800 chr1B 563497181 563499413 2232 False 2651.0 2651 88.2950 5 2232 1 chr1B.!!$F1 2227
11 TraesCS3B01G021800 chr1B 646717492 646719059 1567 False 2032.0 2032 90.1260 1 1575 1 chr1B.!!$F2 1574
12 TraesCS3B01G021800 chr4D 157629190 157631421 2231 False 2665.0 2665 88.3940 1 2233 1 chr4D.!!$F1 2232
13 TraesCS3B01G021800 chr4B 366672690 366674847 2157 True 2377.0 2377 86.8850 88 2232 1 chr4B.!!$R2 2144
14 TraesCS3B01G021800 chr3D 555286873 555291073 4200 False 1148.5 1886 96.8485 1 2236 2 chr3D.!!$F1 2235
15 TraesCS3B01G021800 chr1A 139174214 139175063 849 False 1061.0 1061 89.3570 1 844 1 chr1A.!!$F1 843

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
589 607 7.759489 TTTATTCAAAGAGTGCCACTACAAT 57.241 32.0 0.0 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2341 4562 0.032678 CGAGGCCAGCTGTCGATATT 59.967 55.0 17.61 0.0 35.7 1.28 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
589 607 7.759489 TTTATTCAAAGAGTGCCACTACAAT 57.241 32.000 0.00 0.00 0.00 2.71
1119 3239 3.874392 ATGTTTCTTAAGCATGTGGGC 57.126 42.857 0.00 0.00 0.00 5.36
1212 3332 2.436824 GAGCTTCGGGCCCTTGTC 60.437 66.667 22.43 6.53 43.05 3.18
1563 3694 4.674362 GCGGATTTGGACATGGAAGTTTAC 60.674 45.833 0.00 0.00 0.00 2.01
1748 3932 2.180276 AGAGTGTAAACGGGCTGAGAT 58.820 47.619 0.00 0.00 0.00 2.75
1889 4080 2.224670 TGGCTCGACAAATTAACTGGGT 60.225 45.455 0.00 0.00 0.00 4.51
2213 4434 6.504398 TGACGGTTTATATCTGTCACAGATC 58.496 40.000 24.00 9.11 46.83 2.75
2236 4457 4.153117 CAGCAGGTTTCTTGTAGTGTCATC 59.847 45.833 0.00 0.00 0.00 2.92
2237 4458 3.123621 GCAGGTTTCTTGTAGTGTCATCG 59.876 47.826 0.00 0.00 0.00 3.84
2238 4459 3.679980 CAGGTTTCTTGTAGTGTCATCGG 59.320 47.826 0.00 0.00 0.00 4.18
2239 4460 2.415512 GGTTTCTTGTAGTGTCATCGGC 59.584 50.000 0.00 0.00 0.00 5.54
2240 4461 1.990799 TTCTTGTAGTGTCATCGGCG 58.009 50.000 0.00 0.00 0.00 6.46
2241 4462 0.885879 TCTTGTAGTGTCATCGGCGT 59.114 50.000 6.85 0.00 0.00 5.68
2242 4463 2.086094 TCTTGTAGTGTCATCGGCGTA 58.914 47.619 6.85 0.00 0.00 4.42
2243 4464 2.096980 TCTTGTAGTGTCATCGGCGTAG 59.903 50.000 6.85 0.15 0.00 3.51
2244 4465 1.456296 TGTAGTGTCATCGGCGTAGT 58.544 50.000 6.85 0.00 0.00 2.73
2245 4466 1.814394 TGTAGTGTCATCGGCGTAGTT 59.186 47.619 6.85 0.00 0.00 2.24
2246 4467 3.009026 TGTAGTGTCATCGGCGTAGTTA 58.991 45.455 6.85 0.00 0.00 2.24
2247 4468 2.846039 AGTGTCATCGGCGTAGTTAG 57.154 50.000 6.85 0.00 0.00 2.34
2248 4469 1.404391 AGTGTCATCGGCGTAGTTAGG 59.596 52.381 6.85 0.00 0.00 2.69
2249 4470 0.101759 TGTCATCGGCGTAGTTAGGC 59.898 55.000 6.85 0.00 36.43 3.93
2255 4476 2.601562 GGCGTAGTTAGGCGGAATG 58.398 57.895 0.00 0.00 37.92 2.67
2256 4477 0.179092 GGCGTAGTTAGGCGGAATGT 60.179 55.000 0.00 0.00 37.92 2.71
2257 4478 1.206523 GCGTAGTTAGGCGGAATGTC 58.793 55.000 0.00 0.00 0.00 3.06
2258 4479 1.474017 CGTAGTTAGGCGGAATGTCG 58.526 55.000 0.00 0.00 0.00 4.35
2259 4480 1.202222 CGTAGTTAGGCGGAATGTCGT 60.202 52.381 0.00 0.00 0.00 4.34
2260 4481 2.032054 CGTAGTTAGGCGGAATGTCGTA 59.968 50.000 0.00 0.00 0.00 3.43
2261 4482 3.304257 CGTAGTTAGGCGGAATGTCGTAT 60.304 47.826 0.00 0.00 0.00 3.06
2262 4483 3.093717 AGTTAGGCGGAATGTCGTATG 57.906 47.619 0.00 0.00 0.00 2.39
2263 4484 1.525619 GTTAGGCGGAATGTCGTATGC 59.474 52.381 0.00 0.00 0.00 3.14
2264 4485 0.747852 TAGGCGGAATGTCGTATGCA 59.252 50.000 0.00 0.00 0.00 3.96
2265 4486 0.107897 AGGCGGAATGTCGTATGCAA 60.108 50.000 0.00 0.00 0.00 4.08
2266 4487 0.944386 GGCGGAATGTCGTATGCAAT 59.056 50.000 0.00 0.00 0.00 3.56
2267 4488 1.333619 GGCGGAATGTCGTATGCAATT 59.666 47.619 0.00 0.00 0.00 2.32
2268 4489 2.546368 GGCGGAATGTCGTATGCAATTA 59.454 45.455 0.00 0.00 0.00 1.40
2269 4490 3.541711 GCGGAATGTCGTATGCAATTAC 58.458 45.455 0.00 0.00 0.00 1.89
2270 4491 3.247648 GCGGAATGTCGTATGCAATTACT 59.752 43.478 0.00 0.00 0.00 2.24
2271 4492 4.608445 GCGGAATGTCGTATGCAATTACTC 60.608 45.833 0.00 0.00 0.00 2.59
2272 4493 4.375005 CGGAATGTCGTATGCAATTACTCG 60.375 45.833 0.00 0.00 0.00 4.18
2273 4494 4.446234 GAATGTCGTATGCAATTACTCGC 58.554 43.478 0.00 0.00 0.00 5.03
2274 4495 2.882324 TGTCGTATGCAATTACTCGCA 58.118 42.857 0.00 0.00 43.45 5.10
2276 4497 4.612943 TGTCGTATGCAATTACTCGCATA 58.387 39.130 4.53 4.53 46.73 3.14
2280 4501 2.323968 TGCAATTACTCGCATAGCCA 57.676 45.000 0.00 0.00 31.95 4.75
2281 4502 1.939934 TGCAATTACTCGCATAGCCAC 59.060 47.619 0.00 0.00 31.95 5.01
2282 4503 1.264288 GCAATTACTCGCATAGCCACC 59.736 52.381 0.00 0.00 0.00 4.61
2283 4504 1.526887 CAATTACTCGCATAGCCACCG 59.473 52.381 0.00 0.00 0.00 4.94
2284 4505 0.033504 ATTACTCGCATAGCCACCGG 59.966 55.000 0.00 0.00 0.00 5.28
2285 4506 2.023414 TTACTCGCATAGCCACCGGG 62.023 60.000 6.32 0.00 37.18 5.73
2286 4507 2.914756 TACTCGCATAGCCACCGGGA 62.915 60.000 6.32 0.00 35.59 5.14
2287 4508 2.842462 TCGCATAGCCACCGGGAT 60.842 61.111 6.32 0.00 35.59 3.85
2288 4509 2.111043 CGCATAGCCACCGGGATT 59.889 61.111 6.32 0.00 35.59 3.01
2289 4510 1.525995 CGCATAGCCACCGGGATTT 60.526 57.895 6.32 0.00 35.59 2.17
2290 4511 1.101049 CGCATAGCCACCGGGATTTT 61.101 55.000 6.32 0.00 35.59 1.82
2291 4512 0.668535 GCATAGCCACCGGGATTTTC 59.331 55.000 6.32 0.00 35.59 2.29
2292 4513 1.750682 GCATAGCCACCGGGATTTTCT 60.751 52.381 6.32 0.00 35.59 2.52
2293 4514 1.949525 CATAGCCACCGGGATTTTCTG 59.050 52.381 6.32 0.00 35.59 3.02
2294 4515 1.281419 TAGCCACCGGGATTTTCTGA 58.719 50.000 6.32 0.00 35.59 3.27
2295 4516 0.625849 AGCCACCGGGATTTTCTGAT 59.374 50.000 6.32 0.00 35.59 2.90
2296 4517 1.843851 AGCCACCGGGATTTTCTGATA 59.156 47.619 6.32 0.00 35.59 2.15
2297 4518 2.443255 AGCCACCGGGATTTTCTGATAT 59.557 45.455 6.32 0.00 35.59 1.63
2298 4519 2.554032 GCCACCGGGATTTTCTGATATG 59.446 50.000 6.32 0.00 35.59 1.78
2299 4520 2.554032 CCACCGGGATTTTCTGATATGC 59.446 50.000 6.32 0.00 35.59 3.14
2300 4521 3.213506 CACCGGGATTTTCTGATATGCA 58.786 45.455 6.32 0.00 0.00 3.96
2301 4522 3.003689 CACCGGGATTTTCTGATATGCAC 59.996 47.826 6.32 0.00 0.00 4.57
2302 4523 3.117888 ACCGGGATTTTCTGATATGCACT 60.118 43.478 6.32 0.00 0.00 4.40
2303 4524 4.102524 ACCGGGATTTTCTGATATGCACTA 59.897 41.667 6.32 0.00 0.00 2.74
2304 4525 5.063204 CCGGGATTTTCTGATATGCACTAA 58.937 41.667 0.00 0.00 0.00 2.24
2305 4526 5.530915 CCGGGATTTTCTGATATGCACTAAA 59.469 40.000 0.00 0.00 0.00 1.85
2306 4527 6.207417 CCGGGATTTTCTGATATGCACTAAAT 59.793 38.462 0.00 0.00 0.00 1.40
2307 4528 7.301054 CGGGATTTTCTGATATGCACTAAATC 58.699 38.462 0.00 0.00 34.05 2.17
2308 4529 7.573843 CGGGATTTTCTGATATGCACTAAATCC 60.574 40.741 13.84 13.84 43.03 3.01
2309 4530 7.597386 GGATTTTCTGATATGCACTAAATCCC 58.403 38.462 12.17 0.00 40.84 3.85
2310 4531 7.449704 GGATTTTCTGATATGCACTAAATCCCT 59.550 37.037 12.17 0.00 40.84 4.20
2311 4532 8.773033 ATTTTCTGATATGCACTAAATCCCTT 57.227 30.769 0.00 0.00 0.00 3.95
2312 4533 7.807977 TTTCTGATATGCACTAAATCCCTTC 57.192 36.000 0.00 0.00 0.00 3.46
2313 4534 6.499106 TCTGATATGCACTAAATCCCTTCA 57.501 37.500 0.00 0.00 0.00 3.02
2314 4535 6.899089 TCTGATATGCACTAAATCCCTTCAA 58.101 36.000 0.00 0.00 0.00 2.69
2315 4536 6.994496 TCTGATATGCACTAAATCCCTTCAAG 59.006 38.462 0.00 0.00 0.00 3.02
2316 4537 5.532406 TGATATGCACTAAATCCCTTCAAGC 59.468 40.000 0.00 0.00 0.00 4.01
2317 4538 2.446435 TGCACTAAATCCCTTCAAGCC 58.554 47.619 0.00 0.00 0.00 4.35
2318 4539 1.751351 GCACTAAATCCCTTCAAGCCC 59.249 52.381 0.00 0.00 0.00 5.19
2319 4540 2.017049 CACTAAATCCCTTCAAGCCCG 58.983 52.381 0.00 0.00 0.00 6.13
2320 4541 1.633945 ACTAAATCCCTTCAAGCCCGT 59.366 47.619 0.00 0.00 0.00 5.28
2321 4542 2.017049 CTAAATCCCTTCAAGCCCGTG 58.983 52.381 0.00 0.00 0.00 4.94
2322 4543 0.404040 AAATCCCTTCAAGCCCGTGA 59.596 50.000 0.00 0.00 0.00 4.35
2323 4544 0.322546 AATCCCTTCAAGCCCGTGAC 60.323 55.000 0.00 0.00 0.00 3.67
2324 4545 1.488705 ATCCCTTCAAGCCCGTGACA 61.489 55.000 0.00 0.00 0.00 3.58
2325 4546 1.002134 CCCTTCAAGCCCGTGACAT 60.002 57.895 0.00 0.00 0.00 3.06
2326 4547 0.609131 CCCTTCAAGCCCGTGACATT 60.609 55.000 0.00 0.00 0.00 2.71
2327 4548 1.247567 CCTTCAAGCCCGTGACATTT 58.752 50.000 0.00 0.00 0.00 2.32
2328 4549 1.200020 CCTTCAAGCCCGTGACATTTC 59.800 52.381 0.00 0.00 0.00 2.17
2329 4550 2.154462 CTTCAAGCCCGTGACATTTCT 58.846 47.619 0.00 0.00 0.00 2.52
2330 4551 2.270352 TCAAGCCCGTGACATTTCTT 57.730 45.000 0.00 0.00 0.00 2.52
2331 4552 2.151202 TCAAGCCCGTGACATTTCTTC 58.849 47.619 0.00 0.00 0.00 2.87
2332 4553 2.154462 CAAGCCCGTGACATTTCTTCT 58.846 47.619 0.00 0.00 0.00 2.85
2333 4554 2.554032 CAAGCCCGTGACATTTCTTCTT 59.446 45.455 0.00 0.00 0.00 2.52
2334 4555 2.863809 AGCCCGTGACATTTCTTCTTT 58.136 42.857 0.00 0.00 0.00 2.52
2335 4556 2.554032 AGCCCGTGACATTTCTTCTTTG 59.446 45.455 0.00 0.00 0.00 2.77
2336 4557 2.552315 GCCCGTGACATTTCTTCTTTGA 59.448 45.455 0.00 0.00 0.00 2.69
2337 4558 3.365364 GCCCGTGACATTTCTTCTTTGAG 60.365 47.826 0.00 0.00 0.00 3.02
2338 4559 3.815401 CCCGTGACATTTCTTCTTTGAGT 59.185 43.478 0.00 0.00 0.00 3.41
2339 4560 4.319766 CCCGTGACATTTCTTCTTTGAGTG 60.320 45.833 0.00 0.00 0.00 3.51
2340 4561 4.511454 CCGTGACATTTCTTCTTTGAGTGA 59.489 41.667 0.00 0.00 0.00 3.41
2341 4562 5.007626 CCGTGACATTTCTTCTTTGAGTGAA 59.992 40.000 0.00 0.00 0.00 3.18
2342 4563 6.458206 CCGTGACATTTCTTCTTTGAGTGAAA 60.458 38.462 0.00 0.00 33.74 2.69
2343 4564 7.134815 CGTGACATTTCTTCTTTGAGTGAAAT 58.865 34.615 0.00 0.00 38.99 2.17
2344 4565 8.282592 CGTGACATTTCTTCTTTGAGTGAAATA 58.717 33.333 0.00 0.00 37.12 1.40
2347 4568 9.483062 GACATTTCTTCTTTGAGTGAAATATCG 57.517 33.333 0.00 0.00 37.12 2.92
2348 4569 9.219603 ACATTTCTTCTTTGAGTGAAATATCGA 57.780 29.630 0.00 0.00 37.12 3.59
2349 4570 9.483062 CATTTCTTCTTTGAGTGAAATATCGAC 57.517 33.333 0.00 0.00 37.12 4.20
2350 4571 8.601845 TTTCTTCTTTGAGTGAAATATCGACA 57.398 30.769 0.00 0.00 0.00 4.35
2351 4572 7.818493 TCTTCTTTGAGTGAAATATCGACAG 57.182 36.000 0.00 0.00 0.00 3.51
2352 4573 6.311445 TCTTCTTTGAGTGAAATATCGACAGC 59.689 38.462 0.00 0.00 0.00 4.40
2353 4574 5.724328 TCTTTGAGTGAAATATCGACAGCT 58.276 37.500 0.00 0.00 0.00 4.24
2354 4575 5.578336 TCTTTGAGTGAAATATCGACAGCTG 59.422 40.000 13.48 13.48 0.00 4.24
2355 4576 3.785486 TGAGTGAAATATCGACAGCTGG 58.215 45.455 19.93 0.36 0.00 4.85
2356 4577 2.541762 GAGTGAAATATCGACAGCTGGC 59.458 50.000 19.93 15.62 0.00 4.85
2357 4578 1.599542 GTGAAATATCGACAGCTGGCC 59.400 52.381 19.93 8.50 0.00 5.36
2358 4579 1.486310 TGAAATATCGACAGCTGGCCT 59.514 47.619 19.93 6.60 0.00 5.19
2359 4580 2.139118 GAAATATCGACAGCTGGCCTC 58.861 52.381 19.93 5.66 0.00 4.70
2360 4581 0.032678 AATATCGACAGCTGGCCTCG 59.967 55.000 19.93 18.06 0.00 4.63
2361 4582 2.427540 ATATCGACAGCTGGCCTCGC 62.428 60.000 19.93 6.93 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 3.638484 ACTTGAGCACGGTTATTTTTGC 58.362 40.909 0.00 0.00 35.08 3.68
589 607 3.500680 CGGTGTAGCCTTTCTTTTTGCTA 59.499 43.478 0.00 0.00 35.34 3.49
958 1014 4.453136 GCAAATGAACATGGTGAGCAAAAT 59.547 37.500 0.00 0.00 0.00 1.82
1212 3332 7.041644 TCCTGTAACTTATTGTTCAAGGTTTCG 60.042 37.037 0.00 0.00 39.99 3.46
1748 3932 3.642141 TCTGATGGTCCAGTATGCTGTA 58.358 45.455 10.09 0.00 41.02 2.74
1889 4080 3.827722 CCCTTTGGGCCTATAATTTCGA 58.172 45.455 4.53 0.00 35.35 3.71
2213 4434 3.466836 TGACACTACAAGAAACCTGCTG 58.533 45.455 0.00 0.00 0.00 4.41
2236 4457 1.066918 ATTCCGCCTAACTACGCCG 59.933 57.895 0.00 0.00 0.00 6.46
2237 4458 0.179092 ACATTCCGCCTAACTACGCC 60.179 55.000 0.00 0.00 0.00 5.68
2238 4459 1.206523 GACATTCCGCCTAACTACGC 58.793 55.000 0.00 0.00 0.00 4.42
2239 4460 1.202222 ACGACATTCCGCCTAACTACG 60.202 52.381 0.00 0.00 0.00 3.51
2240 4461 2.573941 ACGACATTCCGCCTAACTAC 57.426 50.000 0.00 0.00 0.00 2.73
2241 4462 3.551454 GCATACGACATTCCGCCTAACTA 60.551 47.826 0.00 0.00 0.00 2.24
2242 4463 2.802057 GCATACGACATTCCGCCTAACT 60.802 50.000 0.00 0.00 0.00 2.24
2243 4464 1.525619 GCATACGACATTCCGCCTAAC 59.474 52.381 0.00 0.00 0.00 2.34
2244 4465 1.137282 TGCATACGACATTCCGCCTAA 59.863 47.619 0.00 0.00 0.00 2.69
2245 4466 0.747852 TGCATACGACATTCCGCCTA 59.252 50.000 0.00 0.00 0.00 3.93
2246 4467 0.107897 TTGCATACGACATTCCGCCT 60.108 50.000 0.00 0.00 0.00 5.52
2247 4468 0.944386 ATTGCATACGACATTCCGCC 59.056 50.000 0.00 0.00 0.00 6.13
2248 4469 2.755836 AATTGCATACGACATTCCGC 57.244 45.000 0.00 0.00 0.00 5.54
2249 4470 4.375005 CGAGTAATTGCATACGACATTCCG 60.375 45.833 0.00 0.00 0.00 4.30
2250 4471 4.608445 GCGAGTAATTGCATACGACATTCC 60.608 45.833 0.00 0.00 0.00 3.01
2251 4472 4.026062 TGCGAGTAATTGCATACGACATTC 60.026 41.667 0.00 0.00 35.90 2.67
2252 4473 3.868661 TGCGAGTAATTGCATACGACATT 59.131 39.130 0.00 0.00 35.90 2.71
2253 4474 3.453424 TGCGAGTAATTGCATACGACAT 58.547 40.909 0.00 0.00 35.90 3.06
2254 4475 2.882324 TGCGAGTAATTGCATACGACA 58.118 42.857 0.00 6.47 35.90 4.35
2261 4482 1.939934 GTGGCTATGCGAGTAATTGCA 59.060 47.619 7.68 7.68 46.51 4.08
2262 4483 1.264288 GGTGGCTATGCGAGTAATTGC 59.736 52.381 0.00 0.00 0.00 3.56
2263 4484 1.526887 CGGTGGCTATGCGAGTAATTG 59.473 52.381 0.00 0.00 0.00 2.32
2264 4485 1.540363 CCGGTGGCTATGCGAGTAATT 60.540 52.381 0.00 0.00 0.00 1.40
2265 4486 0.033504 CCGGTGGCTATGCGAGTAAT 59.966 55.000 0.00 0.00 0.00 1.89
2266 4487 1.440060 CCGGTGGCTATGCGAGTAA 59.560 57.895 0.00 0.00 0.00 2.24
2267 4488 2.495409 CCCGGTGGCTATGCGAGTA 61.495 63.158 0.00 0.00 0.00 2.59
2268 4489 3.849951 CCCGGTGGCTATGCGAGT 61.850 66.667 0.00 0.00 0.00 4.18
2269 4490 2.383245 AATCCCGGTGGCTATGCGAG 62.383 60.000 0.00 0.00 0.00 5.03
2270 4491 1.978455 AAATCCCGGTGGCTATGCGA 61.978 55.000 0.00 0.00 0.00 5.10
2271 4492 1.101049 AAAATCCCGGTGGCTATGCG 61.101 55.000 0.00 0.00 0.00 4.73
2272 4493 0.668535 GAAAATCCCGGTGGCTATGC 59.331 55.000 0.00 0.00 0.00 3.14
2273 4494 1.949525 CAGAAAATCCCGGTGGCTATG 59.050 52.381 0.00 0.00 0.00 2.23
2274 4495 1.843851 TCAGAAAATCCCGGTGGCTAT 59.156 47.619 0.00 0.00 0.00 2.97
2275 4496 1.281419 TCAGAAAATCCCGGTGGCTA 58.719 50.000 0.00 0.00 0.00 3.93
2276 4497 0.625849 ATCAGAAAATCCCGGTGGCT 59.374 50.000 0.00 0.00 0.00 4.75
2277 4498 2.341846 TATCAGAAAATCCCGGTGGC 57.658 50.000 0.00 0.00 0.00 5.01
2278 4499 2.554032 GCATATCAGAAAATCCCGGTGG 59.446 50.000 0.00 0.00 0.00 4.61
2279 4500 3.003689 GTGCATATCAGAAAATCCCGGTG 59.996 47.826 0.00 0.00 0.00 4.94
2280 4501 3.117888 AGTGCATATCAGAAAATCCCGGT 60.118 43.478 0.00 0.00 0.00 5.28
2281 4502 3.480470 AGTGCATATCAGAAAATCCCGG 58.520 45.455 0.00 0.00 0.00 5.73
2282 4503 6.618287 TTTAGTGCATATCAGAAAATCCCG 57.382 37.500 0.00 0.00 0.00 5.14
2283 4504 7.597386 GGATTTAGTGCATATCAGAAAATCCC 58.403 38.462 11.20 0.00 43.32 3.85
2284 4505 7.449704 AGGGATTTAGTGCATATCAGAAAATCC 59.550 37.037 13.12 13.12 45.46 3.01
2285 4506 8.401490 AGGGATTTAGTGCATATCAGAAAATC 57.599 34.615 0.00 0.00 36.84 2.17
2286 4507 8.773033 AAGGGATTTAGTGCATATCAGAAAAT 57.227 30.769 0.00 0.00 0.00 1.82
2287 4508 7.833682 TGAAGGGATTTAGTGCATATCAGAAAA 59.166 33.333 0.00 0.00 0.00 2.29
2288 4509 7.345691 TGAAGGGATTTAGTGCATATCAGAAA 58.654 34.615 0.00 0.00 0.00 2.52
2289 4510 6.899089 TGAAGGGATTTAGTGCATATCAGAA 58.101 36.000 0.00 0.00 0.00 3.02
2290 4511 6.499106 TGAAGGGATTTAGTGCATATCAGA 57.501 37.500 0.00 0.00 0.00 3.27
2291 4512 6.293845 GCTTGAAGGGATTTAGTGCATATCAG 60.294 42.308 0.00 0.00 0.00 2.90
2292 4513 5.532406 GCTTGAAGGGATTTAGTGCATATCA 59.468 40.000 0.00 0.00 0.00 2.15
2293 4514 5.048434 GGCTTGAAGGGATTTAGTGCATATC 60.048 44.000 0.00 0.00 0.00 1.63
2294 4515 4.829492 GGCTTGAAGGGATTTAGTGCATAT 59.171 41.667 0.00 0.00 0.00 1.78
2295 4516 4.207165 GGCTTGAAGGGATTTAGTGCATA 58.793 43.478 0.00 0.00 0.00 3.14
2296 4517 3.026694 GGCTTGAAGGGATTTAGTGCAT 58.973 45.455 0.00 0.00 0.00 3.96
2297 4518 2.446435 GGCTTGAAGGGATTTAGTGCA 58.554 47.619 0.00 0.00 0.00 4.57
2298 4519 1.751351 GGGCTTGAAGGGATTTAGTGC 59.249 52.381 0.00 0.00 0.00 4.40
2299 4520 2.017049 CGGGCTTGAAGGGATTTAGTG 58.983 52.381 0.00 0.00 0.00 2.74
2300 4521 1.633945 ACGGGCTTGAAGGGATTTAGT 59.366 47.619 0.00 0.00 0.00 2.24
2301 4522 2.017049 CACGGGCTTGAAGGGATTTAG 58.983 52.381 0.00 0.00 0.00 1.85
2302 4523 1.631388 TCACGGGCTTGAAGGGATTTA 59.369 47.619 0.00 0.00 0.00 1.40
2303 4524 0.404040 TCACGGGCTTGAAGGGATTT 59.596 50.000 0.00 0.00 0.00 2.17
2304 4525 0.322546 GTCACGGGCTTGAAGGGATT 60.323 55.000 0.00 0.00 0.00 3.01
2305 4526 1.299976 GTCACGGGCTTGAAGGGAT 59.700 57.895 0.00 0.00 0.00 3.85
2306 4527 1.488705 ATGTCACGGGCTTGAAGGGA 61.489 55.000 0.00 0.00 0.00 4.20
2307 4528 0.609131 AATGTCACGGGCTTGAAGGG 60.609 55.000 0.00 0.00 0.00 3.95
2308 4529 1.200020 GAAATGTCACGGGCTTGAAGG 59.800 52.381 0.00 0.00 0.00 3.46
2309 4530 2.154462 AGAAATGTCACGGGCTTGAAG 58.846 47.619 0.00 0.00 0.00 3.02
2310 4531 2.270352 AGAAATGTCACGGGCTTGAA 57.730 45.000 0.00 0.00 0.00 2.69
2311 4532 2.151202 GAAGAAATGTCACGGGCTTGA 58.849 47.619 0.00 0.00 0.00 3.02
2312 4533 2.154462 AGAAGAAATGTCACGGGCTTG 58.846 47.619 0.00 0.00 0.00 4.01
2313 4534 2.568623 AGAAGAAATGTCACGGGCTT 57.431 45.000 0.00 0.00 0.00 4.35
2314 4535 2.554032 CAAAGAAGAAATGTCACGGGCT 59.446 45.455 0.00 0.00 0.00 5.19
2315 4536 2.552315 TCAAAGAAGAAATGTCACGGGC 59.448 45.455 0.00 0.00 0.00 6.13
2316 4537 3.815401 ACTCAAAGAAGAAATGTCACGGG 59.185 43.478 0.00 0.00 0.00 5.28
2317 4538 4.511454 TCACTCAAAGAAGAAATGTCACGG 59.489 41.667 0.00 0.00 0.00 4.94
2318 4539 5.657470 TCACTCAAAGAAGAAATGTCACG 57.343 39.130 0.00 0.00 0.00 4.35
2321 4542 9.483062 CGATATTTCACTCAAAGAAGAAATGTC 57.517 33.333 16.41 16.41 41.31 3.06
2322 4543 9.219603 TCGATATTTCACTCAAAGAAGAAATGT 57.780 29.630 15.54 11.78 40.00 2.71
2323 4544 9.483062 GTCGATATTTCACTCAAAGAAGAAATG 57.517 33.333 15.54 6.12 40.00 2.32
2324 4545 9.219603 TGTCGATATTTCACTCAAAGAAGAAAT 57.780 29.630 0.00 0.00 41.83 2.17
2325 4546 8.601845 TGTCGATATTTCACTCAAAGAAGAAA 57.398 30.769 0.00 0.00 34.83 2.52
2326 4547 7.148573 GCTGTCGATATTTCACTCAAAGAAGAA 60.149 37.037 0.00 0.00 0.00 2.52
2327 4548 6.311445 GCTGTCGATATTTCACTCAAAGAAGA 59.689 38.462 0.00 0.00 0.00 2.87
2328 4549 6.312426 AGCTGTCGATATTTCACTCAAAGAAG 59.688 38.462 0.00 0.00 0.00 2.85
2329 4550 6.091305 CAGCTGTCGATATTTCACTCAAAGAA 59.909 38.462 5.25 0.00 0.00 2.52
2330 4551 5.578336 CAGCTGTCGATATTTCACTCAAAGA 59.422 40.000 5.25 0.00 0.00 2.52
2331 4552 5.220548 CCAGCTGTCGATATTTCACTCAAAG 60.221 44.000 13.81 0.00 0.00 2.77
2332 4553 4.631377 CCAGCTGTCGATATTTCACTCAAA 59.369 41.667 13.81 0.00 0.00 2.69
2333 4554 4.183865 CCAGCTGTCGATATTTCACTCAA 58.816 43.478 13.81 0.00 0.00 3.02
2334 4555 3.785486 CCAGCTGTCGATATTTCACTCA 58.215 45.455 13.81 0.00 0.00 3.41
2335 4556 2.541762 GCCAGCTGTCGATATTTCACTC 59.458 50.000 13.81 0.00 0.00 3.51
2336 4557 2.555199 GCCAGCTGTCGATATTTCACT 58.445 47.619 13.81 0.00 0.00 3.41
2337 4558 1.599542 GGCCAGCTGTCGATATTTCAC 59.400 52.381 13.81 0.00 0.00 3.18
2338 4559 1.486310 AGGCCAGCTGTCGATATTTCA 59.514 47.619 13.81 0.00 0.00 2.69
2339 4560 2.139118 GAGGCCAGCTGTCGATATTTC 58.861 52.381 13.81 0.00 0.00 2.17
2340 4561 1.539065 CGAGGCCAGCTGTCGATATTT 60.539 52.381 17.61 0.00 35.70 1.40
2341 4562 0.032678 CGAGGCCAGCTGTCGATATT 59.967 55.000 17.61 0.00 35.70 1.28
2342 4563 1.662608 CGAGGCCAGCTGTCGATAT 59.337 57.895 17.61 0.00 35.70 1.63
2343 4564 3.120105 CGAGGCCAGCTGTCGATA 58.880 61.111 17.61 0.00 35.70 2.92
2344 4565 4.521062 GCGAGGCCAGCTGTCGAT 62.521 66.667 24.43 0.02 35.70 3.59


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

AutoCloner maintained by Alex Coulton.