Multiple sequence alignment - TraesCS5B01G399300

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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 TraesCS5B01G399300 chr5B 100.000 2378 0 0 1 2378 576501420 576503797 0.000000e+00 4392
1 TraesCS5B01G399300 chr6B 97.392 2262 54 4 1 2261 617028556 617030813 0.000000e+00 3845
2 TraesCS5B01G399300 chr2B 96.597 2263 71 5 1 2261 435353331 435351073 0.000000e+00 3747
3 TraesCS5B01G399300 chr2B 95.880 631 22 3 1 630 435372298 435371671 0.000000e+00 1018
4 TraesCS5B01G399300 chr2B 85.625 160 22 1 177 336 72769587 72769745 1.460000e-37 167
5 TraesCS5B01G399300 chr4A 96.597 2263 68 6 1 2262 602465165 602462911 0.000000e+00 3744
6 TraesCS5B01G399300 chr5A 96.242 2262 77 6 1 2261 692979194 692981448 0.000000e+00 3699
7 TraesCS5B01G399300 chr5A 96.354 2002 70 3 261 2261 693957649 693959648 0.000000e+00 3290
8 TraesCS5B01G399300 chr7B 96.765 2040 63 3 223 2261 709654254 709656291 0.000000e+00 3398
9 TraesCS5B01G399300 chr7B 100.000 117 0 0 2262 2378 387172340 387172224 1.430000e-52 217
10 TraesCS5B01G399300 chr1B 96.346 2025 68 4 1 2023 17134733 17136753 0.000000e+00 3325
11 TraesCS5B01G399300 chr1B 95.772 1892 77 3 370 2261 41174293 41176181 0.000000e+00 3048
12 TraesCS5B01G399300 chr1B 95.772 1892 76 4 370 2261 41212305 41214192 0.000000e+00 3048
13 TraesCS5B01G399300 chr2A 81.419 775 90 23 175 913 282882679 282883435 3.410000e-163 584
14 TraesCS5B01G399300 chr6D 99.145 117 1 0 2262 2378 16318756 16318640 6.660000e-51 211
15 TraesCS5B01G399300 chr6D 99.145 117 1 0 2262 2378 52967225 52967109 6.660000e-51 211
16 TraesCS5B01G399300 chr6A 99.145 117 1 0 2262 2378 392120907 392120791 6.660000e-51 211
17 TraesCS5B01G399300 chr5D 99.145 117 1 0 2262 2378 418789885 418790001 6.660000e-51 211
18 TraesCS5B01G399300 chr4B 99.145 117 1 0 2262 2378 216945907 216945791 6.660000e-51 211
19 TraesCS5B01G399300 chr4B 99.145 117 1 0 2262 2378 586969721 586969605 6.660000e-51 211
20 TraesCS5B01G399300 chr1D 99.145 117 1 0 2262 2378 334828127 334828011 6.660000e-51 211
21 TraesCS5B01G399300 chr1D 99.145 117 1 0 2262 2378 480180381 480180265 6.660000e-51 211


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 TraesCS5B01G399300 chr5B 576501420 576503797 2377 False 4392 4392 100.000 1 2378 1 chr5B.!!$F1 2377
1 TraesCS5B01G399300 chr6B 617028556 617030813 2257 False 3845 3845 97.392 1 2261 1 chr6B.!!$F1 2260
2 TraesCS5B01G399300 chr2B 435351073 435353331 2258 True 3747 3747 96.597 1 2261 1 chr2B.!!$R1 2260
3 TraesCS5B01G399300 chr2B 435371671 435372298 627 True 1018 1018 95.880 1 630 1 chr2B.!!$R2 629
4 TraesCS5B01G399300 chr4A 602462911 602465165 2254 True 3744 3744 96.597 1 2262 1 chr4A.!!$R1 2261
5 TraesCS5B01G399300 chr5A 692979194 692981448 2254 False 3699 3699 96.242 1 2261 1 chr5A.!!$F1 2260
6 TraesCS5B01G399300 chr5A 693957649 693959648 1999 False 3290 3290 96.354 261 2261 1 chr5A.!!$F2 2000
7 TraesCS5B01G399300 chr7B 709654254 709656291 2037 False 3398 3398 96.765 223 2261 1 chr7B.!!$F1 2038
8 TraesCS5B01G399300 chr1B 17134733 17136753 2020 False 3325 3325 96.346 1 2023 1 chr1B.!!$F1 2022
9 TraesCS5B01G399300 chr1B 41174293 41176181 1888 False 3048 3048 95.772 370 2261 1 chr1B.!!$F2 1891
10 TraesCS5B01G399300 chr1B 41212305 41214192 1887 False 3048 3048 95.772 370 2261 1 chr1B.!!$F3 1891
11 TraesCS5B01G399300 chr2A 282882679 282883435 756 False 584 584 81.419 175 913 1 chr2A.!!$F1 738

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
788 819 3.441572 GTGCCATGCTTCTTTCATGTAGT 59.558 43.478 0.0 0.0 39.6 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1987 2029 0.313672 TGGCGCTGACATGGAAAAAC 59.686 50.0 7.64 0.0 0.0 2.43 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
81 82 5.944013 TGTGTCGTGAACAATTTCAGAAAA 58.056 33.333 0.00 0.00 42.60 2.29
397 426 5.650266 TGGTACTGGAAATGCGACAATATTT 59.350 36.000 0.00 0.00 0.00 1.40
543 573 3.557054 CCATCTTTCGGAGTGGAGAAACA 60.557 47.826 0.00 0.00 33.41 2.83
693 724 6.495181 TCCATGTTCCCATTTAAGCTAAACAA 59.505 34.615 0.00 0.00 0.00 2.83
752 783 5.622180 TGGTTTGTTGTGTATGCTTACCTA 58.378 37.500 7.25 0.00 0.00 3.08
788 819 3.441572 GTGCCATGCTTCTTTCATGTAGT 59.558 43.478 0.00 0.00 39.60 2.73
943 979 8.637196 AGCTTGCTTATAAAGTTTCCTAGTTT 57.363 30.769 0.00 0.00 33.92 2.66
990 1026 5.691305 TGTGTGTGCATCTTTCTTTAAATGC 59.309 36.000 0.00 2.89 33.23 3.56
1013 1049 3.084786 AGGCTGACATGGAAAAAGCTAC 58.915 45.455 0.00 0.00 34.29 3.58
1114 1150 4.706476 CCTCCAGCACATTCCTTCAAAATA 59.294 41.667 0.00 0.00 0.00 1.40
1154 1190 6.772716 AGCTCCAAGAAGAAGTTCAACAAATA 59.227 34.615 5.50 0.00 34.82 1.40
1328 1364 0.535102 CAAAGAGTTGAGGCCACCGT 60.535 55.000 5.01 0.00 36.83 4.83
1748 1786 4.459089 GAGTGGGCTGGCTCGTCC 62.459 72.222 0.00 0.00 0.00 4.79
1765 1803 2.305927 CGTCCCAAGGCCCAATATAGAT 59.694 50.000 0.00 0.00 0.00 1.98
1854 1896 9.850628 AATGATAGATTGAATAAATGGATTGCG 57.149 29.630 0.00 0.00 0.00 4.85
1987 2029 2.387309 GTGGCATCCACGTCATCAG 58.613 57.895 0.00 0.00 44.95 2.90
2007 2049 1.067635 GTTTTTCCATGTCAGCGCCAT 60.068 47.619 2.29 0.00 0.00 4.40
2135 2177 9.793259 ATGACTAAAATTCTAGAAAAGGTCACA 57.207 29.630 21.03 13.63 33.78 3.58
2262 2305 7.972832 AATTGACCGTATTTCTTGTAGTGAA 57.027 32.000 0.00 0.00 0.00 3.18
2263 2306 7.596749 ATTGACCGTATTTCTTGTAGTGAAG 57.403 36.000 0.00 0.00 0.00 3.02
2264 2307 5.475719 TGACCGTATTTCTTGTAGTGAAGG 58.524 41.667 0.00 0.00 0.00 3.46
2265 2308 4.828829 ACCGTATTTCTTGTAGTGAAGGG 58.171 43.478 0.00 0.00 0.00 3.95
2266 2309 4.529377 ACCGTATTTCTTGTAGTGAAGGGA 59.471 41.667 0.00 0.00 0.00 4.20
2267 2310 5.109903 CCGTATTTCTTGTAGTGAAGGGAG 58.890 45.833 0.00 0.00 0.00 4.30
2268 2311 5.105473 CCGTATTTCTTGTAGTGAAGGGAGA 60.105 44.000 0.00 0.00 0.00 3.71
2269 2312 5.805994 CGTATTTCTTGTAGTGAAGGGAGAC 59.194 44.000 0.00 0.00 0.00 3.36
2270 2313 3.936372 TTCTTGTAGTGAAGGGAGACG 57.064 47.619 0.00 0.00 0.00 4.18
2271 2314 2.872732 TCTTGTAGTGAAGGGAGACGT 58.127 47.619 0.00 0.00 0.00 4.34
2272 2315 2.818432 TCTTGTAGTGAAGGGAGACGTC 59.182 50.000 7.70 7.70 0.00 4.34
2273 2316 1.162698 TGTAGTGAAGGGAGACGTCG 58.837 55.000 10.46 0.00 0.00 5.12
2274 2317 1.271001 TGTAGTGAAGGGAGACGTCGA 60.271 52.381 10.46 0.00 0.00 4.20
2275 2318 1.397692 GTAGTGAAGGGAGACGTCGAG 59.602 57.143 10.46 0.00 0.00 4.04
2276 2319 0.036448 AGTGAAGGGAGACGTCGAGA 59.964 55.000 10.46 0.00 0.00 4.04
2277 2320 0.448593 GTGAAGGGAGACGTCGAGAG 59.551 60.000 10.46 0.00 0.00 3.20
2278 2321 0.323957 TGAAGGGAGACGTCGAGAGA 59.676 55.000 10.46 0.00 38.16 3.10
2289 2332 3.122150 TCGAGAGACCATGTTTGCG 57.878 52.632 0.00 0.00 33.31 4.85
2290 2333 0.601057 TCGAGAGACCATGTTTGCGA 59.399 50.000 0.00 0.00 33.31 5.10
2291 2334 0.994995 CGAGAGACCATGTTTGCGAG 59.005 55.000 0.00 0.00 0.00 5.03
2292 2335 1.363744 GAGAGACCATGTTTGCGAGG 58.636 55.000 0.00 0.00 0.00 4.63
2293 2336 0.976641 AGAGACCATGTTTGCGAGGA 59.023 50.000 0.00 0.00 0.00 3.71
2294 2337 1.556911 AGAGACCATGTTTGCGAGGAT 59.443 47.619 0.00 0.00 0.00 3.24
2295 2338 2.766263 AGAGACCATGTTTGCGAGGATA 59.234 45.455 0.00 0.00 0.00 2.59
2296 2339 3.126831 GAGACCATGTTTGCGAGGATAG 58.873 50.000 0.00 0.00 0.00 2.08
2297 2340 2.158900 AGACCATGTTTGCGAGGATAGG 60.159 50.000 0.00 0.00 0.00 2.57
2298 2341 1.837439 ACCATGTTTGCGAGGATAGGA 59.163 47.619 0.00 0.00 0.00 2.94
2299 2342 2.158900 ACCATGTTTGCGAGGATAGGAG 60.159 50.000 0.00 0.00 0.00 3.69
2300 2343 2.103094 CCATGTTTGCGAGGATAGGAGA 59.897 50.000 0.00 0.00 0.00 3.71
2301 2344 3.432186 CCATGTTTGCGAGGATAGGAGAA 60.432 47.826 0.00 0.00 0.00 2.87
2302 2345 3.973206 TGTTTGCGAGGATAGGAGAAA 57.027 42.857 0.00 0.00 0.00 2.52
2303 2346 3.596214 TGTTTGCGAGGATAGGAGAAAC 58.404 45.455 0.00 0.00 0.00 2.78
2304 2347 3.007506 TGTTTGCGAGGATAGGAGAAACA 59.992 43.478 0.00 0.00 31.29 2.83
2305 2348 4.192317 GTTTGCGAGGATAGGAGAAACAT 58.808 43.478 0.00 0.00 0.00 2.71
2306 2349 3.459232 TGCGAGGATAGGAGAAACATG 57.541 47.619 0.00 0.00 0.00 3.21
2307 2350 3.031013 TGCGAGGATAGGAGAAACATGA 58.969 45.455 0.00 0.00 0.00 3.07
2308 2351 3.450817 TGCGAGGATAGGAGAAACATGAA 59.549 43.478 0.00 0.00 0.00 2.57
2309 2352 4.054671 GCGAGGATAGGAGAAACATGAAG 58.945 47.826 0.00 0.00 0.00 3.02
2310 2353 4.442192 GCGAGGATAGGAGAAACATGAAGT 60.442 45.833 0.00 0.00 0.00 3.01
2311 2354 5.046529 CGAGGATAGGAGAAACATGAAGTG 58.953 45.833 0.00 0.00 0.00 3.16
2312 2355 5.163509 CGAGGATAGGAGAAACATGAAGTGA 60.164 44.000 0.00 0.00 0.00 3.41
2313 2356 6.232581 AGGATAGGAGAAACATGAAGTGAG 57.767 41.667 0.00 0.00 0.00 3.51
2314 2357 4.813697 GGATAGGAGAAACATGAAGTGAGC 59.186 45.833 0.00 0.00 0.00 4.26
2315 2358 3.777106 AGGAGAAACATGAAGTGAGCA 57.223 42.857 0.00 0.00 0.00 4.26
2316 2359 4.298103 AGGAGAAACATGAAGTGAGCAT 57.702 40.909 0.00 0.00 0.00 3.79
2317 2360 4.008330 AGGAGAAACATGAAGTGAGCATG 58.992 43.478 0.00 0.00 46.49 4.06
2318 2361 3.427233 GGAGAAACATGAAGTGAGCATGC 60.427 47.826 10.51 10.51 45.32 4.06
2319 2362 2.161012 AGAAACATGAAGTGAGCATGCG 59.839 45.455 13.01 0.00 45.32 4.73
2320 2363 0.806868 AACATGAAGTGAGCATGCGG 59.193 50.000 13.01 0.00 45.32 5.69
2321 2364 1.028330 ACATGAAGTGAGCATGCGGG 61.028 55.000 13.01 0.00 45.32 6.13
2322 2365 1.028330 CATGAAGTGAGCATGCGGGT 61.028 55.000 13.01 0.00 37.00 5.28
2323 2366 1.028330 ATGAAGTGAGCATGCGGGTG 61.028 55.000 13.01 0.00 0.00 4.61
2324 2367 1.375908 GAAGTGAGCATGCGGGTGA 60.376 57.895 13.01 0.00 0.00 4.02
2325 2368 1.364626 GAAGTGAGCATGCGGGTGAG 61.365 60.000 13.01 0.00 0.00 3.51
2326 2369 3.503363 GTGAGCATGCGGGTGAGC 61.503 66.667 13.01 0.00 37.71 4.26
2327 2370 3.709633 TGAGCATGCGGGTGAGCT 61.710 61.111 13.01 0.00 40.60 4.09
2328 2371 3.200593 GAGCATGCGGGTGAGCTG 61.201 66.667 13.01 0.00 37.48 4.24
2329 2372 4.790962 AGCATGCGGGTGAGCTGG 62.791 66.667 13.01 0.00 35.72 4.85
2330 2373 4.783621 GCATGCGGGTGAGCTGGA 62.784 66.667 0.00 0.00 38.13 3.86
2331 2374 2.513204 CATGCGGGTGAGCTGGAG 60.513 66.667 0.00 0.00 38.13 3.86
2332 2375 2.685017 ATGCGGGTGAGCTGGAGA 60.685 61.111 0.00 0.00 38.13 3.71
2333 2376 2.293318 ATGCGGGTGAGCTGGAGAA 61.293 57.895 0.00 0.00 38.13 2.87
2334 2377 1.841302 ATGCGGGTGAGCTGGAGAAA 61.841 55.000 0.00 0.00 38.13 2.52
2335 2378 1.302511 GCGGGTGAGCTGGAGAAAA 60.303 57.895 0.00 0.00 0.00 2.29
2336 2379 1.301677 GCGGGTGAGCTGGAGAAAAG 61.302 60.000 0.00 0.00 0.00 2.27
2337 2380 0.321671 CGGGTGAGCTGGAGAAAAGA 59.678 55.000 0.00 0.00 0.00 2.52
2338 2381 1.674221 CGGGTGAGCTGGAGAAAAGAG 60.674 57.143 0.00 0.00 0.00 2.85
2339 2382 1.625818 GGGTGAGCTGGAGAAAAGAGA 59.374 52.381 0.00 0.00 0.00 3.10
2340 2383 2.354604 GGGTGAGCTGGAGAAAAGAGAG 60.355 54.545 0.00 0.00 0.00 3.20
2341 2384 2.301583 GGTGAGCTGGAGAAAAGAGAGT 59.698 50.000 0.00 0.00 0.00 3.24
2342 2385 3.324993 GTGAGCTGGAGAAAAGAGAGTG 58.675 50.000 0.00 0.00 0.00 3.51
2343 2386 3.006323 GTGAGCTGGAGAAAAGAGAGTGA 59.994 47.826 0.00 0.00 0.00 3.41
2344 2387 3.837146 TGAGCTGGAGAAAAGAGAGTGAT 59.163 43.478 0.00 0.00 0.00 3.06
2345 2388 5.019470 TGAGCTGGAGAAAAGAGAGTGATA 58.981 41.667 0.00 0.00 0.00 2.15
2346 2389 5.126869 TGAGCTGGAGAAAAGAGAGTGATAG 59.873 44.000 0.00 0.00 0.00 2.08
2347 2390 4.119136 GCTGGAGAAAAGAGAGTGATAGC 58.881 47.826 0.00 0.00 0.00 2.97
2348 2391 4.141959 GCTGGAGAAAAGAGAGTGATAGCT 60.142 45.833 0.00 0.00 0.00 3.32
2349 2392 5.068460 GCTGGAGAAAAGAGAGTGATAGCTA 59.932 44.000 0.00 0.00 0.00 3.32
2350 2393 6.458232 TGGAGAAAAGAGAGTGATAGCTAC 57.542 41.667 0.00 0.00 0.00 3.58
2351 2394 5.361285 TGGAGAAAAGAGAGTGATAGCTACC 59.639 44.000 0.00 0.00 0.00 3.18
2352 2395 5.596772 GGAGAAAAGAGAGTGATAGCTACCT 59.403 44.000 0.00 0.00 0.00 3.08
2353 2396 6.460953 GGAGAAAAGAGAGTGATAGCTACCTG 60.461 46.154 0.00 0.00 0.00 4.00
2354 2397 6.191315 AGAAAAGAGAGTGATAGCTACCTGA 58.809 40.000 0.00 0.00 0.00 3.86
2355 2398 6.665680 AGAAAAGAGAGTGATAGCTACCTGAA 59.334 38.462 0.00 0.00 0.00 3.02
2356 2399 6.463995 AAAGAGAGTGATAGCTACCTGAAG 57.536 41.667 0.00 0.00 0.00 3.02
2357 2400 4.469657 AGAGAGTGATAGCTACCTGAAGG 58.530 47.826 0.00 0.00 42.17 3.46
2358 2401 4.167113 AGAGAGTGATAGCTACCTGAAGGA 59.833 45.833 2.62 0.00 38.94 3.36
2359 2402 4.469657 AGAGTGATAGCTACCTGAAGGAG 58.530 47.826 2.62 0.00 38.94 3.69
2360 2403 2.962421 AGTGATAGCTACCTGAAGGAGC 59.038 50.000 2.62 7.88 38.08 4.70
2361 2404 2.695666 GTGATAGCTACCTGAAGGAGCA 59.304 50.000 17.48 8.40 39.32 4.26
2362 2405 3.323403 GTGATAGCTACCTGAAGGAGCAT 59.677 47.826 17.48 11.34 39.32 3.79
2363 2406 3.969976 TGATAGCTACCTGAAGGAGCATT 59.030 43.478 17.48 8.40 39.32 3.56
2364 2407 2.998316 AGCTACCTGAAGGAGCATTC 57.002 50.000 17.48 0.00 39.32 2.67
2365 2408 2.191400 AGCTACCTGAAGGAGCATTCA 58.809 47.619 17.48 0.00 39.32 2.57
2366 2409 2.776536 AGCTACCTGAAGGAGCATTCAT 59.223 45.455 17.48 0.00 38.47 2.57
2367 2410 2.877168 GCTACCTGAAGGAGCATTCATG 59.123 50.000 2.62 0.00 38.47 3.07
2368 2411 1.760192 ACCTGAAGGAGCATTCATGC 58.240 50.000 2.62 3.39 45.68 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 82 1.550976 CTCTTCACCCTTACGAGCCTT 59.449 52.381 0.00 0.00 0.00 4.35
148 149 4.102524 TCTTAACTGGCTCAGAGAAACCAA 59.897 41.667 0.00 0.00 35.18 3.67
203 204 4.666512 AGGTAAACAAGCCTCATCAACAT 58.333 39.130 0.00 0.00 0.00 2.71
339 345 4.156556 GCAATGCAATGAAACAGAGGACTA 59.843 41.667 5.79 0.00 0.00 2.59
397 426 6.040391 ACTGCAACAAGAACTAAAATTGCCTA 59.960 34.615 4.47 0.00 41.31 3.93
438 468 6.518493 TCTTAATTAACAGTGTCCAACGACT 58.482 36.000 0.00 0.00 39.94 4.18
574 605 4.993705 TCCACTTCCACAAGTCCTAAAT 57.006 40.909 0.00 0.00 41.24 1.40
752 783 4.716287 AGCATGGCACCAGGTTTATTAAAT 59.284 37.500 2.97 0.00 0.00 1.40
943 979 5.771153 TGTCATTGCAGTTGATTCTGAAA 57.229 34.783 4.91 0.00 37.38 2.69
951 987 2.950975 ACACACATGTCATTGCAGTTGA 59.049 40.909 0.00 0.00 31.55 3.18
990 1026 1.067354 GCTTTTTCCATGTCAGCCTGG 60.067 52.381 0.00 0.00 0.00 4.45
1013 1049 0.688487 TTCTGGTACCCCTTGTTCCG 59.312 55.000 10.07 0.00 37.22 4.30
1114 1150 0.107945 GAGCTCGACTCAAGGCCAAT 60.108 55.000 5.01 0.00 45.49 3.16
1154 1190 2.295885 GAGCATCCAAAGCAGCTACAT 58.704 47.619 0.00 0.00 37.48 2.29
1288 1324 3.386726 TGCAGTAACAACTGGTACTCTGT 59.613 43.478 4.41 0.00 44.72 3.41
1328 1364 0.999406 GAGACGCGCAAATCTAGCAA 59.001 50.000 5.73 0.00 0.00 3.91
1850 1892 3.751246 GGCTCAGGCAATGCGCAA 61.751 61.111 17.11 0.00 41.58 4.85
1854 1896 1.252904 TTCTTGGGCTCAGGCAATGC 61.253 55.000 0.00 0.00 40.87 3.56
1987 2029 0.313672 TGGCGCTGACATGGAAAAAC 59.686 50.000 7.64 0.00 0.00 2.43
2135 2177 4.974368 TGACCGTCAAGAACAAACAAAT 57.026 36.364 0.00 0.00 0.00 2.32
2262 2305 1.078285 GGTCTCTCGACGTCTCCCT 60.078 63.158 14.70 0.00 41.16 4.20
2263 2306 0.748729 ATGGTCTCTCGACGTCTCCC 60.749 60.000 14.70 4.73 41.16 4.30
2264 2307 0.378962 CATGGTCTCTCGACGTCTCC 59.621 60.000 14.70 6.86 41.16 3.71
2265 2308 1.088306 ACATGGTCTCTCGACGTCTC 58.912 55.000 14.70 0.00 41.16 3.36
2266 2309 1.535833 AACATGGTCTCTCGACGTCT 58.464 50.000 14.70 0.00 41.16 4.18
2267 2310 1.986378 CAAACATGGTCTCTCGACGTC 59.014 52.381 5.18 5.18 41.16 4.34
2268 2311 1.935300 GCAAACATGGTCTCTCGACGT 60.935 52.381 0.00 0.00 41.16 4.34
2269 2312 0.716108 GCAAACATGGTCTCTCGACG 59.284 55.000 0.00 0.00 41.16 5.12
2270 2313 0.716108 CGCAAACATGGTCTCTCGAC 59.284 55.000 0.00 0.00 39.49 4.20
2271 2314 0.601057 TCGCAAACATGGTCTCTCGA 59.399 50.000 0.00 0.00 0.00 4.04
2272 2315 0.994995 CTCGCAAACATGGTCTCTCG 59.005 55.000 0.00 0.00 0.00 4.04
2273 2316 1.066858 TCCTCGCAAACATGGTCTCTC 60.067 52.381 0.00 0.00 0.00 3.20
2274 2317 0.976641 TCCTCGCAAACATGGTCTCT 59.023 50.000 0.00 0.00 0.00 3.10
2275 2318 2.029838 ATCCTCGCAAACATGGTCTC 57.970 50.000 0.00 0.00 0.00 3.36
2276 2319 2.158900 CCTATCCTCGCAAACATGGTCT 60.159 50.000 0.00 0.00 0.00 3.85
2277 2320 2.158957 TCCTATCCTCGCAAACATGGTC 60.159 50.000 0.00 0.00 0.00 4.02
2278 2321 1.837439 TCCTATCCTCGCAAACATGGT 59.163 47.619 0.00 0.00 0.00 3.55
2279 2322 2.103094 TCTCCTATCCTCGCAAACATGG 59.897 50.000 0.00 0.00 0.00 3.66
2280 2323 3.459232 TCTCCTATCCTCGCAAACATG 57.541 47.619 0.00 0.00 0.00 3.21
2281 2324 4.192317 GTTTCTCCTATCCTCGCAAACAT 58.808 43.478 0.00 0.00 0.00 2.71
2282 2325 3.007506 TGTTTCTCCTATCCTCGCAAACA 59.992 43.478 0.00 0.00 31.55 2.83
2283 2326 3.596214 TGTTTCTCCTATCCTCGCAAAC 58.404 45.455 0.00 0.00 0.00 2.93
2284 2327 3.973206 TGTTTCTCCTATCCTCGCAAA 57.027 42.857 0.00 0.00 0.00 3.68
2285 2328 3.450817 TCATGTTTCTCCTATCCTCGCAA 59.549 43.478 0.00 0.00 0.00 4.85
2286 2329 3.031013 TCATGTTTCTCCTATCCTCGCA 58.969 45.455 0.00 0.00 0.00 5.10
2287 2330 3.735237 TCATGTTTCTCCTATCCTCGC 57.265 47.619 0.00 0.00 0.00 5.03
2288 2331 5.046529 CACTTCATGTTTCTCCTATCCTCG 58.953 45.833 0.00 0.00 0.00 4.63
2289 2332 6.227298 TCACTTCATGTTTCTCCTATCCTC 57.773 41.667 0.00 0.00 0.00 3.71
2290 2333 5.396213 GCTCACTTCATGTTTCTCCTATCCT 60.396 44.000 0.00 0.00 0.00 3.24
2291 2334 4.813697 GCTCACTTCATGTTTCTCCTATCC 59.186 45.833 0.00 0.00 0.00 2.59
2292 2335 5.423015 TGCTCACTTCATGTTTCTCCTATC 58.577 41.667 0.00 0.00 0.00 2.08
2293 2336 5.426689 TGCTCACTTCATGTTTCTCCTAT 57.573 39.130 0.00 0.00 0.00 2.57
2294 2337 4.890158 TGCTCACTTCATGTTTCTCCTA 57.110 40.909 0.00 0.00 0.00 2.94
2295 2338 3.777106 TGCTCACTTCATGTTTCTCCT 57.223 42.857 0.00 0.00 0.00 3.69
2296 2339 3.427233 GCATGCTCACTTCATGTTTCTCC 60.427 47.826 11.37 0.00 42.34 3.71
2297 2340 3.727079 CGCATGCTCACTTCATGTTTCTC 60.727 47.826 17.13 0.00 42.34 2.87
2298 2341 2.161012 CGCATGCTCACTTCATGTTTCT 59.839 45.455 17.13 0.00 42.34 2.52
2299 2342 2.512885 CGCATGCTCACTTCATGTTTC 58.487 47.619 17.13 0.00 42.34 2.78
2300 2343 1.200716 CCGCATGCTCACTTCATGTTT 59.799 47.619 17.13 0.00 42.34 2.83
2301 2344 0.806868 CCGCATGCTCACTTCATGTT 59.193 50.000 17.13 0.00 42.34 2.71
2302 2345 1.028330 CCCGCATGCTCACTTCATGT 61.028 55.000 17.13 0.00 42.34 3.21
2303 2346 1.028330 ACCCGCATGCTCACTTCATG 61.028 55.000 17.13 0.00 43.02 3.07
2304 2347 1.028330 CACCCGCATGCTCACTTCAT 61.028 55.000 17.13 0.00 0.00 2.57
2305 2348 1.672030 CACCCGCATGCTCACTTCA 60.672 57.895 17.13 0.00 0.00 3.02
2306 2349 1.364626 CTCACCCGCATGCTCACTTC 61.365 60.000 17.13 0.00 0.00 3.01
2307 2350 1.376424 CTCACCCGCATGCTCACTT 60.376 57.895 17.13 0.00 0.00 3.16
2308 2351 2.267006 CTCACCCGCATGCTCACT 59.733 61.111 17.13 0.00 0.00 3.41
2309 2352 3.503363 GCTCACCCGCATGCTCAC 61.503 66.667 17.13 0.00 0.00 3.51
2310 2353 3.709633 AGCTCACCCGCATGCTCA 61.710 61.111 17.13 0.00 0.00 4.26
2311 2354 3.200593 CAGCTCACCCGCATGCTC 61.201 66.667 17.13 0.00 33.03 4.26
2312 2355 4.790962 CCAGCTCACCCGCATGCT 62.791 66.667 17.13 0.00 36.04 3.79
2313 2356 4.783621 TCCAGCTCACCCGCATGC 62.784 66.667 7.91 7.91 0.00 4.06
2314 2357 2.513204 CTCCAGCTCACCCGCATG 60.513 66.667 0.00 0.00 0.00 4.06
2315 2358 1.841302 TTTCTCCAGCTCACCCGCAT 61.841 55.000 0.00 0.00 0.00 4.73
2316 2359 2.050836 TTTTCTCCAGCTCACCCGCA 62.051 55.000 0.00 0.00 0.00 5.69
2317 2360 1.301677 CTTTTCTCCAGCTCACCCGC 61.302 60.000 0.00 0.00 0.00 6.13
2318 2361 0.321671 TCTTTTCTCCAGCTCACCCG 59.678 55.000 0.00 0.00 0.00 5.28
2319 2362 1.625818 TCTCTTTTCTCCAGCTCACCC 59.374 52.381 0.00 0.00 0.00 4.61
2320 2363 2.301583 ACTCTCTTTTCTCCAGCTCACC 59.698 50.000 0.00 0.00 0.00 4.02
2321 2364 3.006323 TCACTCTCTTTTCTCCAGCTCAC 59.994 47.826 0.00 0.00 0.00 3.51
2322 2365 3.234353 TCACTCTCTTTTCTCCAGCTCA 58.766 45.455 0.00 0.00 0.00 4.26
2323 2366 3.951775 TCACTCTCTTTTCTCCAGCTC 57.048 47.619 0.00 0.00 0.00 4.09
2324 2367 4.141959 GCTATCACTCTCTTTTCTCCAGCT 60.142 45.833 0.00 0.00 0.00 4.24
2325 2368 4.119136 GCTATCACTCTCTTTTCTCCAGC 58.881 47.826 0.00 0.00 0.00 4.85
2326 2369 5.596836 AGCTATCACTCTCTTTTCTCCAG 57.403 43.478 0.00 0.00 0.00 3.86
2327 2370 5.361285 GGTAGCTATCACTCTCTTTTCTCCA 59.639 44.000 0.00 0.00 0.00 3.86
2328 2371 5.596772 AGGTAGCTATCACTCTCTTTTCTCC 59.403 44.000 6.80 0.00 0.00 3.71
2329 2372 6.320164 TCAGGTAGCTATCACTCTCTTTTCTC 59.680 42.308 6.80 0.00 0.00 2.87
2330 2373 6.191315 TCAGGTAGCTATCACTCTCTTTTCT 58.809 40.000 6.80 0.00 0.00 2.52
2331 2374 6.458232 TCAGGTAGCTATCACTCTCTTTTC 57.542 41.667 6.80 0.00 0.00 2.29
2332 2375 6.127196 CCTTCAGGTAGCTATCACTCTCTTTT 60.127 42.308 6.80 0.00 0.00 2.27
2333 2376 5.362430 CCTTCAGGTAGCTATCACTCTCTTT 59.638 44.000 6.80 0.00 0.00 2.52
2334 2377 4.892934 CCTTCAGGTAGCTATCACTCTCTT 59.107 45.833 6.80 0.00 0.00 2.85
2335 2378 4.167113 TCCTTCAGGTAGCTATCACTCTCT 59.833 45.833 6.80 0.00 36.34 3.10
2336 2379 4.465886 TCCTTCAGGTAGCTATCACTCTC 58.534 47.826 6.80 0.00 36.34 3.20
2337 2380 4.469657 CTCCTTCAGGTAGCTATCACTCT 58.530 47.826 6.80 0.00 36.34 3.24
2338 2381 3.005367 GCTCCTTCAGGTAGCTATCACTC 59.995 52.174 6.80 0.00 36.27 3.51
2339 2382 2.962421 GCTCCTTCAGGTAGCTATCACT 59.038 50.000 6.80 0.00 36.27 3.41
2340 2383 2.695666 TGCTCCTTCAGGTAGCTATCAC 59.304 50.000 6.80 0.00 38.39 3.06
2341 2384 3.032265 TGCTCCTTCAGGTAGCTATCA 57.968 47.619 6.80 0.00 38.39 2.15
2342 2385 4.039730 TGAATGCTCCTTCAGGTAGCTATC 59.960 45.833 14.56 0.00 38.39 2.08
2343 2386 3.969976 TGAATGCTCCTTCAGGTAGCTAT 59.030 43.478 14.56 6.85 38.39 2.97
2344 2387 3.374764 TGAATGCTCCTTCAGGTAGCTA 58.625 45.455 14.56 0.00 38.39 3.32
2345 2388 2.191400 TGAATGCTCCTTCAGGTAGCT 58.809 47.619 14.56 0.00 38.39 3.32
2346 2389 2.698855 TGAATGCTCCTTCAGGTAGC 57.301 50.000 9.25 9.25 38.20 3.58


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

AutoCloner maintained by Alex Coulton.