Multiple sequence alignment - TraesCS3A01G187700

Loading Multiple Alignment...

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 TraesCS3A01G187700 chr3A 100.000 2387 0 0 1 2387 224968259 224970645 0.000000e+00 4409
1 TraesCS3A01G187700 chr4A 97.413 2281 47 8 1 2273 574767492 574765216 0.000000e+00 3875
2 TraesCS3A01G187700 chr4A 91.710 2304 101 19 1 2273 602465156 602462912 0.000000e+00 3114
3 TraesCS3A01G187700 chr6A 97.063 2281 58 7 1 2273 394642540 394644819 0.000000e+00 3832
4 TraesCS3A01G187700 chr2B 91.338 2309 107 25 1 2274 435353322 435351072 0.000000e+00 3070
5 TraesCS3A01G187700 chr2B 90.992 2309 157 21 1 2278 622030768 622028480 0.000000e+00 3064
6 TraesCS3A01G187700 chr6B 91.291 2308 109 20 1 2274 617028565 617030814 0.000000e+00 3064
7 TraesCS3A01G187700 chr6B 90.613 2301 117 21 1 2274 399208519 399206291 0.000000e+00 2961
8 TraesCS3A01G187700 chr6B 89.001 891 56 16 1413 2273 101192030 101192908 0.000000e+00 1064
9 TraesCS3A01G187700 chr6B 88.864 889 60 16 1413 2274 423139267 423138391 0.000000e+00 1057
10 TraesCS3A01G187700 chr6B 98.246 114 2 0 2274 2387 440935299 440935186 1.450000e-47 200
11 TraesCS3A01G187700 chr5A 91.193 2305 112 19 1 2273 692979203 692981448 0.000000e+00 3048
12 TraesCS3A01G187700 chr5A 90.379 2058 106 19 250 2273 693957649 693959648 0.000000e+00 2619
13 TraesCS3A01G187700 chr5A 92.389 946 47 9 1351 2273 516607171 516608114 0.000000e+00 1325
14 TraesCS3A01G187700 chr5B 90.350 2311 126 24 1 2273 576501429 576503680 0.000000e+00 2942
15 TraesCS3A01G187700 chr5B 98.246 114 2 0 2274 2387 368326921 368326808 1.450000e-47 200
16 TraesCS3A01G187700 chr1B 90.395 2301 122 26 1 2273 651732020 651729791 0.000000e+00 2933
17 TraesCS3A01G187700 chr1B 90.826 2071 96 20 1 2036 17134742 17136753 0.000000e+00 2686
18 TraesCS3A01G187700 chr1B 89.892 1949 103 25 360 2274 41212305 41214193 0.000000e+00 2422
19 TraesCS3A01G187700 chr1B 89.744 1950 105 24 360 2274 41174293 41176182 0.000000e+00 2405
20 TraesCS3A01G187700 chr1B 91.770 1458 77 13 212 1654 656439715 656441144 0.000000e+00 1988
21 TraesCS3A01G187700 chr1B 88.606 825 35 10 1476 2273 672837445 672836653 0.000000e+00 948
22 TraesCS3A01G187700 chr1B 88.571 735 52 12 1562 2273 637283646 637282921 0.000000e+00 863
23 TraesCS3A01G187700 chr7B 90.562 2098 106 20 212 2275 709654254 709656293 0.000000e+00 2693
24 TraesCS3A01G187700 chr4B 88.435 735 52 13 1562 2273 11347197 11346473 0.000000e+00 856
25 TraesCS3A01G187700 chr4B 87.579 636 41 15 1413 2022 21166283 21166906 0.000000e+00 702
26 TraesCS3A01G187700 chr6D 98.246 114 2 0 2274 2387 86971033 86971146 1.450000e-47 200
27 TraesCS3A01G187700 chr6D 97.368 114 3 0 2274 2387 176238332 176238445 6.730000e-46 195
28 TraesCS3A01G187700 chr6D 97.368 114 3 0 2274 2387 269993637 269993524 6.730000e-46 195
29 TraesCS3A01G187700 chr6D 97.368 114 3 0 2274 2387 316878520 316878633 6.730000e-46 195
30 TraesCS3A01G187700 chr3D 98.246 114 2 0 2274 2387 311363931 311364044 1.450000e-47 200
31 TraesCS3A01G187700 chr5D 98.214 112 2 0 2274 2385 324193036 324192925 1.870000e-46 196
32 TraesCS3A01G187700 chr1D 97.368 114 3 0 2274 2387 303621720 303621607 6.730000e-46 195


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 TraesCS3A01G187700 chr3A 224968259 224970645 2386 False 4409 4409 100.000 1 2387 1 chr3A.!!$F1 2386
1 TraesCS3A01G187700 chr4A 574765216 574767492 2276 True 3875 3875 97.413 1 2273 1 chr4A.!!$R1 2272
2 TraesCS3A01G187700 chr4A 602462912 602465156 2244 True 3114 3114 91.710 1 2273 1 chr4A.!!$R2 2272
3 TraesCS3A01G187700 chr6A 394642540 394644819 2279 False 3832 3832 97.063 1 2273 1 chr6A.!!$F1 2272
4 TraesCS3A01G187700 chr2B 435351072 435353322 2250 True 3070 3070 91.338 1 2274 1 chr2B.!!$R1 2273
5 TraesCS3A01G187700 chr2B 622028480 622030768 2288 True 3064 3064 90.992 1 2278 1 chr2B.!!$R2 2277
6 TraesCS3A01G187700 chr6B 617028565 617030814 2249 False 3064 3064 91.291 1 2274 1 chr6B.!!$F2 2273
7 TraesCS3A01G187700 chr6B 399206291 399208519 2228 True 2961 2961 90.613 1 2274 1 chr6B.!!$R1 2273
8 TraesCS3A01G187700 chr6B 101192030 101192908 878 False 1064 1064 89.001 1413 2273 1 chr6B.!!$F1 860
9 TraesCS3A01G187700 chr6B 423138391 423139267 876 True 1057 1057 88.864 1413 2274 1 chr6B.!!$R2 861
10 TraesCS3A01G187700 chr5A 692979203 692981448 2245 False 3048 3048 91.193 1 2273 1 chr5A.!!$F2 2272
11 TraesCS3A01G187700 chr5A 693957649 693959648 1999 False 2619 2619 90.379 250 2273 1 chr5A.!!$F3 2023
12 TraesCS3A01G187700 chr5A 516607171 516608114 943 False 1325 1325 92.389 1351 2273 1 chr5A.!!$F1 922
13 TraesCS3A01G187700 chr5B 576501429 576503680 2251 False 2942 2942 90.350 1 2273 1 chr5B.!!$F1 2272
14 TraesCS3A01G187700 chr1B 651729791 651732020 2229 True 2933 2933 90.395 1 2273 1 chr1B.!!$R2 2272
15 TraesCS3A01G187700 chr1B 17134742 17136753 2011 False 2686 2686 90.826 1 2036 1 chr1B.!!$F1 2035
16 TraesCS3A01G187700 chr1B 41212305 41214193 1888 False 2422 2422 89.892 360 2274 1 chr1B.!!$F3 1914
17 TraesCS3A01G187700 chr1B 41174293 41176182 1889 False 2405 2405 89.744 360 2274 1 chr1B.!!$F2 1914
18 TraesCS3A01G187700 chr1B 656439715 656441144 1429 False 1988 1988 91.770 212 1654 1 chr1B.!!$F4 1442
19 TraesCS3A01G187700 chr1B 672836653 672837445 792 True 948 948 88.606 1476 2273 1 chr1B.!!$R3 797
20 TraesCS3A01G187700 chr1B 637282921 637283646 725 True 863 863 88.571 1562 2273 1 chr1B.!!$R1 711
21 TraesCS3A01G187700 chr7B 709654254 709656293 2039 False 2693 2693 90.562 212 2275 1 chr7B.!!$F1 2063
22 TraesCS3A01G187700 chr4B 11346473 11347197 724 True 856 856 88.435 1562 2273 1 chr4B.!!$R1 711
23 TraesCS3A01G187700 chr4B 21166283 21166906 623 False 702 702 87.579 1413 2022 1 chr4B.!!$F1 609

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
164 167 3.511477 TCTCTGAGCCAGTTAAGAAGGT 58.489 45.455 0.00 0.00 32.61 3.50 F
1119 1139 1.755179 ATGTTGGCCTTGATTCGAGG 58.245 50.000 14.83 14.83 38.05 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1315 1335 1.13428 ACTTGCTACAGCCCTAGCATG 60.134 52.381 17.85 17.85 46.69 4.06 R
2353 2490 0.10230 GACACTGTGTTTTGGTGCCC 59.898 55.000 15.54 0.00 34.70 5.36 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
164 167 3.511477 TCTCTGAGCCAGTTAAGAAGGT 58.489 45.455 0.00 0.00 32.61 3.50
291 294 7.259088 AGAGATGGGTTGTTCAAAGTAGTAT 57.741 36.000 0.00 0.00 0.00 2.12
853 868 9.087424 GTCTGCTTCAAAGTTTTCAAATAACTT 57.913 29.630 0.00 0.00 45.18 2.66
1051 1071 3.636300 ACCAAAGAATGTTGCTGCTGTTA 59.364 39.130 0.00 0.00 0.00 2.41
1068 1088 4.726021 GCTGTTATTGCTGACATTCTCACG 60.726 45.833 0.00 0.00 0.00 4.35
1119 1139 1.755179 ATGTTGGCCTTGATTCGAGG 58.245 50.000 14.83 14.83 38.05 4.63
1143 1163 4.080582 TCCAAGAAGAAGTTCAACAGGTCA 60.081 41.667 5.50 0.00 34.82 4.02
1194 1214 6.242396 AGAACTAGAGTACAAGCTTGAGAGA 58.758 40.000 32.50 11.71 0.00 3.10
1315 1335 0.178990 ACAAAGAGTTGAGGCCACCC 60.179 55.000 5.01 0.00 38.20 4.61
1444 1490 1.822425 TGAGTTTGGACCTGGGGTTA 58.178 50.000 0.00 0.00 35.25 2.85
1950 2080 2.030805 GGCTAAATTATTGGGCTCAGCG 60.031 50.000 0.00 0.00 39.17 5.18
2275 2412 5.717078 TGACCGTATTTCTTGTAGTGTCT 57.283 39.130 0.00 0.00 0.00 3.41
2276 2413 6.822667 TGACCGTATTTCTTGTAGTGTCTA 57.177 37.500 0.00 0.00 0.00 2.59
2277 2414 7.400599 TGACCGTATTTCTTGTAGTGTCTAT 57.599 36.000 0.00 0.00 0.00 1.98
2278 2415 8.510243 TGACCGTATTTCTTGTAGTGTCTATA 57.490 34.615 0.00 0.00 0.00 1.31
2279 2416 8.618677 TGACCGTATTTCTTGTAGTGTCTATAG 58.381 37.037 0.00 0.00 0.00 1.31
2280 2417 7.938715 ACCGTATTTCTTGTAGTGTCTATAGG 58.061 38.462 0.00 0.00 0.00 2.57
2281 2418 7.559170 ACCGTATTTCTTGTAGTGTCTATAGGT 59.441 37.037 0.00 0.00 0.00 3.08
2282 2419 8.411683 CCGTATTTCTTGTAGTGTCTATAGGTT 58.588 37.037 0.00 0.00 0.00 3.50
2283 2420 9.798994 CGTATTTCTTGTAGTGTCTATAGGTTT 57.201 33.333 0.00 0.00 0.00 3.27
2292 2429 9.132923 TGTAGTGTCTATAGGTTTTGATAGAGG 57.867 37.037 0.00 0.00 35.76 3.69
2293 2430 9.134055 GTAGTGTCTATAGGTTTTGATAGAGGT 57.866 37.037 0.00 0.00 35.76 3.85
2295 2432 9.357161 AGTGTCTATAGGTTTTGATAGAGGTAG 57.643 37.037 0.00 0.00 35.76 3.18
2296 2433 8.578151 GTGTCTATAGGTTTTGATAGAGGTAGG 58.422 40.741 0.00 0.00 35.76 3.18
2297 2434 8.287350 TGTCTATAGGTTTTGATAGAGGTAGGT 58.713 37.037 0.00 0.00 35.76 3.08
2298 2435 9.145442 GTCTATAGGTTTTGATAGAGGTAGGTT 57.855 37.037 0.00 0.00 35.76 3.50
2299 2436 9.725206 TCTATAGGTTTTGATAGAGGTAGGTTT 57.275 33.333 0.00 0.00 32.22 3.27
2300 2437 9.765795 CTATAGGTTTTGATAGAGGTAGGTTTG 57.234 37.037 0.00 0.00 0.00 2.93
2301 2438 6.449830 AGGTTTTGATAGAGGTAGGTTTGT 57.550 37.500 0.00 0.00 0.00 2.83
2302 2439 7.563724 AGGTTTTGATAGAGGTAGGTTTGTA 57.436 36.000 0.00 0.00 0.00 2.41
2303 2440 7.981142 AGGTTTTGATAGAGGTAGGTTTGTAA 58.019 34.615 0.00 0.00 0.00 2.41
2304 2441 8.612145 AGGTTTTGATAGAGGTAGGTTTGTAAT 58.388 33.333 0.00 0.00 0.00 1.89
2305 2442 9.239551 GGTTTTGATAGAGGTAGGTTTGTAATT 57.760 33.333 0.00 0.00 0.00 1.40
2309 2446 9.444600 TTGATAGAGGTAGGTTTGTAATTTCAC 57.555 33.333 0.00 0.00 0.00 3.18
2310 2447 8.822805 TGATAGAGGTAGGTTTGTAATTTCACT 58.177 33.333 0.00 0.00 0.00 3.41
2311 2448 9.315525 GATAGAGGTAGGTTTGTAATTTCACTC 57.684 37.037 0.00 0.00 0.00 3.51
2312 2449 7.074653 AGAGGTAGGTTTGTAATTTCACTCA 57.925 36.000 0.00 0.00 0.00 3.41
2313 2450 7.514721 AGAGGTAGGTTTGTAATTTCACTCAA 58.485 34.615 0.00 0.00 0.00 3.02
2314 2451 7.996644 AGAGGTAGGTTTGTAATTTCACTCAAA 59.003 33.333 0.00 0.00 0.00 2.69
2315 2452 7.937649 AGGTAGGTTTGTAATTTCACTCAAAC 58.062 34.615 10.01 10.01 44.71 2.93
2316 2453 6.854381 GGTAGGTTTGTAATTTCACTCAAACG 59.146 38.462 11.55 0.00 45.68 3.60
2317 2454 6.445357 AGGTTTGTAATTTCACTCAAACGT 57.555 33.333 11.55 9.96 45.68 3.99
2318 2455 6.262601 AGGTTTGTAATTTCACTCAAACGTG 58.737 36.000 11.87 0.00 45.68 4.49
2319 2456 6.094325 AGGTTTGTAATTTCACTCAAACGTGA 59.906 34.615 11.87 0.00 45.68 4.35
2320 2457 6.195798 GGTTTGTAATTTCACTCAAACGTGAC 59.804 38.462 11.55 0.00 45.68 3.67
2321 2458 6.424176 TTGTAATTTCACTCAAACGTGACA 57.576 33.333 0.00 0.00 43.11 3.58
2322 2459 6.612247 TGTAATTTCACTCAAACGTGACAT 57.388 33.333 0.00 0.00 43.11 3.06
2323 2460 7.716768 TGTAATTTCACTCAAACGTGACATA 57.283 32.000 0.00 0.00 43.11 2.29
2324 2461 8.144155 TGTAATTTCACTCAAACGTGACATAA 57.856 30.769 0.00 0.00 43.11 1.90
2325 2462 8.065407 TGTAATTTCACTCAAACGTGACATAAC 58.935 33.333 0.00 0.00 43.11 1.89
2326 2463 5.412526 TTTCACTCAAACGTGACATAACC 57.587 39.130 0.00 0.00 43.11 2.85
2327 2464 3.054166 TCACTCAAACGTGACATAACCG 58.946 45.455 0.00 0.00 38.89 4.44
2328 2465 1.796459 ACTCAAACGTGACATAACCGC 59.204 47.619 0.00 0.00 0.00 5.68
2329 2466 1.127951 CTCAAACGTGACATAACCGCC 59.872 52.381 0.00 0.00 0.00 6.13
2330 2467 1.153353 CAAACGTGACATAACCGCCT 58.847 50.000 0.00 0.00 0.00 5.52
2331 2468 1.127951 CAAACGTGACATAACCGCCTC 59.872 52.381 0.00 0.00 0.00 4.70
2332 2469 0.606604 AACGTGACATAACCGCCTCT 59.393 50.000 0.00 0.00 0.00 3.69
2333 2470 0.172803 ACGTGACATAACCGCCTCTC 59.827 55.000 0.00 0.00 0.00 3.20
2334 2471 0.172578 CGTGACATAACCGCCTCTCA 59.827 55.000 0.00 0.00 0.00 3.27
2335 2472 1.641577 GTGACATAACCGCCTCTCAC 58.358 55.000 0.00 0.00 0.00 3.51
2336 2473 0.535335 TGACATAACCGCCTCTCACC 59.465 55.000 0.00 0.00 0.00 4.02
2337 2474 0.179081 GACATAACCGCCTCTCACCC 60.179 60.000 0.00 0.00 0.00 4.61
2338 2475 1.227263 CATAACCGCCTCTCACCCG 60.227 63.158 0.00 0.00 0.00 5.28
2339 2476 2.432300 ATAACCGCCTCTCACCCGG 61.432 63.158 0.00 0.00 46.97 5.73
2340 2477 2.866523 ATAACCGCCTCTCACCCGGA 62.867 60.000 0.73 0.00 44.55 5.14
2341 2478 2.866523 TAACCGCCTCTCACCCGGAT 62.867 60.000 0.73 0.00 44.55 4.18
2342 2479 3.470888 CCGCCTCTCACCCGGATT 61.471 66.667 0.73 0.00 44.55 3.01
2343 2480 2.107141 CGCCTCTCACCCGGATTC 59.893 66.667 0.73 0.00 0.00 2.52
2344 2481 2.721167 CGCCTCTCACCCGGATTCA 61.721 63.158 0.73 0.00 0.00 2.57
2345 2482 1.832912 GCCTCTCACCCGGATTCAT 59.167 57.895 0.73 0.00 0.00 2.57
2346 2483 1.048601 GCCTCTCACCCGGATTCATA 58.951 55.000 0.73 0.00 0.00 2.15
2347 2484 1.270358 GCCTCTCACCCGGATTCATAC 60.270 57.143 0.73 0.00 0.00 2.39
2348 2485 2.039418 CCTCTCACCCGGATTCATACA 58.961 52.381 0.73 0.00 0.00 2.29
2349 2486 2.224066 CCTCTCACCCGGATTCATACAC 60.224 54.545 0.73 0.00 0.00 2.90
2350 2487 1.407618 TCTCACCCGGATTCATACACG 59.592 52.381 0.73 0.00 0.00 4.49
2351 2488 0.462375 TCACCCGGATTCATACACGG 59.538 55.000 0.73 0.00 45.57 4.94
2352 2489 0.177141 CACCCGGATTCATACACGGT 59.823 55.000 0.73 0.00 44.57 4.83
2353 2490 0.177141 ACCCGGATTCATACACGGTG 59.823 55.000 0.73 6.58 44.57 4.94
2354 2491 0.531974 CCCGGATTCATACACGGTGG 60.532 60.000 13.48 0.00 44.57 4.61
2355 2492 0.531974 CCGGATTCATACACGGTGGG 60.532 60.000 13.48 1.82 41.34 4.61
2356 2493 1.157870 CGGATTCATACACGGTGGGC 61.158 60.000 13.48 0.00 0.00 5.36
2357 2494 0.107410 GGATTCATACACGGTGGGCA 60.107 55.000 13.48 0.00 0.00 5.36
2358 2495 1.014352 GATTCATACACGGTGGGCAC 58.986 55.000 13.48 0.00 0.00 5.01
2372 2509 3.641031 GGCACCAAAACACAGTGTC 57.359 52.632 6.67 0.00 33.96 3.67
2373 2510 1.102978 GGCACCAAAACACAGTGTCT 58.897 50.000 6.67 0.00 33.37 3.41
2374 2511 1.065551 GGCACCAAAACACAGTGTCTC 59.934 52.381 6.67 0.00 33.37 3.36
2375 2512 1.065551 GCACCAAAACACAGTGTCTCC 59.934 52.381 6.67 0.00 33.96 3.71
2376 2513 2.643551 CACCAAAACACAGTGTCTCCT 58.356 47.619 6.67 0.00 0.00 3.69
2377 2514 2.614057 CACCAAAACACAGTGTCTCCTC 59.386 50.000 6.67 0.00 0.00 3.71
2378 2515 1.867233 CCAAAACACAGTGTCTCCTCG 59.133 52.381 6.67 0.00 0.00 4.63
2379 2516 1.867233 CAAAACACAGTGTCTCCTCGG 59.133 52.381 6.67 0.00 0.00 4.63
2380 2517 0.249911 AAACACAGTGTCTCCTCGGC 60.250 55.000 6.67 0.00 0.00 5.54
2381 2518 2.100879 AACACAGTGTCTCCTCGGCC 62.101 60.000 6.67 0.00 0.00 6.13
2382 2519 2.203640 ACAGTGTCTCCTCGGCCA 60.204 61.111 2.24 0.00 0.00 5.36
2383 2520 1.837051 ACAGTGTCTCCTCGGCCAA 60.837 57.895 2.24 0.00 0.00 4.52
2384 2521 1.371183 CAGTGTCTCCTCGGCCAAA 59.629 57.895 2.24 0.00 0.00 3.28
2385 2522 0.250295 CAGTGTCTCCTCGGCCAAAA 60.250 55.000 2.24 0.00 0.00 2.44
2386 2523 0.693049 AGTGTCTCCTCGGCCAAAAT 59.307 50.000 2.24 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
510 514 3.469008 TTCTCCACTTCGAAAGCAAGA 57.531 42.857 0.00 0.00 0.00 3.02
853 868 8.851145 CAGTCTCCATGCTACTAATTAACTAGA 58.149 37.037 0.00 0.00 0.00 2.43
979 999 5.822519 CCATAGCTTTTTACATGTCAGCCTA 59.177 40.000 0.00 0.00 0.00 3.93
1068 1088 2.087646 GTGCTGGAGGGACATTCTTTC 58.912 52.381 0.00 0.00 36.25 2.62
1119 1139 4.200092 ACCTGTTGAACTTCTTCTTGGAC 58.800 43.478 0.00 0.00 0.00 4.02
1315 1335 1.134280 ACTTGCTACAGCCCTAGCATG 60.134 52.381 17.85 17.85 46.69 4.06
1444 1490 4.277476 TGTCCAGTCAACCAAAACTCATT 58.723 39.130 0.00 0.00 0.00 2.57
1950 2080 8.810652 TTAGTCCAAATCAGTTGTTTTAATGC 57.189 30.769 0.00 0.00 35.23 3.56
2030 2162 2.682594 CCACCTAGGATCTGATGTGGA 58.317 52.381 17.98 0.00 44.69 4.02
2101 2233 1.273886 GGCCGCCCTTGACAAAAATTA 59.726 47.619 0.00 0.00 0.00 1.40
2108 2240 3.645660 TCATGGCCGCCCTTGACA 61.646 61.111 7.03 0.00 39.57 3.58
2275 2412 9.275572 ACAAACCTACCTCTATCAAAACCTATA 57.724 33.333 0.00 0.00 0.00 1.31
2276 2413 8.159229 ACAAACCTACCTCTATCAAAACCTAT 57.841 34.615 0.00 0.00 0.00 2.57
2277 2414 7.563724 ACAAACCTACCTCTATCAAAACCTA 57.436 36.000 0.00 0.00 0.00 3.08
2278 2415 6.449830 ACAAACCTACCTCTATCAAAACCT 57.550 37.500 0.00 0.00 0.00 3.50
2279 2416 8.803397 ATTACAAACCTACCTCTATCAAAACC 57.197 34.615 0.00 0.00 0.00 3.27
2283 2420 9.444600 GTGAAATTACAAACCTACCTCTATCAA 57.555 33.333 0.00 0.00 0.00 2.57
2284 2421 8.822805 AGTGAAATTACAAACCTACCTCTATCA 58.177 33.333 0.00 0.00 0.00 2.15
2285 2422 9.315525 GAGTGAAATTACAAACCTACCTCTATC 57.684 37.037 0.00 0.00 0.00 2.08
2286 2423 8.822805 TGAGTGAAATTACAAACCTACCTCTAT 58.177 33.333 0.00 0.00 0.00 1.98
2287 2424 8.197592 TGAGTGAAATTACAAACCTACCTCTA 57.802 34.615 0.00 0.00 0.00 2.43
2288 2425 7.074653 TGAGTGAAATTACAAACCTACCTCT 57.925 36.000 0.00 0.00 0.00 3.69
2289 2426 7.739498 TTGAGTGAAATTACAAACCTACCTC 57.261 36.000 0.00 0.00 0.00 3.85
2290 2427 7.255001 CGTTTGAGTGAAATTACAAACCTACCT 60.255 37.037 0.00 0.00 44.85 3.08
2291 2428 6.854381 CGTTTGAGTGAAATTACAAACCTACC 59.146 38.462 0.00 0.00 44.85 3.18
2292 2429 7.375017 CACGTTTGAGTGAAATTACAAACCTAC 59.625 37.037 0.00 0.00 44.85 3.18
2293 2430 7.280428 TCACGTTTGAGTGAAATTACAAACCTA 59.720 33.333 0.00 0.00 46.81 3.08
2294 2431 6.094325 TCACGTTTGAGTGAAATTACAAACCT 59.906 34.615 0.00 0.00 46.81 3.50
2295 2432 6.259638 TCACGTTTGAGTGAAATTACAAACC 58.740 36.000 0.00 0.00 46.81 3.27
2307 2444 2.411031 GCGGTTATGTCACGTTTGAGTG 60.411 50.000 0.00 0.00 43.11 3.51
2308 2445 1.796459 GCGGTTATGTCACGTTTGAGT 59.204 47.619 0.00 0.00 30.10 3.41
2309 2446 1.127951 GGCGGTTATGTCACGTTTGAG 59.872 52.381 0.00 0.00 30.10 3.02
2310 2447 1.149987 GGCGGTTATGTCACGTTTGA 58.850 50.000 0.00 0.00 0.00 2.69
2311 2448 1.127951 GAGGCGGTTATGTCACGTTTG 59.872 52.381 0.00 0.00 0.00 2.93
2312 2449 1.001633 AGAGGCGGTTATGTCACGTTT 59.998 47.619 0.00 0.00 0.00 3.60
2313 2450 0.606604 AGAGGCGGTTATGTCACGTT 59.393 50.000 0.00 0.00 0.00 3.99
2314 2451 0.172803 GAGAGGCGGTTATGTCACGT 59.827 55.000 0.00 0.00 0.00 4.49
2315 2452 0.172578 TGAGAGGCGGTTATGTCACG 59.827 55.000 0.00 0.00 0.00 4.35
2316 2453 1.641577 GTGAGAGGCGGTTATGTCAC 58.358 55.000 0.00 0.00 33.30 3.67
2317 2454 0.535335 GGTGAGAGGCGGTTATGTCA 59.465 55.000 0.00 0.00 0.00 3.58
2318 2455 0.179081 GGGTGAGAGGCGGTTATGTC 60.179 60.000 0.00 0.00 0.00 3.06
2319 2456 1.905512 GGGTGAGAGGCGGTTATGT 59.094 57.895 0.00 0.00 0.00 2.29
2320 2457 1.227263 CGGGTGAGAGGCGGTTATG 60.227 63.158 0.00 0.00 0.00 1.90
2321 2458 2.432300 CCGGGTGAGAGGCGGTTAT 61.432 63.158 0.00 0.00 0.00 1.89
2322 2459 2.866523 ATCCGGGTGAGAGGCGGTTA 62.867 60.000 0.00 0.00 0.00 2.85
2324 2461 4.779733 ATCCGGGTGAGAGGCGGT 62.780 66.667 0.00 0.00 0.00 5.68
2325 2462 3.447025 GAATCCGGGTGAGAGGCGG 62.447 68.421 0.00 0.00 0.00 6.13
2326 2463 2.032860 ATGAATCCGGGTGAGAGGCG 62.033 60.000 0.00 0.00 0.00 5.52
2327 2464 1.048601 TATGAATCCGGGTGAGAGGC 58.951 55.000 0.00 0.00 0.00 4.70
2328 2465 2.039418 TGTATGAATCCGGGTGAGAGG 58.961 52.381 0.00 0.00 0.00 3.69
2329 2466 2.543861 CGTGTATGAATCCGGGTGAGAG 60.544 54.545 0.00 0.00 0.00 3.20
2330 2467 1.407618 CGTGTATGAATCCGGGTGAGA 59.592 52.381 0.00 0.00 0.00 3.27
2331 2468 1.538204 CCGTGTATGAATCCGGGTGAG 60.538 57.143 0.00 0.00 36.84 3.51
2332 2469 0.462375 CCGTGTATGAATCCGGGTGA 59.538 55.000 0.00 0.00 36.84 4.02
2333 2470 0.177141 ACCGTGTATGAATCCGGGTG 59.823 55.000 0.00 0.00 44.57 4.61
2334 2471 0.177141 CACCGTGTATGAATCCGGGT 59.823 55.000 0.00 0.00 44.57 5.28
2335 2472 0.531974 CCACCGTGTATGAATCCGGG 60.532 60.000 0.00 0.00 44.57 5.73
2336 2473 0.531974 CCCACCGTGTATGAATCCGG 60.532 60.000 0.00 0.00 45.72 5.14
2337 2474 1.157870 GCCCACCGTGTATGAATCCG 61.158 60.000 0.00 0.00 0.00 4.18
2338 2475 0.107410 TGCCCACCGTGTATGAATCC 60.107 55.000 0.00 0.00 0.00 3.01
2339 2476 1.014352 GTGCCCACCGTGTATGAATC 58.986 55.000 0.00 0.00 0.00 2.52
2340 2477 0.393808 GGTGCCCACCGTGTATGAAT 60.394 55.000 1.07 0.00 42.29 2.57
2341 2478 1.003112 GGTGCCCACCGTGTATGAA 60.003 57.895 1.07 0.00 42.29 2.57
2342 2479 2.666207 GGTGCCCACCGTGTATGA 59.334 61.111 1.07 0.00 42.29 2.15
2351 2488 0.179113 CACTGTGTTTTGGTGCCCAC 60.179 55.000 0.00 0.00 30.78 4.61
2352 2489 0.613292 ACACTGTGTTTTGGTGCCCA 60.613 50.000 7.80 0.00 34.70 5.36
2353 2490 0.102300 GACACTGTGTTTTGGTGCCC 59.898 55.000 15.54 0.00 34.70 5.36
2354 2491 1.065551 GAGACACTGTGTTTTGGTGCC 59.934 52.381 15.54 0.00 34.70 5.01
2355 2492 1.065551 GGAGACACTGTGTTTTGGTGC 59.934 52.381 15.54 0.04 34.70 5.01
2356 2493 2.614057 GAGGAGACACTGTGTTTTGGTG 59.386 50.000 15.54 0.00 37.05 4.17
2357 2494 2.741878 CGAGGAGACACTGTGTTTTGGT 60.742 50.000 15.54 0.00 0.00 3.67
2358 2495 1.867233 CGAGGAGACACTGTGTTTTGG 59.133 52.381 15.54 0.00 0.00 3.28
2359 2496 1.867233 CCGAGGAGACACTGTGTTTTG 59.133 52.381 15.54 5.61 0.00 2.44
2360 2497 1.810412 GCCGAGGAGACACTGTGTTTT 60.810 52.381 15.54 6.74 0.00 2.43
2361 2498 0.249911 GCCGAGGAGACACTGTGTTT 60.250 55.000 15.54 9.54 0.00 2.83
2362 2499 1.367840 GCCGAGGAGACACTGTGTT 59.632 57.895 15.54 5.17 0.00 3.32
2363 2500 2.574955 GGCCGAGGAGACACTGTGT 61.575 63.158 14.23 14.23 0.00 3.72
2364 2501 2.099652 TTGGCCGAGGAGACACTGTG 62.100 60.000 6.19 6.19 0.00 3.66
2365 2502 1.407656 TTTGGCCGAGGAGACACTGT 61.408 55.000 0.00 0.00 0.00 3.55
2366 2503 0.250295 TTTTGGCCGAGGAGACACTG 60.250 55.000 0.00 0.00 0.00 3.66
2367 2504 0.693049 ATTTTGGCCGAGGAGACACT 59.307 50.000 0.00 0.00 0.00 3.55
2368 2505 3.249687 ATTTTGGCCGAGGAGACAC 57.750 52.632 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.