Multiple sequence alignment - TraesCS3D01G068700

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 TraesCS3D01G068700 chr3D 100.000 2427 0 0 1 2427 30266929 30264503 0.000000e+00 4482
1 TraesCS3D01G068700 chr1D 97.089 2267 57 7 1 2263 426131174 426128913 0.000000e+00 3812
2 TraesCS3D01G068700 chr1D 96.912 2267 62 7 1 2263 456208499 456206237 0.000000e+00 3792
3 TraesCS3D01G068700 chr1D 96.655 2272 64 7 1 2264 473897053 473899320 0.000000e+00 3764
4 TraesCS3D01G068700 chr7D 97.000 2267 61 6 1 2264 239340599 239338337 0.000000e+00 3803
5 TraesCS3D01G068700 chr7D 96.820 2264 66 5 3 2263 613895221 613892961 0.000000e+00 3777
6 TraesCS3D01G068700 chr7D 96.740 2270 64 7 1 2263 562046988 562049254 0.000000e+00 3773
7 TraesCS3D01G068700 chr7D 98.171 164 3 0 2264 2427 501794246 501794409 1.100000e-73 287
8 TraesCS3D01G068700 chr4D 96.958 2268 61 6 1 2263 504583302 504585566 0.000000e+00 3799
9 TraesCS3D01G068700 chr2D 96.956 2267 59 8 1 2263 619550006 619552266 0.000000e+00 3795
10 TraesCS3D01G068700 chr5D 96.777 2265 66 7 1 2263 554524467 554522208 0.000000e+00 3771
11 TraesCS3D01G068700 chr7A 98.171 164 3 0 2264 2427 208552041 208551878 1.100000e-73 287
12 TraesCS3D01G068700 chr5A 95.122 164 8 0 2264 2427 453330609 453330772 2.390000e-65 259
13 TraesCS3D01G068700 chr1A 94.512 164 9 0 2264 2427 535892864 535892701 1.110000e-63 254


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 TraesCS3D01G068700 chr3D 30264503 30266929 2426 True 4482 4482 100.000 1 2427 1 chr3D.!!$R1 2426
1 TraesCS3D01G068700 chr1D 426128913 426131174 2261 True 3812 3812 97.089 1 2263 1 chr1D.!!$R1 2262
2 TraesCS3D01G068700 chr1D 456206237 456208499 2262 True 3792 3792 96.912 1 2263 1 chr1D.!!$R2 2262
3 TraesCS3D01G068700 chr1D 473897053 473899320 2267 False 3764 3764 96.655 1 2264 1 chr1D.!!$F1 2263
4 TraesCS3D01G068700 chr7D 239338337 239340599 2262 True 3803 3803 97.000 1 2264 1 chr7D.!!$R1 2263
5 TraesCS3D01G068700 chr7D 613892961 613895221 2260 True 3777 3777 96.820 3 2263 1 chr7D.!!$R2 2260
6 TraesCS3D01G068700 chr7D 562046988 562049254 2266 False 3773 3773 96.740 1 2263 1 chr7D.!!$F2 2262
7 TraesCS3D01G068700 chr4D 504583302 504585566 2264 False 3799 3799 96.958 1 2263 1 chr4D.!!$F1 2262
8 TraesCS3D01G068700 chr2D 619550006 619552266 2260 False 3795 3795 96.956 1 2263 1 chr2D.!!$F1 2262
9 TraesCS3D01G068700 chr5D 554522208 554524467 2259 True 3771 3771 96.777 1 2263 1 chr5D.!!$R1 2262

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
431 436 0.313043 ACGACGATCGAGGTTTGTGT 59.687 50.0 24.34 4.94 43.74 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1789 1802 0.389296 CACCACATGCATGTTGCCTG 60.389 55.0 29.48 17.33 44.23 4.85 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
43 44 0.324368 AGGAGCTACCATCACCGACA 60.324 55.000 0.00 0.00 42.04 4.35
68 69 5.702670 GTCACAAATGTCAGAGAGGAATCAA 59.297 40.000 0.00 0.00 0.00 2.57
253 258 5.882557 TGAGCTGAGAGTTTTCAAGAAAAGT 59.117 36.000 13.77 13.77 44.15 2.66
268 273 6.451064 AAGAAAAGTCTTGACAAACCGATT 57.549 33.333 3.49 0.00 42.73 3.34
431 436 0.313043 ACGACGATCGAGGTTTGTGT 59.687 50.000 24.34 4.94 43.74 3.72
612 620 2.984435 TATCCCATGCCATGCAAGAT 57.016 45.000 0.00 4.02 43.62 2.40
967 975 6.435277 AGTTGACAGCTTATTTCCATTGACAT 59.565 34.615 0.00 0.00 0.00 3.06
1159 1167 2.303163 AGTGCACGTGTTGAACTACA 57.697 45.000 18.38 0.33 43.16 2.74
1178 1186 9.080097 GAACTACAGTAACTACCATGGAGATAT 57.920 37.037 21.47 0.00 0.00 1.63
1353 1362 5.334879 GCCTTCGTGTTTTGAACATGTATCT 60.335 40.000 0.00 0.00 46.14 1.98
1427 1436 6.126968 TGGAGACATGCTAATCAGAGAATGAA 60.127 38.462 0.00 0.00 37.05 2.57
1641 1650 3.118738 AGGGTTGGTTCGATGACTATCAC 60.119 47.826 0.00 0.00 32.67 3.06
1763 1776 9.877178 GAAGAGTTATTATATATCTGTGGGTGG 57.123 37.037 0.00 0.00 0.00 4.61
1789 1802 4.082081 TGAACATGGATTGGATTGAAGTGC 60.082 41.667 0.00 0.00 0.00 4.40
1931 1947 3.785486 CATAGCAGTAGCAGTAGCACAA 58.215 45.455 0.00 0.00 45.49 3.33
2014 2030 1.709115 ACCCCTAAACCACCTCCTTTC 59.291 52.381 0.00 0.00 0.00 2.62
2100 2120 2.539081 GGACCAAAGGCCCTCCTGT 61.539 63.158 0.00 0.00 43.40 4.00
2147 2167 2.966732 GCCCATCTGTCCCGGTTGA 61.967 63.158 0.00 0.00 0.00 3.18
2264 2284 4.015872 TGGCCCTTTTTCTACTAGTGTG 57.984 45.455 5.39 0.00 0.00 3.82
2265 2285 3.244770 TGGCCCTTTTTCTACTAGTGTGG 60.245 47.826 5.39 0.00 0.00 4.17
2266 2286 3.008704 GGCCCTTTTTCTACTAGTGTGGA 59.991 47.826 5.39 0.00 31.71 4.02
2267 2287 4.001652 GCCCTTTTTCTACTAGTGTGGAC 58.998 47.826 5.39 0.00 33.37 4.02
2268 2288 4.504340 GCCCTTTTTCTACTAGTGTGGACA 60.504 45.833 5.39 0.00 33.37 4.02
2269 2289 4.995487 CCCTTTTTCTACTAGTGTGGACAC 59.005 45.833 5.39 1.42 46.77 3.67
2283 2303 2.248248 TGGACACTCTCCACTTACAGG 58.752 52.381 0.00 0.00 44.99 4.00
2284 2304 2.158370 TGGACACTCTCCACTTACAGGA 60.158 50.000 0.00 0.00 44.99 3.86
2285 2305 2.897969 GGACACTCTCCACTTACAGGAA 59.102 50.000 0.00 0.00 39.21 3.36
2286 2306 3.515901 GGACACTCTCCACTTACAGGAAT 59.484 47.826 0.00 0.00 39.21 3.01
2287 2307 4.710375 GGACACTCTCCACTTACAGGAATA 59.290 45.833 0.00 0.00 39.21 1.75
2288 2308 5.364157 GGACACTCTCCACTTACAGGAATAT 59.636 44.000 0.00 0.00 39.21 1.28
2289 2309 6.227298 ACACTCTCCACTTACAGGAATATG 57.773 41.667 0.00 0.00 34.08 1.78
2290 2310 5.053145 CACTCTCCACTTACAGGAATATGC 58.947 45.833 0.00 0.00 34.08 3.14
2291 2311 4.965532 ACTCTCCACTTACAGGAATATGCT 59.034 41.667 0.00 0.00 34.08 3.79
2292 2312 5.426833 ACTCTCCACTTACAGGAATATGCTT 59.573 40.000 0.00 0.00 34.08 3.91
2293 2313 6.611642 ACTCTCCACTTACAGGAATATGCTTA 59.388 38.462 0.00 0.00 34.08 3.09
2294 2314 7.291182 ACTCTCCACTTACAGGAATATGCTTAT 59.709 37.037 0.00 0.00 34.08 1.73
2295 2315 8.034313 TCTCCACTTACAGGAATATGCTTATT 57.966 34.615 4.61 4.61 34.08 1.40
2296 2316 9.154632 TCTCCACTTACAGGAATATGCTTATTA 57.845 33.333 4.93 0.00 34.08 0.98
2297 2317 9.429359 CTCCACTTACAGGAATATGCTTATTAG 57.571 37.037 4.93 1.54 34.08 1.73
2298 2318 7.878127 TCCACTTACAGGAATATGCTTATTAGC 59.122 37.037 4.93 0.00 38.95 3.09
2314 2334 8.299262 GCTTATTAGCAAGTATCGATTTCAGA 57.701 34.615 1.71 0.00 46.95 3.27
2315 2335 8.431593 GCTTATTAGCAAGTATCGATTTCAGAG 58.568 37.037 1.71 0.00 46.95 3.35
2316 2336 8.818141 TTATTAGCAAGTATCGATTTCAGAGG 57.182 34.615 1.71 0.00 0.00 3.69
2317 2337 6.465439 TTAGCAAGTATCGATTTCAGAGGA 57.535 37.500 1.71 0.00 0.00 3.71
2318 2338 5.344743 AGCAAGTATCGATTTCAGAGGAA 57.655 39.130 1.71 0.00 0.00 3.36
2319 2339 5.112686 AGCAAGTATCGATTTCAGAGGAAC 58.887 41.667 1.71 0.00 31.35 3.62
2321 2341 6.096987 AGCAAGTATCGATTTCAGAGGAACTA 59.903 38.462 1.71 0.00 41.55 2.24
2322 2342 6.926272 GCAAGTATCGATTTCAGAGGAACTAT 59.074 38.462 1.71 0.00 41.55 2.12
2323 2343 8.082852 GCAAGTATCGATTTCAGAGGAACTATA 58.917 37.037 1.71 0.00 41.55 1.31
2324 2344 9.400638 CAAGTATCGATTTCAGAGGAACTATAC 57.599 37.037 1.71 0.00 41.55 1.47
2325 2345 8.113173 AGTATCGATTTCAGAGGAACTATACC 57.887 38.462 1.71 0.00 41.55 2.73
2326 2346 6.978674 ATCGATTTCAGAGGAACTATACCA 57.021 37.500 0.00 0.00 41.55 3.25
2327 2347 6.145338 TCGATTTCAGAGGAACTATACCAC 57.855 41.667 0.00 0.00 41.55 4.16
2328 2348 4.976731 CGATTTCAGAGGAACTATACCACG 59.023 45.833 0.00 0.00 41.55 4.94
2329 2349 5.450137 CGATTTCAGAGGAACTATACCACGT 60.450 44.000 0.00 0.00 41.55 4.49
2330 2350 6.238566 CGATTTCAGAGGAACTATACCACGTA 60.239 42.308 0.00 0.00 41.55 3.57
2331 2351 6.839124 TTTCAGAGGAACTATACCACGTAA 57.161 37.500 0.00 0.00 41.55 3.18
2332 2352 7.414222 TTTCAGAGGAACTATACCACGTAAT 57.586 36.000 0.00 0.00 41.55 1.89
2333 2353 6.387041 TCAGAGGAACTATACCACGTAATG 57.613 41.667 0.00 0.00 41.55 1.90
2334 2354 4.982916 CAGAGGAACTATACCACGTAATGC 59.017 45.833 0.00 0.00 41.55 3.56
2335 2355 4.647853 AGAGGAACTATACCACGTAATGCA 59.352 41.667 0.00 0.00 41.55 3.96
2336 2356 4.690122 AGGAACTATACCACGTAATGCAC 58.310 43.478 0.00 0.00 36.02 4.57
2352 2372 3.745332 TGCACGTCAGCAAAATATCTG 57.255 42.857 0.00 0.00 42.46 2.90
2353 2373 2.419673 TGCACGTCAGCAAAATATCTGG 59.580 45.455 0.00 0.00 42.46 3.86
2354 2374 2.677836 GCACGTCAGCAAAATATCTGGA 59.322 45.455 0.00 0.00 0.00 3.86
2355 2375 3.313526 GCACGTCAGCAAAATATCTGGAT 59.686 43.478 0.00 0.00 0.00 3.41
2356 2376 4.553547 GCACGTCAGCAAAATATCTGGATC 60.554 45.833 0.00 0.00 0.00 3.36
2357 2377 4.813161 CACGTCAGCAAAATATCTGGATCT 59.187 41.667 0.00 0.00 0.00 2.75
2358 2378 5.295292 CACGTCAGCAAAATATCTGGATCTT 59.705 40.000 0.00 0.00 0.00 2.40
2359 2379 5.525378 ACGTCAGCAAAATATCTGGATCTTC 59.475 40.000 0.00 0.00 0.00 2.87
2360 2380 5.049818 CGTCAGCAAAATATCTGGATCTTCC 60.050 44.000 0.00 0.00 36.96 3.46
2361 2381 6.060788 GTCAGCAAAATATCTGGATCTTCCT 58.939 40.000 0.00 0.00 37.46 3.36
2362 2382 6.204495 GTCAGCAAAATATCTGGATCTTCCTC 59.796 42.308 0.00 0.00 37.46 3.71
2363 2383 5.178996 CAGCAAAATATCTGGATCTTCCTCG 59.821 44.000 0.00 0.00 37.46 4.63
2364 2384 4.453819 GCAAAATATCTGGATCTTCCTCGG 59.546 45.833 0.00 0.00 37.46 4.63
2365 2385 5.615289 CAAAATATCTGGATCTTCCTCGGT 58.385 41.667 0.00 0.00 37.46 4.69
2366 2386 6.741521 GCAAAATATCTGGATCTTCCTCGGTA 60.742 42.308 0.00 0.00 37.46 4.02
2367 2387 5.986501 AATATCTGGATCTTCCTCGGTAC 57.013 43.478 0.00 0.00 37.46 3.34
2368 2388 3.603965 ATCTGGATCTTCCTCGGTACT 57.396 47.619 0.00 0.00 37.46 2.73
2369 2389 3.383698 TCTGGATCTTCCTCGGTACTT 57.616 47.619 0.00 0.00 37.46 2.24
2370 2390 3.024547 TCTGGATCTTCCTCGGTACTTG 58.975 50.000 0.00 0.00 37.46 3.16
2371 2391 1.480954 TGGATCTTCCTCGGTACTTGC 59.519 52.381 0.00 0.00 37.46 4.01
2372 2392 1.480954 GGATCTTCCTCGGTACTTGCA 59.519 52.381 0.00 0.00 32.53 4.08
2373 2393 2.093658 GGATCTTCCTCGGTACTTGCAA 60.094 50.000 0.00 0.00 32.53 4.08
2374 2394 2.450609 TCTTCCTCGGTACTTGCAAC 57.549 50.000 0.00 0.00 0.00 4.17
2375 2395 1.968493 TCTTCCTCGGTACTTGCAACT 59.032 47.619 0.00 0.00 0.00 3.16
2376 2396 2.367567 TCTTCCTCGGTACTTGCAACTT 59.632 45.455 0.00 0.00 0.00 2.66
2377 2397 2.450609 TCCTCGGTACTTGCAACTTC 57.549 50.000 0.00 0.00 0.00 3.01
2378 2398 1.001633 TCCTCGGTACTTGCAACTTCC 59.998 52.381 0.00 0.00 0.00 3.46
2379 2399 1.270625 CCTCGGTACTTGCAACTTCCA 60.271 52.381 0.00 0.00 0.00 3.53
2380 2400 2.489971 CTCGGTACTTGCAACTTCCAA 58.510 47.619 0.00 0.00 0.00 3.53
2381 2401 2.875933 CTCGGTACTTGCAACTTCCAAA 59.124 45.455 0.00 0.00 0.00 3.28
2382 2402 2.875933 TCGGTACTTGCAACTTCCAAAG 59.124 45.455 0.00 0.00 0.00 2.77
2383 2403 2.616842 CGGTACTTGCAACTTCCAAAGT 59.383 45.455 0.00 0.00 45.46 2.66
2398 2418 7.563906 ACTTCCAAAGTTGATTCCAAATTTCA 58.436 30.769 0.00 0.00 44.24 2.69
2399 2419 7.712205 ACTTCCAAAGTTGATTCCAAATTTCAG 59.288 33.333 0.00 0.00 44.24 3.02
2400 2420 6.523840 TCCAAAGTTGATTCCAAATTTCAGG 58.476 36.000 0.00 0.00 44.24 3.86
2401 2421 6.099557 TCCAAAGTTGATTCCAAATTTCAGGT 59.900 34.615 0.00 0.00 44.24 4.00
2402 2422 6.767423 CCAAAGTTGATTCCAAATTTCAGGTT 59.233 34.615 0.00 0.00 44.24 3.50
2403 2423 7.254863 CCAAAGTTGATTCCAAATTTCAGGTTG 60.255 37.037 0.00 0.00 44.24 3.77
2404 2424 5.299949 AGTTGATTCCAAATTTCAGGTTGC 58.700 37.500 0.00 0.00 33.49 4.17
2405 2425 4.952071 TGATTCCAAATTTCAGGTTGCA 57.048 36.364 0.00 0.00 0.00 4.08
2406 2426 5.287674 TGATTCCAAATTTCAGGTTGCAA 57.712 34.783 0.00 0.00 0.00 4.08
2407 2427 5.299148 TGATTCCAAATTTCAGGTTGCAAG 58.701 37.500 0.00 0.00 0.00 4.01
2408 2428 3.749665 TCCAAATTTCAGGTTGCAAGG 57.250 42.857 0.00 0.00 0.00 3.61
2409 2429 3.037549 TCCAAATTTCAGGTTGCAAGGT 58.962 40.909 0.00 0.00 0.00 3.50
2410 2430 4.219115 TCCAAATTTCAGGTTGCAAGGTA 58.781 39.130 0.00 0.00 0.00 3.08
2411 2431 4.038642 TCCAAATTTCAGGTTGCAAGGTAC 59.961 41.667 0.00 0.00 0.00 3.34
2413 2433 5.242838 CCAAATTTCAGGTTGCAAGGTACTA 59.757 40.000 0.00 0.00 38.49 1.82
2414 2434 5.959618 AATTTCAGGTTGCAAGGTACTAC 57.040 39.130 0.00 0.00 38.49 2.73
2415 2435 4.699925 TTTCAGGTTGCAAGGTACTACT 57.300 40.909 0.00 0.00 38.49 2.57
2416 2436 4.699925 TTCAGGTTGCAAGGTACTACTT 57.300 40.909 0.00 0.00 38.49 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 4.963318 TTCCTCTCTGACATTTGTGACT 57.037 40.909 0.00 0.00 0.00 3.41
68 69 2.277008 ATGGTGGAACTCTCCCTCAT 57.723 50.000 0.00 0.00 41.64 2.90
268 273 7.051000 TCATTATTATTCATCACGGGTTGACA 58.949 34.615 0.00 0.00 36.92 3.58
345 350 7.332430 TGACGACATTTCCTACGTTCATAATTT 59.668 33.333 0.00 0.00 39.04 1.82
590 598 2.175284 TCTTGCATGGCATGGGATAAGA 59.825 45.455 27.48 13.20 38.76 2.10
612 620 2.702478 CCATCCTCTCCAAGACATAGCA 59.298 50.000 0.00 0.00 0.00 3.49
674 682 3.392285 CCACATCATGATGGGTCCTTAGA 59.608 47.826 33.31 0.00 40.54 2.10
721 729 2.817258 CCAAAATGGGTTACGCTCTCAA 59.183 45.455 0.36 0.00 32.67 3.02
1159 1167 6.019748 CCAGGATATCTCCATGGTAGTTACT 58.980 44.000 12.58 0.78 44.79 2.24
1353 1362 5.299531 CAGTTGAGATTCGTAGGATGACCTA 59.700 44.000 0.00 0.00 45.83 3.08
1442 1451 4.038271 TCCAAGAACCTCCTTACGACTA 57.962 45.455 0.00 0.00 0.00 2.59
1763 1776 6.755141 CACTTCAATCCAATCCATGTTCATTC 59.245 38.462 0.00 0.00 0.00 2.67
1789 1802 0.389296 CACCACATGCATGTTGCCTG 60.389 55.000 29.48 17.33 44.23 4.85
1970 1986 7.202075 GGTTTTGGGGGTTAATTTAGGTTGTTA 60.202 37.037 0.00 0.00 0.00 2.41
1971 1987 6.409464 GGTTTTGGGGGTTAATTTAGGTTGTT 60.409 38.462 0.00 0.00 0.00 2.83
2042 2062 1.448985 GACCAATAAGCTTCCACGCA 58.551 50.000 0.00 0.00 0.00 5.24
2147 2167 4.041321 GGCCTTTAGTCCCGGTTCTTATAT 59.959 45.833 0.00 0.00 0.00 0.86
2265 2285 4.810191 ATTCCTGTAAGTGGAGAGTGTC 57.190 45.455 0.00 0.00 34.76 3.67
2266 2286 5.395768 GCATATTCCTGTAAGTGGAGAGTGT 60.396 44.000 0.00 0.00 34.76 3.55
2267 2287 5.053145 GCATATTCCTGTAAGTGGAGAGTG 58.947 45.833 0.00 0.00 34.76 3.51
2268 2288 4.965532 AGCATATTCCTGTAAGTGGAGAGT 59.034 41.667 0.00 0.00 34.76 3.24
2269 2289 5.543507 AGCATATTCCTGTAAGTGGAGAG 57.456 43.478 0.00 0.00 34.76 3.20
2270 2290 5.957771 AAGCATATTCCTGTAAGTGGAGA 57.042 39.130 0.00 0.00 34.76 3.71
2271 2291 9.429359 CTAATAAGCATATTCCTGTAAGTGGAG 57.571 37.037 0.00 0.00 34.76 3.86
2290 2310 8.920665 CCTCTGAAATCGATACTTGCTAATAAG 58.079 37.037 0.00 0.00 0.00 1.73
2291 2311 8.638873 TCCTCTGAAATCGATACTTGCTAATAA 58.361 33.333 0.00 0.00 0.00 1.40
2292 2312 8.178313 TCCTCTGAAATCGATACTTGCTAATA 57.822 34.615 0.00 0.00 0.00 0.98
2293 2313 7.055667 TCCTCTGAAATCGATACTTGCTAAT 57.944 36.000 0.00 0.00 0.00 1.73
2294 2314 6.465439 TCCTCTGAAATCGATACTTGCTAA 57.535 37.500 0.00 0.00 0.00 3.09
2295 2315 6.096987 AGTTCCTCTGAAATCGATACTTGCTA 59.903 38.462 0.00 0.00 30.79 3.49
2296 2316 5.105146 AGTTCCTCTGAAATCGATACTTGCT 60.105 40.000 0.00 0.00 30.79 3.91
2297 2317 5.112686 AGTTCCTCTGAAATCGATACTTGC 58.887 41.667 0.00 0.00 30.79 4.01
2298 2318 9.400638 GTATAGTTCCTCTGAAATCGATACTTG 57.599 37.037 0.00 0.00 30.29 3.16
2299 2319 8.578151 GGTATAGTTCCTCTGAAATCGATACTT 58.422 37.037 0.00 0.00 30.29 2.24
2300 2320 7.724506 TGGTATAGTTCCTCTGAAATCGATACT 59.275 37.037 0.00 0.00 30.29 2.12
2301 2321 7.808856 GTGGTATAGTTCCTCTGAAATCGATAC 59.191 40.741 0.00 0.00 30.29 2.24
2302 2322 7.308408 CGTGGTATAGTTCCTCTGAAATCGATA 60.308 40.741 0.00 0.00 30.29 2.92
2303 2323 6.515200 CGTGGTATAGTTCCTCTGAAATCGAT 60.515 42.308 0.00 0.00 30.29 3.59
2304 2324 5.220989 CGTGGTATAGTTCCTCTGAAATCGA 60.221 44.000 0.00 0.00 30.29 3.59
2305 2325 4.976731 CGTGGTATAGTTCCTCTGAAATCG 59.023 45.833 0.00 0.00 30.29 3.34
2306 2326 5.903810 ACGTGGTATAGTTCCTCTGAAATC 58.096 41.667 0.00 0.00 30.29 2.17
2307 2327 5.934402 ACGTGGTATAGTTCCTCTGAAAT 57.066 39.130 0.00 0.00 32.73 2.17
2308 2328 6.839124 TTACGTGGTATAGTTCCTCTGAAA 57.161 37.500 0.00 0.00 30.79 2.69
2309 2329 6.682113 GCATTACGTGGTATAGTTCCTCTGAA 60.682 42.308 0.00 0.00 0.00 3.02
2310 2330 5.221185 GCATTACGTGGTATAGTTCCTCTGA 60.221 44.000 0.00 0.00 0.00 3.27
2311 2331 4.982916 GCATTACGTGGTATAGTTCCTCTG 59.017 45.833 0.00 0.00 0.00 3.35
2312 2332 4.647853 TGCATTACGTGGTATAGTTCCTCT 59.352 41.667 0.00 0.00 0.00 3.69
2313 2333 4.743644 GTGCATTACGTGGTATAGTTCCTC 59.256 45.833 0.00 0.00 0.00 3.71
2314 2334 4.690122 GTGCATTACGTGGTATAGTTCCT 58.310 43.478 0.00 0.00 0.00 3.36
2328 2348 5.678483 CAGATATTTTGCTGACGTGCATTAC 59.322 40.000 0.97 0.00 42.96 1.89
2329 2349 5.220835 CCAGATATTTTGCTGACGTGCATTA 60.221 40.000 0.97 0.00 42.96 1.90
2330 2350 4.439153 CCAGATATTTTGCTGACGTGCATT 60.439 41.667 0.97 0.00 42.96 3.56
2331 2351 3.065786 CCAGATATTTTGCTGACGTGCAT 59.934 43.478 0.97 0.00 42.96 3.96
2332 2352 2.419673 CCAGATATTTTGCTGACGTGCA 59.580 45.455 0.00 0.00 41.65 4.57
2333 2353 2.677836 TCCAGATATTTTGCTGACGTGC 59.322 45.455 0.00 0.00 34.06 5.34
2334 2354 4.813161 AGATCCAGATATTTTGCTGACGTG 59.187 41.667 0.00 0.00 34.06 4.49
2335 2355 5.028549 AGATCCAGATATTTTGCTGACGT 57.971 39.130 0.00 0.00 34.06 4.34
2336 2356 5.049818 GGAAGATCCAGATATTTTGCTGACG 60.050 44.000 0.00 0.00 36.28 4.35
2337 2357 6.060788 AGGAAGATCCAGATATTTTGCTGAC 58.939 40.000 0.00 0.00 39.61 3.51
2338 2358 6.257994 AGGAAGATCCAGATATTTTGCTGA 57.742 37.500 0.00 0.00 39.61 4.26
2339 2359 5.178996 CGAGGAAGATCCAGATATTTTGCTG 59.821 44.000 0.00 0.00 39.61 4.41
2340 2360 5.303971 CGAGGAAGATCCAGATATTTTGCT 58.696 41.667 0.00 0.00 39.61 3.91
2341 2361 4.453819 CCGAGGAAGATCCAGATATTTTGC 59.546 45.833 0.00 0.00 39.61 3.68
2342 2362 5.615289 ACCGAGGAAGATCCAGATATTTTG 58.385 41.667 0.00 0.00 39.61 2.44
2343 2363 5.896073 ACCGAGGAAGATCCAGATATTTT 57.104 39.130 0.00 0.00 39.61 1.82
2344 2364 6.078664 AGTACCGAGGAAGATCCAGATATTT 58.921 40.000 0.00 0.00 39.61 1.40
2345 2365 5.646215 AGTACCGAGGAAGATCCAGATATT 58.354 41.667 0.00 0.00 39.61 1.28
2346 2366 5.263872 AGTACCGAGGAAGATCCAGATAT 57.736 43.478 0.00 0.00 39.61 1.63
2347 2367 4.726035 AGTACCGAGGAAGATCCAGATA 57.274 45.455 0.00 0.00 39.61 1.98
2348 2368 3.603965 AGTACCGAGGAAGATCCAGAT 57.396 47.619 0.00 0.00 39.61 2.90
2349 2369 3.024547 CAAGTACCGAGGAAGATCCAGA 58.975 50.000 0.00 0.00 39.61 3.86
2350 2370 2.482142 GCAAGTACCGAGGAAGATCCAG 60.482 54.545 0.00 0.00 39.61 3.86
2351 2371 1.480954 GCAAGTACCGAGGAAGATCCA 59.519 52.381 0.00 0.00 39.61 3.41
2352 2372 1.480954 TGCAAGTACCGAGGAAGATCC 59.519 52.381 0.00 0.00 36.58 3.36
2353 2373 2.930682 GTTGCAAGTACCGAGGAAGATC 59.069 50.000 0.00 0.00 0.00 2.75
2354 2374 2.567615 AGTTGCAAGTACCGAGGAAGAT 59.432 45.455 4.57 0.00 0.00 2.40
2355 2375 1.968493 AGTTGCAAGTACCGAGGAAGA 59.032 47.619 4.57 0.00 0.00 2.87
2356 2376 2.457366 AGTTGCAAGTACCGAGGAAG 57.543 50.000 4.57 0.00 0.00 3.46
2357 2377 2.549349 GGAAGTTGCAAGTACCGAGGAA 60.549 50.000 7.33 0.00 0.00 3.36
2358 2378 1.001633 GGAAGTTGCAAGTACCGAGGA 59.998 52.381 7.33 0.00 0.00 3.71
2359 2379 1.270625 TGGAAGTTGCAAGTACCGAGG 60.271 52.381 7.33 0.00 0.00 4.63
2360 2380 2.163818 TGGAAGTTGCAAGTACCGAG 57.836 50.000 7.33 0.00 0.00 4.63
2361 2381 2.623878 TTGGAAGTTGCAAGTACCGA 57.376 45.000 7.33 4.50 0.00 4.69
2362 2382 2.616842 ACTTTGGAAGTTGCAAGTACCG 59.383 45.455 7.33 1.51 39.04 4.02
2373 2393 7.563906 TGAAATTTGGAATCAACTTTGGAAGT 58.436 30.769 0.00 0.00 45.46 3.01
2374 2394 7.172019 CCTGAAATTTGGAATCAACTTTGGAAG 59.828 37.037 0.00 0.00 36.37 3.46
2375 2395 6.991531 CCTGAAATTTGGAATCAACTTTGGAA 59.008 34.615 0.00 0.00 36.37 3.53
2376 2396 6.099557 ACCTGAAATTTGGAATCAACTTTGGA 59.900 34.615 0.00 0.00 36.37 3.53
2377 2397 6.290605 ACCTGAAATTTGGAATCAACTTTGG 58.709 36.000 0.00 0.00 36.37 3.28
2378 2398 7.632721 CAACCTGAAATTTGGAATCAACTTTG 58.367 34.615 0.00 0.00 36.37 2.77
2379 2399 6.260714 GCAACCTGAAATTTGGAATCAACTTT 59.739 34.615 0.00 0.00 38.09 2.66
2380 2400 5.759763 GCAACCTGAAATTTGGAATCAACTT 59.240 36.000 0.00 0.00 31.78 2.66
2381 2401 5.163322 TGCAACCTGAAATTTGGAATCAACT 60.163 36.000 0.00 0.00 31.78 3.16
2382 2402 5.055812 TGCAACCTGAAATTTGGAATCAAC 58.944 37.500 0.00 0.00 31.78 3.18
2383 2403 5.287674 TGCAACCTGAAATTTGGAATCAA 57.712 34.783 0.00 0.00 0.00 2.57
2384 2404 4.952071 TGCAACCTGAAATTTGGAATCA 57.048 36.364 0.00 0.00 0.00 2.57
2385 2405 4.692155 CCTTGCAACCTGAAATTTGGAATC 59.308 41.667 0.00 0.00 33.28 2.52
2386 2406 4.102996 ACCTTGCAACCTGAAATTTGGAAT 59.897 37.500 0.00 0.00 33.28 3.01
2387 2407 3.454082 ACCTTGCAACCTGAAATTTGGAA 59.546 39.130 0.00 0.00 32.80 3.53
2388 2408 3.037549 ACCTTGCAACCTGAAATTTGGA 58.962 40.909 0.00 0.00 0.00 3.53
2389 2409 3.473923 ACCTTGCAACCTGAAATTTGG 57.526 42.857 0.00 0.00 0.00 3.28
2390 2410 5.200368 AGTACCTTGCAACCTGAAATTTG 57.800 39.130 0.00 0.00 0.00 2.32
2391 2411 6.068670 AGTAGTACCTTGCAACCTGAAATTT 58.931 36.000 0.00 0.00 0.00 1.82
2392 2412 5.631119 AGTAGTACCTTGCAACCTGAAATT 58.369 37.500 0.00 0.00 0.00 1.82
2393 2413 5.242795 AGTAGTACCTTGCAACCTGAAAT 57.757 39.130 0.00 0.00 0.00 2.17
2394 2414 4.699925 AGTAGTACCTTGCAACCTGAAA 57.300 40.909 0.00 0.00 0.00 2.69
2395 2415 4.101898 TCAAGTAGTACCTTGCAACCTGAA 59.898 41.667 0.00 0.00 41.29 3.02
2396 2416 3.644265 TCAAGTAGTACCTTGCAACCTGA 59.356 43.478 0.00 0.00 41.29 3.86
2397 2417 3.746492 GTCAAGTAGTACCTTGCAACCTG 59.254 47.826 0.00 0.00 41.29 4.00
2398 2418 3.554337 CGTCAAGTAGTACCTTGCAACCT 60.554 47.826 0.00 0.00 41.29 3.50
2399 2419 2.735134 CGTCAAGTAGTACCTTGCAACC 59.265 50.000 0.00 0.00 41.29 3.77
2400 2420 3.183775 CACGTCAAGTAGTACCTTGCAAC 59.816 47.826 0.00 0.00 41.29 4.17
2401 2421 3.181473 ACACGTCAAGTAGTACCTTGCAA 60.181 43.478 0.00 0.00 41.29 4.08
2402 2422 2.363038 ACACGTCAAGTAGTACCTTGCA 59.637 45.455 6.92 0.00 41.29 4.08
2403 2423 3.022607 ACACGTCAAGTAGTACCTTGC 57.977 47.619 6.92 3.02 41.29 4.01


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

AutoCloner maintained by Alex Coulton.