Multiple sequence alignment - TraesCS4B01G244700

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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 TraesCS4B01G244700 chr4B 100.000 3188 0 0 1 3188 506324015 506327202 0.000000e+00 5888
1 TraesCS4B01G244700 chr4D 94.108 2325 106 17 1 2316 409479604 409477302 0.000000e+00 3506
2 TraesCS4B01G244700 chr4D 95.312 384 15 2 2739 3121 409462671 409462290 9.780000e-170 606
3 TraesCS4B01G244700 chr4D 95.798 119 5 0 2624 2742 409462900 409462782 3.250000e-45 193
4 TraesCS4B01G244700 chr4D 94.828 116 2 2 2505 2619 409477308 409477196 9.090000e-41 178
5 TraesCS4B01G244700 chr4D 95.833 72 2 1 3118 3188 409445341 409445270 7.230000e-22 115
6 TraesCS4B01G244700 chr4A 93.836 2320 92 24 1 2285 64568887 64571190 0.000000e+00 3445
7 TraesCS4B01G244700 chr4A 82.361 703 59 31 2495 3188 64571196 64571842 4.650000e-153 551
8 TraesCS4B01G244700 chr2A 89.062 192 18 3 2314 2503 405553438 405553628 5.320000e-58 235
9 TraesCS4B01G244700 chr6B 89.062 192 12 7 2317 2503 649277304 649277117 2.470000e-56 230
10 TraesCS4B01G244700 chr6B 87.047 193 17 7 2317 2503 90146302 90146112 8.960000e-51 211
11 TraesCS4B01G244700 chrUn 88.021 192 14 7 2317 2502 290147023 290147211 5.350000e-53 219
12 TraesCS4B01G244700 chr6D 88.021 192 14 6 2317 2503 114627706 114627519 5.350000e-53 219
13 TraesCS4B01G244700 chr1B 84.889 225 24 10 2307 2524 676006847 676007068 5.350000e-53 219
14 TraesCS4B01G244700 chr7D 87.895 190 13 5 2314 2499 509905648 509905831 6.930000e-52 215
15 TraesCS4B01G244700 chr7D 85.787 197 18 6 2311 2502 131461982 131461791 1.940000e-47 200
16 TraesCS4B01G244700 chr2D 85.714 196 16 9 2314 2504 585105676 585105488 2.510000e-46 196


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 TraesCS4B01G244700 chr4B 506324015 506327202 3187 False 5888.0 5888 100.0000 1 3188 1 chr4B.!!$F1 3187
1 TraesCS4B01G244700 chr4D 409477196 409479604 2408 True 1842.0 3506 94.4680 1 2619 2 chr4D.!!$R3 2618
2 TraesCS4B01G244700 chr4D 409462290 409462900 610 True 399.5 606 95.5550 2624 3121 2 chr4D.!!$R2 497
3 TraesCS4B01G244700 chr4A 64568887 64571842 2955 False 1998.0 3445 88.0985 1 3188 2 chr4A.!!$F1 3187

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
323 328 0.109039 TAGTACGTGCATTGCAGCGA 60.109 50.0 27.89 15.52 40.08 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2191 2231 0.027716 CAGCAGTGATGCGAGCAATC 59.972 55.0 0.57 1.6 40.27 2.67 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
98 99 1.738099 CGGCGTCTCCTTCAAGGTG 60.738 63.158 2.50 0.28 36.53 4.00
293 294 1.086067 CCTCACAGCAGGTACGCATG 61.086 60.000 0.00 0.00 0.00 4.06
306 311 1.302366 ACGCATGCATCACCATGTAG 58.698 50.000 19.57 0.00 43.46 2.74
307 312 1.302366 CGCATGCATCACCATGTAGT 58.698 50.000 19.57 0.00 43.46 2.73
323 328 0.109039 TAGTACGTGCATTGCAGCGA 60.109 50.000 27.89 15.52 40.08 4.93
327 332 2.638719 GTGCATTGCAGCGACACA 59.361 55.556 12.53 0.00 40.08 3.72
617 626 3.531207 CAGGAGGAGATCGCCGCA 61.531 66.667 19.97 0.00 40.51 5.69
670 679 3.434319 CATGCTCCGCGGCAACTT 61.434 61.111 23.51 7.37 45.68 2.66
687 696 8.221766 GCGGCAACTTTATAAATCATACTACTC 58.778 37.037 0.00 0.00 0.00 2.59
688 697 9.256477 CGGCAACTTTATAAATCATACTACTCA 57.744 33.333 0.00 0.00 0.00 3.41
755 790 3.065233 TCAATCGAGGATTTCATTTGCCG 59.935 43.478 0.00 0.00 28.87 5.69
1509 1549 2.981909 GGCAAGCTGCTGCACTCA 60.982 61.111 18.42 0.00 44.28 3.41
1807 1847 2.919856 ACCAGACGCTGCACCTCT 60.920 61.111 0.00 0.00 0.00 3.69
1834 1874 1.717032 CATGGGAAGGATCTACGGGA 58.283 55.000 0.00 0.00 0.00 5.14
1923 1963 4.504858 GAGTTGGAGAAATCTTTAGGCGA 58.495 43.478 0.00 0.00 0.00 5.54
2088 2128 0.390340 TGCTCATGTCCAAGTCGCTC 60.390 55.000 0.00 0.00 0.00 5.03
2094 2134 2.089349 GTCCAAGTCGCTCGCTGAC 61.089 63.158 5.99 5.99 36.60 3.51
2206 2246 0.661552 GCATGATTGCTCGCATCACT 59.338 50.000 0.00 0.00 45.77 3.41
2207 2247 1.597199 GCATGATTGCTCGCATCACTG 60.597 52.381 0.00 2.45 45.77 3.66
2208 2248 0.661552 ATGATTGCTCGCATCACTGC 59.338 50.000 0.00 0.00 45.31 4.40
2210 2250 0.027716 GATTGCTCGCATCACTGCTG 59.972 55.000 0.00 0.00 46.65 4.41
2244 2291 4.414337 AGTTCTACCTTGCATGAGATCC 57.586 45.455 0.00 0.00 0.00 3.36
2257 2304 4.736168 GCATGAGATCCTATAGGCACGATC 60.736 50.000 14.50 11.45 34.44 3.69
2309 2356 4.346734 AATGAACAGTGCAAAGCTATCG 57.653 40.909 0.00 0.00 0.00 2.92
2310 2357 3.038788 TGAACAGTGCAAAGCTATCGA 57.961 42.857 0.00 0.00 0.00 3.59
2311 2358 3.398406 TGAACAGTGCAAAGCTATCGAA 58.602 40.909 0.00 0.00 0.00 3.71
2312 2359 3.812609 TGAACAGTGCAAAGCTATCGAAA 59.187 39.130 0.00 0.00 0.00 3.46
2313 2360 4.274705 TGAACAGTGCAAAGCTATCGAAAA 59.725 37.500 0.00 0.00 0.00 2.29
2314 2361 4.829064 ACAGTGCAAAGCTATCGAAAAA 57.171 36.364 0.00 0.00 0.00 1.94
2315 2362 5.376854 ACAGTGCAAAGCTATCGAAAAAT 57.623 34.783 0.00 0.00 0.00 1.82
2316 2363 5.156355 ACAGTGCAAAGCTATCGAAAAATG 58.844 37.500 0.00 0.00 0.00 2.32
2317 2364 4.560035 CAGTGCAAAGCTATCGAAAAATGG 59.440 41.667 0.00 0.00 0.00 3.16
2318 2365 4.218417 AGTGCAAAGCTATCGAAAAATGGT 59.782 37.500 0.00 0.00 0.00 3.55
2319 2366 4.558860 GTGCAAAGCTATCGAAAAATGGTC 59.441 41.667 0.00 0.00 0.00 4.02
2320 2367 4.458989 TGCAAAGCTATCGAAAAATGGTCT 59.541 37.500 0.00 0.00 0.00 3.85
2321 2368 4.795278 GCAAAGCTATCGAAAAATGGTCTG 59.205 41.667 0.00 0.00 0.00 3.51
2322 2369 5.619981 GCAAAGCTATCGAAAAATGGTCTGT 60.620 40.000 0.00 0.00 0.00 3.41
2323 2370 5.803020 AAGCTATCGAAAAATGGTCTGTC 57.197 39.130 0.00 0.00 0.00 3.51
2324 2371 5.091261 AGCTATCGAAAAATGGTCTGTCT 57.909 39.130 0.00 0.00 0.00 3.41
2325 2372 6.222038 AGCTATCGAAAAATGGTCTGTCTA 57.778 37.500 0.00 0.00 0.00 2.59
2326 2373 6.276847 AGCTATCGAAAAATGGTCTGTCTAG 58.723 40.000 0.00 0.00 0.00 2.43
2327 2374 5.463724 GCTATCGAAAAATGGTCTGTCTAGG 59.536 44.000 0.00 0.00 0.00 3.02
2328 2375 5.677319 ATCGAAAAATGGTCTGTCTAGGA 57.323 39.130 0.00 0.00 0.00 2.94
2329 2376 4.817517 TCGAAAAATGGTCTGTCTAGGAC 58.182 43.478 0.00 0.00 0.00 3.85
2330 2377 4.282449 TCGAAAAATGGTCTGTCTAGGACA 59.718 41.667 0.43 0.43 40.50 4.02
2331 2378 4.389077 CGAAAAATGGTCTGTCTAGGACAC 59.611 45.833 0.00 0.00 37.67 3.67
2332 2379 4.974645 AAAATGGTCTGTCTAGGACACA 57.025 40.909 0.00 0.00 37.67 3.72
2333 2380 5.505181 AAAATGGTCTGTCTAGGACACAT 57.495 39.130 0.00 0.00 37.67 3.21
2334 2381 4.744795 AATGGTCTGTCTAGGACACATC 57.255 45.455 0.00 0.00 37.67 3.06
2335 2382 3.458044 TGGTCTGTCTAGGACACATCT 57.542 47.619 0.00 0.00 37.67 2.90
2336 2383 4.586306 TGGTCTGTCTAGGACACATCTA 57.414 45.455 0.00 0.00 37.67 1.98
2337 2384 4.527944 TGGTCTGTCTAGGACACATCTAG 58.472 47.826 0.00 0.00 37.67 2.43
2338 2385 4.227527 TGGTCTGTCTAGGACACATCTAGA 59.772 45.833 0.00 0.00 37.67 2.43
2339 2386 5.103898 TGGTCTGTCTAGGACACATCTAGAT 60.104 44.000 0.00 0.00 43.25 1.98
2340 2387 5.240623 GGTCTGTCTAGGACACATCTAGATG 59.759 48.000 27.63 27.63 43.25 2.90
2373 2420 9.755804 AGTTATGTCACATATGTCACATCTAAG 57.244 33.333 26.16 3.36 31.83 2.18
2374 2421 8.491152 GTTATGTCACATATGTCACATCTAAGC 58.509 37.037 26.16 9.86 31.83 3.09
2375 2422 5.976458 TGTCACATATGTCACATCTAAGCA 58.024 37.500 8.66 0.00 0.00 3.91
2376 2423 6.044682 TGTCACATATGTCACATCTAAGCAG 58.955 40.000 8.66 0.00 0.00 4.24
2377 2424 6.127366 TGTCACATATGTCACATCTAAGCAGA 60.127 38.462 8.66 0.00 34.56 4.26
2378 2425 6.927936 GTCACATATGTCACATCTAAGCAGAT 59.072 38.462 5.07 0.00 42.52 2.90
2389 2436 5.674052 ATCTAAGCAGATGTTCACTCTGT 57.326 39.130 2.63 0.00 40.15 3.41
2390 2437 5.474578 TCTAAGCAGATGTTCACTCTGTT 57.525 39.130 2.63 0.00 41.77 3.16
2391 2438 5.858381 TCTAAGCAGATGTTCACTCTGTTT 58.142 37.500 7.41 7.41 43.65 2.83
2392 2439 4.825546 AAGCAGATGTTCACTCTGTTTG 57.174 40.909 2.26 0.00 41.00 2.93
2393 2440 3.813443 AGCAGATGTTCACTCTGTTTGT 58.187 40.909 2.63 0.00 41.77 2.83
2394 2441 3.562973 AGCAGATGTTCACTCTGTTTGTG 59.437 43.478 2.63 0.00 41.77 3.33
2395 2442 3.313526 GCAGATGTTCACTCTGTTTGTGT 59.686 43.478 2.63 0.00 41.77 3.72
2396 2443 4.201950 GCAGATGTTCACTCTGTTTGTGTT 60.202 41.667 2.63 0.00 41.77 3.32
2397 2444 5.677091 GCAGATGTTCACTCTGTTTGTGTTT 60.677 40.000 2.63 0.00 41.77 2.83
2398 2445 6.324819 CAGATGTTCACTCTGTTTGTGTTTT 58.675 36.000 0.00 0.00 36.26 2.43
2399 2446 6.808212 CAGATGTTCACTCTGTTTGTGTTTTT 59.192 34.615 0.00 0.00 36.26 1.94
2447 2494 9.853555 TTCTTGTTGCTACATTATTATTTGTGG 57.146 29.630 0.81 0.00 33.44 4.17
2448 2495 8.465999 TCTTGTTGCTACATTATTATTTGTGGG 58.534 33.333 0.81 0.00 33.44 4.61
2449 2496 7.946381 TGTTGCTACATTATTATTTGTGGGA 57.054 32.000 0.00 0.00 0.00 4.37
2450 2497 7.995289 TGTTGCTACATTATTATTTGTGGGAG 58.005 34.615 0.00 0.00 0.00 4.30
2451 2498 6.633500 TGCTACATTATTATTTGTGGGAGC 57.367 37.500 0.00 0.00 0.00 4.70
2452 2499 6.364701 TGCTACATTATTATTTGTGGGAGCT 58.635 36.000 0.00 0.00 0.00 4.09
2453 2500 6.833416 TGCTACATTATTATTTGTGGGAGCTT 59.167 34.615 0.00 0.00 0.00 3.74
2454 2501 7.996066 TGCTACATTATTATTTGTGGGAGCTTA 59.004 33.333 0.00 0.00 0.00 3.09
2455 2502 8.507249 GCTACATTATTATTTGTGGGAGCTTAG 58.493 37.037 0.00 0.00 0.00 2.18
2456 2503 9.778741 CTACATTATTATTTGTGGGAGCTTAGA 57.221 33.333 0.00 0.00 0.00 2.10
2458 2505 9.071276 ACATTATTATTTGTGGGAGCTTAGATG 57.929 33.333 0.00 0.00 0.00 2.90
2459 2506 9.071276 CATTATTATTTGTGGGAGCTTAGATGT 57.929 33.333 0.00 0.00 0.00 3.06
2460 2507 6.949352 ATTATTTGTGGGAGCTTAGATGTG 57.051 37.500 0.00 0.00 0.00 3.21
2461 2508 4.574674 ATTTGTGGGAGCTTAGATGTGA 57.425 40.909 0.00 0.00 0.00 3.58
2462 2509 3.334583 TTGTGGGAGCTTAGATGTGAC 57.665 47.619 0.00 0.00 0.00 3.67
2463 2510 2.256306 TGTGGGAGCTTAGATGTGACA 58.744 47.619 0.00 0.00 0.00 3.58
2464 2511 2.840038 TGTGGGAGCTTAGATGTGACAT 59.160 45.455 0.00 0.00 0.00 3.06
2465 2512 3.118629 TGTGGGAGCTTAGATGTGACATC 60.119 47.826 17.46 17.46 0.00 3.06
2466 2513 2.435805 TGGGAGCTTAGATGTGACATCC 59.564 50.000 21.05 6.28 0.00 3.51
2467 2514 2.703007 GGGAGCTTAGATGTGACATCCT 59.297 50.000 21.05 11.37 0.00 3.24
2468 2515 3.135530 GGGAGCTTAGATGTGACATCCTT 59.864 47.826 21.05 7.22 0.00 3.36
2469 2516 4.345257 GGGAGCTTAGATGTGACATCCTTA 59.655 45.833 21.05 6.22 0.00 2.69
2470 2517 5.163301 GGGAGCTTAGATGTGACATCCTTAA 60.163 44.000 21.05 13.11 0.00 1.85
2471 2518 6.349300 GGAGCTTAGATGTGACATCCTTAAA 58.651 40.000 21.05 10.18 0.00 1.52
2472 2519 6.823689 GGAGCTTAGATGTGACATCCTTAAAA 59.176 38.462 21.05 8.00 0.00 1.52
2473 2520 7.336931 GGAGCTTAGATGTGACATCCTTAAAAA 59.663 37.037 21.05 6.46 0.00 1.94
2503 2550 9.809096 TCTAGATGTGAATTAGACAAACTGATC 57.191 33.333 0.00 0.00 0.00 2.92
2535 2582 7.837202 TCCTTGTAAGTTGAAATATGTACCG 57.163 36.000 0.00 0.00 0.00 4.02
2582 2630 3.408634 ACGTTACAAGCAAGTAATGGCT 58.591 40.909 18.71 0.00 42.50 4.75
2586 2634 3.146104 ACAAGCAAGTAATGGCTGACT 57.854 42.857 0.00 0.00 40.93 3.41
2587 2635 4.286297 ACAAGCAAGTAATGGCTGACTA 57.714 40.909 0.00 0.00 40.93 2.59
2588 2636 4.256920 ACAAGCAAGTAATGGCTGACTAG 58.743 43.478 0.00 0.00 40.93 2.57
2667 2718 3.956848 TGAGACCCATACATCACTCTGAG 59.043 47.826 2.45 2.45 0.00 3.35
2669 2720 1.765314 ACCCATACATCACTCTGAGGC 59.235 52.381 9.85 0.00 30.14 4.70
2692 2743 4.201773 CGCTAGTTACATTGCCGATTTCAA 60.202 41.667 0.00 0.00 0.00 2.69
2894 3059 5.333875 GGAGAGGAACATGTGTTAACGAAAC 60.334 44.000 0.00 0.00 38.56 2.78
2895 3060 5.120399 AGAGGAACATGTGTTAACGAAACA 58.880 37.500 0.00 0.27 45.90 2.83
3065 3231 1.345415 AGCTTGCAACCAGGAAAATGG 59.655 47.619 0.00 0.00 46.47 3.16
3133 3299 9.969001 AACTGTGCTATTAGACCCTAAAAATTA 57.031 29.630 0.00 0.00 0.00 1.40
3134 3300 9.392259 ACTGTGCTATTAGACCCTAAAAATTAC 57.608 33.333 0.00 0.00 0.00 1.89
3142 3309 8.873186 TTAGACCCTAAAAATTACAAAGAGGG 57.127 34.615 2.45 2.45 46.47 4.30
3143 3310 6.253758 AGACCCTAAAAATTACAAAGAGGGG 58.746 40.000 8.84 0.00 45.52 4.79
3155 3322 8.980481 ATTACAAAGAGGGGATAACATTAGTG 57.020 34.615 0.00 0.00 0.00 2.74
3156 3323 6.636454 ACAAAGAGGGGATAACATTAGTGA 57.364 37.500 0.00 0.00 0.00 3.41
3172 3339 3.685139 AGTGACACACTTATGGACCAG 57.315 47.619 8.59 0.00 42.59 4.00
3173 3340 3.239449 AGTGACACACTTATGGACCAGA 58.761 45.455 8.59 0.00 42.59 3.86
3174 3341 3.840666 AGTGACACACTTATGGACCAGAT 59.159 43.478 8.59 0.00 42.59 2.90
3175 3342 5.023452 AGTGACACACTTATGGACCAGATA 58.977 41.667 8.59 0.00 42.59 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 99 4.660938 AACCGCTCCACCTTGCCC 62.661 66.667 0.00 0.00 0.00 5.36
293 294 1.593006 GCACGTACTACATGGTGATGC 59.407 52.381 0.00 0.00 32.14 3.91
306 311 1.225745 GTCGCTGCAATGCACGTAC 60.226 57.895 22.08 16.79 35.70 3.67
307 312 1.666234 TGTCGCTGCAATGCACGTA 60.666 52.632 22.08 13.83 35.70 3.57
323 328 0.039326 AGACTACTAGGCGGGTGTGT 59.961 55.000 0.00 0.00 0.00 3.72
327 332 0.324460 AAGCAGACTACTAGGCGGGT 60.324 55.000 0.00 0.00 28.03 5.28
527 536 3.437795 CCACGCGGTACCGAGACT 61.438 66.667 39.18 19.24 41.57 3.24
830 865 6.288294 ACTCAGTAGACAATTTGCACAAGTA 58.712 36.000 0.00 0.00 0.00 2.24
927 967 2.474526 CCATCGAGTGCTTAAACGCTTG 60.475 50.000 0.89 0.89 33.57 4.01
1430 1470 2.391724 GACCAAGGTGGCCTCGTTCA 62.392 60.000 9.68 0.00 42.67 3.18
1617 1657 3.073228 CAGGTCCTTGTCCTGGAGA 57.927 57.895 0.00 0.00 46.03 3.71
1622 1662 0.545548 GGAGACCAGGTCCTTGTCCT 60.546 60.000 16.72 7.03 32.18 3.85
1807 1847 4.757355 CCTTCCCATGGCGCCCAA 62.757 66.667 26.77 6.41 36.95 4.12
1891 1931 3.685214 CTCCAACTCCGTCGAGCCG 62.685 68.421 0.00 0.00 40.03 5.52
1923 1963 1.447317 GATCGCATTCCACGGGCATT 61.447 55.000 0.00 0.00 0.00 3.56
2191 2231 0.027716 CAGCAGTGATGCGAGCAATC 59.972 55.000 0.57 1.60 40.27 2.67
2199 2239 0.388134 CCTTGTTGCAGCAGTGATGC 60.388 55.000 26.04 26.04 45.81 3.91
2206 2246 1.473258 ACTTTCACCTTGTTGCAGCA 58.527 45.000 0.00 0.00 0.00 4.41
2207 2247 2.099756 AGAACTTTCACCTTGTTGCAGC 59.900 45.455 0.00 0.00 0.00 5.25
2208 2248 4.261197 GGTAGAACTTTCACCTTGTTGCAG 60.261 45.833 0.00 0.00 0.00 4.41
2210 2250 3.883489 AGGTAGAACTTTCACCTTGTTGC 59.117 43.478 7.08 0.00 36.18 4.17
2244 2291 6.914259 TCTTACATCAAGATCGTGCCTATAG 58.086 40.000 3.49 0.00 38.39 1.31
2278 2325 8.023128 GCTTTGCACTGTTCATTTCTTTATCTA 58.977 33.333 0.00 0.00 0.00 1.98
2283 2330 5.014808 AGCTTTGCACTGTTCATTTCTTT 57.985 34.783 0.00 0.00 0.00 2.52
2286 2333 4.790140 CGATAGCTTTGCACTGTTCATTTC 59.210 41.667 0.00 0.00 0.00 2.17
2309 2356 5.305585 TGTGTCCTAGACAGACCATTTTTC 58.694 41.667 0.00 0.00 43.57 2.29
2310 2357 5.304686 TGTGTCCTAGACAGACCATTTTT 57.695 39.130 0.00 0.00 43.57 1.94
2311 2358 4.974645 TGTGTCCTAGACAGACCATTTT 57.025 40.909 0.00 0.00 43.57 1.82
2312 2359 4.780021 AGATGTGTCCTAGACAGACCATTT 59.220 41.667 0.00 0.00 43.57 2.32
2313 2360 4.357325 AGATGTGTCCTAGACAGACCATT 58.643 43.478 0.00 0.00 43.57 3.16
2314 2361 3.987745 AGATGTGTCCTAGACAGACCAT 58.012 45.455 0.00 0.00 43.57 3.55
2315 2362 3.458044 AGATGTGTCCTAGACAGACCA 57.542 47.619 0.00 0.00 43.57 4.02
2316 2363 4.783055 TCTAGATGTGTCCTAGACAGACC 58.217 47.826 0.00 0.00 43.57 3.85
2317 2364 6.312399 CATCTAGATGTGTCCTAGACAGAC 57.688 45.833 22.42 0.00 43.57 3.51
2352 2399 5.976458 TGCTTAGATGTGACATATGTGACA 58.024 37.500 26.83 26.83 45.52 3.58
2353 2400 6.276091 TCTGCTTAGATGTGACATATGTGAC 58.724 40.000 17.43 17.43 32.67 3.67
2354 2401 6.469782 TCTGCTTAGATGTGACATATGTGA 57.530 37.500 14.43 0.68 0.00 3.58
2355 2402 7.118422 CATCTGCTTAGATGTGACATATGTG 57.882 40.000 14.43 0.00 40.42 3.21
2366 2413 5.417811 ACAGAGTGAACATCTGCTTAGATG 58.582 41.667 14.01 14.01 46.64 2.90
2367 2414 5.674052 ACAGAGTGAACATCTGCTTAGAT 57.326 39.130 2.96 0.00 46.64 1.98
2368 2415 5.474578 AACAGAGTGAACATCTGCTTAGA 57.525 39.130 2.96 0.00 46.64 2.10
2369 2416 5.468072 ACAAACAGAGTGAACATCTGCTTAG 59.532 40.000 2.96 0.00 46.64 2.18
2370 2417 5.237127 CACAAACAGAGTGAACATCTGCTTA 59.763 40.000 2.96 0.00 46.64 3.09
2371 2418 4.036027 CACAAACAGAGTGAACATCTGCTT 59.964 41.667 2.96 0.00 46.64 3.91
2372 2419 3.562973 CACAAACAGAGTGAACATCTGCT 59.437 43.478 2.96 0.00 46.64 4.24
2373 2420 3.313526 ACACAAACAGAGTGAACATCTGC 59.686 43.478 2.96 0.00 46.64 4.26
2375 2422 6.515272 AAAACACAAACAGAGTGAACATCT 57.485 33.333 0.00 0.00 40.16 2.90
2421 2468 9.853555 CCACAAATAATAATGTAGCAACAAGAA 57.146 29.630 0.00 0.00 39.58 2.52
2422 2469 8.465999 CCCACAAATAATAATGTAGCAACAAGA 58.534 33.333 0.00 0.00 39.58 3.02
2423 2470 8.465999 TCCCACAAATAATAATGTAGCAACAAG 58.534 33.333 0.00 0.00 39.58 3.16
2424 2471 8.354711 TCCCACAAATAATAATGTAGCAACAA 57.645 30.769 0.00 0.00 39.58 2.83
2425 2472 7.416213 GCTCCCACAAATAATAATGTAGCAACA 60.416 37.037 0.00 0.00 40.69 3.33
2426 2473 6.918022 GCTCCCACAAATAATAATGTAGCAAC 59.082 38.462 0.00 0.00 31.89 4.17
2427 2474 6.833416 AGCTCCCACAAATAATAATGTAGCAA 59.167 34.615 0.00 0.00 33.28 3.91
2428 2475 6.364701 AGCTCCCACAAATAATAATGTAGCA 58.635 36.000 0.00 0.00 33.28 3.49
2429 2476 6.884280 AGCTCCCACAAATAATAATGTAGC 57.116 37.500 0.00 0.00 31.78 3.58
2430 2477 9.778741 TCTAAGCTCCCACAAATAATAATGTAG 57.221 33.333 0.00 0.00 0.00 2.74
2432 2479 9.071276 CATCTAAGCTCCCACAAATAATAATGT 57.929 33.333 0.00 0.00 0.00 2.71
2433 2480 9.071276 ACATCTAAGCTCCCACAAATAATAATG 57.929 33.333 0.00 0.00 0.00 1.90
2434 2481 9.071276 CACATCTAAGCTCCCACAAATAATAAT 57.929 33.333 0.00 0.00 0.00 1.28
2435 2482 8.271458 TCACATCTAAGCTCCCACAAATAATAA 58.729 33.333 0.00 0.00 0.00 1.40
2436 2483 7.715249 GTCACATCTAAGCTCCCACAAATAATA 59.285 37.037 0.00 0.00 0.00 0.98
2437 2484 6.543831 GTCACATCTAAGCTCCCACAAATAAT 59.456 38.462 0.00 0.00 0.00 1.28
2438 2485 5.880332 GTCACATCTAAGCTCCCACAAATAA 59.120 40.000 0.00 0.00 0.00 1.40
2439 2486 5.045942 TGTCACATCTAAGCTCCCACAAATA 60.046 40.000 0.00 0.00 0.00 1.40
2440 2487 4.263462 TGTCACATCTAAGCTCCCACAAAT 60.263 41.667 0.00 0.00 0.00 2.32
2441 2488 3.072330 TGTCACATCTAAGCTCCCACAAA 59.928 43.478 0.00 0.00 0.00 2.83
2442 2489 2.637382 TGTCACATCTAAGCTCCCACAA 59.363 45.455 0.00 0.00 0.00 3.33
2443 2490 2.256306 TGTCACATCTAAGCTCCCACA 58.744 47.619 0.00 0.00 0.00 4.17
2444 2491 3.462021 GATGTCACATCTAAGCTCCCAC 58.538 50.000 10.81 0.00 0.00 4.61
2445 2492 2.435805 GGATGTCACATCTAAGCTCCCA 59.564 50.000 17.46 0.00 0.00 4.37
2446 2493 2.703007 AGGATGTCACATCTAAGCTCCC 59.297 50.000 17.46 0.00 0.00 4.30
2447 2494 4.414337 AAGGATGTCACATCTAAGCTCC 57.586 45.455 17.46 0.18 0.00 4.70
2448 2495 7.849804 TTTTAAGGATGTCACATCTAAGCTC 57.150 36.000 17.46 0.00 0.00 4.09
2477 2524 9.809096 GATCAGTTTGTCTAATTCACATCTAGA 57.191 33.333 0.00 0.00 0.00 2.43
2478 2525 8.750416 CGATCAGTTTGTCTAATTCACATCTAG 58.250 37.037 0.00 0.00 0.00 2.43
2479 2526 8.466798 TCGATCAGTTTGTCTAATTCACATCTA 58.533 33.333 0.00 0.00 0.00 1.98
2480 2527 7.323420 TCGATCAGTTTGTCTAATTCACATCT 58.677 34.615 0.00 0.00 0.00 2.90
2481 2528 7.525688 TCGATCAGTTTGTCTAATTCACATC 57.474 36.000 0.00 0.00 0.00 3.06
2482 2529 7.905604 TTCGATCAGTTTGTCTAATTCACAT 57.094 32.000 0.00 0.00 0.00 3.21
2483 2530 7.722795 TTTCGATCAGTTTGTCTAATTCACA 57.277 32.000 0.00 0.00 0.00 3.58
2484 2531 9.612620 ATTTTTCGATCAGTTTGTCTAATTCAC 57.387 29.630 0.00 0.00 0.00 3.18
2487 2534 9.626045 GGAATTTTTCGATCAGTTTGTCTAATT 57.374 29.630 0.00 0.00 0.00 1.40
2488 2535 9.014297 AGGAATTTTTCGATCAGTTTGTCTAAT 57.986 29.630 0.00 0.00 0.00 1.73
2489 2536 8.391075 AGGAATTTTTCGATCAGTTTGTCTAA 57.609 30.769 0.00 0.00 0.00 2.10
2490 2537 7.979444 AGGAATTTTTCGATCAGTTTGTCTA 57.021 32.000 0.00 0.00 0.00 2.59
2491 2538 6.884280 AGGAATTTTTCGATCAGTTTGTCT 57.116 33.333 0.00 0.00 0.00 3.41
2492 2539 6.918022 ACAAGGAATTTTTCGATCAGTTTGTC 59.082 34.615 0.00 0.00 0.00 3.18
2493 2540 6.805713 ACAAGGAATTTTTCGATCAGTTTGT 58.194 32.000 0.00 0.00 0.00 2.83
2494 2541 8.795786 TTACAAGGAATTTTTCGATCAGTTTG 57.204 30.769 0.00 0.00 0.00 2.93
2495 2542 8.630037 ACTTACAAGGAATTTTTCGATCAGTTT 58.370 29.630 0.00 0.00 0.00 2.66
2496 2543 8.166422 ACTTACAAGGAATTTTTCGATCAGTT 57.834 30.769 0.00 0.00 0.00 3.16
2497 2544 7.745620 ACTTACAAGGAATTTTTCGATCAGT 57.254 32.000 0.00 0.00 0.00 3.41
2498 2545 8.289618 TCAACTTACAAGGAATTTTTCGATCAG 58.710 33.333 0.00 0.00 0.00 2.90
2499 2546 8.160521 TCAACTTACAAGGAATTTTTCGATCA 57.839 30.769 0.00 0.00 0.00 2.92
2500 2547 9.458374 TTTCAACTTACAAGGAATTTTTCGATC 57.542 29.630 0.00 0.00 0.00 3.69
2501 2548 9.981114 ATTTCAACTTACAAGGAATTTTTCGAT 57.019 25.926 0.00 0.00 0.00 3.59
2582 2630 7.661437 AGCATCAAATTTTCACACTACTAGTCA 59.339 33.333 0.00 0.00 0.00 3.41
2586 2634 7.977789 TGAGCATCAAATTTTCACACTACTA 57.022 32.000 0.00 0.00 45.97 1.82
2587 2635 6.882610 TGAGCATCAAATTTTCACACTACT 57.117 33.333 0.00 0.00 45.97 2.57
2667 2718 0.808453 TCGGCAATGTAACTAGCGCC 60.808 55.000 2.29 0.00 36.16 6.53
2669 2720 3.308595 TGAAATCGGCAATGTAACTAGCG 59.691 43.478 0.00 0.00 0.00 4.26
2746 2911 9.529823 TGATTTAGAGTTCTAGAACAGGAGTAA 57.470 33.333 31.80 19.17 43.47 2.24
2815 2980 2.586425 ACAAGGCATGTAAAGTGCACT 58.414 42.857 15.25 15.25 44.25 4.40
3011 3177 2.174854 AGGTGCTTAAGTGGAGTTGGTT 59.825 45.455 4.02 0.00 0.00 3.67
3015 3181 8.548880 TTCTATATAGGTGCTTAAGTGGAGTT 57.451 34.615 9.89 0.00 0.00 3.01
3065 3231 3.535561 AGCACTTATGGTGATGCTACAC 58.464 45.455 0.00 5.52 46.36 2.90
3133 3299 6.012858 TGTCACTAATGTTATCCCCTCTTTGT 60.013 38.462 0.00 0.00 0.00 2.83
3134 3300 6.316390 GTGTCACTAATGTTATCCCCTCTTTG 59.684 42.308 0.00 0.00 0.00 2.77
3139 3306 4.783227 AGTGTGTCACTAATGTTATCCCCT 59.217 41.667 4.27 0.00 43.46 4.79
3142 3309 7.985184 TCCATAAGTGTGTCACTAATGTTATCC 59.015 37.037 4.27 0.00 44.62 2.59
3143 3310 8.818057 GTCCATAAGTGTGTCACTAATGTTATC 58.182 37.037 4.27 0.00 44.62 1.75
3155 3322 7.681939 TTTTTATCTGGTCCATAAGTGTGTC 57.318 36.000 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.