Multiple sequence alignment - TraesCS4B01G190200

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 TraesCS4B01G190200 chr4B 100.000 3191 0 0 1 3191 413112328 413109138 0.000000e+00 5893
1 TraesCS4B01G190200 chr4B 96.133 724 28 0 1 724 611023743 611023020 0.000000e+00 1182
2 TraesCS4B01G190200 chr4B 96.250 720 27 0 1 720 29628324 29627605 0.000000e+00 1181
3 TraesCS4B01G190200 chr4D 95.250 1537 51 6 720 2236 335037245 335035711 0.000000e+00 2414
4 TraesCS4B01G190200 chr4D 93.365 422 26 2 2701 3120 335034878 335034457 9.720000e-175 623
5 TraesCS4B01G190200 chr4D 90.541 222 12 2 2341 2554 335035702 335035482 5.210000e-73 285
6 TraesCS4B01G190200 chr4D 97.183 71 2 0 3121 3191 335034397 335034327 1.550000e-23 121
7 TraesCS4B01G190200 chr4A 94.671 1520 60 10 720 2229 138170419 138171927 0.000000e+00 2338
8 TraesCS4B01G190200 chr4A 90.000 410 34 6 2714 3120 138172385 138172790 1.010000e-144 523
9 TraesCS4B01G190200 chr4A 93.277 238 14 1 2330 2565 138171969 138172206 1.820000e-92 350
10 TraesCS4B01G190200 chr5B 96.966 725 21 1 1 724 553942808 553942084 0.000000e+00 1216
11 TraesCS4B01G190200 chr5B 96.250 720 26 1 1 720 553182759 553182041 0.000000e+00 1179
12 TraesCS4B01G190200 chr6B 96.419 726 24 2 1 724 657252889 657253614 0.000000e+00 1195
13 TraesCS4B01G190200 chr3B 96.271 724 27 0 1 724 818888213 818888936 0.000000e+00 1188
14 TraesCS4B01G190200 chr1B 96.255 721 26 1 1 720 365450825 365450105 0.000000e+00 1181
15 TraesCS4B01G190200 chr1B 95.994 724 29 0 1 724 671611609 671610886 0.000000e+00 1177
16 TraesCS4B01G190200 chr1B 95.994 724 28 1 1 723 49438343 49437620 0.000000e+00 1175


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 TraesCS4B01G190200 chr4B 413109138 413112328 3190 True 5893.000000 5893 100.000000 1 3191 1 chr4B.!!$R2 3190
1 TraesCS4B01G190200 chr4B 611023020 611023743 723 True 1182.000000 1182 96.133000 1 724 1 chr4B.!!$R3 723
2 TraesCS4B01G190200 chr4B 29627605 29628324 719 True 1181.000000 1181 96.250000 1 720 1 chr4B.!!$R1 719
3 TraesCS4B01G190200 chr4D 335034327 335037245 2918 True 860.750000 2414 94.084750 720 3191 4 chr4D.!!$R1 2471
4 TraesCS4B01G190200 chr4A 138170419 138172790 2371 False 1070.333333 2338 92.649333 720 3120 3 chr4A.!!$F1 2400
5 TraesCS4B01G190200 chr5B 553942084 553942808 724 True 1216.000000 1216 96.966000 1 724 1 chr5B.!!$R2 723
6 TraesCS4B01G190200 chr5B 553182041 553182759 718 True 1179.000000 1179 96.250000 1 720 1 chr5B.!!$R1 719
7 TraesCS4B01G190200 chr6B 657252889 657253614 725 False 1195.000000 1195 96.419000 1 724 1 chr6B.!!$F1 723
8 TraesCS4B01G190200 chr3B 818888213 818888936 723 False 1188.000000 1188 96.271000 1 724 1 chr3B.!!$F1 723
9 TraesCS4B01G190200 chr1B 365450105 365450825 720 True 1181.000000 1181 96.255000 1 720 1 chr1B.!!$R2 719
10 TraesCS4B01G190200 chr1B 671610886 671611609 723 True 1177.000000 1177 95.994000 1 724 1 chr1B.!!$R3 723
11 TraesCS4B01G190200 chr1B 49437620 49438343 723 True 1175.000000 1175 95.994000 1 723 1 chr1B.!!$R1 722

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
783 787 0.108585 TCCAGTGGTCAAACAGAGGC 59.891 55.0 9.54 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2685 3310 0.032678 TGTTACGTTACCCGCGGAAA 59.967 50.0 30.73 18.13 41.42 3.13 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
75 76 1.570857 AACCCCATGAAGATCCGGCA 61.571 55.000 0.00 0.00 0.00 5.69
250 251 2.281484 GCCGCTGAACTTCCACCA 60.281 61.111 0.00 0.00 0.00 4.17
783 787 0.108585 TCCAGTGGTCAAACAGAGGC 59.891 55.000 9.54 0.00 0.00 4.70
791 795 3.569701 TGGTCAAACAGAGGCAATTTCTC 59.430 43.478 0.00 0.00 0.00 2.87
800 822 4.690748 CAGAGGCAATTTCTCGTGAAACTA 59.309 41.667 14.33 0.00 43.90 2.24
954 976 9.529325 TTTTACTAATCACACGATAAGATCAGG 57.471 33.333 0.00 0.00 0.00 3.86
988 1010 8.559536 CATATTTTCATATAGTTTCAGTGCCGT 58.440 33.333 0.00 0.00 0.00 5.68
998 1020 1.153901 CAGTGCCGTACCCGTACTG 60.154 63.158 10.18 10.18 39.39 2.74
999 1021 1.604593 AGTGCCGTACCCGTACTGT 60.605 57.895 3.66 0.00 34.04 3.55
1000 1022 0.322456 AGTGCCGTACCCGTACTGTA 60.322 55.000 3.66 0.00 34.04 2.74
1001 1023 0.740737 GTGCCGTACCCGTACTGTAT 59.259 55.000 3.66 0.00 34.04 2.29
1012 1044 7.201635 CGTACCCGTACTGTATGTATATATGCA 60.202 40.741 5.94 5.94 34.04 3.96
1476 1508 4.760047 AAGCCGCAGCCGTTCGAT 62.760 61.111 0.00 0.00 41.25 3.59
1495 1527 2.439701 CGGCCGACCTCTACCAGA 60.440 66.667 24.07 0.00 0.00 3.86
1622 1654 1.152567 CCAAGCCCACCAAGAACCA 60.153 57.895 0.00 0.00 0.00 3.67
1703 1735 3.453679 GAGCCTCCTCGACGCCTT 61.454 66.667 0.00 0.00 0.00 4.35
1773 1805 6.520272 CCCGTTCTATCTCATCAAAGAAGAT 58.480 40.000 0.00 0.00 0.00 2.40
1777 1809 6.490241 TCTATCTCATCAAAGAAGATGGCA 57.510 37.500 4.33 0.00 44.30 4.92
1803 1835 2.362503 TCCGAGCAGATGGACCGT 60.363 61.111 0.00 0.00 0.00 4.83
1875 1907 1.520342 CCACAGCGGCTCTAAGCTC 60.520 63.158 0.00 0.00 42.52 4.09
1902 1934 2.746277 AAGGTGTTCATCGGCGGC 60.746 61.111 7.21 0.00 0.00 6.53
1976 2008 1.457823 TACGTGTGGTTCAGAGCCGT 61.458 55.000 0.00 0.00 0.00 5.68
2220 2252 0.386858 CAGACTGTACACCCGTCACG 60.387 60.000 14.17 0.00 0.00 4.35
2234 2266 3.489180 CGTCACGGAATCTTCAGTAGT 57.511 47.619 0.00 0.00 33.87 2.73
2235 2267 4.611310 CGTCACGGAATCTTCAGTAGTA 57.389 45.455 0.00 0.00 33.87 1.82
2236 2268 4.341099 CGTCACGGAATCTTCAGTAGTAC 58.659 47.826 0.00 0.00 33.87 2.73
2237 2269 4.094590 CGTCACGGAATCTTCAGTAGTACT 59.905 45.833 0.00 0.00 33.87 2.73
2238 2270 5.571277 GTCACGGAATCTTCAGTAGTACTC 58.429 45.833 0.00 0.00 33.87 2.59
2239 2271 4.639310 TCACGGAATCTTCAGTAGTACTCC 59.361 45.833 0.00 0.00 33.87 3.85
2240 2272 3.952967 ACGGAATCTTCAGTAGTACTCCC 59.047 47.826 0.00 0.00 33.87 4.30
2242 2274 4.276431 CGGAATCTTCAGTAGTACTCCCTC 59.724 50.000 0.00 0.00 0.00 4.30
2243 2275 4.585581 GGAATCTTCAGTAGTACTCCCTCC 59.414 50.000 0.00 0.00 0.00 4.30
2244 2276 3.278668 TCTTCAGTAGTACTCCCTCCG 57.721 52.381 0.00 0.00 0.00 4.63
2245 2277 2.575279 TCTTCAGTAGTACTCCCTCCGT 59.425 50.000 0.00 0.00 0.00 4.69
2247 2279 2.719739 TCAGTAGTACTCCCTCCGTTG 58.280 52.381 0.00 0.00 0.00 4.10
2248 2280 2.040813 TCAGTAGTACTCCCTCCGTTGT 59.959 50.000 0.00 0.00 0.00 3.32
2249 2281 3.264193 TCAGTAGTACTCCCTCCGTTGTA 59.736 47.826 0.00 0.00 0.00 2.41
2250 2282 4.012374 CAGTAGTACTCCCTCCGTTGTAA 58.988 47.826 0.00 0.00 0.00 2.41
2251 2283 4.096081 CAGTAGTACTCCCTCCGTTGTAAG 59.904 50.000 0.00 0.00 0.00 2.34
2253 2285 3.978610 AGTACTCCCTCCGTTGTAAGAT 58.021 45.455 0.00 0.00 0.00 2.40
2254 2286 5.121380 AGTACTCCCTCCGTTGTAAGATA 57.879 43.478 0.00 0.00 0.00 1.98
2255 2287 5.513233 AGTACTCCCTCCGTTGTAAGATAA 58.487 41.667 0.00 0.00 0.00 1.75
2256 2288 5.954150 AGTACTCCCTCCGTTGTAAGATAAA 59.046 40.000 0.00 0.00 0.00 1.40
2257 2289 5.952347 ACTCCCTCCGTTGTAAGATAAAT 57.048 39.130 0.00 0.00 0.00 1.40
2258 2290 5.671493 ACTCCCTCCGTTGTAAGATAAATG 58.329 41.667 0.00 0.00 0.00 2.32
2259 2291 5.189145 ACTCCCTCCGTTGTAAGATAAATGT 59.811 40.000 0.00 0.00 0.00 2.71
2260 2292 5.667466 TCCCTCCGTTGTAAGATAAATGTC 58.333 41.667 0.00 0.00 0.00 3.06
2261 2293 4.814771 CCCTCCGTTGTAAGATAAATGTCC 59.185 45.833 0.00 0.00 0.00 4.02
2262 2294 4.814771 CCTCCGTTGTAAGATAAATGTCCC 59.185 45.833 0.00 0.00 0.00 4.46
2265 2297 5.644636 TCCGTTGTAAGATAAATGTCCCAAC 59.355 40.000 0.00 0.00 0.00 3.77
2266 2298 5.163693 CCGTTGTAAGATAAATGTCCCAACC 60.164 44.000 0.00 0.00 0.00 3.77
2268 2300 6.094881 CGTTGTAAGATAAATGTCCCAACCAT 59.905 38.462 0.00 0.00 0.00 3.55
2269 2301 7.281324 CGTTGTAAGATAAATGTCCCAACCATA 59.719 37.037 0.00 0.00 0.00 2.74
2321 2353 6.436843 AGTTGAGGCAATTATTTTAGGACG 57.563 37.500 0.00 0.00 0.00 4.79
2322 2354 6.177610 AGTTGAGGCAATTATTTTAGGACGA 58.822 36.000 0.00 0.00 0.00 4.20
2323 2355 6.657541 AGTTGAGGCAATTATTTTAGGACGAA 59.342 34.615 0.00 0.00 0.00 3.85
2324 2356 6.677781 TGAGGCAATTATTTTAGGACGAAG 57.322 37.500 0.00 0.00 0.00 3.79
2325 2357 5.588648 TGAGGCAATTATTTTAGGACGAAGG 59.411 40.000 0.00 0.00 0.00 3.46
2326 2358 5.751586 AGGCAATTATTTTAGGACGAAGGA 58.248 37.500 0.00 0.00 0.00 3.36
2327 2359 5.823045 AGGCAATTATTTTAGGACGAAGGAG 59.177 40.000 0.00 0.00 0.00 3.69
2328 2360 5.820947 GGCAATTATTTTAGGACGAAGGAGA 59.179 40.000 0.00 0.00 0.00 3.71
2329 2361 6.017852 GGCAATTATTTTAGGACGAAGGAGAG 60.018 42.308 0.00 0.00 0.00 3.20
2330 2362 6.539103 GCAATTATTTTAGGACGAAGGAGAGT 59.461 38.462 0.00 0.00 0.00 3.24
2331 2363 7.466050 GCAATTATTTTAGGACGAAGGAGAGTG 60.466 40.741 0.00 0.00 0.00 3.51
2334 2366 4.950205 TTTAGGACGAAGGAGAGTGTTT 57.050 40.909 0.00 0.00 0.00 2.83
2339 2371 2.544267 GACGAAGGAGAGTGTTTTGGTG 59.456 50.000 0.00 0.00 0.00 4.17
2348 2380 1.681264 AGTGTTTTGGTGTAGCTTGGC 59.319 47.619 0.00 0.00 0.00 4.52
2370 2402 7.609960 TGGCAAATAAAATTGTGAGATGCTAA 58.390 30.769 0.00 0.00 32.80 3.09
2382 2414 6.470278 TGTGAGATGCTAATGATAAGGGATG 58.530 40.000 0.00 0.00 0.00 3.51
2402 2434 0.798776 AAGGATTTTGCTGCTCGTCG 59.201 50.000 0.00 0.00 0.00 5.12
2551 2591 0.251297 TGCAAACCCATGACTCCCAG 60.251 55.000 0.00 0.00 0.00 4.45
2561 3078 3.558746 CCATGACTCCCAGATCTATTGGC 60.559 52.174 0.00 0.00 34.26 4.52
2581 3111 5.488341 TGGCCACTAACAAGTAGAAGATTC 58.512 41.667 0.00 0.00 33.61 2.52
2593 3194 5.784177 AGTAGAAGATTCGCTCAACTGAAA 58.216 37.500 0.00 0.00 0.00 2.69
2597 3198 5.529060 AGAAGATTCGCTCAACTGAAAAACT 59.471 36.000 0.00 0.00 0.00 2.66
2612 3213 8.040716 ACTGAAAAACTAAGGTAATCAATCCG 57.959 34.615 0.00 0.00 0.00 4.18
2659 3284 3.152341 AGCTTGTCTTGCTTGTTGCTAT 58.848 40.909 0.00 0.00 43.37 2.97
2660 3285 3.057736 AGCTTGTCTTGCTTGTTGCTATG 60.058 43.478 0.00 0.00 43.37 2.23
2661 3286 3.304928 GCTTGTCTTGCTTGTTGCTATGT 60.305 43.478 0.00 0.00 43.37 2.29
2662 3287 3.902261 TGTCTTGCTTGTTGCTATGTG 57.098 42.857 0.00 0.00 43.37 3.21
2663 3288 3.213506 TGTCTTGCTTGTTGCTATGTGT 58.786 40.909 0.00 0.00 43.37 3.72
2664 3289 4.384940 TGTCTTGCTTGTTGCTATGTGTA 58.615 39.130 0.00 0.00 43.37 2.90
2665 3290 5.003160 TGTCTTGCTTGTTGCTATGTGTAT 58.997 37.500 0.00 0.00 43.37 2.29
2666 3291 6.169800 TGTCTTGCTTGTTGCTATGTGTATA 58.830 36.000 0.00 0.00 43.37 1.47
2667 3292 6.313658 TGTCTTGCTTGTTGCTATGTGTATAG 59.686 38.462 0.00 0.00 43.37 1.31
2668 3293 6.313905 GTCTTGCTTGTTGCTATGTGTATAGT 59.686 38.462 0.00 0.00 43.37 2.12
2669 3294 6.313658 TCTTGCTTGTTGCTATGTGTATAGTG 59.686 38.462 0.00 0.00 43.37 2.74
2670 3295 5.487433 TGCTTGTTGCTATGTGTATAGTGT 58.513 37.500 0.00 0.00 43.37 3.55
2671 3296 6.635755 TGCTTGTTGCTATGTGTATAGTGTA 58.364 36.000 0.00 0.00 43.37 2.90
2672 3297 7.100409 TGCTTGTTGCTATGTGTATAGTGTAA 58.900 34.615 0.00 0.00 43.37 2.41
2673 3298 7.064134 TGCTTGTTGCTATGTGTATAGTGTAAC 59.936 37.037 0.00 0.00 43.37 2.50
2674 3299 7.064134 GCTTGTTGCTATGTGTATAGTGTAACA 59.936 37.037 0.00 0.00 38.81 2.41
2675 3300 8.834749 TTGTTGCTATGTGTATAGTGTAACAA 57.165 30.769 14.79 14.79 40.24 2.83
2676 3301 8.246908 TGTTGCTATGTGTATAGTGTAACAAC 57.753 34.615 0.00 0.00 41.43 3.32
2677 3302 7.332430 TGTTGCTATGTGTATAGTGTAACAACC 59.668 37.037 0.00 0.00 41.43 3.77
2678 3303 6.937392 TGCTATGTGTATAGTGTAACAACCA 58.063 36.000 0.00 0.00 41.43 3.67
2679 3304 7.039270 TGCTATGTGTATAGTGTAACAACCAG 58.961 38.462 0.00 0.00 41.43 4.00
2680 3305 7.039882 GCTATGTGTATAGTGTAACAACCAGT 58.960 38.462 0.00 0.00 41.43 4.00
2681 3306 7.548075 GCTATGTGTATAGTGTAACAACCAGTT 59.452 37.037 0.00 0.00 41.43 3.16
2682 3307 9.431887 CTATGTGTATAGTGTAACAACCAGTTT 57.568 33.333 0.00 0.00 41.43 2.66
2683 3308 8.685838 ATGTGTATAGTGTAACAACCAGTTTT 57.314 30.769 0.00 0.00 41.43 2.43
2684 3309 8.508883 TGTGTATAGTGTAACAACCAGTTTTT 57.491 30.769 0.00 0.00 41.43 1.94
2700 3325 4.453093 TTTTTCCGCGGGTAACGT 57.547 50.000 27.83 0.00 46.52 3.99
2701 3326 3.595691 TTTTTCCGCGGGTAACGTA 57.404 47.368 27.83 0.00 46.52 3.57
2702 3327 1.871080 TTTTTCCGCGGGTAACGTAA 58.129 45.000 27.83 7.28 46.52 3.18
2703 3328 1.144136 TTTTCCGCGGGTAACGTAAC 58.856 50.000 27.83 0.00 46.52 2.50
2704 3329 0.032678 TTTCCGCGGGTAACGTAACA 59.967 50.000 27.83 0.00 46.52 2.41
2705 3330 0.032678 TTCCGCGGGTAACGTAACAA 59.967 50.000 27.83 4.68 46.52 2.83
2706 3331 0.665972 TCCGCGGGTAACGTAACAAC 60.666 55.000 27.83 0.00 46.52 3.32
2707 3332 1.625759 CCGCGGGTAACGTAACAACC 61.626 60.000 20.10 0.00 46.52 3.77
2708 3333 0.943359 CGCGGGTAACGTAACAACCA 60.943 55.000 0.00 0.00 46.52 3.67
2709 3334 0.792031 GCGGGTAACGTAACAACCAG 59.208 55.000 10.36 7.90 46.52 4.00
2710 3335 1.873486 GCGGGTAACGTAACAACCAGT 60.873 52.381 10.36 0.00 46.52 4.00
2711 3336 2.482864 CGGGTAACGTAACAACCAGTT 58.517 47.619 10.36 0.00 40.48 3.16
2712 3337 2.221517 CGGGTAACGTAACAACCAGTTG 59.778 50.000 8.95 8.95 41.06 3.16
2743 3368 2.478894 TGTAAGAGTTTGTAGCAAGCGC 59.521 45.455 0.00 0.00 38.99 5.92
2782 3407 8.717717 AGTGAGAAACCAAGATATCAATCCATA 58.282 33.333 5.32 0.00 31.98 2.74
2786 3411 9.163894 AGAAACCAAGATATCAATCCATAGAGA 57.836 33.333 5.32 0.00 31.98 3.10
2845 3470 4.513318 ACAAATAAAATTTGTGCCCCAACG 59.487 37.500 15.27 0.00 40.70 4.10
2866 3491 3.751518 GATACCAACAAGGGTGTCAACT 58.248 45.455 4.49 0.00 45.40 3.16
3081 3709 7.109501 TGTGGCAAGTAACATAGTAATGTGAT 58.890 34.615 0.00 0.00 45.79 3.06
3082 3710 7.609918 TGTGGCAAGTAACATAGTAATGTGATT 59.390 33.333 0.00 0.00 45.79 2.57
3083 3711 8.458843 GTGGCAAGTAACATAGTAATGTGATTT 58.541 33.333 0.00 0.00 45.79 2.17
3084 3712 9.019656 TGGCAAGTAACATAGTAATGTGATTTT 57.980 29.630 0.00 0.00 45.79 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
783 787 8.843733 CAACATTCATAGTTTCACGAGAAATTG 58.156 33.333 11.20 9.58 44.87 2.32
791 795 6.192682 CGTATTGCAACATTCATAGTTTCACG 59.807 38.462 0.00 0.00 0.00 4.35
988 1010 8.578448 TTGCATATATACATACAGTACGGGTA 57.422 34.615 0.00 0.46 35.05 3.69
1012 1044 6.207810 TGTGTGTGTCCTTCAAGTTTACTTTT 59.792 34.615 0.00 0.00 33.11 2.27
1476 1508 4.051167 TGGTAGAGGTCGGCCGGA 62.051 66.667 27.83 9.51 40.50 5.14
1525 1557 4.660938 GGCCTTGGCCGTGAACCT 62.661 66.667 15.52 0.00 0.00 3.50
1777 1809 3.461773 CTGCTCGGACGGGGACAT 61.462 66.667 0.00 0.00 0.00 3.06
1803 1835 2.678934 ACCTCGTAGAAGGCGGCA 60.679 61.111 13.08 0.00 34.09 5.69
1875 1907 2.839486 TGAACACCTTCCTGCTGTAG 57.161 50.000 0.00 0.00 0.00 2.74
2220 2252 4.585581 GGAGGGAGTACTACTGAAGATTCC 59.414 50.000 4.77 0.00 0.00 3.01
2232 2264 3.446442 TCTTACAACGGAGGGAGTACT 57.554 47.619 0.00 0.00 0.00 2.73
2233 2265 5.841957 TTATCTTACAACGGAGGGAGTAC 57.158 43.478 0.00 0.00 0.00 2.73
2234 2266 6.381994 ACATTTATCTTACAACGGAGGGAGTA 59.618 38.462 0.00 0.00 0.00 2.59
2235 2267 5.189145 ACATTTATCTTACAACGGAGGGAGT 59.811 40.000 0.00 0.00 0.00 3.85
2236 2268 5.671493 ACATTTATCTTACAACGGAGGGAG 58.329 41.667 0.00 0.00 0.00 4.30
2237 2269 5.395990 GGACATTTATCTTACAACGGAGGGA 60.396 44.000 0.00 0.00 0.00 4.20
2238 2270 4.814771 GGACATTTATCTTACAACGGAGGG 59.185 45.833 0.00 0.00 0.00 4.30
2239 2271 4.814771 GGGACATTTATCTTACAACGGAGG 59.185 45.833 0.00 0.00 0.00 4.30
2240 2272 5.424757 TGGGACATTTATCTTACAACGGAG 58.575 41.667 0.00 0.00 0.00 4.63
2242 2274 5.163693 GGTTGGGACATTTATCTTACAACGG 60.164 44.000 0.00 0.00 39.30 4.44
2243 2275 5.413213 TGGTTGGGACATTTATCTTACAACG 59.587 40.000 0.00 0.00 39.30 4.10
2244 2276 6.827586 TGGTTGGGACATTTATCTTACAAC 57.172 37.500 0.00 0.00 39.30 3.32
2245 2277 8.333235 ACTATGGTTGGGACATTTATCTTACAA 58.667 33.333 0.00 0.00 39.30 2.41
2295 2327 8.455682 CGTCCTAAAATAATTGCCTCAACTTTA 58.544 33.333 0.00 0.00 0.00 1.85
2296 2328 7.175990 TCGTCCTAAAATAATTGCCTCAACTTT 59.824 33.333 0.00 0.00 0.00 2.66
2297 2329 6.657541 TCGTCCTAAAATAATTGCCTCAACTT 59.342 34.615 0.00 0.00 0.00 2.66
2298 2330 6.177610 TCGTCCTAAAATAATTGCCTCAACT 58.822 36.000 0.00 0.00 0.00 3.16
2299 2331 6.431198 TCGTCCTAAAATAATTGCCTCAAC 57.569 37.500 0.00 0.00 0.00 3.18
2300 2332 6.094881 CCTTCGTCCTAAAATAATTGCCTCAA 59.905 38.462 0.00 0.00 0.00 3.02
2301 2333 5.588648 CCTTCGTCCTAAAATAATTGCCTCA 59.411 40.000 0.00 0.00 0.00 3.86
2302 2334 5.820947 TCCTTCGTCCTAAAATAATTGCCTC 59.179 40.000 0.00 0.00 0.00 4.70
2303 2335 5.751586 TCCTTCGTCCTAAAATAATTGCCT 58.248 37.500 0.00 0.00 0.00 4.75
2304 2336 5.820947 TCTCCTTCGTCCTAAAATAATTGCC 59.179 40.000 0.00 0.00 0.00 4.52
2305 2337 6.539103 ACTCTCCTTCGTCCTAAAATAATTGC 59.461 38.462 0.00 0.00 0.00 3.56
2306 2338 7.549488 ACACTCTCCTTCGTCCTAAAATAATTG 59.451 37.037 0.00 0.00 0.00 2.32
2307 2339 7.621796 ACACTCTCCTTCGTCCTAAAATAATT 58.378 34.615 0.00 0.00 0.00 1.40
2308 2340 7.184067 ACACTCTCCTTCGTCCTAAAATAAT 57.816 36.000 0.00 0.00 0.00 1.28
2309 2341 6.600882 ACACTCTCCTTCGTCCTAAAATAA 57.399 37.500 0.00 0.00 0.00 1.40
2310 2342 6.600882 AACACTCTCCTTCGTCCTAAAATA 57.399 37.500 0.00 0.00 0.00 1.40
2311 2343 5.485209 AACACTCTCCTTCGTCCTAAAAT 57.515 39.130 0.00 0.00 0.00 1.82
2312 2344 4.950205 AACACTCTCCTTCGTCCTAAAA 57.050 40.909 0.00 0.00 0.00 1.52
2313 2345 4.950205 AAACACTCTCCTTCGTCCTAAA 57.050 40.909 0.00 0.00 0.00 1.85
2314 2346 4.502604 CCAAAACACTCTCCTTCGTCCTAA 60.503 45.833 0.00 0.00 0.00 2.69
2315 2347 3.006537 CCAAAACACTCTCCTTCGTCCTA 59.993 47.826 0.00 0.00 0.00 2.94
2316 2348 2.224305 CCAAAACACTCTCCTTCGTCCT 60.224 50.000 0.00 0.00 0.00 3.85
2317 2349 2.143925 CCAAAACACTCTCCTTCGTCC 58.856 52.381 0.00 0.00 0.00 4.79
2318 2350 2.544267 CACCAAAACACTCTCCTTCGTC 59.456 50.000 0.00 0.00 0.00 4.20
2319 2351 2.093128 ACACCAAAACACTCTCCTTCGT 60.093 45.455 0.00 0.00 0.00 3.85
2320 2352 2.561569 ACACCAAAACACTCTCCTTCG 58.438 47.619 0.00 0.00 0.00 3.79
2321 2353 3.498777 GCTACACCAAAACACTCTCCTTC 59.501 47.826 0.00 0.00 0.00 3.46
2322 2354 3.136626 AGCTACACCAAAACACTCTCCTT 59.863 43.478 0.00 0.00 0.00 3.36
2323 2355 2.706190 AGCTACACCAAAACACTCTCCT 59.294 45.455 0.00 0.00 0.00 3.69
2324 2356 3.127425 AGCTACACCAAAACACTCTCC 57.873 47.619 0.00 0.00 0.00 3.71
2325 2357 3.251004 CCAAGCTACACCAAAACACTCTC 59.749 47.826 0.00 0.00 0.00 3.20
2326 2358 3.214328 CCAAGCTACACCAAAACACTCT 58.786 45.455 0.00 0.00 0.00 3.24
2327 2359 2.287608 GCCAAGCTACACCAAAACACTC 60.288 50.000 0.00 0.00 0.00 3.51
2328 2360 1.681264 GCCAAGCTACACCAAAACACT 59.319 47.619 0.00 0.00 0.00 3.55
2329 2361 1.407258 TGCCAAGCTACACCAAAACAC 59.593 47.619 0.00 0.00 0.00 3.32
2330 2362 1.769026 TGCCAAGCTACACCAAAACA 58.231 45.000 0.00 0.00 0.00 2.83
2331 2363 2.880963 TTGCCAAGCTACACCAAAAC 57.119 45.000 0.00 0.00 0.00 2.43
2334 2366 5.537300 TTTTATTTGCCAAGCTACACCAA 57.463 34.783 0.00 0.00 0.00 3.67
2339 2371 7.090173 TCTCACAATTTTATTTGCCAAGCTAC 58.910 34.615 0.00 0.00 0.00 3.58
2370 2402 6.267014 CAGCAAAATCCTTCATCCCTTATCAT 59.733 38.462 0.00 0.00 0.00 2.45
2382 2414 1.201965 CGACGAGCAGCAAAATCCTTC 60.202 52.381 0.00 0.00 0.00 3.46
2551 2591 6.817184 TCTACTTGTTAGTGGCCAATAGATC 58.183 40.000 13.39 8.75 35.78 2.75
2561 3078 5.411781 AGCGAATCTTCTACTTGTTAGTGG 58.588 41.667 0.00 0.00 35.78 4.00
2581 3111 4.813296 ACCTTAGTTTTTCAGTTGAGCG 57.187 40.909 0.00 0.00 0.00 5.03
2593 3194 7.166167 ACTTCACGGATTGATTACCTTAGTTT 58.834 34.615 0.00 0.00 32.84 2.66
2597 3198 6.942976 AGAACTTCACGGATTGATTACCTTA 58.057 36.000 0.00 0.00 32.84 2.69
2659 3284 8.508883 AAAAACTGGTTGTTACACTATACACA 57.491 30.769 0.00 0.00 38.03 3.72
2683 3308 1.529012 GTTACGTTACCCGCGGAAAAA 59.471 47.619 30.73 14.88 41.42 1.94
2684 3309 1.144136 GTTACGTTACCCGCGGAAAA 58.856 50.000 30.73 17.72 41.42 2.29
2685 3310 0.032678 TGTTACGTTACCCGCGGAAA 59.967 50.000 30.73 18.13 41.42 3.13
2686 3311 0.032678 TTGTTACGTTACCCGCGGAA 59.967 50.000 30.73 11.74 41.42 4.30
2687 3312 0.665972 GTTGTTACGTTACCCGCGGA 60.666 55.000 30.73 3.89 41.42 5.54
2688 3313 1.625759 GGTTGTTACGTTACCCGCGG 61.626 60.000 21.04 21.04 41.42 6.46
2689 3314 0.943359 TGGTTGTTACGTTACCCGCG 60.943 55.000 0.00 0.00 41.42 6.46
2690 3315 0.792031 CTGGTTGTTACGTTACCCGC 59.208 55.000 1.74 0.00 41.42 6.13
2691 3316 2.153366 ACTGGTTGTTACGTTACCCG 57.847 50.000 1.74 1.25 44.03 5.28
2692 3317 3.248363 GTCAACTGGTTGTTACGTTACCC 59.752 47.826 12.34 0.00 41.16 3.69
2693 3318 3.248363 GGTCAACTGGTTGTTACGTTACC 59.752 47.826 12.34 7.63 41.16 2.85
2694 3319 4.122046 AGGTCAACTGGTTGTTACGTTAC 58.878 43.478 12.34 0.00 41.16 2.50
2695 3320 4.099881 AGAGGTCAACTGGTTGTTACGTTA 59.900 41.667 12.34 0.00 41.16 3.18
2696 3321 3.118519 AGAGGTCAACTGGTTGTTACGTT 60.119 43.478 12.34 0.00 41.16 3.99
2697 3322 2.433239 AGAGGTCAACTGGTTGTTACGT 59.567 45.455 12.34 0.00 41.16 3.57
2698 3323 3.107642 AGAGGTCAACTGGTTGTTACG 57.892 47.619 12.34 0.00 41.16 3.18
2699 3324 3.564225 CCAAGAGGTCAACTGGTTGTTAC 59.436 47.826 12.34 5.35 41.16 2.50
2700 3325 3.815809 CCAAGAGGTCAACTGGTTGTTA 58.184 45.455 12.34 0.00 41.16 2.41
2701 3326 2.654863 CCAAGAGGTCAACTGGTTGTT 58.345 47.619 12.34 1.67 41.16 2.83
2702 3327 2.348411 CCAAGAGGTCAACTGGTTGT 57.652 50.000 12.34 0.00 41.16 3.32
2754 3379 8.717717 TGGATTGATATCTTGGTTTCTCACTAT 58.282 33.333 3.98 0.00 0.00 2.12
2755 3380 8.089625 TGGATTGATATCTTGGTTTCTCACTA 57.910 34.615 3.98 0.00 0.00 2.74
2782 3407 7.884877 TCATTGGTGTGAAAATCTTGTATCTCT 59.115 33.333 0.00 0.00 0.00 3.10
2845 3470 3.751518 AGTTGACACCCTTGTTGGTATC 58.248 45.455 0.00 0.00 36.67 2.24
2973 3601 8.915654 GCATAAGAATTAACTTCCAACAACTTG 58.084 33.333 0.00 0.00 32.17 3.16
3088 3717 8.631480 AGCATGAGCATGAGATATTTCATTTA 57.369 30.769 14.27 0.00 45.49 1.40
3150 3838 3.636300 TGCTTGATAGGTGCAAAAAGTGT 59.364 39.130 0.00 0.00 33.48 3.55


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

AutoCloner maintained by Alex Coulton.