Multiple sequence alignment - TraesCS1B01G299900

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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 TraesCS1B01G299900 chr1B 100.000 2447 0 0 1 2447 520680727 520678281 0.000000e+00 4519
1 TraesCS1B01G299900 chr1B 94.350 177 8 2 2273 2447 314995638 314995462 1.120000e-68 270
2 TraesCS1B01G299900 chr3D 91.035 2309 171 16 1 2280 547514888 547517189 0.000000e+00 3085
3 TraesCS1B01G299900 chr4B 90.719 2295 191 13 1 2280 489676599 489678886 0.000000e+00 3038
4 TraesCS1B01G299900 chr4B 95.349 172 8 0 2276 2447 195523651 195523822 8.620000e-70 274
5 TraesCS1B01G299900 chr3A 90.696 2257 191 9 36 2280 719476165 719478414 0.000000e+00 2987
6 TraesCS1B01G299900 chr3B 91.179 2188 170 11 1 2174 524446391 524444213 0.000000e+00 2950
7 TraesCS1B01G299900 chr2A 89.250 2279 196 22 1 2274 48850093 48847859 0.000000e+00 2806
8 TraesCS1B01G299900 chr2D 93.088 1765 107 8 1 1750 374122850 374121086 0.000000e+00 2569
9 TraesCS1B01G299900 chr2B 87.249 2290 205 25 2 2279 72270509 72272723 0.000000e+00 2531
10 TraesCS1B01G299900 chr2B 96.429 168 6 0 2280 2447 361024738 361024571 6.660000e-71 278
11 TraesCS1B01G299900 chr7A 90.484 1818 154 11 476 2275 37692091 37693907 0.000000e+00 2381
12 TraesCS1B01G299900 chr5D 91.459 1686 116 15 1 1667 1580310 1578634 0.000000e+00 2290
13 TraesCS1B01G299900 chr1D 91.985 1360 101 6 927 2280 14475179 14476536 0.000000e+00 1901
14 TraesCS1B01G299900 chr6B 90.111 1082 83 11 1205 2280 154819292 154820355 0.000000e+00 1384
15 TraesCS1B01G299900 chr6B 96.471 170 6 0 2278 2447 374393971 374394140 5.150000e-72 281
16 TraesCS1B01G299900 chr6B 96.407 167 6 0 2281 2447 564476188 564476022 2.400000e-70 276
17 TraesCS1B01G299900 chr7B 97.006 167 5 0 2281 2447 62832658 62832492 5.150000e-72 281
18 TraesCS1B01G299900 chr5B 96.407 167 6 0 2281 2447 658219499 658219333 2.400000e-70 276
19 TraesCS1B01G299900 chr4A 93.855 179 9 1 2268 2446 600241988 600241812 4.010000e-68 268
20 TraesCS1B01G299900 chr4D 93.370 181 10 2 2266 2446 211575342 211575164 1.440000e-67 267


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 TraesCS1B01G299900 chr1B 520678281 520680727 2446 True 4519 4519 100.000 1 2447 1 chr1B.!!$R2 2446
1 TraesCS1B01G299900 chr3D 547514888 547517189 2301 False 3085 3085 91.035 1 2280 1 chr3D.!!$F1 2279
2 TraesCS1B01G299900 chr4B 489676599 489678886 2287 False 3038 3038 90.719 1 2280 1 chr4B.!!$F2 2279
3 TraesCS1B01G299900 chr3A 719476165 719478414 2249 False 2987 2987 90.696 36 2280 1 chr3A.!!$F1 2244
4 TraesCS1B01G299900 chr3B 524444213 524446391 2178 True 2950 2950 91.179 1 2174 1 chr3B.!!$R1 2173
5 TraesCS1B01G299900 chr2A 48847859 48850093 2234 True 2806 2806 89.250 1 2274 1 chr2A.!!$R1 2273
6 TraesCS1B01G299900 chr2D 374121086 374122850 1764 True 2569 2569 93.088 1 1750 1 chr2D.!!$R1 1749
7 TraesCS1B01G299900 chr2B 72270509 72272723 2214 False 2531 2531 87.249 2 2279 1 chr2B.!!$F1 2277
8 TraesCS1B01G299900 chr7A 37692091 37693907 1816 False 2381 2381 90.484 476 2275 1 chr7A.!!$F1 1799
9 TraesCS1B01G299900 chr5D 1578634 1580310 1676 True 2290 2290 91.459 1 1667 1 chr5D.!!$R1 1666
10 TraesCS1B01G299900 chr1D 14475179 14476536 1357 False 1901 1901 91.985 927 2280 1 chr1D.!!$F1 1353
11 TraesCS1B01G299900 chr6B 154819292 154820355 1063 False 1384 1384 90.111 1205 2280 1 chr6B.!!$F1 1075

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
795 824 0.100861 GCTAAGAGACTTAGCGGCGT 59.899 55.0 21.82 0.0 38.12 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2354 2439 0.035739 GCCAGTCCGGGTTAGTTCAA 59.964 55.0 0.0 0.0 34.06 2.69 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
48 49 9.517868 TGGTAGGCTAGATTAATAGTAGAGTTC 57.482 37.037 0.00 0.00 0.00 3.01
66 67 3.105937 GTTCGAAGTTGAACTTTGTGCC 58.894 45.455 21.26 9.51 43.82 5.01
100 101 6.394809 TCGTGCTTAGATCTGTGATTTGTAA 58.605 36.000 5.18 0.00 0.00 2.41
135 141 6.257630 GTCCATTTGTAGCATGTTGTTTGTTT 59.742 34.615 0.00 0.00 0.00 2.83
165 171 5.627182 ATGTTCCTGCTCATAGATTGTCT 57.373 39.130 0.00 0.00 0.00 3.41
192 202 7.923344 GGTATGCTTAGTATGATAGCGATGAAT 59.077 37.037 0.00 0.00 37.73 2.57
198 208 9.363763 CTTAGTATGATAGCGATGAATCATGTT 57.636 33.333 0.00 1.13 41.68 2.71
275 285 3.632643 TGTATGCTCCTGCTTTCATGA 57.367 42.857 0.00 0.00 40.48 3.07
291 303 5.811399 TTCATGAATTGTCCGGTATGTTC 57.189 39.130 3.38 3.47 0.00 3.18
390 404 0.951040 CCTGTCCGACAGCCAGTTTC 60.951 60.000 21.26 0.00 44.63 2.78
427 442 0.457851 GACTCGCAGCCTATGTCTGT 59.542 55.000 0.00 0.00 34.21 3.41
503 527 0.944386 TCGTTGAGCAAACTTCTGCC 59.056 50.000 1.46 0.00 43.73 4.85
541 569 3.882888 CTCAAGGTAGCAACAACAAAGGA 59.117 43.478 0.00 0.00 0.00 3.36
617 645 4.314961 TCGTGCTAAACAAGATGTGTGAT 58.685 39.130 0.00 0.00 40.60 3.06
633 661 6.796785 TGTGTGATCTCATCTCTAATGGAA 57.203 37.500 0.02 0.00 0.00 3.53
779 807 2.265367 TGGATCCAAGTGTCCAAGCTA 58.735 47.619 13.46 0.00 41.36 3.32
795 824 0.100861 GCTAAGAGACTTAGCGGCGT 59.899 55.000 21.82 0.00 38.12 5.68
803 832 1.320344 ACTTAGCGGCGTCTCATGGA 61.320 55.000 9.37 0.00 0.00 3.41
849 878 4.129737 GGCAGAGCACTACGCCGA 62.130 66.667 0.00 0.00 44.04 5.54
902 931 4.766891 CCTTTTCATACTGTCCACCATTGT 59.233 41.667 0.00 0.00 0.00 2.71
981 1010 1.475034 GCTGAGTTCCTCAACACACCA 60.475 52.381 0.00 0.00 40.18 4.17
987 1016 4.787551 AGTTCCTCAACACACCAATACAA 58.212 39.130 0.00 0.00 34.60 2.41
990 1019 6.323739 AGTTCCTCAACACACCAATACAAAAT 59.676 34.615 0.00 0.00 34.60 1.82
1025 1054 2.009042 GCACATCTTCTCCTTCGGGTG 61.009 57.143 0.00 0.00 36.28 4.61
1125 1158 0.846427 AGGTCCTTGATGGCCCTGAA 60.846 55.000 0.00 0.00 43.70 3.02
1135 1168 1.228862 GGCCCTGAAAAGCCCTTCA 60.229 57.895 0.00 0.00 43.76 3.02
1180 1213 5.473849 TGATAGGAAGAGGAAGAGAGGAA 57.526 43.478 0.00 0.00 0.00 3.36
1244 1277 1.002134 CGGTGAAGGAGGTGGCAAT 60.002 57.895 0.00 0.00 0.00 3.56
1278 1312 2.683933 AAGCCCCTCGACGTCCAT 60.684 61.111 10.58 0.00 0.00 3.41
1285 1319 1.313091 CCTCGACGTCCATCCTGACA 61.313 60.000 10.58 0.00 34.88 3.58
1346 1380 0.107800 GCTCTCATGGCAGCTCTCAA 60.108 55.000 8.99 0.00 32.48 3.02
1418 1453 1.032114 GCTCATAGGGTGTTGTGGCC 61.032 60.000 0.00 0.00 0.00 5.36
1446 1481 1.422024 TGGTTGGGCAAGCACTACTAA 59.578 47.619 8.65 0.00 43.00 2.24
1486 1521 1.449423 CGTGCATGATCCCCGACAA 60.449 57.895 0.00 0.00 0.00 3.18
1515 1571 1.731613 GGCGACAACGACGATGACA 60.732 57.895 12.41 0.00 42.66 3.58
1521 1577 2.729360 GACAACGACGATGACAATGACA 59.271 45.455 12.41 0.00 0.00 3.58
1561 1617 6.122964 AGCTAGGGATGGAAAACTATTTGAC 58.877 40.000 0.00 0.00 0.00 3.18
1678 1738 4.142609 AGGATAACACATGGTAGTGCTG 57.857 45.455 0.00 0.00 43.23 4.41
1698 1758 0.938008 GGTAGAACTTGCTATGCCGC 59.062 55.000 0.00 0.00 0.00 6.53
1706 1766 0.946528 TTGCTATGCCGCATGATCAC 59.053 50.000 16.40 1.60 40.04 3.06
1718 1781 3.678915 CATGATCACGCATGCTTTACA 57.321 42.857 17.13 9.69 39.19 2.41
1820 1883 1.952367 GCTCTTGTGCATTGCTAGGGT 60.952 52.381 10.49 0.00 0.00 4.34
1856 1920 0.032515 TCATCGGTAAGGCTCCAGGA 60.033 55.000 0.00 0.00 0.00 3.86
1866 1930 1.903183 AGGCTCCAGGAGTTTACAGTC 59.097 52.381 18.37 0.00 31.39 3.51
1879 1943 4.351111 AGTTTACAGTCCATGGGAAGAAGT 59.649 41.667 13.02 5.27 31.38 3.01
1898 1962 0.109153 TCAGTGCACAAGTGGCATCT 59.891 50.000 21.04 0.00 44.11 2.90
1912 1976 3.378112 GTGGCATCTTATAGCAACAGCAA 59.622 43.478 0.00 0.00 34.79 3.91
1950 2015 3.755434 GCAGGCAGCAGAACAAGT 58.245 55.556 0.00 0.00 44.79 3.16
1993 2058 2.031516 CGGAGGCAGCAGTGTTGAG 61.032 63.158 11.60 0.00 0.00 3.02
2078 2146 3.616956 AGAACTTCATCATCTTCGCCA 57.383 42.857 0.00 0.00 0.00 5.69
2115 2183 1.377333 TGTTGTGGCGTTGGTGTGA 60.377 52.632 0.00 0.00 0.00 3.58
2122 2190 1.644786 GGCGTTGGTGTGATAGGTGC 61.645 60.000 0.00 0.00 0.00 5.01
2123 2191 0.953471 GCGTTGGTGTGATAGGTGCA 60.953 55.000 0.00 0.00 0.00 4.57
2177 2245 3.053831 AGGTAAGCACACCATGTACAC 57.946 47.619 0.00 0.00 41.40 2.90
2213 2298 1.943968 GCCGTGTTCATGTGCCTCTTA 60.944 52.381 0.00 0.00 0.00 2.10
2215 2300 2.353704 CCGTGTTCATGTGCCTCTTAGA 60.354 50.000 0.00 0.00 0.00 2.10
2221 2306 5.045942 TGTTCATGTGCCTCTTAGACCAATA 60.046 40.000 0.00 0.00 0.00 1.90
2224 2309 4.202245 TGTGCCTCTTAGACCAATACAC 57.798 45.455 0.00 0.00 0.00 2.90
2280 2365 0.941963 TAGGGACCCTAGATGCAGGT 59.058 55.000 16.95 0.00 34.61 4.00
2281 2366 0.692419 AGGGACCCTAGATGCAGGTG 60.692 60.000 12.85 0.00 32.81 4.00
2282 2367 0.691078 GGGACCCTAGATGCAGGTGA 60.691 60.000 2.09 0.00 32.81 4.02
2283 2368 1.428869 GGACCCTAGATGCAGGTGAT 58.571 55.000 0.00 0.00 32.81 3.06
2284 2369 2.609747 GGACCCTAGATGCAGGTGATA 58.390 52.381 0.00 0.00 32.81 2.15
2285 2370 2.300437 GGACCCTAGATGCAGGTGATAC 59.700 54.545 0.00 0.00 32.81 2.24
2286 2371 1.964223 ACCCTAGATGCAGGTGATACG 59.036 52.381 0.00 0.00 33.44 3.06
2287 2372 1.964223 CCCTAGATGCAGGTGATACGT 59.036 52.381 0.00 0.00 33.44 3.57
2288 2373 2.029828 CCCTAGATGCAGGTGATACGTC 60.030 54.545 0.00 0.00 33.44 4.34
2289 2374 2.887783 CCTAGATGCAGGTGATACGTCT 59.112 50.000 0.00 0.00 34.21 4.18
2290 2375 3.057876 CCTAGATGCAGGTGATACGTCTC 60.058 52.174 0.00 0.00 32.16 3.36
2291 2376 1.683917 AGATGCAGGTGATACGTCTCC 59.316 52.381 0.00 0.00 38.11 3.71
2292 2377 0.385751 ATGCAGGTGATACGTCTCCG 59.614 55.000 0.00 0.00 41.75 4.63
2294 2379 0.248539 GCAGGTGATACGTCTCCGTC 60.249 60.000 0.00 0.00 46.28 4.79
2295 2380 0.027716 CAGGTGATACGTCTCCGTCG 59.972 60.000 0.00 0.00 46.28 5.12
2296 2381 0.392193 AGGTGATACGTCTCCGTCGT 60.392 55.000 0.00 0.00 46.28 4.34
2297 2382 1.134699 AGGTGATACGTCTCCGTCGTA 60.135 52.381 0.00 0.00 46.28 3.43
2303 2388 2.593346 ACGTCTCCGTCGTATCTACT 57.407 50.000 0.00 0.00 46.28 2.57
2304 2389 2.898705 ACGTCTCCGTCGTATCTACTT 58.101 47.619 0.00 0.00 46.28 2.24
2305 2390 3.265791 ACGTCTCCGTCGTATCTACTTT 58.734 45.455 0.00 0.00 46.28 2.66
2306 2391 3.686726 ACGTCTCCGTCGTATCTACTTTT 59.313 43.478 0.00 0.00 46.28 2.27
2307 2392 4.201763 ACGTCTCCGTCGTATCTACTTTTC 60.202 45.833 0.00 0.00 46.28 2.29
2308 2393 4.596097 GTCTCCGTCGTATCTACTTTTCC 58.404 47.826 0.00 0.00 0.00 3.13
2309 2394 4.095483 GTCTCCGTCGTATCTACTTTTCCA 59.905 45.833 0.00 0.00 0.00 3.53
2310 2395 4.701651 TCTCCGTCGTATCTACTTTTCCAA 59.298 41.667 0.00 0.00 0.00 3.53
2311 2396 5.183713 TCTCCGTCGTATCTACTTTTCCAAA 59.816 40.000 0.00 0.00 0.00 3.28
2312 2397 5.163513 TCCGTCGTATCTACTTTTCCAAAC 58.836 41.667 0.00 0.00 0.00 2.93
2313 2398 4.925054 CCGTCGTATCTACTTTTCCAAACA 59.075 41.667 0.00 0.00 0.00 2.83
2314 2399 5.164022 CCGTCGTATCTACTTTTCCAAACAC 60.164 44.000 0.00 0.00 0.00 3.32
2315 2400 5.632347 CGTCGTATCTACTTTTCCAAACACT 59.368 40.000 0.00 0.00 0.00 3.55
2316 2401 6.145048 CGTCGTATCTACTTTTCCAAACACTT 59.855 38.462 0.00 0.00 0.00 3.16
2317 2402 7.306983 CGTCGTATCTACTTTTCCAAACACTTT 60.307 37.037 0.00 0.00 0.00 2.66
2318 2403 8.340443 GTCGTATCTACTTTTCCAAACACTTTT 58.660 33.333 0.00 0.00 0.00 2.27
2319 2404 8.339714 TCGTATCTACTTTTCCAAACACTTTTG 58.660 33.333 0.00 0.00 41.71 2.44
2320 2405 7.112984 CGTATCTACTTTTCCAAACACTTTTGC 59.887 37.037 0.00 0.00 40.84 3.68
2321 2406 5.656480 TCTACTTTTCCAAACACTTTTGCC 58.344 37.500 0.00 0.00 40.84 4.52
2322 2407 3.605634 ACTTTTCCAAACACTTTTGCCC 58.394 40.909 0.00 0.00 40.84 5.36
2323 2408 3.263170 ACTTTTCCAAACACTTTTGCCCT 59.737 39.130 0.00 0.00 40.84 5.19
2324 2409 3.990959 TTTCCAAACACTTTTGCCCTT 57.009 38.095 0.00 0.00 40.84 3.95
2325 2410 5.046231 ACTTTTCCAAACACTTTTGCCCTTA 60.046 36.000 0.00 0.00 40.84 2.69
2326 2411 5.622346 TTTCCAAACACTTTTGCCCTTAT 57.378 34.783 0.00 0.00 40.84 1.73
2327 2412 5.622346 TTCCAAACACTTTTGCCCTTATT 57.378 34.783 0.00 0.00 40.84 1.40
2328 2413 5.622346 TCCAAACACTTTTGCCCTTATTT 57.378 34.783 0.00 0.00 40.84 1.40
2329 2414 5.995446 TCCAAACACTTTTGCCCTTATTTT 58.005 33.333 0.00 0.00 40.84 1.82
2330 2415 5.819901 TCCAAACACTTTTGCCCTTATTTTG 59.180 36.000 0.00 0.00 40.84 2.44
2331 2416 5.008514 CCAAACACTTTTGCCCTTATTTTGG 59.991 40.000 0.00 0.00 40.84 3.28
2332 2417 5.622346 AACACTTTTGCCCTTATTTTGGA 57.378 34.783 0.00 0.00 0.00 3.53
2333 2418 4.956085 ACACTTTTGCCCTTATTTTGGAC 58.044 39.130 0.00 0.00 0.00 4.02
2334 2419 4.653801 ACACTTTTGCCCTTATTTTGGACT 59.346 37.500 0.00 0.00 0.00 3.85
2335 2420 5.221441 ACACTTTTGCCCTTATTTTGGACTC 60.221 40.000 0.00 0.00 0.00 3.36
2336 2421 5.011023 CACTTTTGCCCTTATTTTGGACTCT 59.989 40.000 0.00 0.00 0.00 3.24
2337 2422 6.208599 CACTTTTGCCCTTATTTTGGACTCTA 59.791 38.462 0.00 0.00 0.00 2.43
2338 2423 6.780522 ACTTTTGCCCTTATTTTGGACTCTAA 59.219 34.615 0.00 0.00 0.00 2.10
2339 2424 6.584185 TTTGCCCTTATTTTGGACTCTAAC 57.416 37.500 0.00 0.00 0.00 2.34
2340 2425 5.514500 TGCCCTTATTTTGGACTCTAACT 57.486 39.130 0.00 0.00 0.00 2.24
2341 2426 5.887754 TGCCCTTATTTTGGACTCTAACTT 58.112 37.500 0.00 0.00 0.00 2.66
2342 2427 5.710099 TGCCCTTATTTTGGACTCTAACTTG 59.290 40.000 0.00 0.00 0.00 3.16
2343 2428 5.393135 GCCCTTATTTTGGACTCTAACTTGC 60.393 44.000 0.00 0.00 0.00 4.01
2344 2429 5.710099 CCCTTATTTTGGACTCTAACTTGCA 59.290 40.000 0.00 0.00 0.00 4.08
2345 2430 6.378280 CCCTTATTTTGGACTCTAACTTGCAT 59.622 38.462 0.00 0.00 0.00 3.96
2346 2431 7.253422 CCTTATTTTGGACTCTAACTTGCATG 58.747 38.462 0.00 0.00 0.00 4.06
2347 2432 7.121168 CCTTATTTTGGACTCTAACTTGCATGA 59.879 37.037 6.60 0.00 0.00 3.07
2348 2433 8.579850 TTATTTTGGACTCTAACTTGCATGAT 57.420 30.769 6.60 0.00 0.00 2.45
2349 2434 6.899393 TTTTGGACTCTAACTTGCATGATT 57.101 33.333 6.60 0.30 0.00 2.57
2350 2435 6.899393 TTTGGACTCTAACTTGCATGATTT 57.101 33.333 6.60 0.00 0.00 2.17
2351 2436 6.500684 TTGGACTCTAACTTGCATGATTTC 57.499 37.500 6.60 0.00 0.00 2.17
2352 2437 5.559770 TGGACTCTAACTTGCATGATTTCA 58.440 37.500 6.60 0.00 0.00 2.69
2353 2438 6.003326 TGGACTCTAACTTGCATGATTTCAA 58.997 36.000 6.60 0.00 0.00 2.69
2354 2439 6.660521 TGGACTCTAACTTGCATGATTTCAAT 59.339 34.615 6.60 0.00 0.00 2.57
2355 2440 7.177216 TGGACTCTAACTTGCATGATTTCAATT 59.823 33.333 6.60 0.00 0.00 2.32
2356 2441 7.487189 GGACTCTAACTTGCATGATTTCAATTG 59.513 37.037 6.60 0.00 0.00 2.32
2357 2442 8.114331 ACTCTAACTTGCATGATTTCAATTGA 57.886 30.769 3.38 3.38 0.00 2.57
2358 2443 8.579006 ACTCTAACTTGCATGATTTCAATTGAA 58.421 29.630 16.91 16.91 0.00 2.69
2359 2444 8.746922 TCTAACTTGCATGATTTCAATTGAAC 57.253 30.769 20.35 10.72 33.13 3.18
2360 2445 8.579006 TCTAACTTGCATGATTTCAATTGAACT 58.421 29.630 20.35 15.31 33.13 3.01
2361 2446 9.844790 CTAACTTGCATGATTTCAATTGAACTA 57.155 29.630 20.35 7.69 33.13 2.24
2363 2448 8.524870 ACTTGCATGATTTCAATTGAACTAAC 57.475 30.769 20.35 11.91 33.13 2.34
2364 2449 7.599998 ACTTGCATGATTTCAATTGAACTAACC 59.400 33.333 20.35 8.32 33.13 2.85
2365 2450 6.397272 TGCATGATTTCAATTGAACTAACCC 58.603 36.000 20.35 8.78 33.13 4.11
2366 2451 5.516339 GCATGATTTCAATTGAACTAACCCG 59.484 40.000 20.35 7.45 33.13 5.28
2367 2452 5.637006 TGATTTCAATTGAACTAACCCGG 57.363 39.130 20.35 0.00 33.13 5.73
2368 2453 5.317808 TGATTTCAATTGAACTAACCCGGA 58.682 37.500 20.35 3.22 33.13 5.14
2369 2454 5.182380 TGATTTCAATTGAACTAACCCGGAC 59.818 40.000 20.35 2.13 33.13 4.79
2370 2455 4.360951 TTCAATTGAACTAACCCGGACT 57.639 40.909 16.91 0.00 0.00 3.85
2371 2456 3.670625 TCAATTGAACTAACCCGGACTG 58.329 45.455 5.45 0.00 0.00 3.51
2372 2457 2.747446 CAATTGAACTAACCCGGACTGG 59.253 50.000 0.73 0.00 37.55 4.00
2373 2458 0.035739 TTGAACTAACCCGGACTGGC 59.964 55.000 0.73 0.00 35.87 4.85
2374 2459 1.447314 GAACTAACCCGGACTGGCG 60.447 63.158 0.73 0.00 35.87 5.69
2375 2460 3.600898 AACTAACCCGGACTGGCGC 62.601 63.158 0.73 0.00 35.87 6.53
2376 2461 3.771160 CTAACCCGGACTGGCGCT 61.771 66.667 7.64 0.00 35.87 5.92
2377 2462 4.077184 TAACCCGGACTGGCGCTG 62.077 66.667 7.64 2.99 35.87 5.18
2381 2466 2.978010 CCGGACTGGCGCTGTTTT 60.978 61.111 7.64 0.00 0.00 2.43
2382 2467 2.556287 CGGACTGGCGCTGTTTTC 59.444 61.111 7.64 0.00 0.00 2.29
2383 2468 2.250939 CGGACTGGCGCTGTTTTCA 61.251 57.895 7.64 0.00 0.00 2.69
2402 2487 4.410225 CAGAACTGCCATGGTGCT 57.590 55.556 14.67 0.00 0.00 4.40
2403 2488 3.556817 CAGAACTGCCATGGTGCTA 57.443 52.632 14.67 0.00 0.00 3.49
2404 2489 2.048444 CAGAACTGCCATGGTGCTAT 57.952 50.000 14.67 0.00 0.00 2.97
2405 2490 2.372264 CAGAACTGCCATGGTGCTATT 58.628 47.619 14.67 1.03 0.00 1.73
2406 2491 2.756760 CAGAACTGCCATGGTGCTATTT 59.243 45.455 14.67 0.00 0.00 1.40
2407 2492 3.194116 CAGAACTGCCATGGTGCTATTTT 59.806 43.478 14.67 0.00 0.00 1.82
2408 2493 3.834231 AGAACTGCCATGGTGCTATTTTT 59.166 39.130 14.67 0.00 0.00 1.94
2409 2494 3.598019 ACTGCCATGGTGCTATTTTTG 57.402 42.857 14.67 0.00 0.00 2.44
2410 2495 2.899256 ACTGCCATGGTGCTATTTTTGT 59.101 40.909 14.67 0.00 0.00 2.83
2411 2496 3.255725 CTGCCATGGTGCTATTTTTGTG 58.744 45.455 14.67 0.00 0.00 3.33
2412 2497 2.001872 GCCATGGTGCTATTTTTGTGC 58.998 47.619 14.67 0.00 0.00 4.57
2413 2498 2.612471 GCCATGGTGCTATTTTTGTGCA 60.612 45.455 14.67 0.00 0.00 4.57
2414 2499 3.255725 CCATGGTGCTATTTTTGTGCAG 58.744 45.455 2.57 0.00 37.39 4.41
2415 2500 3.056678 CCATGGTGCTATTTTTGTGCAGA 60.057 43.478 2.57 0.00 37.39 4.26
2416 2501 4.382254 CCATGGTGCTATTTTTGTGCAGAT 60.382 41.667 2.57 0.00 37.39 2.90
2417 2502 5.163530 CCATGGTGCTATTTTTGTGCAGATA 60.164 40.000 2.57 0.00 37.39 1.98
2418 2503 6.461927 CCATGGTGCTATTTTTGTGCAGATAT 60.462 38.462 2.57 0.00 37.39 1.63
2419 2504 7.255555 CCATGGTGCTATTTTTGTGCAGATATA 60.256 37.037 2.57 0.00 37.39 0.86
2420 2505 7.637631 TGGTGCTATTTTTGTGCAGATATAA 57.362 32.000 0.00 0.00 37.39 0.98
2421 2506 8.060931 TGGTGCTATTTTTGTGCAGATATAAA 57.939 30.769 0.00 0.00 37.39 1.40
2422 2507 8.526978 TGGTGCTATTTTTGTGCAGATATAAAA 58.473 29.630 0.00 0.00 37.39 1.52
2423 2508 9.023967 GGTGCTATTTTTGTGCAGATATAAAAG 57.976 33.333 0.00 0.00 37.39 2.27
2424 2509 9.573133 GTGCTATTTTTGTGCAGATATAAAAGT 57.427 29.630 0.00 0.00 37.39 2.66
2429 2514 8.948853 TTTTTGTGCAGATATAAAAGTTCTCG 57.051 30.769 0.00 0.00 0.00 4.04
2430 2515 6.662414 TTGTGCAGATATAAAAGTTCTCGG 57.338 37.500 0.00 0.00 0.00 4.63
2431 2516 5.972935 TGTGCAGATATAAAAGTTCTCGGA 58.027 37.500 0.00 0.00 0.00 4.55
2432 2517 6.403049 TGTGCAGATATAAAAGTTCTCGGAA 58.597 36.000 0.00 0.00 0.00 4.30
2433 2518 7.047891 TGTGCAGATATAAAAGTTCTCGGAAT 58.952 34.615 0.00 0.00 0.00 3.01
2434 2519 7.011389 TGTGCAGATATAAAAGTTCTCGGAATG 59.989 37.037 0.00 0.00 0.00 2.67
2435 2520 7.224753 GTGCAGATATAAAAGTTCTCGGAATGA 59.775 37.037 0.00 0.00 0.00 2.57
2436 2521 7.224753 TGCAGATATAAAAGTTCTCGGAATGAC 59.775 37.037 0.00 0.00 0.00 3.06
2437 2522 7.307455 GCAGATATAAAAGTTCTCGGAATGACC 60.307 40.741 0.00 0.00 0.00 4.02
2438 2523 7.928706 CAGATATAAAAGTTCTCGGAATGACCT 59.071 37.037 0.00 0.00 36.31 3.85
2439 2524 7.928706 AGATATAAAAGTTCTCGGAATGACCTG 59.071 37.037 0.00 0.00 36.31 4.00
2440 2525 4.351874 AAAAGTTCTCGGAATGACCTGA 57.648 40.909 0.00 0.00 36.31 3.86
2441 2526 4.351874 AAAGTTCTCGGAATGACCTGAA 57.648 40.909 0.00 0.00 36.31 3.02
2442 2527 4.351874 AAGTTCTCGGAATGACCTGAAA 57.648 40.909 0.00 0.00 36.31 2.69
2443 2528 4.351874 AGTTCTCGGAATGACCTGAAAA 57.648 40.909 0.00 0.00 36.31 2.29
2444 2529 4.911390 AGTTCTCGGAATGACCTGAAAAT 58.089 39.130 0.00 0.00 36.31 1.82
2445 2530 4.938226 AGTTCTCGGAATGACCTGAAAATC 59.062 41.667 0.00 0.00 36.31 2.17
2446 2531 3.873910 TCTCGGAATGACCTGAAAATCC 58.126 45.455 0.00 0.00 36.31 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 2.097466 ACAGGCACAAAGTTCAACTTCG 59.903 45.455 2.45 0.00 37.47 3.79
59 60 2.020720 ACGAATCAACACAGGCACAAA 58.979 42.857 0.00 0.00 0.00 2.83
66 67 4.867047 AGATCTAAGCACGAATCAACACAG 59.133 41.667 0.00 0.00 0.00 3.66
100 101 5.754782 TGCTACAAATGGACCATCAATAGT 58.245 37.500 7.63 5.13 0.00 2.12
135 141 7.839680 TCTATGAGCAGGAACATACATCTAA 57.160 36.000 0.00 0.00 0.00 2.10
165 171 6.377146 TCATCGCTATCATACTAAGCATACCA 59.623 38.462 0.00 0.00 35.98 3.25
198 208 8.864087 ACATGCTTCATCACTATCATACTAAGA 58.136 33.333 0.00 0.00 0.00 2.10
275 285 2.747446 GCACAGAACATACCGGACAATT 59.253 45.455 9.46 0.00 0.00 2.32
291 303 4.633126 ACATTGACAGTAAGCATAGCACAG 59.367 41.667 0.00 0.00 0.00 3.66
427 442 1.211212 CCTCTGAATCAGGTGCCATCA 59.789 52.381 10.71 0.00 31.51 3.07
541 569 4.041198 TGTTCGACCTACCATCCTTCTTTT 59.959 41.667 0.00 0.00 0.00 2.27
617 645 8.007153 TCAGTCCTAATTCCATTAGAGATGAGA 58.993 37.037 5.26 0.00 43.85 3.27
633 661 5.163152 CCTTGAAGCCCTTATCAGTCCTAAT 60.163 44.000 0.00 0.00 0.00 1.73
685 713 0.602905 CCCACAGAACTCGAACACCC 60.603 60.000 0.00 0.00 0.00 4.61
779 807 2.569183 AGACGCCGCTAAGTCTCTT 58.431 52.632 0.00 0.00 43.52 2.85
803 832 5.171339 ACTATGGAGCAAGTGTTCTCATT 57.829 39.130 5.10 0.00 0.00 2.57
849 878 1.153628 GAGCTAACCGCGACATGGT 60.154 57.895 8.23 0.00 45.59 3.55
902 931 6.071784 TGTTGTTAGTTGCGATTAGGAGTAGA 60.072 38.462 0.00 0.00 0.00 2.59
981 1010 6.528537 TGCATCTGGCTGTAATTTTGTATT 57.471 33.333 0.00 0.00 45.15 1.89
987 1016 2.165030 GTGCTGCATCTGGCTGTAATTT 59.835 45.455 5.27 0.00 45.15 1.82
990 1019 0.036590 TGTGCTGCATCTGGCTGTAA 59.963 50.000 5.27 0.00 45.15 2.41
1125 1158 0.105504 AGGGCTTGTTGAAGGGCTTT 60.106 50.000 0.00 0.00 0.00 3.51
1135 1168 0.190815 ATGGGGTCAAAGGGCTTGTT 59.809 50.000 0.00 0.00 36.34 2.83
1196 1229 4.218852 TCATGCTGCAAAAGACATTGATCA 59.781 37.500 6.36 0.00 31.84 2.92
1244 1277 0.543277 CTTGCACTCCCTGATGGCTA 59.457 55.000 0.00 0.00 0.00 3.93
1278 1312 0.179076 CAGCGCCATACATGTCAGGA 60.179 55.000 18.01 0.00 0.00 3.86
1285 1319 1.586422 GTCATGACAGCGCCATACAT 58.414 50.000 21.07 2.16 0.00 2.29
1346 1380 1.392589 CTTGTTGTCAAGCAGGTGGT 58.607 50.000 0.00 0.00 43.34 4.16
1371 1405 2.122167 GGCAACGAACCCAACACCA 61.122 57.895 0.00 0.00 0.00 4.17
1398 1433 0.322456 GCCACAACACCCTATGAGCA 60.322 55.000 0.00 0.00 0.00 4.26
1420 1455 2.677875 CTTGCCCAACCAGCTCCC 60.678 66.667 0.00 0.00 0.00 4.30
1429 1464 4.469945 ACTCTATTAGTAGTGCTTGCCCAA 59.530 41.667 0.00 0.00 36.36 4.12
1446 1481 3.886505 GCTCACAGGTAGCACTACTCTAT 59.113 47.826 7.69 0.00 39.83 1.98
1515 1571 6.017440 AGCTACACAAAATGTACGTTGTCATT 60.017 34.615 0.00 0.08 43.19 2.57
1521 1577 4.933400 CCCTAGCTACACAAAATGTACGTT 59.067 41.667 0.00 0.00 43.19 3.99
1561 1617 5.468746 CCACCTCACCAAAATATACATACCG 59.531 44.000 0.00 0.00 0.00 4.02
1678 1738 1.583054 CGGCATAGCAAGTTCTACCC 58.417 55.000 0.00 0.00 0.00 3.69
1698 1758 3.678915 TGTAAAGCATGCGTGATCATG 57.321 42.857 13.01 10.76 44.93 3.07
1706 1766 4.871993 AAGAGAAGATGTAAAGCATGCG 57.128 40.909 13.01 0.00 38.06 4.73
1718 1781 7.047460 ACAACAATGAAGCAAAAGAGAAGAT 57.953 32.000 0.00 0.00 0.00 2.40
1820 1883 4.417506 CGATGAACACGACATACCACTTA 58.582 43.478 0.00 0.00 0.00 2.24
1856 1920 4.351111 ACTTCTTCCCATGGACTGTAAACT 59.649 41.667 15.22 0.00 0.00 2.66
1866 1930 1.271543 TGCACTGACTTCTTCCCATGG 60.272 52.381 4.14 4.14 0.00 3.66
1879 1943 0.109153 AGATGCCACTTGTGCACTGA 59.891 50.000 19.41 5.85 42.38 3.41
1898 1962 5.368145 CCTCTATGGTTGCTGTTGCTATAA 58.632 41.667 0.00 0.00 40.48 0.98
1912 1976 3.769300 GCCAATTTTGAACCCTCTATGGT 59.231 43.478 0.00 0.00 41.55 3.55
1928 1992 0.828762 TGTTCTGCTGCCTGCCAATT 60.829 50.000 0.00 0.00 42.00 2.32
1930 1994 1.455402 TTGTTCTGCTGCCTGCCAA 60.455 52.632 0.00 0.00 42.00 4.52
1950 2015 1.180456 TCGCACCCAGTCGGAGTAAA 61.180 55.000 0.00 0.00 34.64 2.01
1993 2058 0.036732 TGACACCTCCAATGCCACTC 59.963 55.000 0.00 0.00 0.00 3.51
2078 2146 2.366266 ACACAGCAATGGCAATGAACTT 59.634 40.909 6.76 0.00 44.61 2.66
2115 2183 3.386932 ACCCACAATGATTGCACCTAT 57.613 42.857 4.84 0.00 0.00 2.57
2122 2190 3.129287 GGTGAGCTTACCCACAATGATTG 59.871 47.826 16.76 3.16 34.56 2.67
2123 2191 3.245229 TGGTGAGCTTACCCACAATGATT 60.245 43.478 23.81 0.00 40.09 2.57
2177 2245 1.154112 GGCGTTTGGTTGCATACGG 60.154 57.895 0.00 0.00 34.76 4.02
2213 2298 4.274147 TGTTTGGTTGTGTGTATTGGTCT 58.726 39.130 0.00 0.00 0.00 3.85
2215 2300 5.046950 ACTTTGTTTGGTTGTGTGTATTGGT 60.047 36.000 0.00 0.00 0.00 3.67
2221 2306 2.036475 TGCACTTTGTTTGGTTGTGTGT 59.964 40.909 0.00 0.00 0.00 3.72
2224 2309 2.958213 AGTGCACTTTGTTTGGTTGTG 58.042 42.857 15.25 0.00 0.00 3.33
2260 2345 1.509961 ACCTGCATCTAGGGTCCCTAT 59.490 52.381 18.52 2.39 42.35 2.57
2286 2371 4.095483 TGGAAAAGTAGATACGACGGAGAC 59.905 45.833 0.00 0.00 0.00 3.36
2287 2372 4.264253 TGGAAAAGTAGATACGACGGAGA 58.736 43.478 0.00 0.00 0.00 3.71
2288 2373 4.627611 TGGAAAAGTAGATACGACGGAG 57.372 45.455 0.00 0.00 0.00 4.63
2289 2374 5.163513 GTTTGGAAAAGTAGATACGACGGA 58.836 41.667 0.00 0.00 0.00 4.69
2290 2375 4.925054 TGTTTGGAAAAGTAGATACGACGG 59.075 41.667 0.00 0.00 0.00 4.79
2291 2376 5.632347 AGTGTTTGGAAAAGTAGATACGACG 59.368 40.000 0.00 0.00 0.00 5.12
2292 2377 7.417496 AAGTGTTTGGAAAAGTAGATACGAC 57.583 36.000 0.00 0.00 0.00 4.34
2293 2378 8.339714 CAAAAGTGTTTGGAAAAGTAGATACGA 58.660 33.333 0.00 0.00 40.47 3.43
2294 2379 7.112984 GCAAAAGTGTTTGGAAAAGTAGATACG 59.887 37.037 1.72 0.00 43.73 3.06
2295 2380 7.381408 GGCAAAAGTGTTTGGAAAAGTAGATAC 59.619 37.037 1.72 0.00 43.73 2.24
2296 2381 7.430441 GGCAAAAGTGTTTGGAAAAGTAGATA 58.570 34.615 1.72 0.00 43.73 1.98
2297 2382 6.280643 GGCAAAAGTGTTTGGAAAAGTAGAT 58.719 36.000 1.72 0.00 43.73 1.98
2298 2383 5.394773 GGGCAAAAGTGTTTGGAAAAGTAGA 60.395 40.000 1.72 0.00 43.73 2.59
2299 2384 4.808895 GGGCAAAAGTGTTTGGAAAAGTAG 59.191 41.667 1.72 0.00 43.73 2.57
2300 2385 4.468153 AGGGCAAAAGTGTTTGGAAAAGTA 59.532 37.500 1.72 0.00 43.73 2.24
2301 2386 3.263170 AGGGCAAAAGTGTTTGGAAAAGT 59.737 39.130 1.72 0.00 43.73 2.66
2302 2387 3.872696 AGGGCAAAAGTGTTTGGAAAAG 58.127 40.909 1.72 0.00 43.73 2.27
2303 2388 3.990959 AGGGCAAAAGTGTTTGGAAAA 57.009 38.095 1.72 0.00 43.73 2.29
2304 2389 3.990959 AAGGGCAAAAGTGTTTGGAAA 57.009 38.095 1.72 0.00 43.73 3.13
2305 2390 5.622346 AATAAGGGCAAAAGTGTTTGGAA 57.378 34.783 1.72 0.00 43.73 3.53
2306 2391 5.622346 AAATAAGGGCAAAAGTGTTTGGA 57.378 34.783 1.72 0.00 43.73 3.53
2307 2392 5.008514 CCAAAATAAGGGCAAAAGTGTTTGG 59.991 40.000 0.00 0.00 43.73 3.28
2308 2393 5.819901 TCCAAAATAAGGGCAAAAGTGTTTG 59.180 36.000 0.00 0.00 45.88 2.93
2309 2394 5.820423 GTCCAAAATAAGGGCAAAAGTGTTT 59.180 36.000 0.00 0.00 0.00 2.83
2310 2395 5.130311 AGTCCAAAATAAGGGCAAAAGTGTT 59.870 36.000 0.00 0.00 31.65 3.32
2311 2396 4.653801 AGTCCAAAATAAGGGCAAAAGTGT 59.346 37.500 0.00 0.00 31.65 3.55
2312 2397 5.011023 AGAGTCCAAAATAAGGGCAAAAGTG 59.989 40.000 0.00 0.00 31.65 3.16
2313 2398 5.147767 AGAGTCCAAAATAAGGGCAAAAGT 58.852 37.500 0.00 0.00 31.65 2.66
2314 2399 5.728637 AGAGTCCAAAATAAGGGCAAAAG 57.271 39.130 0.00 0.00 31.65 2.27
2315 2400 6.780522 AGTTAGAGTCCAAAATAAGGGCAAAA 59.219 34.615 0.00 0.00 31.65 2.44
2316 2401 6.311735 AGTTAGAGTCCAAAATAAGGGCAAA 58.688 36.000 0.00 0.00 31.65 3.68
2317 2402 5.887754 AGTTAGAGTCCAAAATAAGGGCAA 58.112 37.500 0.00 0.00 31.65 4.52
2318 2403 5.514500 AGTTAGAGTCCAAAATAAGGGCA 57.486 39.130 0.00 0.00 31.65 5.36
2319 2404 5.393135 GCAAGTTAGAGTCCAAAATAAGGGC 60.393 44.000 0.00 0.00 0.00 5.19
2320 2405 5.710099 TGCAAGTTAGAGTCCAAAATAAGGG 59.290 40.000 0.00 0.00 0.00 3.95
2321 2406 6.817765 TGCAAGTTAGAGTCCAAAATAAGG 57.182 37.500 0.00 0.00 0.00 2.69
2322 2407 8.044060 TCATGCAAGTTAGAGTCCAAAATAAG 57.956 34.615 0.00 0.00 0.00 1.73
2323 2408 7.994425 TCATGCAAGTTAGAGTCCAAAATAA 57.006 32.000 0.00 0.00 0.00 1.40
2324 2409 8.579850 AATCATGCAAGTTAGAGTCCAAAATA 57.420 30.769 0.00 0.00 0.00 1.40
2325 2410 7.472334 AATCATGCAAGTTAGAGTCCAAAAT 57.528 32.000 0.00 0.00 0.00 1.82
2326 2411 6.899393 AATCATGCAAGTTAGAGTCCAAAA 57.101 33.333 0.00 0.00 0.00 2.44
2327 2412 6.489700 TGAAATCATGCAAGTTAGAGTCCAAA 59.510 34.615 0.00 0.00 0.00 3.28
2328 2413 6.003326 TGAAATCATGCAAGTTAGAGTCCAA 58.997 36.000 0.00 0.00 0.00 3.53
2329 2414 5.559770 TGAAATCATGCAAGTTAGAGTCCA 58.440 37.500 0.00 0.00 0.00 4.02
2330 2415 6.500684 TTGAAATCATGCAAGTTAGAGTCC 57.499 37.500 0.00 0.00 0.00 3.85
2331 2416 8.239314 TCAATTGAAATCATGCAAGTTAGAGTC 58.761 33.333 5.45 0.00 0.00 3.36
2332 2417 8.114331 TCAATTGAAATCATGCAAGTTAGAGT 57.886 30.769 5.45 0.00 0.00 3.24
2333 2418 8.857216 GTTCAATTGAAATCATGCAAGTTAGAG 58.143 33.333 22.07 0.00 35.58 2.43
2334 2419 8.579006 AGTTCAATTGAAATCATGCAAGTTAGA 58.421 29.630 22.07 0.00 35.58 2.10
2335 2420 8.752766 AGTTCAATTGAAATCATGCAAGTTAG 57.247 30.769 22.07 0.00 35.58 2.34
2337 2422 8.981647 GTTAGTTCAATTGAAATCATGCAAGTT 58.018 29.630 23.16 0.00 35.58 2.66
2338 2423 7.599998 GGTTAGTTCAATTGAAATCATGCAAGT 59.400 33.333 23.16 4.23 35.58 3.16
2339 2424 7.063780 GGGTTAGTTCAATTGAAATCATGCAAG 59.936 37.037 23.16 0.00 35.58 4.01
2340 2425 6.873076 GGGTTAGTTCAATTGAAATCATGCAA 59.127 34.615 23.16 10.06 35.58 4.08
2341 2426 6.397272 GGGTTAGTTCAATTGAAATCATGCA 58.603 36.000 23.16 4.28 35.58 3.96
2342 2427 5.516339 CGGGTTAGTTCAATTGAAATCATGC 59.484 40.000 23.16 9.86 35.58 4.06
2343 2428 6.035843 CCGGGTTAGTTCAATTGAAATCATG 58.964 40.000 23.16 10.71 35.58 3.07
2344 2429 5.949354 TCCGGGTTAGTTCAATTGAAATCAT 59.051 36.000 23.16 11.85 35.58 2.45
2345 2430 5.182380 GTCCGGGTTAGTTCAATTGAAATCA 59.818 40.000 23.16 11.18 35.58 2.57
2346 2431 5.414765 AGTCCGGGTTAGTTCAATTGAAATC 59.585 40.000 23.16 11.93 35.58 2.17
2347 2432 5.183140 CAGTCCGGGTTAGTTCAATTGAAAT 59.817 40.000 23.06 23.06 35.58 2.17
2348 2433 4.517453 CAGTCCGGGTTAGTTCAATTGAAA 59.483 41.667 22.07 5.45 35.58 2.69
2349 2434 4.069304 CAGTCCGGGTTAGTTCAATTGAA 58.931 43.478 16.91 16.91 0.00 2.69
2350 2435 3.558321 CCAGTCCGGGTTAGTTCAATTGA 60.558 47.826 3.38 3.38 0.00 2.57
2351 2436 2.747446 CCAGTCCGGGTTAGTTCAATTG 59.253 50.000 0.00 0.00 0.00 2.32
2352 2437 2.878526 GCCAGTCCGGGTTAGTTCAATT 60.879 50.000 0.00 0.00 34.06 2.32
2353 2438 1.339727 GCCAGTCCGGGTTAGTTCAAT 60.340 52.381 0.00 0.00 34.06 2.57
2354 2439 0.035739 GCCAGTCCGGGTTAGTTCAA 59.964 55.000 0.00 0.00 34.06 2.69
2355 2440 1.675219 GCCAGTCCGGGTTAGTTCA 59.325 57.895 0.00 0.00 34.06 3.18
2356 2441 1.447314 CGCCAGTCCGGGTTAGTTC 60.447 63.158 0.00 0.00 34.06 3.01
2357 2442 2.660802 CGCCAGTCCGGGTTAGTT 59.339 61.111 0.00 0.00 34.06 2.24
2358 2443 4.078516 GCGCCAGTCCGGGTTAGT 62.079 66.667 0.00 0.00 34.06 2.24
2359 2444 3.771160 AGCGCCAGTCCGGGTTAG 61.771 66.667 2.29 0.00 34.06 2.34
2360 2445 4.077184 CAGCGCCAGTCCGGGTTA 62.077 66.667 2.29 0.00 34.06 2.85
2364 2449 2.966309 GAAAACAGCGCCAGTCCGG 61.966 63.158 2.29 0.00 38.11 5.14
2365 2450 2.175184 CTGAAAACAGCGCCAGTCCG 62.175 60.000 2.29 0.00 0.00 4.79
2366 2451 1.576421 CTGAAAACAGCGCCAGTCC 59.424 57.895 2.29 0.00 0.00 3.85
2367 2452 1.081840 GCTGAAAACAGCGCCAGTC 60.082 57.895 2.29 0.00 38.52 3.51
2368 2453 3.034030 GCTGAAAACAGCGCCAGT 58.966 55.556 2.29 0.00 38.52 4.00
2383 2468 1.975407 GCACCATGGCAGTTCTGCT 60.975 57.895 21.46 3.09 34.73 4.24
2384 2469 0.677731 TAGCACCATGGCAGTTCTGC 60.678 55.000 13.04 13.28 35.83 4.26
2385 2470 2.048444 ATAGCACCATGGCAGTTCTG 57.952 50.000 13.04 2.04 35.83 3.02
2386 2471 2.814805 AATAGCACCATGGCAGTTCT 57.185 45.000 13.04 4.41 35.83 3.01
2387 2472 3.874392 AAAATAGCACCATGGCAGTTC 57.126 42.857 13.04 0.00 35.83 3.01
2388 2473 3.324556 ACAAAAATAGCACCATGGCAGTT 59.675 39.130 13.04 5.45 35.83 3.16
2389 2474 2.899256 ACAAAAATAGCACCATGGCAGT 59.101 40.909 13.04 0.00 35.83 4.40
2390 2475 3.255725 CACAAAAATAGCACCATGGCAG 58.744 45.455 13.04 5.97 35.83 4.85
2391 2476 2.612471 GCACAAAAATAGCACCATGGCA 60.612 45.455 13.04 0.00 35.83 4.92
2392 2477 2.001872 GCACAAAAATAGCACCATGGC 58.998 47.619 13.04 0.00 0.00 4.40
2393 2478 3.056678 TCTGCACAAAAATAGCACCATGG 60.057 43.478 11.19 11.19 34.13 3.66
2394 2479 4.177165 TCTGCACAAAAATAGCACCATG 57.823 40.909 0.00 0.00 34.13 3.66
2395 2480 6.720112 ATATCTGCACAAAAATAGCACCAT 57.280 33.333 0.00 0.00 34.13 3.55
2396 2481 7.637631 TTATATCTGCACAAAAATAGCACCA 57.362 32.000 0.00 0.00 34.13 4.17
2397 2482 8.925161 TTTTATATCTGCACAAAAATAGCACC 57.075 30.769 0.00 0.00 34.13 5.01
2398 2483 9.573133 ACTTTTATATCTGCACAAAAATAGCAC 57.427 29.630 0.00 0.00 34.13 4.40
2403 2488 9.559958 CGAGAACTTTTATATCTGCACAAAAAT 57.440 29.630 0.00 0.00 0.00 1.82
2404 2489 8.020819 CCGAGAACTTTTATATCTGCACAAAAA 58.979 33.333 0.00 0.00 0.00 1.94
2405 2490 7.389330 TCCGAGAACTTTTATATCTGCACAAAA 59.611 33.333 0.00 0.00 0.00 2.44
2406 2491 6.876789 TCCGAGAACTTTTATATCTGCACAAA 59.123 34.615 0.00 0.00 0.00 2.83
2407 2492 6.403049 TCCGAGAACTTTTATATCTGCACAA 58.597 36.000 0.00 0.00 0.00 3.33
2408 2493 5.972935 TCCGAGAACTTTTATATCTGCACA 58.027 37.500 0.00 0.00 0.00 4.57
2409 2494 6.903883 TTCCGAGAACTTTTATATCTGCAC 57.096 37.500 0.00 0.00 0.00 4.57
2410 2495 7.224753 GTCATTCCGAGAACTTTTATATCTGCA 59.775 37.037 0.00 0.00 0.00 4.41
2411 2496 7.307455 GGTCATTCCGAGAACTTTTATATCTGC 60.307 40.741 0.00 0.00 0.00 4.26
2412 2497 7.928706 AGGTCATTCCGAGAACTTTTATATCTG 59.071 37.037 0.00 0.00 41.99 2.90
2413 2498 7.928706 CAGGTCATTCCGAGAACTTTTATATCT 59.071 37.037 0.00 0.00 41.99 1.98
2414 2499 7.926555 TCAGGTCATTCCGAGAACTTTTATATC 59.073 37.037 0.00 0.00 41.99 1.63
2415 2500 7.792032 TCAGGTCATTCCGAGAACTTTTATAT 58.208 34.615 0.00 0.00 41.99 0.86
2416 2501 7.177832 TCAGGTCATTCCGAGAACTTTTATA 57.822 36.000 0.00 0.00 41.99 0.98
2417 2502 6.049955 TCAGGTCATTCCGAGAACTTTTAT 57.950 37.500 0.00 0.00 41.99 1.40
2418 2503 5.477607 TCAGGTCATTCCGAGAACTTTTA 57.522 39.130 0.00 0.00 41.99 1.52
2419 2504 4.351874 TCAGGTCATTCCGAGAACTTTT 57.648 40.909 0.00 0.00 41.99 2.27
2420 2505 4.351874 TTCAGGTCATTCCGAGAACTTT 57.648 40.909 0.00 0.00 41.99 2.66
2421 2506 4.351874 TTTCAGGTCATTCCGAGAACTT 57.648 40.909 0.00 0.00 41.99 2.66
2422 2507 4.351874 TTTTCAGGTCATTCCGAGAACT 57.648 40.909 0.00 0.00 41.99 3.01
2423 2508 4.095036 GGATTTTCAGGTCATTCCGAGAAC 59.905 45.833 0.00 0.00 41.99 3.01
2424 2509 4.261801 GGATTTTCAGGTCATTCCGAGAA 58.738 43.478 0.00 0.00 41.99 2.87
2425 2510 3.873910 GGATTTTCAGGTCATTCCGAGA 58.126 45.455 0.00 0.00 41.99 4.04


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

AutoCloner maintained by Alex Coulton.