Multiple sequence alignment - TraesCS2B01G087000

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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 TraesCS2B01G087000 chr2B 100.000 2504 0 0 1 2504 49115123 49117626 0.000000e+00 4625
1 TraesCS2B01G087000 chr2B 94.532 823 45 0 150 972 49153849 49154671 0.000000e+00 1271
2 TraesCS2B01G087000 chr2B 95.484 310 11 1 2198 2504 48098450 48098141 2.240000e-135 492
3 TraesCS2B01G087000 chr2B 93.421 152 10 0 1 152 49153586 49153737 2.510000e-55 226
4 TraesCS2B01G087000 chr2D 95.918 2205 73 8 1 2196 30239325 30237129 0.000000e+00 3557
5 TraesCS2B01G087000 chr2D 96.097 2152 76 5 50 2196 30159687 30157539 0.000000e+00 3502
6 TraesCS2B01G087000 chr2D 96.050 2152 78 4 50 2196 30098036 30095887 0.000000e+00 3496
7 TraesCS2B01G087000 chr2D 95.725 2152 78 10 50 2196 30231668 30229526 0.000000e+00 3452
8 TraesCS2B01G087000 chr2D 96.049 1468 50 6 733 2194 30166586 30165121 0.000000e+00 2383
9 TraesCS2B01G087000 chr2D 95.913 1468 50 7 733 2194 30122736 30121273 0.000000e+00 2370
10 TraesCS2B01G087000 chr2D 95.177 311 12 1 2197 2504 64871328 64871018 2.890000e-134 488
11 TraesCS2B01G087000 chrUn 96.283 2152 73 4 50 2196 311530759 311532908 0.000000e+00 3524
12 TraesCS2B01G087000 chrUn 96.078 2040 72 5 50 2084 335402663 335400627 0.000000e+00 3317
13 TraesCS2B01G087000 chrUn 96.305 1759 58 4 50 1803 338699853 338698097 0.000000e+00 2881
14 TraesCS2B01G087000 chrUn 96.299 1189 42 2 50 1238 363756466 363757652 0.000000e+00 1951
15 TraesCS2B01G087000 chr1B 96.463 311 8 1 2197 2504 30911726 30912036 6.180000e-141 510
16 TraesCS2B01G087000 chr3B 95.820 311 10 1 2197 2504 50424225 50424535 1.340000e-137 499
17 TraesCS2B01G087000 chr7B 95.527 313 11 1 2195 2504 66067637 66067325 4.810000e-137 497
18 TraesCS2B01G087000 chr7B 94.855 311 13 1 2197 2504 677077577 677077267 1.350000e-132 483
19 TraesCS2B01G087000 chr4B 95.513 312 11 1 2196 2504 638607133 638606822 1.730000e-136 496
20 TraesCS2B01G087000 chr6B 94.855 311 13 1 2197 2504 671465464 671465154 1.350000e-132 483
21 TraesCS2B01G087000 chr5B 94.855 311 12 2 2197 2504 149236915 149236606 1.350000e-132 483


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 TraesCS2B01G087000 chr2B 49115123 49117626 2503 False 4625.0 4625 100.0000 1 2504 1 chr2B.!!$F1 2503
1 TraesCS2B01G087000 chr2B 49153586 49154671 1085 False 748.5 1271 93.9765 1 972 2 chr2B.!!$F2 971
2 TraesCS2B01G087000 chr2D 30237129 30239325 2196 True 3557.0 3557 95.9180 1 2196 1 chr2D.!!$R6 2195
3 TraesCS2B01G087000 chr2D 30157539 30159687 2148 True 3502.0 3502 96.0970 50 2196 1 chr2D.!!$R3 2146
4 TraesCS2B01G087000 chr2D 30095887 30098036 2149 True 3496.0 3496 96.0500 50 2196 1 chr2D.!!$R1 2146
5 TraesCS2B01G087000 chr2D 30229526 30231668 2142 True 3452.0 3452 95.7250 50 2196 1 chr2D.!!$R5 2146
6 TraesCS2B01G087000 chr2D 30165121 30166586 1465 True 2383.0 2383 96.0490 733 2194 1 chr2D.!!$R4 1461
7 TraesCS2B01G087000 chr2D 30121273 30122736 1463 True 2370.0 2370 95.9130 733 2194 1 chr2D.!!$R2 1461
8 TraesCS2B01G087000 chrUn 311530759 311532908 2149 False 3524.0 3524 96.2830 50 2196 1 chrUn.!!$F1 2146
9 TraesCS2B01G087000 chrUn 335400627 335402663 2036 True 3317.0 3317 96.0780 50 2084 1 chrUn.!!$R1 2034
10 TraesCS2B01G087000 chrUn 338698097 338699853 1756 True 2881.0 2881 96.3050 50 1803 1 chrUn.!!$R2 1753
11 TraesCS2B01G087000 chrUn 363756466 363757652 1186 False 1951.0 1951 96.2990 50 1238 1 chrUn.!!$F2 1188

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
294 409 0.230769 CGAAGATCGGCGCAGATTTC 59.769 55.0 23.78 22.98 36.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2263 2386 0.03582 GGAACCGGCACTAATGGACA 60.036 55.0 0.0 0.0 0.0 4.02 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
294 409 0.230769 CGAAGATCGGCGCAGATTTC 59.769 55.000 23.78 22.98 36.00 2.17
415 530 2.894126 CACCAGACTATCTAGCGGGAAT 59.106 50.000 0.00 0.00 0.00 3.01
426 541 0.466124 AGCGGGAATAGCAGGAAGAC 59.534 55.000 0.00 0.00 37.01 3.01
446 561 1.277580 CCCCAATCTCCTCCAGCACT 61.278 60.000 0.00 0.00 0.00 4.40
463 578 3.133721 AGCACTATCTGGCTCTAACCTTG 59.866 47.826 0.00 0.00 34.76 3.61
493 608 7.734942 ACATGTTCCATTATTTGTTTTCCTGT 58.265 30.769 0.00 0.00 0.00 4.00
516 631 6.112058 GTCTTGTCTTATCATCAGGCTTCTT 58.888 40.000 0.00 0.00 0.00 2.52
520 635 5.046376 TGTCTTATCATCAGGCTTCTTGTGA 60.046 40.000 0.00 0.00 0.00 3.58
608 723 9.023962 TGGAAGTATGCATTTTAGTTTGATCTT 57.976 29.630 3.54 0.00 0.00 2.40
637 752 9.825972 AATCAATATCTTCGTTGTTGTTGTTAG 57.174 29.630 0.00 0.00 0.00 2.34
711 829 7.880160 TTTTCCATGTTGATGTTATCTAGGG 57.120 36.000 0.00 0.00 0.00 3.53
714 832 4.202503 CCATGTTGATGTTATCTAGGGGCT 60.203 45.833 0.00 0.00 0.00 5.19
725 843 7.182060 TGTTATCTAGGGGCTTTGATTCTTTT 58.818 34.615 0.00 0.00 0.00 2.27
788 906 4.794248 TTACATGCATAGCACAATCGAC 57.206 40.909 0.00 0.00 43.04 4.20
1057 1175 4.160626 AGGCACTACTTGTAGAGGACATTC 59.839 45.833 13.95 0.00 35.12 2.67
1158 1276 4.144297 CTGTTGATTTGTTCCTTGAGGGA 58.856 43.478 0.00 0.00 43.41 4.20
1407 1525 1.375908 GGAGGCGTTCATGAGTGCA 60.376 57.895 19.12 0.00 0.00 4.57
1453 1571 1.776667 CAATAAGGATGGAGGCCCTCA 59.223 52.381 13.90 0.00 31.08 3.86
1489 1607 4.639310 AGGATGTCATCAACAAGAAGATGC 59.361 41.667 14.72 0.00 42.37 3.91
1753 1875 4.316205 TTCATGTTGTGAGTCGTGTACT 57.684 40.909 0.00 0.00 42.80 2.73
2001 2124 8.200024 ACTACTAGTGAATCTATGGATTGCAT 57.800 34.615 9.29 0.00 41.68 3.96
2158 2281 4.098044 CCTGGTGTCGATGAGTTATACACT 59.902 45.833 0.00 0.00 40.18 3.55
2196 2319 8.966069 ATCTACTATGAGGTTTTTAAGGAAGC 57.034 34.615 0.00 0.00 0.00 3.86
2197 2320 7.913789 TCTACTATGAGGTTTTTAAGGAAGCA 58.086 34.615 5.88 0.00 0.00 3.91
2198 2321 6.819397 ACTATGAGGTTTTTAAGGAAGCAC 57.181 37.500 5.88 1.40 0.00 4.40
2199 2322 6.543735 ACTATGAGGTTTTTAAGGAAGCACT 58.456 36.000 5.88 0.00 0.00 4.40
2200 2323 7.686434 ACTATGAGGTTTTTAAGGAAGCACTA 58.314 34.615 5.88 0.00 0.00 2.74
2201 2324 7.824779 ACTATGAGGTTTTTAAGGAAGCACTAG 59.175 37.037 0.00 0.00 0.00 2.57
2202 2325 5.937111 TGAGGTTTTTAAGGAAGCACTAGT 58.063 37.500 0.00 0.00 0.00 2.57
2203 2326 7.069877 TGAGGTTTTTAAGGAAGCACTAGTA 57.930 36.000 0.00 0.00 0.00 1.82
2204 2327 7.159372 TGAGGTTTTTAAGGAAGCACTAGTAG 58.841 38.462 0.00 0.00 0.00 2.57
2205 2328 7.015877 TGAGGTTTTTAAGGAAGCACTAGTAGA 59.984 37.037 3.59 0.00 0.00 2.59
2206 2329 7.742767 AGGTTTTTAAGGAAGCACTAGTAGAA 58.257 34.615 3.59 0.00 0.00 2.10
2207 2330 8.215736 AGGTTTTTAAGGAAGCACTAGTAGAAA 58.784 33.333 3.59 0.00 0.00 2.52
2208 2331 8.843262 GGTTTTTAAGGAAGCACTAGTAGAAAA 58.157 33.333 3.59 0.00 0.00 2.29
2211 2334 8.617290 TTTAAGGAAGCACTAGTAGAAAAAGG 57.383 34.615 3.59 0.00 0.00 3.11
2212 2335 5.167303 AGGAAGCACTAGTAGAAAAAGGG 57.833 43.478 3.59 0.00 0.00 3.95
2213 2336 4.019231 AGGAAGCACTAGTAGAAAAAGGGG 60.019 45.833 3.59 0.00 0.00 4.79
2214 2337 3.351794 AGCACTAGTAGAAAAAGGGGC 57.648 47.619 3.59 0.00 0.00 5.80
2215 2338 2.642807 AGCACTAGTAGAAAAAGGGGCA 59.357 45.455 3.59 0.00 0.00 5.36
2216 2339 3.073946 AGCACTAGTAGAAAAAGGGGCAA 59.926 43.478 3.59 0.00 0.00 4.52
2217 2340 3.824443 GCACTAGTAGAAAAAGGGGCAAA 59.176 43.478 3.59 0.00 0.00 3.68
2218 2341 4.462834 GCACTAGTAGAAAAAGGGGCAAAT 59.537 41.667 3.59 0.00 0.00 2.32
2219 2342 5.393135 GCACTAGTAGAAAAAGGGGCAAATC 60.393 44.000 3.59 0.00 0.00 2.17
2220 2343 5.946377 CACTAGTAGAAAAAGGGGCAAATCT 59.054 40.000 3.59 0.00 0.00 2.40
2221 2344 5.946377 ACTAGTAGAAAAAGGGGCAAATCTG 59.054 40.000 3.59 0.00 0.00 2.90
2222 2345 4.998051 AGTAGAAAAAGGGGCAAATCTGA 58.002 39.130 0.00 0.00 0.00 3.27
2223 2346 5.012893 AGTAGAAAAAGGGGCAAATCTGAG 58.987 41.667 0.00 0.00 0.00 3.35
2224 2347 4.118168 AGAAAAAGGGGCAAATCTGAGA 57.882 40.909 0.00 0.00 0.00 3.27
2225 2348 3.829026 AGAAAAAGGGGCAAATCTGAGAC 59.171 43.478 0.00 0.00 0.00 3.36
2226 2349 2.978156 AAAGGGGCAAATCTGAGACA 57.022 45.000 0.00 0.00 0.00 3.41
2227 2350 2.206576 AAGGGGCAAATCTGAGACAC 57.793 50.000 0.00 0.00 0.00 3.67
2228 2351 1.067295 AGGGGCAAATCTGAGACACA 58.933 50.000 0.00 0.00 0.00 3.72
2229 2352 1.637553 AGGGGCAAATCTGAGACACAT 59.362 47.619 0.00 0.00 0.00 3.21
2230 2353 2.042162 AGGGGCAAATCTGAGACACATT 59.958 45.455 0.00 0.00 0.00 2.71
2231 2354 3.266772 AGGGGCAAATCTGAGACACATTA 59.733 43.478 0.00 0.00 0.00 1.90
2232 2355 3.629398 GGGGCAAATCTGAGACACATTAG 59.371 47.826 0.00 0.00 0.00 1.73
2233 2356 4.265073 GGGCAAATCTGAGACACATTAGT 58.735 43.478 0.00 0.00 0.00 2.24
2245 2368 3.848272 CACATTAGTGCCGGTTTGATT 57.152 42.857 1.90 0.00 39.21 2.57
2246 2369 4.173036 CACATTAGTGCCGGTTTGATTT 57.827 40.909 1.90 0.00 39.21 2.17
2247 2370 4.555262 CACATTAGTGCCGGTTTGATTTT 58.445 39.130 1.90 0.00 39.21 1.82
2248 2371 4.385447 CACATTAGTGCCGGTTTGATTTTG 59.615 41.667 1.90 0.00 39.21 2.44
2249 2372 4.279671 ACATTAGTGCCGGTTTGATTTTGA 59.720 37.500 1.90 0.00 0.00 2.69
2250 2373 4.497473 TTAGTGCCGGTTTGATTTTGAG 57.503 40.909 1.90 0.00 0.00 3.02
2251 2374 1.000274 AGTGCCGGTTTGATTTTGAGC 60.000 47.619 1.90 0.00 0.00 4.26
2252 2375 0.316841 TGCCGGTTTGATTTTGAGCC 59.683 50.000 1.90 0.00 0.00 4.70
2253 2376 0.732538 GCCGGTTTGATTTTGAGCCG 60.733 55.000 1.90 0.00 38.99 5.52
2254 2377 3.399879 CGGTTTGATTTTGAGCCGG 57.600 52.632 0.00 0.00 36.05 6.13
2255 2378 0.732538 CGGTTTGATTTTGAGCCGGC 60.733 55.000 21.89 21.89 36.05 6.13
2256 2379 0.316841 GGTTTGATTTTGAGCCGGCA 59.683 50.000 31.54 7.75 0.00 5.69
2257 2380 1.418373 GTTTGATTTTGAGCCGGCAC 58.582 50.000 31.54 24.60 0.00 5.01
2258 2381 1.000274 GTTTGATTTTGAGCCGGCACT 60.000 47.619 31.54 9.09 0.00 4.40
2259 2382 2.192664 TTGATTTTGAGCCGGCACTA 57.807 45.000 31.54 17.63 0.00 2.74
2260 2383 2.192664 TGATTTTGAGCCGGCACTAA 57.807 45.000 31.54 22.93 0.00 2.24
2261 2384 2.722094 TGATTTTGAGCCGGCACTAAT 58.278 42.857 31.54 23.77 0.00 1.73
2262 2385 2.423185 TGATTTTGAGCCGGCACTAATG 59.577 45.455 31.54 0.00 0.00 1.90
2263 2386 1.904287 TTTTGAGCCGGCACTAATGT 58.096 45.000 31.54 5.22 0.00 2.71
2264 2387 1.164411 TTTGAGCCGGCACTAATGTG 58.836 50.000 31.54 0.00 46.37 3.21
2265 2388 0.036164 TTGAGCCGGCACTAATGTGT 59.964 50.000 31.54 3.33 45.44 3.72
2266 2389 0.391130 TGAGCCGGCACTAATGTGTC 60.391 55.000 31.54 14.56 45.44 3.67
2267 2390 1.078426 AGCCGGCACTAATGTGTCC 60.078 57.895 31.54 0.00 45.29 4.02
2268 2391 1.376683 GCCGGCACTAATGTGTCCA 60.377 57.895 24.80 0.00 45.29 4.02
2269 2392 0.748005 GCCGGCACTAATGTGTCCAT 60.748 55.000 24.80 0.00 45.29 3.41
2270 2393 1.750193 CCGGCACTAATGTGTCCATT 58.250 50.000 0.00 0.00 45.29 3.16
2271 2394 2.912771 CCGGCACTAATGTGTCCATTA 58.087 47.619 0.00 0.00 45.29 1.90
2278 2401 1.750193 AATGTGTCCATTAGTGCCGG 58.250 50.000 0.00 0.00 39.52 6.13
2279 2402 0.618458 ATGTGTCCATTAGTGCCGGT 59.382 50.000 1.90 0.00 0.00 5.28
2280 2403 0.398696 TGTGTCCATTAGTGCCGGTT 59.601 50.000 1.90 0.00 0.00 4.44
2281 2404 1.084289 GTGTCCATTAGTGCCGGTTC 58.916 55.000 1.90 0.00 0.00 3.62
2282 2405 0.035820 TGTCCATTAGTGCCGGTTCC 60.036 55.000 1.90 0.00 0.00 3.62
2283 2406 0.035820 GTCCATTAGTGCCGGTTCCA 60.036 55.000 1.90 0.00 0.00 3.53
2284 2407 0.693622 TCCATTAGTGCCGGTTCCAA 59.306 50.000 1.90 0.00 0.00 3.53
2285 2408 0.808755 CCATTAGTGCCGGTTCCAAC 59.191 55.000 1.90 0.00 0.00 3.77
2286 2409 0.446222 CATTAGTGCCGGTTCCAACG 59.554 55.000 1.90 0.00 0.00 4.10
2292 2415 2.818274 CCGGTTCCAACGGCTAGC 60.818 66.667 6.04 6.04 45.34 3.42
2293 2416 2.818274 CGGTTCCAACGGCTAGCC 60.818 66.667 24.75 24.75 0.00 3.93
2308 2431 4.327885 GCCGTCCGCTCTCATTAG 57.672 61.111 0.00 0.00 0.00 1.73
2309 2432 1.437986 GCCGTCCGCTCTCATTAGT 59.562 57.895 0.00 0.00 0.00 2.24
2310 2433 0.666913 GCCGTCCGCTCTCATTAGTA 59.333 55.000 0.00 0.00 0.00 1.82
2311 2434 1.599916 GCCGTCCGCTCTCATTAGTAC 60.600 57.143 0.00 0.00 0.00 2.73
2312 2435 1.001597 CCGTCCGCTCTCATTAGTACC 60.002 57.143 0.00 0.00 0.00 3.34
2313 2436 1.333881 CGTCCGCTCTCATTAGTACCG 60.334 57.143 0.00 0.00 0.00 4.02
2314 2437 1.001597 GTCCGCTCTCATTAGTACCGG 60.002 57.143 0.00 0.00 35.83 5.28
2315 2438 1.030457 CCGCTCTCATTAGTACCGGT 58.970 55.000 13.98 13.98 0.00 5.28
2316 2439 1.407979 CCGCTCTCATTAGTACCGGTT 59.592 52.381 15.04 0.00 0.00 4.44
2317 2440 2.543238 CCGCTCTCATTAGTACCGGTTC 60.543 54.545 15.04 8.12 0.00 3.62
2318 2441 2.098607 CGCTCTCATTAGTACCGGTTCA 59.901 50.000 15.04 0.00 0.00 3.18
2319 2442 3.243434 CGCTCTCATTAGTACCGGTTCAT 60.243 47.826 15.04 0.95 0.00 2.57
2320 2443 4.051922 GCTCTCATTAGTACCGGTTCATG 58.948 47.826 15.04 8.88 0.00 3.07
2321 2444 4.621991 CTCTCATTAGTACCGGTTCATGG 58.378 47.826 15.04 3.40 0.00 3.66
2322 2445 3.131396 CTCATTAGTACCGGTTCATGGC 58.869 50.000 15.04 0.00 0.00 4.40
2323 2446 1.864711 CATTAGTACCGGTTCATGGCG 59.135 52.381 15.04 0.00 0.00 5.69
2324 2447 1.184431 TTAGTACCGGTTCATGGCGA 58.816 50.000 15.04 0.00 0.00 5.54
2325 2448 1.184431 TAGTACCGGTTCATGGCGAA 58.816 50.000 15.04 0.00 0.00 4.70
2334 2457 2.192664 TTCATGGCGAACCTTTAGCA 57.807 45.000 0.00 0.00 36.63 3.49
2335 2458 1.448985 TCATGGCGAACCTTTAGCAC 58.551 50.000 0.00 0.00 36.63 4.40
2336 2459 0.451783 CATGGCGAACCTTTAGCACC 59.548 55.000 0.00 0.00 36.63 5.01
2337 2460 1.024579 ATGGCGAACCTTTAGCACCG 61.025 55.000 0.00 0.00 36.63 4.94
2338 2461 2.396157 GGCGAACCTTTAGCACCGG 61.396 63.158 0.00 0.00 0.00 5.28
2339 2462 1.670083 GCGAACCTTTAGCACCGGT 60.670 57.895 0.00 0.00 0.00 5.28
2340 2463 1.232621 GCGAACCTTTAGCACCGGTT 61.233 55.000 2.97 0.00 43.32 4.44
2342 2465 0.794473 GAACCTTTAGCACCGGTTCG 59.206 55.000 2.97 0.00 44.86 3.95
2343 2466 0.107268 AACCTTTAGCACCGGTTCGT 59.893 50.000 2.97 0.00 36.32 3.85
2344 2467 0.601841 ACCTTTAGCACCGGTTCGTG 60.602 55.000 2.97 0.00 36.80 4.35
2358 2481 3.107661 CGTGCCACGAACCGGTAC 61.108 66.667 12.85 0.00 46.05 3.34
2359 2482 2.341176 GTGCCACGAACCGGTACT 59.659 61.111 8.00 0.00 36.33 2.73
2360 2483 1.586028 GTGCCACGAACCGGTACTA 59.414 57.895 8.00 0.00 36.33 1.82
2361 2484 0.038343 GTGCCACGAACCGGTACTAA 60.038 55.000 8.00 0.00 36.33 2.24
2362 2485 0.678395 TGCCACGAACCGGTACTAAA 59.322 50.000 8.00 0.00 0.00 1.85
2363 2486 1.337074 TGCCACGAACCGGTACTAAAG 60.337 52.381 8.00 0.00 0.00 1.85
2364 2487 1.067635 GCCACGAACCGGTACTAAAGA 60.068 52.381 8.00 0.00 0.00 2.52
2365 2488 2.872370 CCACGAACCGGTACTAAAGAG 58.128 52.381 8.00 0.00 0.00 2.85
2366 2489 2.489329 CCACGAACCGGTACTAAAGAGA 59.511 50.000 8.00 0.00 0.00 3.10
2367 2490 3.427233 CCACGAACCGGTACTAAAGAGAG 60.427 52.174 8.00 0.00 0.00 3.20
2368 2491 3.190118 CACGAACCGGTACTAAAGAGAGT 59.810 47.826 8.00 0.00 0.00 3.24
2369 2492 3.190118 ACGAACCGGTACTAAAGAGAGTG 59.810 47.826 8.00 0.00 0.00 3.51
2370 2493 3.427233 CGAACCGGTACTAAAGAGAGTGG 60.427 52.174 8.00 0.00 0.00 4.00
2371 2494 3.166560 ACCGGTACTAAAGAGAGTGGT 57.833 47.619 4.49 0.00 0.00 4.16
2372 2495 2.824341 ACCGGTACTAAAGAGAGTGGTG 59.176 50.000 4.49 0.00 0.00 4.17
2373 2496 2.165845 CCGGTACTAAAGAGAGTGGTGG 59.834 54.545 0.00 0.00 0.00 4.61
2374 2497 2.416972 CGGTACTAAAGAGAGTGGTGGC 60.417 54.545 0.00 0.00 0.00 5.01
2375 2498 2.565834 GGTACTAAAGAGAGTGGTGGCA 59.434 50.000 0.00 0.00 0.00 4.92
2376 2499 3.368531 GGTACTAAAGAGAGTGGTGGCAG 60.369 52.174 0.00 0.00 0.00 4.85
2377 2500 1.625818 ACTAAAGAGAGTGGTGGCAGG 59.374 52.381 0.00 0.00 0.00 4.85
2378 2501 1.902508 CTAAAGAGAGTGGTGGCAGGA 59.097 52.381 0.00 0.00 0.00 3.86
2379 2502 1.366319 AAAGAGAGTGGTGGCAGGAT 58.634 50.000 0.00 0.00 0.00 3.24
2380 2503 0.617413 AAGAGAGTGGTGGCAGGATG 59.383 55.000 0.00 0.00 40.87 3.51
2381 2504 0.546267 AGAGAGTGGTGGCAGGATGT 60.546 55.000 0.00 0.00 39.31 3.06
2382 2505 0.326264 GAGAGTGGTGGCAGGATGTT 59.674 55.000 0.00 0.00 39.31 2.71
2383 2506 0.037303 AGAGTGGTGGCAGGATGTTG 59.963 55.000 0.00 0.00 39.31 3.33
2384 2507 0.250901 GAGTGGTGGCAGGATGTTGT 60.251 55.000 0.00 0.00 39.31 3.32
2385 2508 0.250901 AGTGGTGGCAGGATGTTGTC 60.251 55.000 0.00 0.00 39.31 3.18
2386 2509 0.537143 GTGGTGGCAGGATGTTGTCA 60.537 55.000 0.00 0.00 39.31 3.58
2387 2510 0.250858 TGGTGGCAGGATGTTGTCAG 60.251 55.000 0.00 0.00 39.31 3.51
2388 2511 0.962356 GGTGGCAGGATGTTGTCAGG 60.962 60.000 0.00 0.00 39.31 3.86
2389 2512 1.303561 TGGCAGGATGTTGTCAGGC 60.304 57.895 0.00 0.00 39.31 4.85
2390 2513 1.001641 GGCAGGATGTTGTCAGGCT 60.002 57.895 0.00 0.00 39.31 4.58
2391 2514 1.310933 GGCAGGATGTTGTCAGGCTG 61.311 60.000 8.58 8.58 39.31 4.85
2392 2515 1.310933 GCAGGATGTTGTCAGGCTGG 61.311 60.000 15.73 0.00 39.31 4.85
2393 2516 0.679002 CAGGATGTTGTCAGGCTGGG 60.679 60.000 15.73 0.00 0.00 4.45
2394 2517 1.379044 GGATGTTGTCAGGCTGGGG 60.379 63.158 15.73 0.00 0.00 4.96
2395 2518 2.036256 ATGTTGTCAGGCTGGGGC 59.964 61.111 15.73 6.19 37.82 5.80
2410 2533 3.984732 GGCCCCTCCAGCACCTTT 61.985 66.667 0.00 0.00 34.01 3.11
2411 2534 2.612493 GGCCCCTCCAGCACCTTTA 61.612 63.158 0.00 0.00 34.01 1.85
2412 2535 1.077429 GCCCCTCCAGCACCTTTAG 60.077 63.158 0.00 0.00 0.00 1.85
2413 2536 1.853250 GCCCCTCCAGCACCTTTAGT 61.853 60.000 0.00 0.00 0.00 2.24
2414 2537 1.580059 CCCCTCCAGCACCTTTAGTA 58.420 55.000 0.00 0.00 0.00 1.82
2415 2538 1.209747 CCCCTCCAGCACCTTTAGTAC 59.790 57.143 0.00 0.00 0.00 2.73
2416 2539 1.209747 CCCTCCAGCACCTTTAGTACC 59.790 57.143 0.00 0.00 0.00 3.34
2417 2540 1.134788 CCTCCAGCACCTTTAGTACCG 60.135 57.143 0.00 0.00 0.00 4.02
2418 2541 0.899720 TCCAGCACCTTTAGTACCGG 59.100 55.000 0.00 0.00 0.00 5.28
2419 2542 0.611714 CCAGCACCTTTAGTACCGGT 59.388 55.000 13.98 13.98 0.00 5.28
2420 2543 1.002773 CCAGCACCTTTAGTACCGGTT 59.997 52.381 15.04 0.00 0.00 4.44
2421 2544 2.344025 CAGCACCTTTAGTACCGGTTC 58.656 52.381 15.04 8.12 0.00 3.62
2422 2545 1.972795 AGCACCTTTAGTACCGGTTCA 59.027 47.619 15.04 0.00 0.00 3.18
2423 2546 2.570302 AGCACCTTTAGTACCGGTTCAT 59.430 45.455 15.04 0.95 0.00 2.57
2424 2547 2.676342 GCACCTTTAGTACCGGTTCATG 59.324 50.000 15.04 1.56 0.00 3.07
2425 2548 3.267483 CACCTTTAGTACCGGTTCATGG 58.733 50.000 15.04 10.85 0.00 3.66
2426 2549 2.285977 CCTTTAGTACCGGTTCATGGC 58.714 52.381 15.04 0.00 0.00 4.40
2427 2550 2.355310 CCTTTAGTACCGGTTCATGGCA 60.355 50.000 15.04 0.00 0.00 4.92
2428 2551 2.389962 TTAGTACCGGTTCATGGCAC 57.610 50.000 15.04 1.99 0.00 5.01
2429 2552 0.173935 TAGTACCGGTTCATGGCACG 59.826 55.000 15.04 0.00 0.00 5.34
2430 2553 1.079681 GTACCGGTTCATGGCACGA 60.080 57.895 15.04 0.00 0.00 4.35
2431 2554 0.671163 GTACCGGTTCATGGCACGAA 60.671 55.000 15.04 0.00 0.00 3.85
2432 2555 0.671163 TACCGGTTCATGGCACGAAC 60.671 55.000 17.48 17.48 41.66 3.95
2435 2558 2.867472 GTTCATGGCACGAACCGG 59.133 61.111 15.10 0.00 37.40 5.28
2436 2559 1.964373 GTTCATGGCACGAACCGGT 60.964 57.895 15.10 0.00 37.40 5.28
2437 2560 0.671163 GTTCATGGCACGAACCGGTA 60.671 55.000 15.10 0.00 37.40 4.02
2438 2561 0.671163 TTCATGGCACGAACCGGTAC 60.671 55.000 8.00 0.00 0.00 3.34
2439 2562 1.079405 CATGGCACGAACCGGTACT 60.079 57.895 8.00 0.00 0.00 2.73
2440 2563 0.173935 CATGGCACGAACCGGTACTA 59.826 55.000 8.00 0.00 0.00 1.82
2441 2564 0.896923 ATGGCACGAACCGGTACTAA 59.103 50.000 8.00 0.00 0.00 2.24
2442 2565 0.678395 TGGCACGAACCGGTACTAAA 59.322 50.000 8.00 0.00 0.00 1.85
2443 2566 1.337074 TGGCACGAACCGGTACTAAAG 60.337 52.381 8.00 0.00 0.00 1.85
2444 2567 1.353076 GCACGAACCGGTACTAAAGG 58.647 55.000 8.00 0.00 0.00 3.11
2445 2568 1.337167 GCACGAACCGGTACTAAAGGT 60.337 52.381 8.00 0.00 40.50 3.50
2446 2569 2.599659 CACGAACCGGTACTAAAGGTC 58.400 52.381 8.00 0.00 37.26 3.85
2447 2570 1.200020 ACGAACCGGTACTAAAGGTCG 59.800 52.381 8.00 13.90 37.26 4.79
2448 2571 1.200020 CGAACCGGTACTAAAGGTCGT 59.800 52.381 8.00 0.00 37.26 4.34
2449 2572 2.418628 CGAACCGGTACTAAAGGTCGTA 59.581 50.000 8.00 0.00 37.26 3.43
2450 2573 3.727970 CGAACCGGTACTAAAGGTCGTAC 60.728 52.174 8.00 0.00 37.26 3.67
2451 2574 3.073274 ACCGGTACTAAAGGTCGTACT 57.927 47.619 4.49 0.00 36.94 2.73
2452 2575 3.421844 ACCGGTACTAAAGGTCGTACTT 58.578 45.455 4.49 0.00 36.94 2.24
2453 2576 4.585879 ACCGGTACTAAAGGTCGTACTTA 58.414 43.478 4.49 0.00 36.94 2.24
2454 2577 5.007682 ACCGGTACTAAAGGTCGTACTTAA 58.992 41.667 4.49 0.00 36.94 1.85
2455 2578 5.475564 ACCGGTACTAAAGGTCGTACTTAAA 59.524 40.000 4.49 0.00 36.94 1.52
2456 2579 5.800438 CCGGTACTAAAGGTCGTACTTAAAC 59.200 44.000 0.00 0.00 36.94 2.01
2457 2580 6.349363 CCGGTACTAAAGGTCGTACTTAAACT 60.349 42.308 0.00 0.00 36.94 2.66
2458 2581 6.743172 CGGTACTAAAGGTCGTACTTAAACTC 59.257 42.308 0.00 0.00 36.94 3.01
2459 2582 7.361286 CGGTACTAAAGGTCGTACTTAAACTCT 60.361 40.741 0.00 0.00 36.94 3.24
2460 2583 8.300286 GGTACTAAAGGTCGTACTTAAACTCTT 58.700 37.037 0.00 0.00 36.94 2.85
2461 2584 9.684448 GTACTAAAGGTCGTACTTAAACTCTTT 57.316 33.333 0.00 0.00 34.59 2.52
2465 2588 8.768957 AAAGGTCGTACTTAAACTCTTTATCC 57.231 34.615 0.00 0.00 0.00 2.59
2466 2589 7.472334 AGGTCGTACTTAAACTCTTTATCCA 57.528 36.000 0.00 0.00 0.00 3.41
2467 2590 7.318893 AGGTCGTACTTAAACTCTTTATCCAC 58.681 38.462 0.00 0.00 0.00 4.02
2468 2591 6.533012 GGTCGTACTTAAACTCTTTATCCACC 59.467 42.308 0.00 0.00 0.00 4.61
2469 2592 6.533012 GTCGTACTTAAACTCTTTATCCACCC 59.467 42.308 0.00 0.00 0.00 4.61
2470 2593 5.517770 CGTACTTAAACTCTTTATCCACCCG 59.482 44.000 0.00 0.00 0.00 5.28
2471 2594 5.750352 ACTTAAACTCTTTATCCACCCGA 57.250 39.130 0.00 0.00 0.00 5.14
2472 2595 5.731591 ACTTAAACTCTTTATCCACCCGAG 58.268 41.667 0.00 0.00 0.00 4.63
2473 2596 2.693267 AACTCTTTATCCACCCGAGC 57.307 50.000 0.00 0.00 0.00 5.03
2474 2597 1.867363 ACTCTTTATCCACCCGAGCT 58.133 50.000 0.00 0.00 0.00 4.09
2475 2598 1.757699 ACTCTTTATCCACCCGAGCTC 59.242 52.381 2.73 2.73 0.00 4.09
2476 2599 0.744874 TCTTTATCCACCCGAGCTCG 59.255 55.000 29.06 29.06 39.44 5.03
2477 2600 0.876342 CTTTATCCACCCGAGCTCGC 60.876 60.000 30.49 0.00 38.18 5.03
2478 2601 1.327690 TTTATCCACCCGAGCTCGCT 61.328 55.000 30.49 14.51 38.18 4.93
2479 2602 1.735376 TTATCCACCCGAGCTCGCTC 61.735 60.000 30.49 8.82 39.55 5.03
2480 2603 2.626255 TATCCACCCGAGCTCGCTCT 62.626 60.000 30.49 11.45 40.69 4.09
2481 2604 2.626255 ATCCACCCGAGCTCGCTCTA 62.626 60.000 30.49 14.00 40.69 2.43
2482 2605 2.196925 CCACCCGAGCTCGCTCTAT 61.197 63.158 30.49 10.09 40.69 1.98
2483 2606 1.736586 CACCCGAGCTCGCTCTATT 59.263 57.895 30.49 7.04 40.69 1.73
2484 2607 0.318275 CACCCGAGCTCGCTCTATTC 60.318 60.000 30.49 0.00 40.69 1.75
2485 2608 0.466555 ACCCGAGCTCGCTCTATTCT 60.467 55.000 30.49 2.68 40.69 2.40
2486 2609 0.671251 CCCGAGCTCGCTCTATTCTT 59.329 55.000 30.49 0.00 40.69 2.52
2487 2610 1.335506 CCCGAGCTCGCTCTATTCTTC 60.336 57.143 30.49 0.00 40.69 2.87
2488 2611 1.335506 CCGAGCTCGCTCTATTCTTCC 60.336 57.143 30.49 0.00 40.69 3.46
2489 2612 1.335506 CGAGCTCGCTCTATTCTTCCC 60.336 57.143 25.07 0.00 40.69 3.97
2490 2613 1.000394 GAGCTCGCTCTATTCTTCCCC 60.000 57.143 11.49 0.00 39.80 4.81
2491 2614 1.044611 GCTCGCTCTATTCTTCCCCT 58.955 55.000 0.00 0.00 0.00 4.79
2492 2615 1.414550 GCTCGCTCTATTCTTCCCCTT 59.585 52.381 0.00 0.00 0.00 3.95
2493 2616 2.158885 GCTCGCTCTATTCTTCCCCTTT 60.159 50.000 0.00 0.00 0.00 3.11
2494 2617 3.723260 CTCGCTCTATTCTTCCCCTTTC 58.277 50.000 0.00 0.00 0.00 2.62
2495 2618 2.434702 TCGCTCTATTCTTCCCCTTTCC 59.565 50.000 0.00 0.00 0.00 3.13
2496 2619 2.485657 CGCTCTATTCTTCCCCTTTCCC 60.486 54.545 0.00 0.00 0.00 3.97
2497 2620 2.158593 GCTCTATTCTTCCCCTTTCCCC 60.159 54.545 0.00 0.00 0.00 4.81
2498 2621 3.398490 CTCTATTCTTCCCCTTTCCCCT 58.602 50.000 0.00 0.00 0.00 4.79
2499 2622 3.392947 CTCTATTCTTCCCCTTTCCCCTC 59.607 52.174 0.00 0.00 0.00 4.30
2500 2623 2.074922 ATTCTTCCCCTTTCCCCTCA 57.925 50.000 0.00 0.00 0.00 3.86
2501 2624 1.073098 TTCTTCCCCTTTCCCCTCAC 58.927 55.000 0.00 0.00 0.00 3.51
2502 2625 0.196118 TCTTCCCCTTTCCCCTCACT 59.804 55.000 0.00 0.00 0.00 3.41
2503 2626 1.076438 CTTCCCCTTTCCCCTCACTT 58.924 55.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 4.846168 TGTTGGCCAATATACCACTACA 57.154 40.909 23.66 8.59 35.10 2.74
294 409 3.716006 CGCCTTCACACACGCAGG 61.716 66.667 0.00 0.00 0.00 4.85
415 530 1.213296 GATTGGGGGTCTTCCTGCTA 58.787 55.000 0.00 0.00 35.33 3.49
426 541 2.002977 TGCTGGAGGAGATTGGGGG 61.003 63.158 0.00 0.00 0.00 5.40
493 608 5.946942 AGAAGCCTGATGATAAGACAAGA 57.053 39.130 0.00 0.00 0.00 3.02
516 631 3.120321 AGCGTGGACACTAAAATCACA 57.880 42.857 0.56 0.00 0.00 3.58
520 635 6.651643 TGTATGTAAAGCGTGGACACTAAAAT 59.348 34.615 0.56 0.00 0.00 1.82
636 751 6.487828 ACATAAATGCATATAGATGGGTGCT 58.512 36.000 0.00 0.00 38.37 4.40
637 752 6.764308 ACATAAATGCATATAGATGGGTGC 57.236 37.500 0.00 0.00 38.05 5.01
711 829 7.631717 ATGTAGGACTAAAAGAATCAAAGCC 57.368 36.000 0.00 0.00 0.00 4.35
788 906 8.236586 TCAAATGAAAACAATGATAGAGAACGG 58.763 33.333 0.00 0.00 0.00 4.44
983 1101 6.662755 AGCTCCATGATCACCTAAACAAATA 58.337 36.000 0.00 0.00 0.00 1.40
1407 1525 2.497273 GGGCACAAATAAATCAGCACCT 59.503 45.455 0.00 0.00 0.00 4.00
1453 1571 5.842874 TGATGACATCCTGAATGATAGGACT 59.157 40.000 12.90 0.00 46.48 3.85
1507 1625 6.238676 CCTCCATCACTTAAGCAAGATGAATG 60.239 42.308 23.87 16.18 40.10 2.67
1550 1668 9.286946 GAGATTGAAGCAAACATAGATCAAAAG 57.713 33.333 0.00 0.00 31.37 2.27
1700 1822 2.037641 GTGAGAAGCCTTGGCCAAAAAT 59.962 45.455 20.91 6.02 0.00 1.82
1753 1875 4.935808 GCCGAGTAATTTCCTCTCAAAAGA 59.064 41.667 0.00 0.00 0.00 2.52
1768 1890 9.826574 AGTTACAAAATATTGATAGCCGAGTAA 57.173 29.630 0.00 0.00 38.94 2.24
1770 1892 7.769044 ACAGTTACAAAATATTGATAGCCGAGT 59.231 33.333 0.00 0.00 38.94 4.18
1771 1893 8.142994 ACAGTTACAAAATATTGATAGCCGAG 57.857 34.615 0.00 0.00 38.94 4.63
1818 1941 3.073798 TGGATACACCACACTGACCATTT 59.926 43.478 0.00 0.00 46.17 2.32
1986 2109 6.131264 TGAACCTTGATGCAATCCATAGATT 58.869 36.000 0.00 0.00 44.73 2.40
2001 2124 5.321927 GAATAAGGGGTCTTTGAACCTTGA 58.678 41.667 5.14 0.00 42.88 3.02
2122 2245 1.542375 ACCAGGGAGGCTGAATGGT 60.542 57.895 8.00 8.00 43.14 3.55
2196 2319 5.946377 AGATTTGCCCCTTTTTCTACTAGTG 59.054 40.000 5.39 0.00 0.00 2.74
2197 2320 5.946377 CAGATTTGCCCCTTTTTCTACTAGT 59.054 40.000 0.00 0.00 0.00 2.57
2198 2321 6.180472 TCAGATTTGCCCCTTTTTCTACTAG 58.820 40.000 0.00 0.00 0.00 2.57
2199 2322 6.012858 TCTCAGATTTGCCCCTTTTTCTACTA 60.013 38.462 0.00 0.00 0.00 1.82
2200 2323 4.998051 TCAGATTTGCCCCTTTTTCTACT 58.002 39.130 0.00 0.00 0.00 2.57
2201 2324 5.010282 TCTCAGATTTGCCCCTTTTTCTAC 58.990 41.667 0.00 0.00 0.00 2.59
2202 2325 5.010282 GTCTCAGATTTGCCCCTTTTTCTA 58.990 41.667 0.00 0.00 0.00 2.10
2203 2326 3.829026 GTCTCAGATTTGCCCCTTTTTCT 59.171 43.478 0.00 0.00 0.00 2.52
2204 2327 3.573967 TGTCTCAGATTTGCCCCTTTTTC 59.426 43.478 0.00 0.00 0.00 2.29
2205 2328 3.321968 GTGTCTCAGATTTGCCCCTTTTT 59.678 43.478 0.00 0.00 0.00 1.94
2206 2329 2.893489 GTGTCTCAGATTTGCCCCTTTT 59.107 45.455 0.00 0.00 0.00 2.27
2207 2330 2.158475 TGTGTCTCAGATTTGCCCCTTT 60.158 45.455 0.00 0.00 0.00 3.11
2208 2331 1.425066 TGTGTCTCAGATTTGCCCCTT 59.575 47.619 0.00 0.00 0.00 3.95
2209 2332 1.067295 TGTGTCTCAGATTTGCCCCT 58.933 50.000 0.00 0.00 0.00 4.79
2210 2333 2.134789 ATGTGTCTCAGATTTGCCCC 57.865 50.000 0.00 0.00 0.00 5.80
2211 2334 4.095483 CACTAATGTGTCTCAGATTTGCCC 59.905 45.833 0.00 0.00 39.24 5.36
2212 2335 4.437930 GCACTAATGTGTCTCAGATTTGCC 60.438 45.833 5.54 0.00 45.44 4.52
2213 2336 4.437930 GGCACTAATGTGTCTCAGATTTGC 60.438 45.833 7.35 7.35 44.72 3.68
2214 2337 4.201753 CGGCACTAATGTGTCTCAGATTTG 60.202 45.833 0.00 0.00 45.84 2.32
2215 2338 3.935203 CGGCACTAATGTGTCTCAGATTT 59.065 43.478 0.00 0.00 45.84 2.17
2216 2339 3.525537 CGGCACTAATGTGTCTCAGATT 58.474 45.455 0.00 0.00 45.84 2.40
2217 2340 2.159043 CCGGCACTAATGTGTCTCAGAT 60.159 50.000 0.00 0.00 45.84 2.90
2218 2341 1.204704 CCGGCACTAATGTGTCTCAGA 59.795 52.381 0.00 0.00 45.84 3.27
2219 2342 1.066858 ACCGGCACTAATGTGTCTCAG 60.067 52.381 0.00 0.00 45.84 3.35
2220 2343 0.973632 ACCGGCACTAATGTGTCTCA 59.026 50.000 0.00 0.00 45.84 3.27
2221 2344 2.094762 AACCGGCACTAATGTGTCTC 57.905 50.000 0.00 0.00 45.84 3.36
2222 2345 2.151202 CAAACCGGCACTAATGTGTCT 58.849 47.619 0.00 0.00 45.84 3.41
2223 2346 2.147958 TCAAACCGGCACTAATGTGTC 58.852 47.619 0.00 0.00 45.44 3.67
2224 2347 2.264005 TCAAACCGGCACTAATGTGT 57.736 45.000 0.00 0.00 45.44 3.72
2225 2348 3.848272 AATCAAACCGGCACTAATGTG 57.152 42.857 0.00 0.00 46.37 3.21
2226 2349 4.279671 TCAAAATCAAACCGGCACTAATGT 59.720 37.500 0.00 0.00 0.00 2.71
2227 2350 4.804108 TCAAAATCAAACCGGCACTAATG 58.196 39.130 0.00 0.00 0.00 1.90
2228 2351 4.618227 GCTCAAAATCAAACCGGCACTAAT 60.618 41.667 0.00 0.00 0.00 1.73
2229 2352 3.305064 GCTCAAAATCAAACCGGCACTAA 60.305 43.478 0.00 0.00 0.00 2.24
2230 2353 2.227865 GCTCAAAATCAAACCGGCACTA 59.772 45.455 0.00 0.00 0.00 2.74
2231 2354 1.000274 GCTCAAAATCAAACCGGCACT 60.000 47.619 0.00 0.00 0.00 4.40
2232 2355 1.418373 GCTCAAAATCAAACCGGCAC 58.582 50.000 0.00 0.00 0.00 5.01
2233 2356 0.316841 GGCTCAAAATCAAACCGGCA 59.683 50.000 0.00 0.00 0.00 5.69
2234 2357 0.732538 CGGCTCAAAATCAAACCGGC 60.733 55.000 0.00 0.00 37.04 6.13
2235 2358 3.399879 CGGCTCAAAATCAAACCGG 57.600 52.632 0.00 0.00 37.04 5.28
2236 2359 0.732538 GCCGGCTCAAAATCAAACCG 60.733 55.000 22.15 0.00 40.30 4.44
2237 2360 0.316841 TGCCGGCTCAAAATCAAACC 59.683 50.000 29.70 0.00 0.00 3.27
2238 2361 1.000274 AGTGCCGGCTCAAAATCAAAC 60.000 47.619 29.70 13.21 0.00 2.93
2239 2362 1.327303 AGTGCCGGCTCAAAATCAAA 58.673 45.000 29.70 0.00 0.00 2.69
2240 2363 2.192664 TAGTGCCGGCTCAAAATCAA 57.807 45.000 29.70 0.00 0.00 2.57
2241 2364 2.192664 TTAGTGCCGGCTCAAAATCA 57.807 45.000 29.70 0.07 0.00 2.57
2242 2365 2.423538 ACATTAGTGCCGGCTCAAAATC 59.576 45.455 29.70 8.96 0.00 2.17
2243 2366 2.164219 CACATTAGTGCCGGCTCAAAAT 59.836 45.455 29.70 22.61 39.21 1.82
2244 2367 1.539388 CACATTAGTGCCGGCTCAAAA 59.461 47.619 29.70 21.42 39.21 2.44
2245 2368 1.164411 CACATTAGTGCCGGCTCAAA 58.836 50.000 29.70 18.42 39.21 2.69
2246 2369 2.853159 CACATTAGTGCCGGCTCAA 58.147 52.632 29.70 19.77 39.21 3.02
2247 2370 4.615901 CACATTAGTGCCGGCTCA 57.384 55.556 29.70 9.72 39.21 4.26
2258 2381 2.237643 ACCGGCACTAATGGACACATTA 59.762 45.455 0.00 0.00 45.17 1.90
2260 2383 0.618458 ACCGGCACTAATGGACACAT 59.382 50.000 0.00 0.00 39.54 3.21
2261 2384 0.398696 AACCGGCACTAATGGACACA 59.601 50.000 0.00 0.00 0.00 3.72
2262 2385 1.084289 GAACCGGCACTAATGGACAC 58.916 55.000 0.00 0.00 0.00 3.67
2263 2386 0.035820 GGAACCGGCACTAATGGACA 60.036 55.000 0.00 0.00 0.00 4.02
2264 2387 0.035820 TGGAACCGGCACTAATGGAC 60.036 55.000 0.00 0.00 0.00 4.02
2265 2388 0.693622 TTGGAACCGGCACTAATGGA 59.306 50.000 0.00 0.00 0.00 3.41
2266 2389 0.808755 GTTGGAACCGGCACTAATGG 59.191 55.000 0.00 0.00 0.00 3.16
2267 2390 0.446222 CGTTGGAACCGGCACTAATG 59.554 55.000 0.00 1.62 0.00 1.90
2268 2391 0.675522 CCGTTGGAACCGGCACTAAT 60.676 55.000 0.00 0.00 38.85 1.73
2269 2392 1.301874 CCGTTGGAACCGGCACTAA 60.302 57.895 0.00 0.00 38.85 2.24
2270 2393 2.344500 CCGTTGGAACCGGCACTA 59.656 61.111 0.00 0.00 38.85 2.74
2276 2399 2.818274 GGCTAGCCGTTGGAACCG 60.818 66.667 20.16 0.00 0.00 4.44
2291 2414 0.666913 TACTAATGAGAGCGGACGGC 59.333 55.000 0.00 0.00 44.05 5.68
2292 2415 1.001597 GGTACTAATGAGAGCGGACGG 60.002 57.143 0.00 0.00 0.00 4.79
2293 2416 1.333881 CGGTACTAATGAGAGCGGACG 60.334 57.143 0.00 0.00 0.00 4.79
2294 2417 2.402640 CGGTACTAATGAGAGCGGAC 57.597 55.000 0.00 0.00 0.00 4.79
2296 2419 3.867723 CCGGTACTAATGAGAGCGG 57.132 57.895 0.00 5.97 46.44 5.52
2297 2420 2.098607 TGAACCGGTACTAATGAGAGCG 59.901 50.000 8.00 0.00 0.00 5.03
2298 2421 3.795623 TGAACCGGTACTAATGAGAGC 57.204 47.619 8.00 0.00 0.00 4.09
2299 2422 4.621991 CCATGAACCGGTACTAATGAGAG 58.378 47.826 8.00 0.00 0.00 3.20
2300 2423 3.181469 GCCATGAACCGGTACTAATGAGA 60.181 47.826 8.00 0.00 0.00 3.27
2301 2424 3.131396 GCCATGAACCGGTACTAATGAG 58.869 50.000 8.00 5.39 0.00 2.90
2302 2425 2.482316 CGCCATGAACCGGTACTAATGA 60.482 50.000 8.00 0.00 0.00 2.57
2303 2426 1.864711 CGCCATGAACCGGTACTAATG 59.135 52.381 8.00 9.56 0.00 1.90
2304 2427 1.758280 TCGCCATGAACCGGTACTAAT 59.242 47.619 8.00 0.00 0.00 1.73
2305 2428 1.184431 TCGCCATGAACCGGTACTAA 58.816 50.000 8.00 0.00 0.00 2.24
2306 2429 1.184431 TTCGCCATGAACCGGTACTA 58.816 50.000 8.00 0.00 0.00 1.82
2307 2430 1.976898 TTCGCCATGAACCGGTACT 59.023 52.632 8.00 0.00 0.00 2.73
2308 2431 4.602159 TTCGCCATGAACCGGTAC 57.398 55.556 8.00 0.00 0.00 3.34
2315 2438 1.810151 GTGCTAAAGGTTCGCCATGAA 59.190 47.619 0.00 0.00 40.60 2.57
2316 2439 1.448985 GTGCTAAAGGTTCGCCATGA 58.551 50.000 0.00 0.00 40.60 3.07
2317 2440 0.451783 GGTGCTAAAGGTTCGCCATG 59.548 55.000 0.00 0.00 40.60 3.66
2318 2441 1.024579 CGGTGCTAAAGGTTCGCCAT 61.025 55.000 0.00 0.00 40.60 4.40
2319 2442 1.669760 CGGTGCTAAAGGTTCGCCA 60.670 57.895 0.00 0.00 40.60 5.69
2320 2443 2.396157 CCGGTGCTAAAGGTTCGCC 61.396 63.158 0.00 0.00 37.60 5.54
2321 2444 1.232621 AACCGGTGCTAAAGGTTCGC 61.233 55.000 8.52 0.00 44.13 4.70
2322 2445 2.922779 AACCGGTGCTAAAGGTTCG 58.077 52.632 8.52 0.00 44.13 3.95
2325 2448 0.601841 CACGAACCGGTGCTAAAGGT 60.602 55.000 8.52 0.00 40.50 3.50
2326 2449 2.159181 CACGAACCGGTGCTAAAGG 58.841 57.895 8.52 0.00 0.00 3.11
2341 2464 2.198906 TAGTACCGGTTCGTGGCACG 62.199 60.000 32.75 32.75 44.19 5.34
2342 2465 0.038343 TTAGTACCGGTTCGTGGCAC 60.038 55.000 15.04 7.79 0.00 5.01
2343 2466 0.678395 TTTAGTACCGGTTCGTGGCA 59.322 50.000 15.04 0.00 0.00 4.92
2344 2467 1.067635 TCTTTAGTACCGGTTCGTGGC 60.068 52.381 15.04 0.00 0.00 5.01
2345 2468 2.489329 TCTCTTTAGTACCGGTTCGTGG 59.511 50.000 15.04 1.20 0.00 4.94
2346 2469 3.190118 ACTCTCTTTAGTACCGGTTCGTG 59.810 47.826 15.04 0.80 0.00 4.35
2347 2470 3.190118 CACTCTCTTTAGTACCGGTTCGT 59.810 47.826 15.04 0.00 0.00 3.85
2348 2471 3.427233 CCACTCTCTTTAGTACCGGTTCG 60.427 52.174 15.04 0.00 0.00 3.95
2349 2472 3.509184 ACCACTCTCTTTAGTACCGGTTC 59.491 47.826 15.04 8.12 0.00 3.62
2350 2473 3.257624 CACCACTCTCTTTAGTACCGGTT 59.742 47.826 15.04 0.00 0.00 4.44
2351 2474 2.824341 CACCACTCTCTTTAGTACCGGT 59.176 50.000 13.98 13.98 0.00 5.28
2352 2475 2.165845 CCACCACTCTCTTTAGTACCGG 59.834 54.545 0.00 0.00 0.00 5.28
2353 2476 2.416972 GCCACCACTCTCTTTAGTACCG 60.417 54.545 0.00 0.00 0.00 4.02
2354 2477 2.565834 TGCCACCACTCTCTTTAGTACC 59.434 50.000 0.00 0.00 0.00 3.34
2355 2478 3.368531 CCTGCCACCACTCTCTTTAGTAC 60.369 52.174 0.00 0.00 0.00 2.73
2356 2479 2.832129 CCTGCCACCACTCTCTTTAGTA 59.168 50.000 0.00 0.00 0.00 1.82
2357 2480 1.625818 CCTGCCACCACTCTCTTTAGT 59.374 52.381 0.00 0.00 0.00 2.24
2358 2481 1.902508 TCCTGCCACCACTCTCTTTAG 59.097 52.381 0.00 0.00 0.00 1.85
2359 2482 2.024176 TCCTGCCACCACTCTCTTTA 57.976 50.000 0.00 0.00 0.00 1.85
2360 2483 1.004044 CATCCTGCCACCACTCTCTTT 59.996 52.381 0.00 0.00 0.00 2.52
2361 2484 0.617413 CATCCTGCCACCACTCTCTT 59.383 55.000 0.00 0.00 0.00 2.85
2362 2485 0.546267 ACATCCTGCCACCACTCTCT 60.546 55.000 0.00 0.00 0.00 3.10
2363 2486 0.326264 AACATCCTGCCACCACTCTC 59.674 55.000 0.00 0.00 0.00 3.20
2364 2487 0.037303 CAACATCCTGCCACCACTCT 59.963 55.000 0.00 0.00 0.00 3.24
2365 2488 0.250901 ACAACATCCTGCCACCACTC 60.251 55.000 0.00 0.00 0.00 3.51
2366 2489 0.250901 GACAACATCCTGCCACCACT 60.251 55.000 0.00 0.00 0.00 4.00
2367 2490 0.537143 TGACAACATCCTGCCACCAC 60.537 55.000 0.00 0.00 0.00 4.16
2368 2491 0.250858 CTGACAACATCCTGCCACCA 60.251 55.000 0.00 0.00 0.00 4.17
2369 2492 0.962356 CCTGACAACATCCTGCCACC 60.962 60.000 0.00 0.00 0.00 4.61
2370 2493 1.589716 GCCTGACAACATCCTGCCAC 61.590 60.000 0.00 0.00 0.00 5.01
2371 2494 1.303561 GCCTGACAACATCCTGCCA 60.304 57.895 0.00 0.00 0.00 4.92
2372 2495 1.001641 AGCCTGACAACATCCTGCC 60.002 57.895 0.00 0.00 0.00 4.85
2373 2496 1.310933 CCAGCCTGACAACATCCTGC 61.311 60.000 0.00 0.00 0.00 4.85
2374 2497 0.679002 CCCAGCCTGACAACATCCTG 60.679 60.000 0.00 0.00 0.00 3.86
2375 2498 1.687612 CCCAGCCTGACAACATCCT 59.312 57.895 0.00 0.00 0.00 3.24
2376 2499 1.379044 CCCCAGCCTGACAACATCC 60.379 63.158 0.00 0.00 0.00 3.51
2377 2500 2.048603 GCCCCAGCCTGACAACATC 61.049 63.158 0.00 0.00 0.00 3.06
2378 2501 2.036256 GCCCCAGCCTGACAACAT 59.964 61.111 0.00 0.00 0.00 2.71
2393 2516 2.558380 CTAAAGGTGCTGGAGGGGCC 62.558 65.000 0.00 0.00 37.10 5.80
2394 2517 1.077429 CTAAAGGTGCTGGAGGGGC 60.077 63.158 0.00 0.00 0.00 5.80
2395 2518 1.209747 GTACTAAAGGTGCTGGAGGGG 59.790 57.143 0.00 0.00 0.00 4.79
2396 2519 1.209747 GGTACTAAAGGTGCTGGAGGG 59.790 57.143 0.00 0.00 0.00 4.30
2397 2520 1.134788 CGGTACTAAAGGTGCTGGAGG 60.135 57.143 0.00 0.00 34.04 4.30
2398 2521 2.295253 CGGTACTAAAGGTGCTGGAG 57.705 55.000 0.00 0.00 34.04 3.86
2401 2524 2.289195 TGAACCGGTACTAAAGGTGCTG 60.289 50.000 8.00 0.00 38.44 4.41
2402 2525 1.972795 TGAACCGGTACTAAAGGTGCT 59.027 47.619 8.00 0.00 38.44 4.40
2403 2526 2.460757 TGAACCGGTACTAAAGGTGC 57.539 50.000 8.00 0.00 38.44 5.01
2404 2527 3.267483 CCATGAACCGGTACTAAAGGTG 58.733 50.000 8.00 0.00 38.44 4.00
2405 2528 2.355412 GCCATGAACCGGTACTAAAGGT 60.355 50.000 8.00 0.00 40.50 3.50
2406 2529 2.285977 GCCATGAACCGGTACTAAAGG 58.714 52.381 8.00 6.95 0.00 3.11
2407 2530 2.676342 GTGCCATGAACCGGTACTAAAG 59.324 50.000 8.00 0.00 36.33 1.85
2408 2531 2.702261 GTGCCATGAACCGGTACTAAA 58.298 47.619 8.00 0.00 36.33 1.85
2409 2532 1.404449 CGTGCCATGAACCGGTACTAA 60.404 52.381 8.00 0.00 37.03 2.24
2410 2533 0.173935 CGTGCCATGAACCGGTACTA 59.826 55.000 8.00 0.00 37.03 1.82
2411 2534 1.079405 CGTGCCATGAACCGGTACT 60.079 57.895 8.00 0.00 37.03 2.73
2412 2535 0.671163 TTCGTGCCATGAACCGGTAC 60.671 55.000 8.00 0.00 35.94 3.34
2413 2536 0.671163 GTTCGTGCCATGAACCGGTA 60.671 55.000 17.21 0.00 37.98 4.02
2414 2537 1.964373 GTTCGTGCCATGAACCGGT 60.964 57.895 17.21 0.00 37.98 5.28
2415 2538 2.867472 GTTCGTGCCATGAACCGG 59.133 61.111 17.21 0.00 37.98 5.28
2418 2541 0.671163 TACCGGTTCGTGCCATGAAC 60.671 55.000 15.04 19.30 42.00 3.18
2419 2542 0.671163 GTACCGGTTCGTGCCATGAA 60.671 55.000 15.04 0.00 0.00 2.57
2420 2543 1.079681 GTACCGGTTCGTGCCATGA 60.080 57.895 15.04 0.00 0.00 3.07
2421 2544 0.173935 TAGTACCGGTTCGTGCCATG 59.826 55.000 15.04 0.00 0.00 3.66
2422 2545 0.896923 TTAGTACCGGTTCGTGCCAT 59.103 50.000 15.04 0.00 0.00 4.40
2423 2546 0.678395 TTTAGTACCGGTTCGTGCCA 59.322 50.000 15.04 0.00 0.00 4.92
2424 2547 1.353076 CTTTAGTACCGGTTCGTGCC 58.647 55.000 15.04 0.00 0.00 5.01
2425 2548 1.337167 ACCTTTAGTACCGGTTCGTGC 60.337 52.381 15.04 0.00 0.00 5.34
2426 2549 2.599659 GACCTTTAGTACCGGTTCGTG 58.400 52.381 15.04 0.51 0.00 4.35
2427 2550 1.200020 CGACCTTTAGTACCGGTTCGT 59.800 52.381 15.04 0.00 0.00 3.85
2428 2551 1.200020 ACGACCTTTAGTACCGGTTCG 59.800 52.381 15.04 16.33 0.00 3.95
2429 2552 3.440522 AGTACGACCTTTAGTACCGGTTC 59.559 47.826 15.04 8.12 42.92 3.62
2430 2553 3.421844 AGTACGACCTTTAGTACCGGTT 58.578 45.455 15.04 0.00 42.92 4.44
2431 2554 3.073274 AGTACGACCTTTAGTACCGGT 57.927 47.619 13.98 13.98 42.92 5.28
2432 2555 5.560966 TTAAGTACGACCTTTAGTACCGG 57.439 43.478 0.00 0.00 42.92 5.28
2433 2556 6.612306 AGTTTAAGTACGACCTTTAGTACCG 58.388 40.000 0.00 0.00 42.92 4.02
2434 2557 7.821652 AGAGTTTAAGTACGACCTTTAGTACC 58.178 38.462 0.00 0.00 42.92 3.34
2435 2558 9.684448 AAAGAGTTTAAGTACGACCTTTAGTAC 57.316 33.333 0.00 0.00 42.42 2.73
2439 2562 9.860898 GGATAAAGAGTTTAAGTACGACCTTTA 57.139 33.333 0.00 0.00 0.00 1.85
2440 2563 8.370182 TGGATAAAGAGTTTAAGTACGACCTTT 58.630 33.333 0.00 0.00 0.00 3.11
2441 2564 7.816513 GTGGATAAAGAGTTTAAGTACGACCTT 59.183 37.037 0.00 0.00 0.00 3.50
2442 2565 7.318893 GTGGATAAAGAGTTTAAGTACGACCT 58.681 38.462 0.00 0.00 0.00 3.85
2443 2566 6.533012 GGTGGATAAAGAGTTTAAGTACGACC 59.467 42.308 0.00 0.00 0.00 4.79
2444 2567 6.533012 GGGTGGATAAAGAGTTTAAGTACGAC 59.467 42.308 0.00 0.00 0.00 4.34
2445 2568 6.625740 CGGGTGGATAAAGAGTTTAAGTACGA 60.626 42.308 0.00 0.00 0.00 3.43
2446 2569 5.517770 CGGGTGGATAAAGAGTTTAAGTACG 59.482 44.000 0.00 0.00 0.00 3.67
2447 2570 6.633856 TCGGGTGGATAAAGAGTTTAAGTAC 58.366 40.000 0.00 0.00 0.00 2.73
2448 2571 6.628844 GCTCGGGTGGATAAAGAGTTTAAGTA 60.629 42.308 0.00 0.00 0.00 2.24
2449 2572 5.731591 CTCGGGTGGATAAAGAGTTTAAGT 58.268 41.667 0.00 0.00 0.00 2.24
2450 2573 4.571176 GCTCGGGTGGATAAAGAGTTTAAG 59.429 45.833 0.00 0.00 0.00 1.85
2451 2574 4.224370 AGCTCGGGTGGATAAAGAGTTTAA 59.776 41.667 0.00 0.00 0.00 1.52
2452 2575 3.773119 AGCTCGGGTGGATAAAGAGTTTA 59.227 43.478 0.00 0.00 0.00 2.01
2453 2576 2.572104 AGCTCGGGTGGATAAAGAGTTT 59.428 45.455 0.00 0.00 0.00 2.66
2454 2577 2.168728 GAGCTCGGGTGGATAAAGAGTT 59.831 50.000 0.00 0.00 0.00 3.01
2455 2578 1.757699 GAGCTCGGGTGGATAAAGAGT 59.242 52.381 0.00 0.00 0.00 3.24
2456 2579 1.269309 CGAGCTCGGGTGGATAAAGAG 60.269 57.143 28.40 0.00 35.37 2.85
2457 2580 0.744874 CGAGCTCGGGTGGATAAAGA 59.255 55.000 28.40 0.00 35.37 2.52
2458 2581 0.876342 GCGAGCTCGGGTGGATAAAG 60.876 60.000 35.10 5.37 40.23 1.85
2459 2582 1.143183 GCGAGCTCGGGTGGATAAA 59.857 57.895 35.10 0.00 40.23 1.40
2460 2583 1.735376 GAGCGAGCTCGGGTGGATAA 61.735 60.000 35.10 0.00 40.23 1.75
2461 2584 2.123854 AGCGAGCTCGGGTGGATA 60.124 61.111 35.10 0.00 40.23 2.59
2462 2585 2.626255 TAGAGCGAGCTCGGGTGGAT 62.626 60.000 35.10 7.18 46.90 3.41
2463 2586 2.626255 ATAGAGCGAGCTCGGGTGGA 62.626 60.000 35.10 12.86 46.90 4.02
2464 2587 1.739338 AATAGAGCGAGCTCGGGTGG 61.739 60.000 35.10 9.75 46.90 4.61
2465 2588 0.318275 GAATAGAGCGAGCTCGGGTG 60.318 60.000 35.10 10.14 46.90 4.61
2466 2589 0.466555 AGAATAGAGCGAGCTCGGGT 60.467 55.000 35.10 21.88 46.90 5.28
2467 2590 0.671251 AAGAATAGAGCGAGCTCGGG 59.329 55.000 35.10 11.31 46.90 5.14
2468 2591 1.335506 GGAAGAATAGAGCGAGCTCGG 60.336 57.143 35.10 18.35 46.90 4.63
2469 2592 1.335506 GGGAAGAATAGAGCGAGCTCG 60.336 57.143 31.37 31.37 46.90 5.03
2470 2593 1.000394 GGGGAAGAATAGAGCGAGCTC 60.000 57.143 16.63 16.63 43.03 4.09
2471 2594 1.044611 GGGGAAGAATAGAGCGAGCT 58.955 55.000 0.00 0.00 0.00 4.09
2472 2595 1.044611 AGGGGAAGAATAGAGCGAGC 58.955 55.000 0.00 0.00 0.00 5.03
2473 2596 3.493524 GGAAAGGGGAAGAATAGAGCGAG 60.494 52.174 0.00 0.00 0.00 5.03
2474 2597 2.434702 GGAAAGGGGAAGAATAGAGCGA 59.565 50.000 0.00 0.00 0.00 4.93
2475 2598 2.485657 GGGAAAGGGGAAGAATAGAGCG 60.486 54.545 0.00 0.00 0.00 5.03
2476 2599 2.158593 GGGGAAAGGGGAAGAATAGAGC 60.159 54.545 0.00 0.00 0.00 4.09
2477 2600 3.392947 GAGGGGAAAGGGGAAGAATAGAG 59.607 52.174 0.00 0.00 0.00 2.43
2478 2601 3.246721 TGAGGGGAAAGGGGAAGAATAGA 60.247 47.826 0.00 0.00 0.00 1.98
2479 2602 3.117851 GTGAGGGGAAAGGGGAAGAATAG 60.118 52.174 0.00 0.00 0.00 1.73
2480 2603 2.850568 GTGAGGGGAAAGGGGAAGAATA 59.149 50.000 0.00 0.00 0.00 1.75
2481 2604 1.641192 GTGAGGGGAAAGGGGAAGAAT 59.359 52.381 0.00 0.00 0.00 2.40
2482 2605 1.073098 GTGAGGGGAAAGGGGAAGAA 58.927 55.000 0.00 0.00 0.00 2.52
2483 2606 0.196118 AGTGAGGGGAAAGGGGAAGA 59.804 55.000 0.00 0.00 0.00 2.87
2484 2607 1.076438 AAGTGAGGGGAAAGGGGAAG 58.924 55.000 0.00 0.00 0.00 3.46
2485 2608 3.292264 AAGTGAGGGGAAAGGGGAA 57.708 52.632 0.00 0.00 0.00 3.97


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

AutoCloner maintained by Alex Coulton.