Multiple sequence alignment - TraesCS6A01G379100

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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 TraesCS6A01G379100 chr6A 100.000 2474 0 0 1 2474 599934225 599936698 0.000000e+00 4569.0
1 TraesCS6A01G379100 chr6A 96.617 798 19 5 1 797 51468736 51469526 0.000000e+00 1317.0
2 TraesCS6A01G379100 chr6A 99.444 180 1 0 2295 2474 599941505 599941684 6.600000e-86 327.0
3 TraesCS6A01G379100 chr6A 99.444 180 0 1 2295 2474 20158650 20158472 2.370000e-85 326.0
4 TraesCS6A01G379100 chr6A 97.222 180 4 1 2295 2474 20153653 20153475 1.110000e-78 303.0
5 TraesCS6A01G379100 chr6D 91.198 1352 73 17 848 2181 453820943 453822266 0.000000e+00 1796.0
6 TraesCS6A01G379100 chr6D 100.000 38 0 0 2258 2295 453934167 453934204 1.230000e-08 71.3
7 TraesCS6A01G379100 chr6B 89.777 1438 94 28 842 2258 689285638 689287043 0.000000e+00 1792.0
8 TraesCS6A01G379100 chr5D 97.240 797 21 1 1 796 372104135 372104931 0.000000e+00 1349.0
9 TraesCS6A01G379100 chr5D 97.118 798 21 2 1 797 480019807 480019011 0.000000e+00 1345.0
10 TraesCS6A01G379100 chr3D 97.125 800 22 1 1 799 94244380 94245179 0.000000e+00 1349.0
11 TraesCS6A01G379100 chr3A 97.129 801 20 3 1 800 686570415 686571213 0.000000e+00 1349.0
12 TraesCS6A01G379100 chr7D 97.114 797 21 2 1 795 552302364 552301568 0.000000e+00 1343.0
13 TraesCS6A01G379100 chr7D 96.985 796 22 2 1 795 13064637 13065431 0.000000e+00 1336.0
14 TraesCS6A01G379100 chr7D 96.149 805 29 2 1 804 604060925 604060122 0.000000e+00 1314.0
15 TraesCS6A01G379100 chr7A 96.231 796 28 2 1 795 700167574 700168368 0.000000e+00 1303.0
16 TraesCS6A01G379100 chr7A 98.333 180 2 1 2295 2474 32158156 32157978 5.140000e-82 315.0
17 TraesCS6A01G379100 chr7A 98.333 180 2 1 2295 2474 533567434 533567612 5.140000e-82 315.0
18 TraesCS6A01G379100 chr7A 95.531 179 6 2 2295 2472 76975019 76974842 4.030000e-73 285.0
19 TraesCS6A01G379100 chr7A 95.531 179 6 2 2295 2472 76979981 76979804 4.030000e-73 285.0
20 TraesCS6A01G379100 chr1A 98.333 180 2 1 2295 2474 552878662 552878484 5.140000e-82 315.0
21 TraesCS6A01G379100 chr1A 96.685 181 5 1 2294 2474 552883629 552883450 1.440000e-77 300.0


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 TraesCS6A01G379100 chr6A 599934225 599936698 2473 False 4569 4569 100.000 1 2474 1 chr6A.!!$F2 2473
1 TraesCS6A01G379100 chr6A 51468736 51469526 790 False 1317 1317 96.617 1 797 1 chr6A.!!$F1 796
2 TraesCS6A01G379100 chr6D 453820943 453822266 1323 False 1796 1796 91.198 848 2181 1 chr6D.!!$F1 1333
3 TraesCS6A01G379100 chr6B 689285638 689287043 1405 False 1792 1792 89.777 842 2258 1 chr6B.!!$F1 1416
4 TraesCS6A01G379100 chr5D 372104135 372104931 796 False 1349 1349 97.240 1 796 1 chr5D.!!$F1 795
5 TraesCS6A01G379100 chr5D 480019011 480019807 796 True 1345 1345 97.118 1 797 1 chr5D.!!$R1 796
6 TraesCS6A01G379100 chr3D 94244380 94245179 799 False 1349 1349 97.125 1 799 1 chr3D.!!$F1 798
7 TraesCS6A01G379100 chr3A 686570415 686571213 798 False 1349 1349 97.129 1 800 1 chr3A.!!$F1 799
8 TraesCS6A01G379100 chr7D 552301568 552302364 796 True 1343 1343 97.114 1 795 1 chr7D.!!$R1 794
9 TraesCS6A01G379100 chr7D 13064637 13065431 794 False 1336 1336 96.985 1 795 1 chr7D.!!$F1 794
10 TraesCS6A01G379100 chr7D 604060122 604060925 803 True 1314 1314 96.149 1 804 1 chr7D.!!$R2 803
11 TraesCS6A01G379100 chr7A 700167574 700168368 794 False 1303 1303 96.231 1 795 1 chr7A.!!$F2 794

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
827 829 0.107831 ACCTGCTCCACACGCTAAAA 59.892 50.0 0.0 0.0 0.0 1.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2411 2437 0.03918 TCGAGGCTAACCACCAGAGA 59.961 55.0 0.0 0.0 39.06 3.1 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
225 226 8.718656 TGGATTTTCAAAATAAAGGAAAAGGGA 58.281 29.630 0.00 0.00 41.96 4.20
226 227 9.739276 GGATTTTCAAAATAAAGGAAAAGGGAT 57.261 29.630 0.00 0.00 41.96 3.85
242 243 1.489230 GGGATGTTGGTCCGGATTAGT 59.511 52.381 7.81 0.00 39.26 2.24
327 328 5.847304 AGATTAATGTCGATGCTAGCTTCA 58.153 37.500 25.24 11.13 0.00 3.02
365 366 2.698406 AGTGTGGGGGTGGTGGTT 60.698 61.111 0.00 0.00 0.00 3.67
513 515 7.068348 TCCTATAATTTTAGAGACTGACTGCGT 59.932 37.037 4.66 0.00 0.00 5.24
739 741 5.436175 CCCTGTGTGGTGAATATTGTATCA 58.564 41.667 0.00 0.00 0.00 2.15
816 818 8.910351 AAAAGTAATAATATCTCACCTGCTCC 57.090 34.615 0.00 0.00 0.00 4.70
817 819 7.618019 AAGTAATAATATCTCACCTGCTCCA 57.382 36.000 0.00 0.00 0.00 3.86
818 820 6.998802 AGTAATAATATCTCACCTGCTCCAC 58.001 40.000 0.00 0.00 0.00 4.02
819 821 5.894298 AATAATATCTCACCTGCTCCACA 57.106 39.130 0.00 0.00 0.00 4.17
820 822 3.550437 AATATCTCACCTGCTCCACAC 57.450 47.619 0.00 0.00 0.00 3.82
821 823 0.817654 TATCTCACCTGCTCCACACG 59.182 55.000 0.00 0.00 0.00 4.49
822 824 2.513026 ATCTCACCTGCTCCACACGC 62.513 60.000 0.00 0.00 0.00 5.34
823 825 3.231889 CTCACCTGCTCCACACGCT 62.232 63.158 0.00 0.00 0.00 5.07
824 826 1.877576 CTCACCTGCTCCACACGCTA 61.878 60.000 0.00 0.00 0.00 4.26
825 827 1.005037 CACCTGCTCCACACGCTAA 60.005 57.895 0.00 0.00 0.00 3.09
826 828 0.602638 CACCTGCTCCACACGCTAAA 60.603 55.000 0.00 0.00 0.00 1.85
827 829 0.107831 ACCTGCTCCACACGCTAAAA 59.892 50.000 0.00 0.00 0.00 1.52
828 830 1.234821 CCTGCTCCACACGCTAAAAA 58.765 50.000 0.00 0.00 0.00 1.94
855 857 5.938125 AGATTAACATAAACTCGCAACCTGT 59.062 36.000 0.00 0.00 0.00 4.00
865 867 3.684788 ACTCGCAACCTGTTGTATTCATC 59.315 43.478 11.35 0.00 42.31 2.92
867 869 4.260985 TCGCAACCTGTTGTATTCATCAT 58.739 39.130 11.35 0.00 42.31 2.45
868 870 4.094739 TCGCAACCTGTTGTATTCATCATG 59.905 41.667 11.35 0.00 42.31 3.07
869 871 4.675510 GCAACCTGTTGTATTCATCATGG 58.324 43.478 11.35 0.00 42.31 3.66
958 962 0.753111 GGGGTCATGGTCATTGCCTC 60.753 60.000 0.00 0.00 0.00 4.70
968 972 3.073798 TGGTCATTGCCTCTTAGGTTTCA 59.926 43.478 0.00 0.00 37.80 2.69
973 977 6.823689 GTCATTGCCTCTTAGGTTTCAAGATA 59.176 38.462 0.00 0.00 37.80 1.98
980 984 8.961634 GCCTCTTAGGTTTCAAGATAAGATTTT 58.038 33.333 0.00 0.00 37.80 1.82
1004 1008 6.165577 TCACAAGTTGAAGATCGATCATGAA 58.834 36.000 26.47 13.13 0.00 2.57
1032 1036 2.551912 CCTGGTGTTCGTGGTTGCC 61.552 63.158 0.00 0.00 0.00 4.52
1054 1058 3.277211 TTGTTCGTCGGGAGCCTCG 62.277 63.158 0.00 0.00 0.00 4.63
1087 1091 6.543831 AGAATGTAAGCATAACACCATCTTCC 59.456 38.462 0.00 0.00 34.39 3.46
1292 1302 0.808453 GCAAATGCTACTACCGCGGA 60.808 55.000 35.90 14.96 38.21 5.54
1295 1305 2.612212 CAAATGCTACTACCGCGGATTT 59.388 45.455 35.90 21.61 0.00 2.17
1412 1422 1.597027 CCTTGTTGCCCGACGAACT 60.597 57.895 0.00 0.00 0.00 3.01
1446 1456 2.971660 TGGAAGAATGCCATGCAATG 57.028 45.000 0.00 0.00 40.78 2.82
1472 1482 2.221169 GACATGCCATCCGAAATGCTA 58.779 47.619 0.00 0.00 0.00 3.49
1474 1484 2.358898 ACATGCCATCCGAAATGCTAAC 59.641 45.455 0.00 0.00 0.00 2.34
1544 1554 9.111613 CAGATAAAATAAATGTACGGGTTGGTA 57.888 33.333 0.00 0.00 0.00 3.25
1545 1555 9.683870 AGATAAAATAAATGTACGGGTTGGTAA 57.316 29.630 0.00 0.00 0.00 2.85
1555 1565 2.598686 GGGTTGGTAAGACCGATCTC 57.401 55.000 0.00 0.00 42.58 2.75
1565 1575 5.123502 GGTAAGACCGATCTCGCAATATCTA 59.876 44.000 0.00 0.00 38.18 1.98
1566 1576 5.906113 AAGACCGATCTCGCAATATCTAT 57.094 39.130 0.00 0.00 38.18 1.98
1567 1577 7.012138 GGTAAGACCGATCTCGCAATATCTATA 59.988 40.741 0.00 0.00 38.18 1.31
1568 1578 7.575414 AAGACCGATCTCGCAATATCTATAT 57.425 36.000 0.00 0.00 38.18 0.86
1569 1579 8.678593 AAGACCGATCTCGCAATATCTATATA 57.321 34.615 0.00 0.00 38.18 0.86
1570 1580 8.678593 AGACCGATCTCGCAATATCTATATAA 57.321 34.615 0.00 0.00 38.18 0.98
1571 1581 9.290988 AGACCGATCTCGCAATATCTATATAAT 57.709 33.333 0.00 0.00 38.18 1.28
1622 1632 7.280428 ACTCAAGTGCTCATGATTAAAGATGAG 59.720 37.037 17.14 17.14 45.72 2.90
1723 1734 5.964758 AGCAAGTTTTTCTGTTCAATGTCA 58.035 33.333 0.00 0.00 0.00 3.58
1725 1736 5.232838 GCAAGTTTTTCTGTTCAATGTCAGG 59.767 40.000 7.87 0.00 33.13 3.86
1769 1780 2.006888 CGACCTTGTTCATATTGCCGT 58.993 47.619 0.00 0.00 0.00 5.68
1813 1825 3.738899 GCCGTTCGTCCTGATGGTTATTA 60.739 47.826 0.00 0.00 34.23 0.98
1814 1826 4.628074 CCGTTCGTCCTGATGGTTATTAT 58.372 43.478 0.00 0.00 34.23 1.28
1883 1899 8.758715 GCATATTCAATGAAGAAAAGTAATGCC 58.241 33.333 1.10 0.00 0.00 4.40
1922 1938 9.959749 TGAAAGTAAGATTGTACAATGGAAAAC 57.040 29.630 25.42 14.65 0.00 2.43
1962 1978 9.357161 TCTTCTAAATATAAGTGGAGAGAGGTC 57.643 37.037 0.00 0.00 0.00 3.85
1989 2009 3.119245 TGGACGCAATAAGTGGTCTCTAC 60.119 47.826 0.00 0.00 31.63 2.59
2001 2023 5.901598 AGTGGTCTCTACTTTACCCTACTT 58.098 41.667 0.00 0.00 31.97 2.24
2009 2031 7.395489 TCTCTACTTTACCCTACTTCAACGATT 59.605 37.037 0.00 0.00 0.00 3.34
2131 2156 6.582636 TGGCTATAGGTAATGTGTGAAAGAG 58.417 40.000 1.04 0.00 0.00 2.85
2181 2207 6.808008 ACAAACAATGAATCCACACTCTAG 57.192 37.500 0.00 0.00 0.00 2.43
2200 2226 8.461222 CACTCTAGCAATGAATCCAAAACAATA 58.539 33.333 0.00 0.00 0.00 1.90
2220 2246 9.463443 AACAATATTAACACAACAAAGAGCTTC 57.537 29.630 0.00 0.00 0.00 3.86
2240 2266 5.393135 GCTTCCCCACTTTGCTAGTTATTTC 60.393 44.000 0.00 0.00 33.85 2.17
2250 2276 3.014623 GCTAGTTATTTCCAAAGGCGGT 58.985 45.455 0.00 0.00 0.00 5.68
2254 2280 6.147328 GCTAGTTATTTCCAAAGGCGGTATAG 59.853 42.308 0.00 0.00 0.00 1.31
2267 2293 2.018542 GGTATAGCCGTGTTCTTGCA 57.981 50.000 0.00 0.00 0.00 4.08
2268 2294 1.933853 GGTATAGCCGTGTTCTTGCAG 59.066 52.381 0.00 0.00 0.00 4.41
2269 2295 2.618053 GTATAGCCGTGTTCTTGCAGT 58.382 47.619 0.00 0.00 0.00 4.40
2270 2296 2.185004 ATAGCCGTGTTCTTGCAGTT 57.815 45.000 0.00 0.00 0.00 3.16
2271 2297 2.823924 TAGCCGTGTTCTTGCAGTTA 57.176 45.000 0.00 0.00 0.00 2.24
2272 2298 1.512926 AGCCGTGTTCTTGCAGTTAG 58.487 50.000 0.00 0.00 0.00 2.34
2273 2299 0.517316 GCCGTGTTCTTGCAGTTAGG 59.483 55.000 0.00 0.00 0.00 2.69
2274 2300 1.156736 CCGTGTTCTTGCAGTTAGGG 58.843 55.000 0.00 0.00 0.00 3.53
2275 2301 1.270625 CCGTGTTCTTGCAGTTAGGGA 60.271 52.381 0.00 0.00 0.00 4.20
2276 2302 2.615493 CCGTGTTCTTGCAGTTAGGGAT 60.615 50.000 0.00 0.00 0.00 3.85
2277 2303 3.074412 CGTGTTCTTGCAGTTAGGGATT 58.926 45.455 0.00 0.00 0.00 3.01
2278 2304 3.120199 CGTGTTCTTGCAGTTAGGGATTG 60.120 47.826 0.00 0.00 0.00 2.67
2279 2305 3.821033 GTGTTCTTGCAGTTAGGGATTGT 59.179 43.478 0.00 0.00 0.00 2.71
2280 2306 4.278419 GTGTTCTTGCAGTTAGGGATTGTT 59.722 41.667 0.00 0.00 0.00 2.83
2281 2307 4.892934 TGTTCTTGCAGTTAGGGATTGTTT 59.107 37.500 0.00 0.00 0.00 2.83
2282 2308 5.009610 TGTTCTTGCAGTTAGGGATTGTTTC 59.990 40.000 0.00 0.00 0.00 2.78
2283 2309 4.724399 TCTTGCAGTTAGGGATTGTTTCA 58.276 39.130 0.00 0.00 0.00 2.69
2284 2310 5.324409 TCTTGCAGTTAGGGATTGTTTCAT 58.676 37.500 0.00 0.00 0.00 2.57
2285 2311 6.480763 TCTTGCAGTTAGGGATTGTTTCATA 58.519 36.000 0.00 0.00 0.00 2.15
2286 2312 6.599244 TCTTGCAGTTAGGGATTGTTTCATAG 59.401 38.462 0.00 0.00 0.00 2.23
2287 2313 5.815581 TGCAGTTAGGGATTGTTTCATAGT 58.184 37.500 0.00 0.00 0.00 2.12
2288 2314 6.245408 TGCAGTTAGGGATTGTTTCATAGTT 58.755 36.000 0.00 0.00 0.00 2.24
2289 2315 6.374333 TGCAGTTAGGGATTGTTTCATAGTTC 59.626 38.462 0.00 0.00 0.00 3.01
2290 2316 6.456988 GCAGTTAGGGATTGTTTCATAGTTCG 60.457 42.308 0.00 0.00 0.00 3.95
2291 2317 6.037172 CAGTTAGGGATTGTTTCATAGTTCGG 59.963 42.308 0.00 0.00 0.00 4.30
2292 2318 4.569719 AGGGATTGTTTCATAGTTCGGT 57.430 40.909 0.00 0.00 0.00 4.69
2293 2319 4.918588 AGGGATTGTTTCATAGTTCGGTT 58.081 39.130 0.00 0.00 0.00 4.44
2294 2320 5.321927 AGGGATTGTTTCATAGTTCGGTTT 58.678 37.500 0.00 0.00 0.00 3.27
2295 2321 5.183140 AGGGATTGTTTCATAGTTCGGTTTG 59.817 40.000 0.00 0.00 0.00 2.93
2296 2322 5.048294 GGGATTGTTTCATAGTTCGGTTTGT 60.048 40.000 0.00 0.00 0.00 2.83
2297 2323 6.443792 GGATTGTTTCATAGTTCGGTTTGTT 58.556 36.000 0.00 0.00 0.00 2.83
2298 2324 7.308710 GGGATTGTTTCATAGTTCGGTTTGTTA 60.309 37.037 0.00 0.00 0.00 2.41
2299 2325 8.077386 GGATTGTTTCATAGTTCGGTTTGTTAA 58.923 33.333 0.00 0.00 0.00 2.01
2300 2326 9.453325 GATTGTTTCATAGTTCGGTTTGTTAAA 57.547 29.630 0.00 0.00 0.00 1.52
2301 2327 8.617761 TTGTTTCATAGTTCGGTTTGTTAAAC 57.382 30.769 0.00 0.00 40.65 2.01
2302 2328 7.759465 TGTTTCATAGTTCGGTTTGTTAAACA 58.241 30.769 6.74 0.00 43.15 2.83
2303 2329 8.407064 TGTTTCATAGTTCGGTTTGTTAAACAT 58.593 29.630 6.74 0.00 43.15 2.71
2304 2330 9.881529 GTTTCATAGTTCGGTTTGTTAAACATA 57.118 29.630 6.74 0.00 43.15 2.29
2311 2337 9.059260 AGTTCGGTTTGTTAAACATAATAGTGT 57.941 29.630 6.74 0.00 43.15 3.55
2314 2340 9.486497 TCGGTTTGTTAAACATAATAGTGTACA 57.514 29.630 6.74 0.00 43.15 2.90
2315 2341 9.749490 CGGTTTGTTAAACATAATAGTGTACAG 57.251 33.333 0.00 0.00 43.15 2.74
2325 2351 9.472361 AACATAATAGTGTACAGGTTATTAGCG 57.528 33.333 0.00 4.67 0.00 4.26
2326 2352 8.636213 ACATAATAGTGTACAGGTTATTAGCGT 58.364 33.333 0.00 5.19 0.00 5.07
2327 2353 8.912658 CATAATAGTGTACAGGTTATTAGCGTG 58.087 37.037 0.00 0.00 0.00 5.34
2328 2354 4.119442 AGTGTACAGGTTATTAGCGTGG 57.881 45.455 0.00 0.00 0.00 4.94
2329 2355 2.606272 GTGTACAGGTTATTAGCGTGGC 59.394 50.000 0.00 0.00 0.00 5.01
2330 2356 2.207590 GTACAGGTTATTAGCGTGGCC 58.792 52.381 0.00 0.00 0.00 5.36
2331 2357 0.909623 ACAGGTTATTAGCGTGGCCT 59.090 50.000 3.32 0.00 0.00 5.19
2332 2358 1.280998 ACAGGTTATTAGCGTGGCCTT 59.719 47.619 3.32 0.00 0.00 4.35
2333 2359 1.670811 CAGGTTATTAGCGTGGCCTTG 59.329 52.381 3.32 0.00 0.00 3.61
2334 2360 1.557832 AGGTTATTAGCGTGGCCTTGA 59.442 47.619 3.32 0.00 0.00 3.02
2335 2361 1.940613 GGTTATTAGCGTGGCCTTGAG 59.059 52.381 3.32 0.00 0.00 3.02
2336 2362 1.940613 GTTATTAGCGTGGCCTTGAGG 59.059 52.381 3.32 0.00 38.53 3.86
2346 2372 4.680237 CCTTGAGGCACACGGCGA 62.680 66.667 16.62 0.00 46.16 5.54
2347 2373 3.114616 CTTGAGGCACACGGCGAG 61.115 66.667 16.62 8.85 46.16 5.03
2348 2374 4.680237 TTGAGGCACACGGCGAGG 62.680 66.667 16.62 7.98 46.16 4.63
2350 2376 3.755628 GAGGCACACGGCGAGGTA 61.756 66.667 16.62 0.00 46.16 3.08
2351 2377 3.701604 GAGGCACACGGCGAGGTAG 62.702 68.421 16.62 7.59 46.16 3.18
2352 2378 4.065281 GGCACACGGCGAGGTAGT 62.065 66.667 16.62 0.44 46.16 2.73
2353 2379 2.048503 GCACACGGCGAGGTAGTT 60.049 61.111 16.62 0.00 0.00 2.24
2354 2380 1.213537 GCACACGGCGAGGTAGTTA 59.786 57.895 16.62 0.00 0.00 2.24
2355 2381 0.801067 GCACACGGCGAGGTAGTTAG 60.801 60.000 16.62 0.15 0.00 2.34
2356 2382 0.179145 CACACGGCGAGGTAGTTAGG 60.179 60.000 16.62 0.00 0.00 2.69
2357 2383 0.322816 ACACGGCGAGGTAGTTAGGA 60.323 55.000 16.62 0.00 0.00 2.94
2358 2384 0.381089 CACGGCGAGGTAGTTAGGAG 59.619 60.000 16.62 0.00 0.00 3.69
2359 2385 0.750911 ACGGCGAGGTAGTTAGGAGG 60.751 60.000 16.62 0.00 0.00 4.30
2360 2386 0.750911 CGGCGAGGTAGTTAGGAGGT 60.751 60.000 0.00 0.00 0.00 3.85
2361 2387 1.482954 GGCGAGGTAGTTAGGAGGTT 58.517 55.000 0.00 0.00 0.00 3.50
2362 2388 2.659428 GGCGAGGTAGTTAGGAGGTTA 58.341 52.381 0.00 0.00 0.00 2.85
2363 2389 3.229293 GGCGAGGTAGTTAGGAGGTTAT 58.771 50.000 0.00 0.00 0.00 1.89
2364 2390 3.255395 GGCGAGGTAGTTAGGAGGTTATC 59.745 52.174 0.00 0.00 0.00 1.75
2400 2426 9.767228 GTTTATCTCTCTTATCTCCTAAAACCC 57.233 37.037 0.00 0.00 0.00 4.11
2401 2427 9.731001 TTTATCTCTCTTATCTCCTAAAACCCT 57.269 33.333 0.00 0.00 0.00 4.34
2402 2428 7.849322 ATCTCTCTTATCTCCTAAAACCCTC 57.151 40.000 0.00 0.00 0.00 4.30
2403 2429 6.137559 TCTCTCTTATCTCCTAAAACCCTCC 58.862 44.000 0.00 0.00 0.00 4.30
2404 2430 6.068140 TCTCTCTTATCTCCTAAAACCCTCCT 60.068 42.308 0.00 0.00 0.00 3.69
2405 2431 5.900123 TCTCTTATCTCCTAAAACCCTCCTG 59.100 44.000 0.00 0.00 0.00 3.86
2406 2432 5.600749 TCTTATCTCCTAAAACCCTCCTGT 58.399 41.667 0.00 0.00 0.00 4.00
2407 2433 6.748969 TCTTATCTCCTAAAACCCTCCTGTA 58.251 40.000 0.00 0.00 0.00 2.74
2408 2434 7.194050 TCTTATCTCCTAAAACCCTCCTGTAA 58.806 38.462 0.00 0.00 0.00 2.41
2409 2435 7.849904 TCTTATCTCCTAAAACCCTCCTGTAAT 59.150 37.037 0.00 0.00 0.00 1.89
2410 2436 9.155785 CTTATCTCCTAAAACCCTCCTGTAATA 57.844 37.037 0.00 0.00 0.00 0.98
2411 2437 9.684702 TTATCTCCTAAAACCCTCCTGTAATAT 57.315 33.333 0.00 0.00 0.00 1.28
2412 2438 7.613551 TCTCCTAAAACCCTCCTGTAATATC 57.386 40.000 0.00 0.00 0.00 1.63
2413 2439 7.371043 TCTCCTAAAACCCTCCTGTAATATCT 58.629 38.462 0.00 0.00 0.00 1.98
2414 2440 7.509659 TCTCCTAAAACCCTCCTGTAATATCTC 59.490 40.741 0.00 0.00 0.00 2.75
2415 2441 7.371043 TCCTAAAACCCTCCTGTAATATCTCT 58.629 38.462 0.00 0.00 0.00 3.10
2416 2442 7.290248 TCCTAAAACCCTCCTGTAATATCTCTG 59.710 40.741 0.00 0.00 0.00 3.35
2417 2443 5.896073 AAACCCTCCTGTAATATCTCTGG 57.104 43.478 0.00 0.00 0.00 3.86
2418 2444 4.561254 ACCCTCCTGTAATATCTCTGGT 57.439 45.455 0.00 0.00 0.00 4.00
2419 2445 4.227197 ACCCTCCTGTAATATCTCTGGTG 58.773 47.826 0.00 0.00 0.00 4.17
2420 2446 3.580458 CCCTCCTGTAATATCTCTGGTGG 59.420 52.174 12.69 12.69 36.65 4.61
2421 2447 4.227197 CCTCCTGTAATATCTCTGGTGGT 58.773 47.826 12.00 0.00 34.18 4.16
2422 2448 4.656112 CCTCCTGTAATATCTCTGGTGGTT 59.344 45.833 12.00 0.00 34.18 3.67
2423 2449 5.839063 CCTCCTGTAATATCTCTGGTGGTTA 59.161 44.000 12.00 0.00 34.18 2.85
2424 2450 6.015010 CCTCCTGTAATATCTCTGGTGGTTAG 60.015 46.154 12.00 0.00 34.18 2.34
2425 2451 5.304614 TCCTGTAATATCTCTGGTGGTTAGC 59.695 44.000 0.00 0.00 0.00 3.09
2426 2452 5.511545 CCTGTAATATCTCTGGTGGTTAGCC 60.512 48.000 0.00 0.00 0.00 3.93
2427 2453 5.216622 TGTAATATCTCTGGTGGTTAGCCT 58.783 41.667 0.00 0.00 35.27 4.58
2428 2454 4.965200 AATATCTCTGGTGGTTAGCCTC 57.035 45.455 0.00 0.00 35.27 4.70
2429 2455 1.115467 ATCTCTGGTGGTTAGCCTCG 58.885 55.000 0.00 0.00 35.27 4.63
2430 2456 0.039180 TCTCTGGTGGTTAGCCTCGA 59.961 55.000 0.00 0.00 35.27 4.04
2431 2457 0.173708 CTCTGGTGGTTAGCCTCGAC 59.826 60.000 0.00 0.00 35.27 4.20
2432 2458 1.153823 CTGGTGGTTAGCCTCGACG 60.154 63.158 0.00 0.00 35.27 5.12
2433 2459 2.508663 GGTGGTTAGCCTCGACGC 60.509 66.667 0.00 0.00 35.27 5.19
2434 2460 2.572284 GTGGTTAGCCTCGACGCT 59.428 61.111 13.46 13.46 43.09 5.07
2435 2461 1.805945 GTGGTTAGCCTCGACGCTG 60.806 63.158 17.72 0.00 40.08 5.18
2436 2462 2.886124 GGTTAGCCTCGACGCTGC 60.886 66.667 17.72 10.63 40.08 5.25
2437 2463 2.886124 GTTAGCCTCGACGCTGCC 60.886 66.667 17.72 5.49 40.08 4.85
2438 2464 3.378602 TTAGCCTCGACGCTGCCA 61.379 61.111 17.72 0.00 40.08 4.92
2439 2465 2.721167 TTAGCCTCGACGCTGCCAT 61.721 57.895 17.72 0.00 40.08 4.40
2440 2466 2.629050 TTAGCCTCGACGCTGCCATC 62.629 60.000 17.72 0.00 40.08 3.51
2441 2467 4.521062 GCCTCGACGCTGCCATCT 62.521 66.667 0.00 0.00 0.00 2.90
2442 2468 2.279120 CCTCGACGCTGCCATCTC 60.279 66.667 0.00 0.00 0.00 2.75
2443 2469 2.279120 CTCGACGCTGCCATCTCC 60.279 66.667 0.00 0.00 0.00 3.71
2444 2470 2.755876 TCGACGCTGCCATCTCCT 60.756 61.111 0.00 0.00 0.00 3.69
2445 2471 2.584418 CGACGCTGCCATCTCCTG 60.584 66.667 0.00 0.00 0.00 3.86
2446 2472 2.581354 GACGCTGCCATCTCCTGT 59.419 61.111 0.00 0.00 0.00 4.00
2447 2473 1.816537 GACGCTGCCATCTCCTGTA 59.183 57.895 0.00 0.00 0.00 2.74
2448 2474 0.528684 GACGCTGCCATCTCCTGTAC 60.529 60.000 0.00 0.00 0.00 2.90
2449 2475 1.227380 CGCTGCCATCTCCTGTACC 60.227 63.158 0.00 0.00 0.00 3.34
2450 2476 1.227380 GCTGCCATCTCCTGTACCG 60.227 63.158 0.00 0.00 0.00 4.02
2451 2477 1.676678 GCTGCCATCTCCTGTACCGA 61.677 60.000 0.00 0.00 0.00 4.69
2452 2478 0.824109 CTGCCATCTCCTGTACCGAA 59.176 55.000 0.00 0.00 0.00 4.30
2453 2479 0.535335 TGCCATCTCCTGTACCGAAC 59.465 55.000 0.00 0.00 0.00 3.95
2454 2480 0.179081 GCCATCTCCTGTACCGAACC 60.179 60.000 0.00 0.00 0.00 3.62
2455 2481 0.464452 CCATCTCCTGTACCGAACCC 59.536 60.000 0.00 0.00 0.00 4.11
2456 2482 0.464452 CATCTCCTGTACCGAACCCC 59.536 60.000 0.00 0.00 0.00 4.95
2457 2483 0.690077 ATCTCCTGTACCGAACCCCC 60.690 60.000 0.00 0.00 0.00 5.40
2458 2484 1.305887 CTCCTGTACCGAACCCCCT 60.306 63.158 0.00 0.00 0.00 4.79
2459 2485 1.305549 TCCTGTACCGAACCCCCTC 60.306 63.158 0.00 0.00 0.00 4.30
2460 2486 1.611261 CCTGTACCGAACCCCCTCA 60.611 63.158 0.00 0.00 0.00 3.86
2461 2487 1.196104 CCTGTACCGAACCCCCTCAA 61.196 60.000 0.00 0.00 0.00 3.02
2462 2488 0.909623 CTGTACCGAACCCCCTCAAT 59.090 55.000 0.00 0.00 0.00 2.57
2463 2489 0.906775 TGTACCGAACCCCCTCAATC 59.093 55.000 0.00 0.00 0.00 2.67
2464 2490 0.906775 GTACCGAACCCCCTCAATCA 59.093 55.000 0.00 0.00 0.00 2.57
2465 2491 1.279846 GTACCGAACCCCCTCAATCAA 59.720 52.381 0.00 0.00 0.00 2.57
2466 2492 0.999712 ACCGAACCCCCTCAATCAAT 59.000 50.000 0.00 0.00 0.00 2.57
2467 2493 2.201830 ACCGAACCCCCTCAATCAATA 58.798 47.619 0.00 0.00 0.00 1.90
2468 2494 2.783510 ACCGAACCCCCTCAATCAATAT 59.216 45.455 0.00 0.00 0.00 1.28
2469 2495 3.977999 ACCGAACCCCCTCAATCAATATA 59.022 43.478 0.00 0.00 0.00 0.86
2470 2496 4.601857 ACCGAACCCCCTCAATCAATATAT 59.398 41.667 0.00 0.00 0.00 0.86
2471 2497 5.788533 ACCGAACCCCCTCAATCAATATATA 59.211 40.000 0.00 0.00 0.00 0.86
2472 2498 6.447084 ACCGAACCCCCTCAATCAATATATAT 59.553 38.462 0.00 0.00 0.00 0.86
2473 2499 7.626084 ACCGAACCCCCTCAATCAATATATATA 59.374 37.037 0.00 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
225 226 2.170607 CTCCACTAATCCGGACCAACAT 59.829 50.000 6.12 0.00 0.00 2.71
226 227 1.553248 CTCCACTAATCCGGACCAACA 59.447 52.381 6.12 0.00 0.00 3.33
242 243 4.141620 GCATCCAGAGAATTAGGAACTCCA 60.142 45.833 0.00 0.00 41.75 3.86
293 294 4.698304 TCGACATTAATCTTGAACCAACCC 59.302 41.667 0.00 0.00 0.00 4.11
365 366 1.219824 ACTTCCCCTCCTCGTCCCTA 61.220 60.000 0.00 0.00 0.00 3.53
513 515 2.289547 GCAAGAGACGCTACCACAAAAA 59.710 45.455 0.00 0.00 0.00 1.94
703 705 1.834896 ACACAGGGCGGTACATCATTA 59.165 47.619 0.00 0.00 0.00 1.90
739 741 3.857157 ACCACACCAGTACACTCATTT 57.143 42.857 0.00 0.00 0.00 2.32
799 801 3.068165 CGTGTGGAGCAGGTGAGATATTA 59.932 47.826 0.00 0.00 0.00 0.98
801 803 1.410517 CGTGTGGAGCAGGTGAGATAT 59.589 52.381 0.00 0.00 0.00 1.63
802 804 0.817654 CGTGTGGAGCAGGTGAGATA 59.182 55.000 0.00 0.00 0.00 1.98
803 805 1.593787 CGTGTGGAGCAGGTGAGAT 59.406 57.895 0.00 0.00 0.00 2.75
804 806 3.051210 CGTGTGGAGCAGGTGAGA 58.949 61.111 0.00 0.00 0.00 3.27
805 807 1.877576 TAGCGTGTGGAGCAGGTGAG 61.878 60.000 0.00 0.00 37.01 3.51
806 808 1.468506 TTAGCGTGTGGAGCAGGTGA 61.469 55.000 0.00 0.00 37.01 4.02
807 809 0.602638 TTTAGCGTGTGGAGCAGGTG 60.603 55.000 0.00 0.00 37.01 4.00
808 810 0.107831 TTTTAGCGTGTGGAGCAGGT 59.892 50.000 0.00 0.00 37.01 4.00
809 811 1.234821 TTTTTAGCGTGTGGAGCAGG 58.765 50.000 0.00 0.00 37.01 4.85
827 829 8.357402 AGGTTGCGAGTTTATGTTAATCTTTTT 58.643 29.630 0.00 0.00 0.00 1.94
828 830 7.807907 CAGGTTGCGAGTTTATGTTAATCTTTT 59.192 33.333 0.00 0.00 0.00 2.27
829 831 7.040686 ACAGGTTGCGAGTTTATGTTAATCTTT 60.041 33.333 0.00 0.00 0.00 2.52
830 832 6.430000 ACAGGTTGCGAGTTTATGTTAATCTT 59.570 34.615 0.00 0.00 0.00 2.40
831 833 5.938125 ACAGGTTGCGAGTTTATGTTAATCT 59.062 36.000 0.00 0.00 0.00 2.40
832 834 6.178239 ACAGGTTGCGAGTTTATGTTAATC 57.822 37.500 0.00 0.00 0.00 1.75
833 835 6.016610 ACAACAGGTTGCGAGTTTATGTTAAT 60.017 34.615 11.84 0.00 44.03 1.40
834 836 5.297278 ACAACAGGTTGCGAGTTTATGTTAA 59.703 36.000 11.84 0.00 44.03 2.01
835 837 4.817464 ACAACAGGTTGCGAGTTTATGTTA 59.183 37.500 11.84 0.00 44.03 2.41
836 838 3.630312 ACAACAGGTTGCGAGTTTATGTT 59.370 39.130 11.84 0.00 44.03 2.71
837 839 3.211045 ACAACAGGTTGCGAGTTTATGT 58.789 40.909 11.84 0.00 44.03 2.29
838 840 3.896648 ACAACAGGTTGCGAGTTTATG 57.103 42.857 11.84 0.00 44.03 1.90
839 841 5.703592 TGAATACAACAGGTTGCGAGTTTAT 59.296 36.000 11.84 0.00 44.03 1.40
840 842 5.057819 TGAATACAACAGGTTGCGAGTTTA 58.942 37.500 11.84 0.00 44.03 2.01
841 843 3.880490 TGAATACAACAGGTTGCGAGTTT 59.120 39.130 11.84 0.00 44.03 2.66
842 844 3.472652 TGAATACAACAGGTTGCGAGTT 58.527 40.909 11.84 2.60 44.03 3.01
843 845 3.120321 TGAATACAACAGGTTGCGAGT 57.880 42.857 11.84 0.16 44.03 4.18
844 846 3.684305 TGATGAATACAACAGGTTGCGAG 59.316 43.478 11.84 0.00 44.03 5.03
845 847 3.669536 TGATGAATACAACAGGTTGCGA 58.330 40.909 11.84 1.34 44.03 5.10
846 848 4.345288 CATGATGAATACAACAGGTTGCG 58.655 43.478 11.84 0.00 44.03 4.85
855 857 9.625747 TGAGCTTTATTACCATGATGAATACAA 57.374 29.630 0.00 0.00 0.00 2.41
865 867 9.013229 TGGCTTTATATGAGCTTTATTACCATG 57.987 33.333 11.29 0.00 40.01 3.66
949 953 5.241403 TCTTGAAACCTAAGAGGCAATGA 57.759 39.130 0.00 0.00 39.63 2.57
973 977 7.496529 TCGATCTTCAACTTGTGAAAATCTT 57.503 32.000 2.04 0.00 45.67 2.40
980 984 5.723295 TCATGATCGATCTTCAACTTGTGA 58.277 37.500 25.02 11.99 0.00 3.58
1004 1008 2.417558 GAACACCAGGCTGCTCCCTT 62.418 60.000 9.56 0.00 31.24 3.95
1032 1036 1.446272 GCTCCCGACGAACAAGAGG 60.446 63.158 0.00 0.00 0.00 3.69
1054 1058 5.350365 TGTTATGCTTACATTCTCCGAACAC 59.650 40.000 0.00 0.00 37.74 3.32
1087 1091 7.428826 GGAAATCCATTTTGGCTCTATACAAG 58.571 38.462 0.00 0.00 37.47 3.16
1292 1302 1.669999 GCTCCCGCTTGATGCCAAAT 61.670 55.000 0.00 0.00 38.78 2.32
1295 1305 3.565961 TTGCTCCCGCTTGATGCCA 62.566 57.895 0.00 0.00 38.78 4.92
1320 1330 3.560025 CCCTTCTGTAGCACCAATTCACT 60.560 47.826 0.00 0.00 0.00 3.41
1412 1422 1.955778 CTTCCACATGTTTCCAGCACA 59.044 47.619 0.00 0.00 0.00 4.57
1446 1456 3.211963 GGATGGCATGTCGGGCAC 61.212 66.667 3.81 0.00 46.76 5.01
1472 1482 4.953940 AATAACAACCACCATGCTTGTT 57.046 36.364 7.26 7.26 40.40 2.83
1544 1554 5.906113 ATAGATATTGCGAGATCGGTCTT 57.094 39.130 0.00 0.00 40.23 3.01
1545 1555 8.678593 TTATATAGATATTGCGAGATCGGTCT 57.321 34.615 0.00 0.00 40.23 3.85
1580 1590 9.948964 AGCACTTGAGTTATTCATATATATGCA 57.051 29.630 16.59 7.64 35.27 3.96
1608 1618 9.512588 AATTATCCTTCGCTCATCTTTAATCAT 57.487 29.630 0.00 0.00 0.00 2.45
1622 1632 6.260050 TGGAACTATCACAAATTATCCTTCGC 59.740 38.462 0.00 0.00 0.00 4.70
1725 1736 4.043200 GTGCAGGGGAGCGTTTGC 62.043 66.667 0.00 0.00 43.24 3.68
1769 1780 7.066043 ACGGCAATAAGAAAATAACCATCGTAA 59.934 33.333 0.00 0.00 0.00 3.18
1883 1899 5.168569 TCTTACTTTCATGCCGAAGTAGTG 58.831 41.667 12.65 10.91 34.32 2.74
1962 1978 1.401552 CCACTTATTGCGTCCATGTGG 59.598 52.381 0.00 0.00 37.69 4.17
1989 2009 4.565564 CCGAATCGTTGAAGTAGGGTAAAG 59.434 45.833 0.82 0.00 0.00 1.85
2001 2023 0.883153 TCTTCGTCCCGAATCGTTGA 59.117 50.000 0.82 0.00 44.85 3.18
2009 2031 1.476471 GGGTCTATCTCTTCGTCCCGA 60.476 57.143 0.00 0.00 0.00 5.14
2181 2207 9.971744 GTGTTAATATTGTTTTGGATTCATTGC 57.028 29.630 0.00 0.00 0.00 3.56
2200 2226 4.280929 GGGGAAGCTCTTTGTTGTGTTAAT 59.719 41.667 0.00 0.00 0.00 1.40
2220 2246 4.340617 TGGAAATAACTAGCAAAGTGGGG 58.659 43.478 0.00 0.00 38.88 4.96
2250 2276 3.328382 AACTGCAAGAACACGGCTATA 57.672 42.857 0.00 0.00 37.43 1.31
2254 2280 0.517316 CCTAACTGCAAGAACACGGC 59.483 55.000 0.00 0.00 37.43 5.68
2258 2284 4.098914 ACAATCCCTAACTGCAAGAACA 57.901 40.909 0.00 0.00 37.43 3.18
2259 2285 5.009610 TGAAACAATCCCTAACTGCAAGAAC 59.990 40.000 0.00 0.00 37.43 3.01
2260 2286 5.136828 TGAAACAATCCCTAACTGCAAGAA 58.863 37.500 0.00 0.00 37.43 2.52
2261 2287 4.724399 TGAAACAATCCCTAACTGCAAGA 58.276 39.130 0.00 0.00 37.43 3.02
2262 2288 5.649782 ATGAAACAATCCCTAACTGCAAG 57.350 39.130 0.00 0.00 42.29 4.01
2263 2289 6.245408 ACTATGAAACAATCCCTAACTGCAA 58.755 36.000 0.00 0.00 0.00 4.08
2264 2290 5.815581 ACTATGAAACAATCCCTAACTGCA 58.184 37.500 0.00 0.00 0.00 4.41
2265 2291 6.456988 CGAACTATGAAACAATCCCTAACTGC 60.457 42.308 0.00 0.00 0.00 4.40
2266 2292 6.037172 CCGAACTATGAAACAATCCCTAACTG 59.963 42.308 0.00 0.00 0.00 3.16
2267 2293 6.113411 CCGAACTATGAAACAATCCCTAACT 58.887 40.000 0.00 0.00 0.00 2.24
2268 2294 5.878669 ACCGAACTATGAAACAATCCCTAAC 59.121 40.000 0.00 0.00 0.00 2.34
2269 2295 6.057321 ACCGAACTATGAAACAATCCCTAA 57.943 37.500 0.00 0.00 0.00 2.69
2270 2296 5.687166 ACCGAACTATGAAACAATCCCTA 57.313 39.130 0.00 0.00 0.00 3.53
2271 2297 4.569719 ACCGAACTATGAAACAATCCCT 57.430 40.909 0.00 0.00 0.00 4.20
2272 2298 5.048294 ACAAACCGAACTATGAAACAATCCC 60.048 40.000 0.00 0.00 0.00 3.85
2273 2299 6.009115 ACAAACCGAACTATGAAACAATCC 57.991 37.500 0.00 0.00 0.00 3.01
2274 2300 9.453325 TTTAACAAACCGAACTATGAAACAATC 57.547 29.630 0.00 0.00 0.00 2.67
2275 2301 9.240159 GTTTAACAAACCGAACTATGAAACAAT 57.760 29.630 0.00 0.00 35.35 2.71
2276 2302 8.242053 TGTTTAACAAACCGAACTATGAAACAA 58.758 29.630 0.00 0.00 40.67 2.83
2277 2303 7.759465 TGTTTAACAAACCGAACTATGAAACA 58.241 30.769 0.00 0.00 40.67 2.83
2278 2304 8.791355 ATGTTTAACAAACCGAACTATGAAAC 57.209 30.769 0.66 0.00 40.67 2.78
2285 2311 9.059260 ACACTATTATGTTTAACAAACCGAACT 57.941 29.630 0.66 0.00 40.67 3.01
2288 2314 9.486497 TGTACACTATTATGTTTAACAAACCGA 57.514 29.630 0.66 0.00 40.67 4.69
2289 2315 9.749490 CTGTACACTATTATGTTTAACAAACCG 57.251 33.333 0.66 0.00 40.67 4.44
2299 2325 9.472361 CGCTAATAACCTGTACACTATTATGTT 57.528 33.333 0.00 0.00 33.85 2.71
2300 2326 8.636213 ACGCTAATAACCTGTACACTATTATGT 58.364 33.333 0.00 0.73 36.56 2.29
2301 2327 8.912658 CACGCTAATAACCTGTACACTATTATG 58.087 37.037 0.00 0.22 0.00 1.90
2302 2328 8.086522 CCACGCTAATAACCTGTACACTATTAT 58.913 37.037 0.00 0.00 0.00 1.28
2303 2329 7.428020 CCACGCTAATAACCTGTACACTATTA 58.572 38.462 0.00 0.04 0.00 0.98
2304 2330 6.278363 CCACGCTAATAACCTGTACACTATT 58.722 40.000 0.00 0.00 0.00 1.73
2305 2331 5.738208 GCCACGCTAATAACCTGTACACTAT 60.738 44.000 0.00 0.00 0.00 2.12
2306 2332 4.440525 GCCACGCTAATAACCTGTACACTA 60.441 45.833 0.00 0.00 0.00 2.74
2307 2333 3.677976 GCCACGCTAATAACCTGTACACT 60.678 47.826 0.00 0.00 0.00 3.55
2308 2334 2.606272 GCCACGCTAATAACCTGTACAC 59.394 50.000 0.00 0.00 0.00 2.90
2309 2335 2.419021 GGCCACGCTAATAACCTGTACA 60.419 50.000 0.00 0.00 0.00 2.90
2310 2336 2.159000 AGGCCACGCTAATAACCTGTAC 60.159 50.000 5.01 0.00 0.00 2.90
2311 2337 2.112998 AGGCCACGCTAATAACCTGTA 58.887 47.619 5.01 0.00 0.00 2.74
2312 2338 0.909623 AGGCCACGCTAATAACCTGT 59.090 50.000 5.01 0.00 0.00 4.00
2313 2339 1.670811 CAAGGCCACGCTAATAACCTG 59.329 52.381 5.01 0.00 0.00 4.00
2314 2340 1.557832 TCAAGGCCACGCTAATAACCT 59.442 47.619 5.01 0.00 0.00 3.50
2315 2341 1.940613 CTCAAGGCCACGCTAATAACC 59.059 52.381 5.01 0.00 0.00 2.85
2316 2342 1.940613 CCTCAAGGCCACGCTAATAAC 59.059 52.381 5.01 0.00 0.00 1.89
2317 2343 2.325583 CCTCAAGGCCACGCTAATAA 57.674 50.000 5.01 0.00 0.00 1.40
2319 2345 4.963878 CCTCAAGGCCACGCTAAT 57.036 55.556 5.01 0.00 0.00 1.73
2329 2355 4.680237 TCGCCGTGTGCCTCAAGG 62.680 66.667 6.60 6.60 46.03 3.61
2330 2356 3.114616 CTCGCCGTGTGCCTCAAG 61.115 66.667 0.00 0.00 36.24 3.02
2331 2357 4.680237 CCTCGCCGTGTGCCTCAA 62.680 66.667 0.00 0.00 36.24 3.02
2333 2359 3.701604 CTACCTCGCCGTGTGCCTC 62.702 68.421 0.00 0.00 36.24 4.70
2334 2360 3.760035 CTACCTCGCCGTGTGCCT 61.760 66.667 0.00 0.00 36.24 4.75
2335 2361 2.216750 TAACTACCTCGCCGTGTGCC 62.217 60.000 0.00 0.00 36.24 5.01
2336 2362 0.801067 CTAACTACCTCGCCGTGTGC 60.801 60.000 0.00 0.00 0.00 4.57
2337 2363 0.179145 CCTAACTACCTCGCCGTGTG 60.179 60.000 0.00 0.00 0.00 3.82
2338 2364 0.322816 TCCTAACTACCTCGCCGTGT 60.323 55.000 0.00 0.00 0.00 4.49
2339 2365 0.381089 CTCCTAACTACCTCGCCGTG 59.619 60.000 0.00 0.00 0.00 4.94
2340 2366 0.750911 CCTCCTAACTACCTCGCCGT 60.751 60.000 0.00 0.00 0.00 5.68
2341 2367 0.750911 ACCTCCTAACTACCTCGCCG 60.751 60.000 0.00 0.00 0.00 6.46
2342 2368 1.482954 AACCTCCTAACTACCTCGCC 58.517 55.000 0.00 0.00 0.00 5.54
2343 2369 3.255395 GGATAACCTCCTAACTACCTCGC 59.745 52.174 0.00 0.00 41.29 5.03
2374 2400 9.767228 GGGTTTTAGGAGATAAGAGAGATAAAC 57.233 37.037 0.00 0.00 0.00 2.01
2375 2401 9.731001 AGGGTTTTAGGAGATAAGAGAGATAAA 57.269 33.333 0.00 0.00 0.00 1.40
2376 2402 9.369672 GAGGGTTTTAGGAGATAAGAGAGATAA 57.630 37.037 0.00 0.00 0.00 1.75
2377 2403 7.951245 GGAGGGTTTTAGGAGATAAGAGAGATA 59.049 40.741 0.00 0.00 0.00 1.98
2378 2404 6.785466 GGAGGGTTTTAGGAGATAAGAGAGAT 59.215 42.308 0.00 0.00 0.00 2.75
2379 2405 6.068140 AGGAGGGTTTTAGGAGATAAGAGAGA 60.068 42.308 0.00 0.00 0.00 3.10
2380 2406 6.041523 CAGGAGGGTTTTAGGAGATAAGAGAG 59.958 46.154 0.00 0.00 0.00 3.20
2381 2407 5.900123 CAGGAGGGTTTTAGGAGATAAGAGA 59.100 44.000 0.00 0.00 0.00 3.10
2382 2408 5.663556 ACAGGAGGGTTTTAGGAGATAAGAG 59.336 44.000 0.00 0.00 0.00 2.85
2383 2409 5.600749 ACAGGAGGGTTTTAGGAGATAAGA 58.399 41.667 0.00 0.00 0.00 2.10
2384 2410 5.959583 ACAGGAGGGTTTTAGGAGATAAG 57.040 43.478 0.00 0.00 0.00 1.73
2385 2411 9.684702 ATATTACAGGAGGGTTTTAGGAGATAA 57.315 33.333 0.00 0.00 0.00 1.75
2386 2412 9.322769 GATATTACAGGAGGGTTTTAGGAGATA 57.677 37.037 0.00 0.00 0.00 1.98
2387 2413 8.019652 AGATATTACAGGAGGGTTTTAGGAGAT 58.980 37.037 0.00 0.00 0.00 2.75
2388 2414 7.371043 AGATATTACAGGAGGGTTTTAGGAGA 58.629 38.462 0.00 0.00 0.00 3.71
2389 2415 7.511028 AGAGATATTACAGGAGGGTTTTAGGAG 59.489 40.741 0.00 0.00 0.00 3.69
2390 2416 7.290248 CAGAGATATTACAGGAGGGTTTTAGGA 59.710 40.741 0.00 0.00 0.00 2.94
2391 2417 7.445945 CAGAGATATTACAGGAGGGTTTTAGG 58.554 42.308 0.00 0.00 0.00 2.69
2392 2418 7.071321 ACCAGAGATATTACAGGAGGGTTTTAG 59.929 40.741 0.00 0.00 0.00 1.85
2393 2419 6.906901 ACCAGAGATATTACAGGAGGGTTTTA 59.093 38.462 0.00 0.00 0.00 1.52
2394 2420 5.731678 ACCAGAGATATTACAGGAGGGTTTT 59.268 40.000 0.00 0.00 0.00 2.43
2395 2421 5.131142 CACCAGAGATATTACAGGAGGGTTT 59.869 44.000 0.00 0.00 0.00 3.27
2396 2422 4.656112 CACCAGAGATATTACAGGAGGGTT 59.344 45.833 0.00 0.00 0.00 4.11
2397 2423 4.227197 CACCAGAGATATTACAGGAGGGT 58.773 47.826 0.00 0.00 0.00 4.34
2398 2424 3.580458 CCACCAGAGATATTACAGGAGGG 59.420 52.174 0.00 0.00 0.00 4.30
2399 2425 4.227197 ACCACCAGAGATATTACAGGAGG 58.773 47.826 0.00 0.00 33.76 4.30
2400 2426 5.878406 AACCACCAGAGATATTACAGGAG 57.122 43.478 0.00 0.00 0.00 3.69
2401 2427 5.304614 GCTAACCACCAGAGATATTACAGGA 59.695 44.000 0.00 0.00 0.00 3.86
2402 2428 5.511545 GGCTAACCACCAGAGATATTACAGG 60.512 48.000 0.00 0.00 35.26 4.00
2403 2429 5.305644 AGGCTAACCACCAGAGATATTACAG 59.694 44.000 0.00 0.00 39.06 2.74
2404 2430 5.216622 AGGCTAACCACCAGAGATATTACA 58.783 41.667 0.00 0.00 39.06 2.41
2405 2431 5.565045 CGAGGCTAACCACCAGAGATATTAC 60.565 48.000 0.00 0.00 39.06 1.89
2406 2432 4.523173 CGAGGCTAACCACCAGAGATATTA 59.477 45.833 0.00 0.00 39.06 0.98
2407 2433 3.322254 CGAGGCTAACCACCAGAGATATT 59.678 47.826 0.00 0.00 39.06 1.28
2408 2434 2.894126 CGAGGCTAACCACCAGAGATAT 59.106 50.000 0.00 0.00 39.06 1.63
2409 2435 2.092049 TCGAGGCTAACCACCAGAGATA 60.092 50.000 0.00 0.00 39.06 1.98
2410 2436 1.115467 CGAGGCTAACCACCAGAGAT 58.885 55.000 0.00 0.00 39.06 2.75
2411 2437 0.039180 TCGAGGCTAACCACCAGAGA 59.961 55.000 0.00 0.00 39.06 3.10
2412 2438 0.173708 GTCGAGGCTAACCACCAGAG 59.826 60.000 0.00 0.00 39.06 3.35
2413 2439 1.592400 CGTCGAGGCTAACCACCAGA 61.592 60.000 0.00 0.00 39.06 3.86
2414 2440 1.153823 CGTCGAGGCTAACCACCAG 60.154 63.158 0.00 0.00 39.06 4.00
2415 2441 2.967397 CGTCGAGGCTAACCACCA 59.033 61.111 0.00 0.00 39.06 4.17
2416 2442 2.508663 GCGTCGAGGCTAACCACC 60.509 66.667 22.16 0.00 39.06 4.61
2417 2443 1.805945 CAGCGTCGAGGCTAACCAC 60.806 63.158 30.12 0.38 42.53 4.16
2418 2444 2.571757 CAGCGTCGAGGCTAACCA 59.428 61.111 30.12 0.00 42.53 3.67
2419 2445 2.886124 GCAGCGTCGAGGCTAACC 60.886 66.667 30.12 17.99 42.53 2.85
2420 2446 2.886124 GGCAGCGTCGAGGCTAAC 60.886 66.667 30.12 23.77 42.53 2.34
2421 2447 2.629050 GATGGCAGCGTCGAGGCTAA 62.629 60.000 30.12 19.37 42.53 3.09
2422 2448 3.138930 GATGGCAGCGTCGAGGCTA 62.139 63.158 30.12 17.01 42.53 3.93
2423 2449 4.521062 GATGGCAGCGTCGAGGCT 62.521 66.667 25.97 25.97 46.13 4.58
2424 2450 4.521062 AGATGGCAGCGTCGAGGC 62.521 66.667 21.96 21.96 0.00 4.70
2425 2451 2.279120 GAGATGGCAGCGTCGAGG 60.279 66.667 0.00 0.00 0.00 4.63
2426 2452 2.279120 GGAGATGGCAGCGTCGAG 60.279 66.667 0.00 0.00 0.00 4.04
2427 2453 2.755876 AGGAGATGGCAGCGTCGA 60.756 61.111 0.00 0.00 0.00 4.20
2428 2454 2.004808 TACAGGAGATGGCAGCGTCG 62.005 60.000 0.00 0.00 0.00 5.12
2429 2455 0.528684 GTACAGGAGATGGCAGCGTC 60.529 60.000 0.00 0.00 0.00 5.19
2430 2456 1.517832 GTACAGGAGATGGCAGCGT 59.482 57.895 0.00 0.00 0.00 5.07
2431 2457 1.227380 GGTACAGGAGATGGCAGCG 60.227 63.158 0.00 0.00 0.00 5.18
2432 2458 1.227380 CGGTACAGGAGATGGCAGC 60.227 63.158 0.00 0.00 0.00 5.25
2433 2459 0.824109 TTCGGTACAGGAGATGGCAG 59.176 55.000 0.00 0.00 0.00 4.85
2434 2460 0.535335 GTTCGGTACAGGAGATGGCA 59.465 55.000 0.00 0.00 0.00 4.92
2435 2461 0.179081 GGTTCGGTACAGGAGATGGC 60.179 60.000 0.00 0.00 0.00 4.40
2436 2462 0.464452 GGGTTCGGTACAGGAGATGG 59.536 60.000 0.00 0.00 0.00 3.51
2437 2463 0.464452 GGGGTTCGGTACAGGAGATG 59.536 60.000 0.00 0.00 0.00 2.90
2438 2464 0.690077 GGGGGTTCGGTACAGGAGAT 60.690 60.000 0.00 0.00 0.00 2.75
2439 2465 1.305549 GGGGGTTCGGTACAGGAGA 60.306 63.158 0.00 0.00 0.00 3.71
2440 2466 1.305887 AGGGGGTTCGGTACAGGAG 60.306 63.158 0.00 0.00 0.00 3.69
2441 2467 1.305549 GAGGGGGTTCGGTACAGGA 60.306 63.158 0.00 0.00 0.00 3.86
2442 2468 1.196104 TTGAGGGGGTTCGGTACAGG 61.196 60.000 0.00 0.00 0.00 4.00
2443 2469 0.909623 ATTGAGGGGGTTCGGTACAG 59.090 55.000 0.00 0.00 0.00 2.74
2444 2470 0.906775 GATTGAGGGGGTTCGGTACA 59.093 55.000 0.00 0.00 0.00 2.90
2445 2471 0.906775 TGATTGAGGGGGTTCGGTAC 59.093 55.000 0.00 0.00 0.00 3.34
2446 2472 1.659022 TTGATTGAGGGGGTTCGGTA 58.341 50.000 0.00 0.00 0.00 4.02
2447 2473 0.999712 ATTGATTGAGGGGGTTCGGT 59.000 50.000 0.00 0.00 0.00 4.69
2448 2474 3.508845 ATATTGATTGAGGGGGTTCGG 57.491 47.619 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.