Multiple sequence alignment - TraesCS6B01G292500

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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 TraesCS6B01G292500 chr6B 100.000 3112 0 0 1 3112 526102297 526099186 0.000000e+00 5747.0
1 TraesCS6B01G292500 chr6B 83.984 256 41 0 1013 1268 461961858 461961603 2.400000e-61 246.0
2 TraesCS6B01G292500 chr6B 83.465 254 42 0 1013 1266 461903664 461903411 1.440000e-58 237.0
3 TraesCS6B01G292500 chr6B 83.203 256 43 0 1013 1268 461848254 461847999 5.190000e-58 235.0
4 TraesCS6B01G292500 chr6A 91.311 1312 51 20 1 1297 490300822 490302085 0.000000e+00 1733.0
5 TraesCS6B01G292500 chr6A 92.009 876 41 11 1355 2214 490302113 490302975 0.000000e+00 1203.0
6 TraesCS6B01G292500 chr6A 89.525 716 52 12 2327 3038 490303094 490303790 0.000000e+00 885.0
7 TraesCS6B01G292500 chr6A 87.671 73 9 0 3040 3112 612262131 612262059 5.530000e-13 86.1
8 TraesCS6B01G292500 chr6D 94.305 878 33 7 1355 2216 352835857 352836733 0.000000e+00 1328.0
9 TraesCS6B01G292500 chr6D 93.577 903 37 7 382 1276 352834912 352835801 0.000000e+00 1327.0
10 TraesCS6B01G292500 chr6D 89.259 810 52 18 2249 3038 352836731 352837525 0.000000e+00 981.0
11 TraesCS6B01G292500 chr6D 91.497 294 15 2 1 294 352833515 352833798 2.250000e-106 396.0
12 TraesCS6B01G292500 chr6D 84.375 256 40 0 1013 1268 298207274 298207019 5.150000e-63 252.0
13 TraesCS6B01G292500 chr6D 83.665 251 39 2 1019 1268 296993543 296993294 5.190000e-58 235.0
14 TraesCS6B01G292500 chr6D 83.077 260 36 5 1013 1268 298399315 298399060 2.410000e-56 230.0
15 TraesCS6B01G292500 chr6D 84.753 223 34 0 1046 1268 297407335 297407113 1.120000e-54 224.0
16 TraesCS6B01G292500 chr6D 93.269 104 3 2 291 391 352833983 352834085 1.930000e-32 150.0
17 TraesCS6B01G292500 chr2D 94.444 90 4 1 1376 1464 555395715 555395804 1.510000e-28 137.0
18 TraesCS6B01G292500 chr2D 95.238 84 4 0 1381 1464 555577006 555577089 1.950000e-27 134.0
19 TraesCS6B01G292500 chr2B 95.349 86 4 0 1379 1464 662373640 662373725 1.510000e-28 137.0
20 TraesCS6B01G292500 chr2B 93.333 90 5 1 1376 1464 661851750 661851839 7.000000e-27 132.0
21 TraesCS6B01G292500 chr2A 94.186 86 5 0 1379 1464 695150630 695150715 7.000000e-27 132.0
22 TraesCS6B01G292500 chr3D 92.208 77 6 0 3036 3112 549051474 549051398 3.280000e-20 110.0
23 TraesCS6B01G292500 chr7D 89.412 85 9 0 1383 1467 165635180 165635264 1.180000e-19 108.0
24 TraesCS6B01G292500 chr7D 85.333 75 11 0 3038 3112 200490922 200490848 9.250000e-11 78.7
25 TraesCS6B01G292500 chr7B 89.412 85 9 0 1383 1467 128822544 128822628 1.180000e-19 108.0
26 TraesCS6B01G292500 chr7B 88.462 78 8 1 3035 3112 26283333 26283257 3.300000e-15 93.5
27 TraesCS6B01G292500 chr4B 89.333 75 8 0 3038 3112 3640353 3640427 9.190000e-16 95.3
28 TraesCS6B01G292500 chr4B 91.071 56 5 0 3057 3112 615563699 615563754 3.330000e-10 76.8
29 TraesCS6B01G292500 chr7A 88.312 77 9 0 3036 3112 520801280 520801204 3.300000e-15 93.5
30 TraesCS6B01G292500 chr5B 87.179 78 8 2 3036 3112 301194706 301194782 1.540000e-13 87.9
31 TraesCS6B01G292500 chr5B 91.667 60 3 2 3054 3112 488899766 488899824 7.150000e-12 82.4
32 TraesCS6B01G292500 chr3A 100.000 29 0 0 3036 3064 458990214 458990242 2.000000e-03 54.7


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 TraesCS6B01G292500 chr6B 526099186 526102297 3111 True 5747.000000 5747 100.000000 1 3112 1 chr6B.!!$R4 3111
1 TraesCS6B01G292500 chr6A 490300822 490303790 2968 False 1273.666667 1733 90.948333 1 3038 3 chr6A.!!$F1 3037
2 TraesCS6B01G292500 chr6D 352833515 352837525 4010 False 836.400000 1328 92.381400 1 3038 5 chr6D.!!$F1 3037

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
847 1897 0.541863 CCCTGCCACCAGTAAGTAGG 59.458 60.0 0.0 0.0 37.38 3.18 F
1329 2386 0.033366 GGAAATTGTTGGGCGTGCTT 59.967 50.0 0.0 0.0 0.00 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1667 2724 0.179034 GGATGTCCATGACTGGCTCC 60.179 60.0 0.00 0.0 42.8 4.70 R
2935 4061 0.247736 GAGGCACCGACTGAGTTGAT 59.752 55.0 0.25 0.0 0.0 2.57 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
40 41 6.599356 TTACAGATCCTACTTGCACAACTA 57.401 37.500 0.00 0.00 0.00 2.24
41 42 5.483685 ACAGATCCTACTTGCACAACTAA 57.516 39.130 0.00 0.00 0.00 2.24
42 43 5.865085 ACAGATCCTACTTGCACAACTAAA 58.135 37.500 0.00 0.00 0.00 1.85
43 44 6.296026 ACAGATCCTACTTGCACAACTAAAA 58.704 36.000 0.00 0.00 0.00 1.52
44 45 6.770785 ACAGATCCTACTTGCACAACTAAAAA 59.229 34.615 0.00 0.00 0.00 1.94
173 180 2.468831 CTGCTGCTAGCTGTACTTAGC 58.531 52.381 21.03 16.73 42.97 3.09
184 191 6.240549 AGCTGTACTTAGCATAGGTTGAAT 57.759 37.500 7.83 0.00 46.07 2.57
227 234 2.253610 ACCCGTTCAACTAGATGGACA 58.746 47.619 11.61 0.00 0.00 4.02
228 235 2.838202 ACCCGTTCAACTAGATGGACAT 59.162 45.455 11.61 0.00 0.00 3.06
229 236 3.198068 CCCGTTCAACTAGATGGACATG 58.802 50.000 11.61 2.32 0.00 3.21
230 237 3.198068 CCGTTCAACTAGATGGACATGG 58.802 50.000 11.61 2.19 0.00 3.66
231 238 3.118775 CCGTTCAACTAGATGGACATGGA 60.119 47.826 11.61 0.00 0.00 3.41
232 239 3.865745 CGTTCAACTAGATGGACATGGAC 59.134 47.826 11.61 0.00 0.00 4.02
257 264 7.505585 ACCCAAAGTTCAGATTGTTTGATTAGA 59.494 33.333 0.00 0.00 32.65 2.10
434 1470 5.684626 GGAAAAGCGCAATCATCTCTAATTG 59.315 40.000 11.47 0.00 36.24 2.32
447 1485 3.263425 TCTCTAATTGTCCCCAACCACTC 59.737 47.826 0.00 0.00 32.26 3.51
600 1646 4.397420 AGTGCACATCCTGATTAACAACA 58.603 39.130 21.04 0.00 0.00 3.33
699 1749 3.554342 CCAGGAGATGGCGGGAGG 61.554 72.222 0.00 0.00 43.83 4.30
700 1750 3.554342 CAGGAGATGGCGGGAGGG 61.554 72.222 0.00 0.00 0.00 4.30
701 1751 3.767268 AGGAGATGGCGGGAGGGA 61.767 66.667 0.00 0.00 0.00 4.20
702 1752 2.527875 GGAGATGGCGGGAGGGAT 60.528 66.667 0.00 0.00 0.00 3.85
754 1804 4.751060 TGGTAGGTAAACGCAATAGTCTG 58.249 43.478 0.00 0.00 0.00 3.51
773 1823 1.429687 TGGGAGGTAGGAGGATAGAGC 59.570 57.143 0.00 0.00 0.00 4.09
774 1824 1.272816 GGGAGGTAGGAGGATAGAGCC 60.273 61.905 0.00 0.00 0.00 4.70
775 1825 1.614850 GGAGGTAGGAGGATAGAGCCG 60.615 61.905 0.00 0.00 0.00 5.52
847 1897 0.541863 CCCTGCCACCAGTAAGTAGG 59.458 60.000 0.00 0.00 37.38 3.18
850 1900 2.180276 CTGCCACCAGTAAGTAGGAGT 58.820 52.381 0.00 0.00 34.31 3.85
854 1904 4.018141 TGCCACCAGTAAGTAGGAGTAGTA 60.018 45.833 0.00 0.00 0.00 1.82
899 1949 1.418342 CGCACATATATACCGGCCGC 61.418 60.000 22.85 0.00 0.00 6.53
929 1979 1.434622 GATCCATGCTCTGCACCGTG 61.435 60.000 0.00 0.00 43.04 4.94
960 2010 2.822701 GACCCGGGCCAATCGAAC 60.823 66.667 24.08 0.00 0.00 3.95
1104 2155 0.179073 CCTACATCCAGAAGCACGGG 60.179 60.000 0.00 0.00 35.19 5.28
1277 2334 3.950756 TGCTCGGCAACAAGTAAGCTTG 61.951 50.000 9.86 5.87 44.67 4.01
1297 2354 0.171007 ATTTGCCTGCATTCGGTTCG 59.829 50.000 0.00 0.00 0.00 3.95
1299 2356 4.179579 GCCTGCATTCGGTTCGGC 62.180 66.667 0.00 0.00 0.00 5.54
1300 2357 2.745884 CCTGCATTCGGTTCGGCA 60.746 61.111 0.00 0.00 34.66 5.69
1303 2360 0.248215 CTGCATTCGGTTCGGCAATC 60.248 55.000 0.00 0.00 35.59 2.67
1304 2361 0.957888 TGCATTCGGTTCGGCAATCA 60.958 50.000 0.00 0.00 32.54 2.57
1305 2362 0.248215 GCATTCGGTTCGGCAATCAG 60.248 55.000 0.00 0.00 0.00 2.90
1307 2364 1.086696 ATTCGGTTCGGCAATCAGTG 58.913 50.000 0.00 0.00 0.00 3.66
1321 2378 3.947910 ATCAGTGCTGGAAATTGTTGG 57.052 42.857 0.00 0.00 0.00 3.77
1323 2380 0.681175 AGTGCTGGAAATTGTTGGGC 59.319 50.000 0.00 0.00 0.00 5.36
1324 2381 0.667184 GTGCTGGAAATTGTTGGGCG 60.667 55.000 0.00 0.00 0.00 6.13
1325 2382 1.112315 TGCTGGAAATTGTTGGGCGT 61.112 50.000 0.00 0.00 0.00 5.68
1326 2383 0.667184 GCTGGAAATTGTTGGGCGTG 60.667 55.000 0.00 0.00 0.00 5.34
1327 2384 0.667184 CTGGAAATTGTTGGGCGTGC 60.667 55.000 0.00 0.00 0.00 5.34
1328 2385 1.112315 TGGAAATTGTTGGGCGTGCT 61.112 50.000 0.00 0.00 0.00 4.40
1329 2386 0.033366 GGAAATTGTTGGGCGTGCTT 59.967 50.000 0.00 0.00 0.00 3.91
1330 2387 1.540146 GGAAATTGTTGGGCGTGCTTT 60.540 47.619 0.00 0.00 0.00 3.51
1331 2388 2.288518 GGAAATTGTTGGGCGTGCTTTA 60.289 45.455 0.00 0.00 0.00 1.85
1332 2389 3.385577 GAAATTGTTGGGCGTGCTTTAA 58.614 40.909 0.00 0.00 0.00 1.52
1333 2390 3.676291 AATTGTTGGGCGTGCTTTAAT 57.324 38.095 0.00 0.00 0.00 1.40
1334 2391 3.676291 ATTGTTGGGCGTGCTTTAATT 57.324 38.095 0.00 0.00 0.00 1.40
1335 2392 2.430546 TGTTGGGCGTGCTTTAATTG 57.569 45.000 0.00 0.00 0.00 2.32
1336 2393 1.000283 TGTTGGGCGTGCTTTAATTGG 60.000 47.619 0.00 0.00 0.00 3.16
1337 2394 1.000394 GTTGGGCGTGCTTTAATTGGT 60.000 47.619 0.00 0.00 0.00 3.67
1338 2395 0.885196 TGGGCGTGCTTTAATTGGTC 59.115 50.000 0.00 0.00 0.00 4.02
1339 2396 0.172578 GGGCGTGCTTTAATTGGTCC 59.827 55.000 0.00 0.00 0.00 4.46
1340 2397 0.885196 GGCGTGCTTTAATTGGTCCA 59.115 50.000 0.00 0.00 0.00 4.02
1341 2398 1.135402 GGCGTGCTTTAATTGGTCCAG 60.135 52.381 0.00 0.00 0.00 3.86
1342 2399 1.135402 GCGTGCTTTAATTGGTCCAGG 60.135 52.381 0.00 0.00 0.00 4.45
1343 2400 2.432444 CGTGCTTTAATTGGTCCAGGA 58.568 47.619 0.00 0.00 0.00 3.86
1344 2401 2.420022 CGTGCTTTAATTGGTCCAGGAG 59.580 50.000 0.00 0.00 0.00 3.69
1345 2402 3.421844 GTGCTTTAATTGGTCCAGGAGT 58.578 45.455 0.00 0.00 0.00 3.85
1346 2403 3.191371 GTGCTTTAATTGGTCCAGGAGTG 59.809 47.826 0.00 0.00 0.00 3.51
1347 2404 2.755103 GCTTTAATTGGTCCAGGAGTGG 59.245 50.000 0.00 0.00 46.63 4.00
1348 2405 3.814316 GCTTTAATTGGTCCAGGAGTGGT 60.814 47.826 0.00 0.00 45.28 4.16
1349 2406 3.713826 TTAATTGGTCCAGGAGTGGTC 57.286 47.619 0.00 0.00 45.28 4.02
1350 2407 0.324943 AATTGGTCCAGGAGTGGTCG 59.675 55.000 0.00 0.00 45.28 4.79
1351 2408 2.185310 ATTGGTCCAGGAGTGGTCGC 62.185 60.000 0.00 0.00 45.28 5.19
1352 2409 2.997897 GGTCCAGGAGTGGTCGCT 60.998 66.667 0.00 0.00 45.28 4.93
1353 2410 2.262915 GTCCAGGAGTGGTCGCTG 59.737 66.667 0.00 0.00 45.28 5.18
1364 2421 0.320683 TGGTCGCTGGTGTTCTGATG 60.321 55.000 0.00 0.00 0.00 3.07
1366 2423 0.037326 GTCGCTGGTGTTCTGATGGA 60.037 55.000 0.00 0.00 0.00 3.41
1367 2424 0.904649 TCGCTGGTGTTCTGATGGAT 59.095 50.000 0.00 0.00 0.00 3.41
1381 2438 9.829507 TGTTCTGATGGATTTTTGTTATTTGTT 57.170 25.926 0.00 0.00 0.00 2.83
1385 2442 9.695526 CTGATGGATTTTTGTTATTTGTTCAGA 57.304 29.630 0.00 0.00 0.00 3.27
1562 2619 1.006571 GTTGTCTTCGGCGTCCTCA 60.007 57.895 6.85 0.00 0.00 3.86
1637 2694 1.079875 GCAACGAGCCCGAAACGATA 61.080 55.000 0.00 0.00 39.50 2.92
1638 2695 1.352114 CAACGAGCCCGAAACGATAA 58.648 50.000 0.00 0.00 39.50 1.75
1705 2762 4.451150 GGACATGCTGGCCGACGA 62.451 66.667 0.00 0.00 34.69 4.20
1769 2826 2.750637 TGCTCGTCGTCCTCCCTC 60.751 66.667 0.00 0.00 0.00 4.30
1921 2993 1.263356 TGTACGACCAAGGAGGGAAG 58.737 55.000 0.00 0.00 43.89 3.46
2032 3104 2.062177 GCTACCCGGGCCAACTCTA 61.062 63.158 24.08 1.81 0.00 2.43
2068 3140 2.707791 ACATGGTGATGGTATCCTCCTG 59.292 50.000 0.00 0.00 33.39 3.86
2074 3146 3.942439 GGTATCCTCCTGCCCGCC 61.942 72.222 0.00 0.00 0.00 6.13
2205 3277 5.108405 CGAAACGTTTGAGTTGCTTATTTGG 60.108 40.000 20.10 0.00 34.14 3.28
2215 3290 7.271511 TGAGTTGCTTATTTGGTTTCATTGTT 58.728 30.769 0.00 0.00 0.00 2.83
2216 3291 7.768120 TGAGTTGCTTATTTGGTTTCATTGTTT 59.232 29.630 0.00 0.00 0.00 2.83
2217 3292 7.918643 AGTTGCTTATTTGGTTTCATTGTTTG 58.081 30.769 0.00 0.00 0.00 2.93
2218 3293 7.768120 AGTTGCTTATTTGGTTTCATTGTTTGA 59.232 29.630 0.00 0.00 0.00 2.69
2219 3294 7.712264 TGCTTATTTGGTTTCATTGTTTGAG 57.288 32.000 0.00 0.00 35.27 3.02
2220 3295 7.271511 TGCTTATTTGGTTTCATTGTTTGAGT 58.728 30.769 0.00 0.00 35.27 3.41
2221 3296 8.417106 TGCTTATTTGGTTTCATTGTTTGAGTA 58.583 29.630 0.00 0.00 35.27 2.59
2222 3297 9.255304 GCTTATTTGGTTTCATTGTTTGAGTAA 57.745 29.630 0.00 0.00 35.27 2.24
2228 3303 9.658799 TTGGTTTCATTGTTTGAGTAAAATTCA 57.341 25.926 0.00 0.00 35.27 2.57
2229 3304 9.658799 TGGTTTCATTGTTTGAGTAAAATTCAA 57.341 25.926 0.00 0.00 35.27 2.69
2240 3315 9.825109 TTTGAGTAAAATTCAAAGTAAAAGGGG 57.175 29.630 0.00 0.00 39.05 4.79
2241 3316 7.438564 TGAGTAAAATTCAAAGTAAAAGGGGC 58.561 34.615 0.00 0.00 0.00 5.80
2242 3317 6.452242 AGTAAAATTCAAAGTAAAAGGGGCG 58.548 36.000 0.00 0.00 0.00 6.13
2243 3318 3.953712 AATTCAAAGTAAAAGGGGCGG 57.046 42.857 0.00 0.00 0.00 6.13
2244 3319 1.623163 TTCAAAGTAAAAGGGGCGGG 58.377 50.000 0.00 0.00 0.00 6.13
2245 3320 0.479378 TCAAAGTAAAAGGGGCGGGT 59.521 50.000 0.00 0.00 0.00 5.28
2246 3321 0.885879 CAAAGTAAAAGGGGCGGGTC 59.114 55.000 0.00 0.00 0.00 4.46
2247 3322 0.607217 AAAGTAAAAGGGGCGGGTCG 60.607 55.000 0.00 0.00 0.00 4.79
2248 3323 2.437180 GTAAAAGGGGCGGGTCGG 60.437 66.667 0.00 0.00 0.00 4.79
2249 3324 2.929477 TAAAAGGGGCGGGTCGGT 60.929 61.111 0.00 0.00 0.00 4.69
2270 3345 5.743398 CGGTTAGAATGCACATACAAATTGG 59.257 40.000 0.00 0.00 0.00 3.16
2360 3473 3.699038 ACCAAATGTACCATGGCATGTAC 59.301 43.478 24.80 23.33 37.77 2.90
2361 3474 3.953612 CCAAATGTACCATGGCATGTACT 59.046 43.478 24.80 10.22 0.00 2.73
2362 3475 5.129634 CCAAATGTACCATGGCATGTACTA 58.870 41.667 24.80 16.07 0.00 1.82
2409 3522 2.277969 CCAGTGAGAAGTGCTATGCAG 58.722 52.381 0.00 0.00 40.08 4.41
2425 3538 1.927210 CAGACATGCGTACGGATGC 59.073 57.895 38.91 31.39 45.87 3.91
2447 3560 9.369904 GATGCAGTATGTCATTTGGTTAATTTT 57.630 29.630 0.00 0.00 39.31 1.82
2721 3837 1.532523 TGATTGCATGTTGCTTCGGA 58.467 45.000 0.75 0.00 45.31 4.55
2795 3919 0.935942 AATGGGAGCATGGGAATGGA 59.064 50.000 0.00 0.00 0.00 3.41
2822 3946 6.239289 CCATATTTTGGTGGTGTTGAGTTCTT 60.239 38.462 0.00 0.00 40.99 2.52
2837 3961 9.357161 TGTTGAGTTCTTAATTTTAAGGGCTTA 57.643 29.630 9.56 3.86 40.35 3.09
2849 3973 5.890424 TTAAGGGCTTACATTCCTTTTCG 57.110 39.130 0.00 0.00 40.86 3.46
2850 3974 3.713826 AGGGCTTACATTCCTTTTCGA 57.286 42.857 0.00 0.00 0.00 3.71
2858 3982 3.959943 ACATTCCTTTTCGAAAACACCG 58.040 40.909 19.08 9.59 0.00 4.94
2862 3986 3.529533 TCCTTTTCGAAAACACCGTACA 58.470 40.909 19.08 0.00 0.00 2.90
2863 3987 3.937706 TCCTTTTCGAAAACACCGTACAA 59.062 39.130 19.08 0.00 0.00 2.41
2880 4004 9.089601 CACCGTACAACATATTAGTCATTGTTA 57.910 33.333 0.00 0.00 35.26 2.41
2922 4047 6.935741 TTTTTGAGATCCACTTCTTTTCGA 57.064 33.333 0.00 0.00 0.00 3.71
2929 4054 6.292150 AGATCCACTTCTTTTCGAGAAAACT 58.708 36.000 6.89 0.00 43.56 2.66
2935 4061 7.021196 CACTTCTTTTCGAGAAAACTGACAAA 58.979 34.615 6.89 0.00 43.56 2.83
2938 4064 7.315247 TCTTTTCGAGAAAACTGACAAATCA 57.685 32.000 6.89 0.00 35.57 2.57
2940 4066 7.696453 TCTTTTCGAGAAAACTGACAAATCAAC 59.304 33.333 6.89 0.00 35.57 3.18
2945 4071 6.238211 CGAGAAAACTGACAAATCAACTCAGT 60.238 38.462 0.00 0.00 45.28 3.41
2946 4072 7.020914 AGAAAACTGACAAATCAACTCAGTC 57.979 36.000 0.22 0.00 43.09 3.51
2994 4121 4.408596 ACACTTTGTCAATTTGGGTGGAAT 59.591 37.500 0.00 0.00 0.00 3.01
3026 4153 2.860293 CGACGATGTTGCGCCTTT 59.140 55.556 4.18 0.00 33.86 3.11
3038 4165 0.863119 GCGCCTTTGCAATCGCTAAG 60.863 55.000 24.39 9.57 46.54 2.18
3044 4171 2.900122 TTGCAATCGCTAAGAGCAAC 57.100 45.000 0.00 0.00 42.58 4.17
3045 4172 2.099141 TGCAATCGCTAAGAGCAACT 57.901 45.000 0.00 0.00 42.58 3.16
3046 4173 2.002586 TGCAATCGCTAAGAGCAACTC 58.997 47.619 0.00 0.00 42.58 3.01
3047 4174 2.275318 GCAATCGCTAAGAGCAACTCT 58.725 47.619 0.00 0.00 42.58 3.24
3048 4175 3.119137 TGCAATCGCTAAGAGCAACTCTA 60.119 43.478 0.00 0.00 42.58 2.43
3049 4176 3.865745 GCAATCGCTAAGAGCAACTCTAA 59.134 43.478 0.00 0.00 42.58 2.10
3050 4177 4.509600 GCAATCGCTAAGAGCAACTCTAAT 59.490 41.667 0.00 0.00 42.58 1.73
3051 4178 5.692204 GCAATCGCTAAGAGCAACTCTAATA 59.308 40.000 0.00 0.00 42.58 0.98
3052 4179 6.128956 GCAATCGCTAAGAGCAACTCTAATAG 60.129 42.308 0.00 0.00 42.58 1.73
3053 4180 6.885952 ATCGCTAAGAGCAACTCTAATAGA 57.114 37.500 7.28 0.00 42.58 1.98
3054 4181 6.062434 TCGCTAAGAGCAACTCTAATAGAC 57.938 41.667 7.28 0.55 42.58 2.59
3055 4182 5.008811 TCGCTAAGAGCAACTCTAATAGACC 59.991 44.000 7.28 0.00 42.58 3.85
3056 4183 5.534407 GCTAAGAGCAACTCTAATAGACCC 58.466 45.833 7.28 0.00 40.28 4.46
3057 4184 5.510009 GCTAAGAGCAACTCTAATAGACCCC 60.510 48.000 7.28 0.00 40.28 4.95
3058 4185 2.959707 AGAGCAACTCTAATAGACCCCG 59.040 50.000 0.00 0.00 39.28 5.73
3059 4186 1.413077 AGCAACTCTAATAGACCCCGC 59.587 52.381 0.00 0.00 0.00 6.13
3060 4187 1.138266 GCAACTCTAATAGACCCCGCA 59.862 52.381 0.00 0.00 0.00 5.69
3061 4188 2.419574 GCAACTCTAATAGACCCCGCAA 60.420 50.000 0.00 0.00 0.00 4.85
3062 4189 3.869065 CAACTCTAATAGACCCCGCAAA 58.131 45.455 0.00 0.00 0.00 3.68
3063 4190 4.258543 CAACTCTAATAGACCCCGCAAAA 58.741 43.478 0.00 0.00 0.00 2.44
3064 4191 4.563140 ACTCTAATAGACCCCGCAAAAA 57.437 40.909 0.00 0.00 0.00 1.94
3065 4192 5.112129 ACTCTAATAGACCCCGCAAAAAT 57.888 39.130 0.00 0.00 0.00 1.82
3066 4193 4.881850 ACTCTAATAGACCCCGCAAAAATG 59.118 41.667 0.00 0.00 0.00 2.32
3067 4194 4.204012 TCTAATAGACCCCGCAAAAATGG 58.796 43.478 0.00 0.00 0.00 3.16
3068 4195 1.111277 ATAGACCCCGCAAAAATGGC 58.889 50.000 0.00 0.00 0.00 4.40
3069 4196 0.251386 TAGACCCCGCAAAAATGGCA 60.251 50.000 0.00 0.00 0.00 4.92
3070 4197 1.118356 AGACCCCGCAAAAATGGCAA 61.118 50.000 0.00 0.00 0.00 4.52
3071 4198 0.250081 GACCCCGCAAAAATGGCAAA 60.250 50.000 0.00 0.00 0.00 3.68
3072 4199 0.533978 ACCCCGCAAAAATGGCAAAC 60.534 50.000 0.00 0.00 0.00 2.93
3073 4200 1.233950 CCCCGCAAAAATGGCAAACC 61.234 55.000 0.00 0.00 0.00 3.27
3074 4201 1.233950 CCCGCAAAAATGGCAAACCC 61.234 55.000 0.00 0.00 33.59 4.11
3075 4202 1.564295 CCGCAAAAATGGCAAACCCG 61.564 55.000 0.00 0.00 35.87 5.28
3076 4203 1.573932 GCAAAAATGGCAAACCCGC 59.426 52.632 0.00 0.00 35.87 6.13
3077 4204 1.162800 GCAAAAATGGCAAACCCGCA 61.163 50.000 0.00 0.00 35.87 5.69
3078 4205 1.303309 CAAAAATGGCAAACCCGCAA 58.697 45.000 0.00 0.00 35.87 4.85
3079 4206 1.672881 CAAAAATGGCAAACCCGCAAA 59.327 42.857 0.00 0.00 35.87 3.68
3080 4207 2.044123 AAAATGGCAAACCCGCAAAA 57.956 40.000 0.00 0.00 35.87 2.44
3081 4208 2.268762 AAATGGCAAACCCGCAAAAT 57.731 40.000 0.00 0.00 35.87 1.82
3082 4209 2.268762 AATGGCAAACCCGCAAAATT 57.731 40.000 0.00 0.00 35.87 1.82
3083 4210 1.807139 ATGGCAAACCCGCAAAATTC 58.193 45.000 0.00 0.00 35.87 2.17
3084 4211 0.755686 TGGCAAACCCGCAAAATTCT 59.244 45.000 0.00 0.00 35.87 2.40
3085 4212 1.147473 GGCAAACCCGCAAAATTCTG 58.853 50.000 0.00 0.00 0.00 3.02
3086 4213 1.147473 GCAAACCCGCAAAATTCTGG 58.853 50.000 0.00 0.00 0.00 3.86
3087 4214 1.147473 CAAACCCGCAAAATTCTGGC 58.853 50.000 0.00 0.00 0.00 4.85
3096 4223 3.861834 GCAAAATTCTGGCGAGTATACG 58.138 45.455 0.00 0.00 0.00 3.06
3097 4224 3.303132 GCAAAATTCTGGCGAGTATACGG 60.303 47.826 0.00 0.00 0.00 4.02
3098 4225 2.814280 AATTCTGGCGAGTATACGGG 57.186 50.000 0.00 0.00 0.00 5.28
3099 4226 0.317479 ATTCTGGCGAGTATACGGGC 59.683 55.000 13.99 13.99 0.00 6.13
3100 4227 0.754217 TTCTGGCGAGTATACGGGCT 60.754 55.000 19.11 0.00 0.00 5.19
3101 4228 1.170919 TCTGGCGAGTATACGGGCTC 61.171 60.000 19.11 11.39 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 118 8.449251 ACTTTGTCGTTGGTTAAATAAGGTTA 57.551 30.769 0.00 0.00 0.00 2.85
115 119 7.337480 ACTTTGTCGTTGGTTAAATAAGGTT 57.663 32.000 0.00 0.00 0.00 3.50
173 180 4.498009 GCGTGAAATGGGATTCAACCTATG 60.498 45.833 0.00 0.00 40.76 2.23
184 191 6.383415 GTTAAATTTAGTGCGTGAAATGGGA 58.617 36.000 0.00 0.00 0.00 4.37
227 234 4.118168 ACAATCTGAACTTTGGGTCCAT 57.882 40.909 0.00 0.00 0.00 3.41
228 235 3.593442 ACAATCTGAACTTTGGGTCCA 57.407 42.857 0.00 0.00 0.00 4.02
229 236 4.340950 TCAAACAATCTGAACTTTGGGTCC 59.659 41.667 5.67 0.00 0.00 4.46
230 237 5.514274 TCAAACAATCTGAACTTTGGGTC 57.486 39.130 5.67 0.00 0.00 4.46
231 238 6.484364 AATCAAACAATCTGAACTTTGGGT 57.516 33.333 5.67 0.00 0.00 4.51
232 239 7.885297 TCTAATCAAACAATCTGAACTTTGGG 58.115 34.615 5.67 0.00 0.00 4.12
257 264 9.566432 GTCTCCATTAATTAATCTGTTCAGGAT 57.434 33.333 7.76 0.00 0.00 3.24
409 1445 2.715046 AGAGATGATTGCGCTTTTCCA 58.285 42.857 9.73 0.00 0.00 3.53
434 1470 1.783071 TTTTTGGAGTGGTTGGGGAC 58.217 50.000 0.00 0.00 0.00 4.46
483 1521 1.271054 TGTTCTCTGCAGCCCTTTCTC 60.271 52.381 9.47 0.00 0.00 2.87
600 1646 0.396974 CTACTCCTCCCTGCTGCTCT 60.397 60.000 0.00 0.00 0.00 4.09
693 1743 1.392589 CAAAATGTCCATCCCTCCCG 58.607 55.000 0.00 0.00 0.00 5.14
694 1744 1.114627 GCAAAATGTCCATCCCTCCC 58.885 55.000 0.00 0.00 0.00 4.30
695 1745 2.027385 GAGCAAAATGTCCATCCCTCC 58.973 52.381 0.00 0.00 0.00 4.30
696 1746 2.948315 GAGAGCAAAATGTCCATCCCTC 59.052 50.000 0.00 0.00 0.00 4.30
697 1747 2.357569 GGAGAGCAAAATGTCCATCCCT 60.358 50.000 0.00 0.00 32.88 4.20
698 1748 2.027385 GGAGAGCAAAATGTCCATCCC 58.973 52.381 0.00 0.00 32.88 3.85
699 1749 2.686915 CAGGAGAGCAAAATGTCCATCC 59.313 50.000 0.00 0.00 35.08 3.51
700 1750 2.686915 CCAGGAGAGCAAAATGTCCATC 59.313 50.000 0.00 0.00 35.08 3.51
701 1751 2.622452 CCCAGGAGAGCAAAATGTCCAT 60.622 50.000 0.00 0.00 35.08 3.41
702 1752 1.272092 CCCAGGAGAGCAAAATGTCCA 60.272 52.381 0.00 0.00 35.08 4.02
754 1804 1.272816 GGCTCTATCCTCCTACCTCCC 60.273 61.905 0.00 0.00 0.00 4.30
773 1823 3.222121 GGAGGCCCTACGTACCGG 61.222 72.222 0.00 0.00 0.00 5.28
774 1824 3.222121 GGGAGGCCCTACGTACCG 61.222 72.222 0.00 0.00 41.34 4.02
775 1825 1.686800 TTGGGAGGCCCTACGTACC 60.687 63.158 0.00 0.00 45.70 3.34
797 1847 1.961277 CGACAGGTGACAAGCCCAC 60.961 63.158 0.00 0.00 0.00 4.61
825 1875 1.078143 CTTACTGGTGGCAGGGCTC 60.078 63.158 0.00 0.00 0.00 4.70
847 1897 2.251893 GCACTGACGCAACTACTACTC 58.748 52.381 0.00 0.00 0.00 2.59
850 1900 0.876399 TCGCACTGACGCAACTACTA 59.124 50.000 0.00 0.00 0.00 1.82
854 1904 3.038417 GCTCGCACTGACGCAACT 61.038 61.111 0.00 0.00 0.00 3.16
879 1929 0.108992 CGGCCGGTATATATGTGCGT 60.109 55.000 20.10 0.00 0.00 5.24
905 1955 2.281345 CAGAGCATGGATCGGGGC 60.281 66.667 0.00 0.00 0.00 5.80
929 1979 4.083862 GGTCGAGGAGGTGGTGGC 62.084 72.222 0.00 0.00 0.00 5.01
952 2002 3.241804 GCTCGCTTGTTCTAGTTCGATTG 60.242 47.826 0.00 0.00 0.00 2.67
960 2010 2.257894 CACTCTGCTCGCTTGTTCTAG 58.742 52.381 0.00 0.00 0.00 2.43
989 2039 4.660938 GCCCCATATCGGCCACCC 62.661 72.222 2.24 0.00 40.78 4.61
1277 2334 1.795162 CGAACCGAATGCAGGCAAATC 60.795 52.381 0.00 0.00 0.00 2.17
1284 2341 0.248215 GATTGCCGAACCGAATGCAG 60.248 55.000 0.00 0.00 34.81 4.41
1299 2356 3.991773 CCAACAATTTCCAGCACTGATTG 59.008 43.478 0.00 4.37 34.69 2.67
1300 2357 3.007182 CCCAACAATTTCCAGCACTGATT 59.993 43.478 0.00 0.00 0.00 2.57
1303 2360 1.606224 GCCCAACAATTTCCAGCACTG 60.606 52.381 0.00 0.00 0.00 3.66
1304 2361 0.681175 GCCCAACAATTTCCAGCACT 59.319 50.000 0.00 0.00 0.00 4.40
1305 2362 0.667184 CGCCCAACAATTTCCAGCAC 60.667 55.000 0.00 0.00 0.00 4.40
1307 2364 0.667184 CACGCCCAACAATTTCCAGC 60.667 55.000 0.00 0.00 0.00 4.85
1308 2365 0.667184 GCACGCCCAACAATTTCCAG 60.667 55.000 0.00 0.00 0.00 3.86
1309 2366 1.112315 AGCACGCCCAACAATTTCCA 61.112 50.000 0.00 0.00 0.00 3.53
1310 2367 0.033366 AAGCACGCCCAACAATTTCC 59.967 50.000 0.00 0.00 0.00 3.13
1311 2368 1.864565 AAAGCACGCCCAACAATTTC 58.135 45.000 0.00 0.00 0.00 2.17
1312 2369 3.460857 TTAAAGCACGCCCAACAATTT 57.539 38.095 0.00 0.00 0.00 1.82
1314 2371 3.324993 CAATTAAAGCACGCCCAACAAT 58.675 40.909 0.00 0.00 0.00 2.71
1316 2373 1.000283 CCAATTAAAGCACGCCCAACA 60.000 47.619 0.00 0.00 0.00 3.33
1317 2374 1.000394 ACCAATTAAAGCACGCCCAAC 60.000 47.619 0.00 0.00 0.00 3.77
1320 2377 0.172578 GGACCAATTAAAGCACGCCC 59.827 55.000 0.00 0.00 0.00 6.13
1321 2378 0.885196 TGGACCAATTAAAGCACGCC 59.115 50.000 0.00 0.00 0.00 5.68
1323 2380 2.420022 CTCCTGGACCAATTAAAGCACG 59.580 50.000 0.00 0.00 0.00 5.34
1324 2381 3.191371 CACTCCTGGACCAATTAAAGCAC 59.809 47.826 0.00 0.00 0.00 4.40
1325 2382 3.420893 CACTCCTGGACCAATTAAAGCA 58.579 45.455 0.00 0.00 0.00 3.91
1326 2383 2.755103 CCACTCCTGGACCAATTAAAGC 59.245 50.000 0.00 0.00 40.55 3.51
1327 2384 4.010349 GACCACTCCTGGACCAATTAAAG 58.990 47.826 0.00 0.00 40.55 1.85
1328 2385 3.558321 CGACCACTCCTGGACCAATTAAA 60.558 47.826 0.00 0.00 40.55 1.52
1329 2386 2.027561 CGACCACTCCTGGACCAATTAA 60.028 50.000 0.00 0.00 40.55 1.40
1330 2387 1.553248 CGACCACTCCTGGACCAATTA 59.447 52.381 0.00 0.00 40.55 1.40
1331 2388 0.324943 CGACCACTCCTGGACCAATT 59.675 55.000 0.00 0.00 40.55 2.32
1332 2389 1.983224 CGACCACTCCTGGACCAAT 59.017 57.895 0.00 0.00 40.55 3.16
1333 2390 2.879233 GCGACCACTCCTGGACCAA 61.879 63.158 0.00 0.00 40.55 3.67
1334 2391 3.311110 GCGACCACTCCTGGACCA 61.311 66.667 0.00 0.00 40.55 4.02
1335 2392 2.997897 AGCGACCACTCCTGGACC 60.998 66.667 0.00 0.00 40.55 4.46
1336 2393 2.262915 CAGCGACCACTCCTGGAC 59.737 66.667 0.00 0.00 40.55 4.02
1339 2396 2.047844 CACCAGCGACCACTCCTG 60.048 66.667 0.00 0.00 0.00 3.86
1340 2397 2.100879 GAACACCAGCGACCACTCCT 62.101 60.000 0.00 0.00 0.00 3.69
1341 2398 1.668151 GAACACCAGCGACCACTCC 60.668 63.158 0.00 0.00 0.00 3.85
1342 2399 0.946221 CAGAACACCAGCGACCACTC 60.946 60.000 0.00 0.00 0.00 3.51
1343 2400 1.069765 CAGAACACCAGCGACCACT 59.930 57.895 0.00 0.00 0.00 4.00
1344 2401 0.320771 ATCAGAACACCAGCGACCAC 60.321 55.000 0.00 0.00 0.00 4.16
1345 2402 0.320683 CATCAGAACACCAGCGACCA 60.321 55.000 0.00 0.00 0.00 4.02
1346 2403 1.021390 CCATCAGAACACCAGCGACC 61.021 60.000 0.00 0.00 0.00 4.79
1347 2404 0.037326 TCCATCAGAACACCAGCGAC 60.037 55.000 0.00 0.00 0.00 5.19
1348 2405 0.904649 ATCCATCAGAACACCAGCGA 59.095 50.000 0.00 0.00 0.00 4.93
1349 2406 1.742761 AATCCATCAGAACACCAGCG 58.257 50.000 0.00 0.00 0.00 5.18
1350 2407 4.240096 CAAAAATCCATCAGAACACCAGC 58.760 43.478 0.00 0.00 0.00 4.85
1351 2408 5.458041 ACAAAAATCCATCAGAACACCAG 57.542 39.130 0.00 0.00 0.00 4.00
1352 2409 5.867903 AACAAAAATCCATCAGAACACCA 57.132 34.783 0.00 0.00 0.00 4.17
1353 2410 8.711457 CAAATAACAAAAATCCATCAGAACACC 58.289 33.333 0.00 0.00 0.00 4.16
1364 2421 8.831715 ACCATCTGAACAAATAACAAAAATCC 57.168 30.769 0.00 0.00 0.00 3.01
1366 2423 8.428063 TGGACCATCTGAACAAATAACAAAAAT 58.572 29.630 0.00 0.00 0.00 1.82
1367 2424 7.786030 TGGACCATCTGAACAAATAACAAAAA 58.214 30.769 0.00 0.00 0.00 1.94
1381 2438 0.103026 CGCGATCTTGGACCATCTGA 59.897 55.000 0.00 0.00 0.00 3.27
1385 2442 2.203070 GCCGCGATCTTGGACCAT 60.203 61.111 8.23 0.00 0.00 3.55
1537 2594 2.033194 GCCGAAGACAACGAAGGGG 61.033 63.158 0.00 0.00 0.00 4.79
1637 2694 0.179145 CGAGAGGCGATGGTACGTTT 60.179 55.000 0.00 0.00 44.57 3.60
1638 2695 1.028330 TCGAGAGGCGATGGTACGTT 61.028 55.000 0.00 0.00 45.59 3.99
1667 2724 0.179034 GGATGTCCATGACTGGCTCC 60.179 60.000 0.00 0.00 42.80 4.70
1796 2853 2.283173 TCGAGCAGCTCCTCCACA 60.283 61.111 17.16 0.00 0.00 4.17
1921 2993 2.185310 ATCCTCCAACCACCACTCGC 62.185 60.000 0.00 0.00 0.00 5.03
1971 3043 4.570874 GGGCTGGGATTCCTCCGC 62.571 72.222 2.01 3.07 43.11 5.54
2002 3074 0.536687 CGGGTAGCCTATCTGGTCGA 60.537 60.000 9.73 0.00 38.35 4.20
2032 3104 1.916777 ATGTCCCCCTCCGTTTCGT 60.917 57.895 0.00 0.00 0.00 3.85
2215 3290 7.929245 GCCCCTTTTACTTTGAATTTTACTCAA 59.071 33.333 0.00 0.00 0.00 3.02
2216 3291 7.438564 GCCCCTTTTACTTTGAATTTTACTCA 58.561 34.615 0.00 0.00 0.00 3.41
2217 3292 6.584942 CGCCCCTTTTACTTTGAATTTTACTC 59.415 38.462 0.00 0.00 0.00 2.59
2218 3293 6.452242 CGCCCCTTTTACTTTGAATTTTACT 58.548 36.000 0.00 0.00 0.00 2.24
2219 3294 5.636121 CCGCCCCTTTTACTTTGAATTTTAC 59.364 40.000 0.00 0.00 0.00 2.01
2220 3295 5.279556 CCCGCCCCTTTTACTTTGAATTTTA 60.280 40.000 0.00 0.00 0.00 1.52
2221 3296 4.504165 CCCGCCCCTTTTACTTTGAATTTT 60.504 41.667 0.00 0.00 0.00 1.82
2222 3297 3.007506 CCCGCCCCTTTTACTTTGAATTT 59.992 43.478 0.00 0.00 0.00 1.82
2223 3298 2.565391 CCCGCCCCTTTTACTTTGAATT 59.435 45.455 0.00 0.00 0.00 2.17
2224 3299 2.176045 CCCGCCCCTTTTACTTTGAAT 58.824 47.619 0.00 0.00 0.00 2.57
2225 3300 1.133419 ACCCGCCCCTTTTACTTTGAA 60.133 47.619 0.00 0.00 0.00 2.69
2226 3301 0.479378 ACCCGCCCCTTTTACTTTGA 59.521 50.000 0.00 0.00 0.00 2.69
2227 3302 0.885879 GACCCGCCCCTTTTACTTTG 59.114 55.000 0.00 0.00 0.00 2.77
2228 3303 0.607217 CGACCCGCCCCTTTTACTTT 60.607 55.000 0.00 0.00 0.00 2.66
2229 3304 1.002990 CGACCCGCCCCTTTTACTT 60.003 57.895 0.00 0.00 0.00 2.24
2230 3305 2.666812 CGACCCGCCCCTTTTACT 59.333 61.111 0.00 0.00 0.00 2.24
2231 3306 2.437180 CCGACCCGCCCCTTTTAC 60.437 66.667 0.00 0.00 0.00 2.01
2232 3307 1.197430 TAACCGACCCGCCCCTTTTA 61.197 55.000 0.00 0.00 0.00 1.52
2233 3308 2.473891 CTAACCGACCCGCCCCTTTT 62.474 60.000 0.00 0.00 0.00 2.27
2234 3309 2.929477 TAACCGACCCGCCCCTTT 60.929 61.111 0.00 0.00 0.00 3.11
2235 3310 3.396570 CTAACCGACCCGCCCCTT 61.397 66.667 0.00 0.00 0.00 3.95
2236 3311 3.910784 TTCTAACCGACCCGCCCCT 62.911 63.158 0.00 0.00 0.00 4.79
2237 3312 2.738938 ATTCTAACCGACCCGCCCC 61.739 63.158 0.00 0.00 0.00 5.80
2238 3313 1.523032 CATTCTAACCGACCCGCCC 60.523 63.158 0.00 0.00 0.00 6.13
2239 3314 2.178235 GCATTCTAACCGACCCGCC 61.178 63.158 0.00 0.00 0.00 6.13
2240 3315 1.448893 TGCATTCTAACCGACCCGC 60.449 57.895 0.00 0.00 0.00 6.13
2241 3316 0.390603 TGTGCATTCTAACCGACCCG 60.391 55.000 0.00 0.00 0.00 5.28
2242 3317 2.038387 ATGTGCATTCTAACCGACCC 57.962 50.000 0.00 0.00 0.00 4.46
2243 3318 3.527533 TGTATGTGCATTCTAACCGACC 58.472 45.455 0.00 0.00 0.00 4.79
2244 3319 5.539582 TTTGTATGTGCATTCTAACCGAC 57.460 39.130 0.00 0.00 0.00 4.79
2245 3320 6.404184 CCAATTTGTATGTGCATTCTAACCGA 60.404 38.462 0.00 0.00 0.00 4.69
2246 3321 5.743398 CCAATTTGTATGTGCATTCTAACCG 59.257 40.000 0.00 0.00 0.00 4.44
2247 3322 6.862209 TCCAATTTGTATGTGCATTCTAACC 58.138 36.000 0.00 0.00 0.00 2.85
2248 3323 6.974622 CCTCCAATTTGTATGTGCATTCTAAC 59.025 38.462 0.00 0.00 0.00 2.34
2249 3324 6.889177 TCCTCCAATTTGTATGTGCATTCTAA 59.111 34.615 0.00 0.00 0.00 2.10
2270 3345 8.561738 TGTATTGACCTAACTTTTCATTCCTC 57.438 34.615 0.00 0.00 0.00 3.71
2409 3522 0.806102 ACTGCATCCGTACGCATGTC 60.806 55.000 19.74 12.62 37.54 3.06
2471 3586 4.168014 TGGTACAGTACAAATTAGTCGCG 58.832 43.478 12.89 0.00 0.00 5.87
2525 3640 2.414806 CATCGGATGATCCAGCTCTTG 58.585 52.381 12.67 0.00 35.91 3.02
2689 3805 8.662141 GCAACATGCAATCAAATCTAAAGAAAT 58.338 29.630 0.00 0.00 44.26 2.17
2690 3806 8.020861 GCAACATGCAATCAAATCTAAAGAAA 57.979 30.769 0.00 0.00 44.26 2.52
2721 3837 6.751157 TCAAGTTTCATGTGATTTTGCTCAT 58.249 32.000 0.00 0.00 0.00 2.90
2837 3961 3.379057 ACGGTGTTTTCGAAAAGGAATGT 59.621 39.130 23.08 14.67 0.00 2.71
2849 3973 8.020861 TGACTAATATGTTGTACGGTGTTTTC 57.979 34.615 0.00 0.00 0.00 2.29
2850 3974 7.966246 TGACTAATATGTTGTACGGTGTTTT 57.034 32.000 0.00 0.00 0.00 2.43
2897 4021 8.615878 TCGAAAAGAAGTGGATCTCAAAAATA 57.384 30.769 0.00 0.00 0.00 1.40
2898 4022 7.445402 TCTCGAAAAGAAGTGGATCTCAAAAAT 59.555 33.333 0.00 0.00 0.00 1.82
2914 4039 7.315247 TGATTTGTCAGTTTTCTCGAAAAGA 57.685 32.000 5.15 0.00 40.53 2.52
2929 4054 3.130633 CACCGACTGAGTTGATTTGTCA 58.869 45.455 0.25 0.00 0.00 3.58
2935 4061 0.247736 GAGGCACCGACTGAGTTGAT 59.752 55.000 0.25 0.00 0.00 2.57
2938 4064 0.687354 ATTGAGGCACCGACTGAGTT 59.313 50.000 0.00 0.00 0.00 3.01
2940 4066 0.534412 AGATTGAGGCACCGACTGAG 59.466 55.000 0.00 0.00 0.00 3.35
2945 4071 0.606096 TCGAAAGATTGAGGCACCGA 59.394 50.000 0.00 0.00 33.31 4.69
2946 4072 3.137484 TCGAAAGATTGAGGCACCG 57.863 52.632 0.00 0.00 33.31 4.94
2994 4121 0.865111 CGTCGCATCACCAAAGTTGA 59.135 50.000 0.00 0.00 0.00 3.18
3026 4153 2.002586 GAGTTGCTCTTAGCGATTGCA 58.997 47.619 7.90 0.00 46.26 4.08
3038 4165 2.546162 GCGGGGTCTATTAGAGTTGCTC 60.546 54.545 0.00 0.00 0.00 4.26
3039 4166 1.413077 GCGGGGTCTATTAGAGTTGCT 59.587 52.381 0.00 0.00 0.00 3.91
3040 4167 1.138266 TGCGGGGTCTATTAGAGTTGC 59.862 52.381 0.00 0.00 0.00 4.17
3041 4168 3.536956 TTGCGGGGTCTATTAGAGTTG 57.463 47.619 0.00 0.00 0.00 3.16
3042 4169 4.563140 TTTTGCGGGGTCTATTAGAGTT 57.437 40.909 0.00 0.00 0.00 3.01
3043 4170 4.563140 TTTTTGCGGGGTCTATTAGAGT 57.437 40.909 0.00 0.00 0.00 3.24
3044 4171 4.275936 CCATTTTTGCGGGGTCTATTAGAG 59.724 45.833 0.00 0.00 0.00 2.43
3045 4172 4.204012 CCATTTTTGCGGGGTCTATTAGA 58.796 43.478 0.00 0.00 0.00 2.10
3046 4173 3.243401 GCCATTTTTGCGGGGTCTATTAG 60.243 47.826 0.00 0.00 0.00 1.73
3047 4174 2.691011 GCCATTTTTGCGGGGTCTATTA 59.309 45.455 0.00 0.00 0.00 0.98
3048 4175 1.480545 GCCATTTTTGCGGGGTCTATT 59.519 47.619 0.00 0.00 0.00 1.73
3049 4176 1.111277 GCCATTTTTGCGGGGTCTAT 58.889 50.000 0.00 0.00 0.00 1.98
3050 4177 0.251386 TGCCATTTTTGCGGGGTCTA 60.251 50.000 0.00 0.00 0.00 2.59
3051 4178 1.118356 TTGCCATTTTTGCGGGGTCT 61.118 50.000 0.00 0.00 0.00 3.85
3052 4179 0.250081 TTTGCCATTTTTGCGGGGTC 60.250 50.000 0.00 0.00 0.00 4.46
3053 4180 0.533978 GTTTGCCATTTTTGCGGGGT 60.534 50.000 0.00 0.00 0.00 4.95
3054 4181 1.233950 GGTTTGCCATTTTTGCGGGG 61.234 55.000 0.00 0.00 34.09 5.73
3055 4182 1.233950 GGGTTTGCCATTTTTGCGGG 61.234 55.000 0.00 0.00 36.17 6.13
3056 4183 1.564295 CGGGTTTGCCATTTTTGCGG 61.564 55.000 0.00 0.00 36.17 5.69
3057 4184 1.858719 CGGGTTTGCCATTTTTGCG 59.141 52.632 0.00 0.00 36.17 4.85
3058 4185 1.162800 TGCGGGTTTGCCATTTTTGC 61.163 50.000 0.00 0.00 36.17 3.68
3059 4186 1.303309 TTGCGGGTTTGCCATTTTTG 58.697 45.000 0.00 0.00 36.17 2.44
3060 4187 2.044123 TTTGCGGGTTTGCCATTTTT 57.956 40.000 0.00 0.00 36.17 1.94
3061 4188 2.044123 TTTTGCGGGTTTGCCATTTT 57.956 40.000 0.00 0.00 36.17 1.82
3062 4189 2.268762 ATTTTGCGGGTTTGCCATTT 57.731 40.000 0.00 0.00 36.17 2.32
3063 4190 2.150390 GAATTTTGCGGGTTTGCCATT 58.850 42.857 0.00 0.00 36.17 3.16
3064 4191 1.347378 AGAATTTTGCGGGTTTGCCAT 59.653 42.857 0.00 0.00 36.17 4.40
3065 4192 0.755686 AGAATTTTGCGGGTTTGCCA 59.244 45.000 0.00 0.00 36.17 4.92
3066 4193 1.147473 CAGAATTTTGCGGGTTTGCC 58.853 50.000 0.00 0.00 0.00 4.52
3067 4194 1.147473 CCAGAATTTTGCGGGTTTGC 58.853 50.000 0.00 0.00 0.00 3.68
3068 4195 1.147473 GCCAGAATTTTGCGGGTTTG 58.853 50.000 0.00 0.00 0.00 2.93
3069 4196 0.319469 CGCCAGAATTTTGCGGGTTT 60.319 50.000 8.71 0.00 44.29 3.27
3070 4197 1.288752 CGCCAGAATTTTGCGGGTT 59.711 52.632 8.71 0.00 44.29 4.11
3071 4198 2.961768 CGCCAGAATTTTGCGGGT 59.038 55.556 8.71 0.00 44.29 5.28
3075 4202 3.303132 CCGTATACTCGCCAGAATTTTGC 60.303 47.826 0.56 0.00 0.00 3.68
3076 4203 3.247648 CCCGTATACTCGCCAGAATTTTG 59.752 47.826 0.56 0.00 0.00 2.44
3077 4204 3.463944 CCCGTATACTCGCCAGAATTTT 58.536 45.455 0.56 0.00 0.00 1.82
3078 4205 2.805657 GCCCGTATACTCGCCAGAATTT 60.806 50.000 0.56 0.00 0.00 1.82
3079 4206 1.270147 GCCCGTATACTCGCCAGAATT 60.270 52.381 0.56 0.00 0.00 2.17
3080 4207 0.317479 GCCCGTATACTCGCCAGAAT 59.683 55.000 0.56 0.00 0.00 2.40
3081 4208 0.754217 AGCCCGTATACTCGCCAGAA 60.754 55.000 0.56 0.00 0.00 3.02
3082 4209 1.152819 AGCCCGTATACTCGCCAGA 60.153 57.895 0.56 0.00 0.00 3.86
3083 4210 1.286260 GAGCCCGTATACTCGCCAG 59.714 63.158 0.56 0.00 0.00 4.85
3084 4211 3.440151 GAGCCCGTATACTCGCCA 58.560 61.111 0.56 0.00 0.00 5.69
3088 4215 2.649614 GGCCGAGCCCGTATACTC 59.350 66.667 0.56 0.00 44.06 2.59


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

AutoCloner maintained by Alex Coulton.