Multiple sequence alignment - TraesCS5B01G003500

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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 TraesCS5B01G003500 chr5B 100.000 2495 0 0 1 2495 5056454 5058948 0.000000e+00 4608.0
1 TraesCS5B01G003500 chr5B 98.305 118 2 0 2378 2495 5068551 5068434 9.040000e-50 207.0
2 TraesCS5B01G003500 chr5B 91.379 116 10 0 2378 2493 98845223 98845108 2.570000e-35 159.0
3 TraesCS5B01G003500 chr5B 100.000 38 0 0 2336 2373 5058759 5058796 1.240000e-08 71.3
4 TraesCS5B01G003500 chr5B 100.000 38 0 0 2306 2343 5058789 5058826 1.240000e-08 71.3
5 TraesCS5B01G003500 chr5D 91.652 2276 127 31 1 2249 3570191 3572430 0.000000e+00 3092.0
6 TraesCS5B01G003500 chr5D 96.610 118 4 0 2378 2495 3636891 3637008 1.960000e-46 196.0
7 TraesCS5B01G003500 chr5A 91.724 1897 116 23 1 1864 2413714 2415602 0.000000e+00 2595.0
8 TraesCS5B01G003500 chr5A 99.160 119 1 0 2377 2495 2427075 2426957 5.400000e-52 215.0
9 TraesCS5B01G003500 chr5A 96.552 116 4 0 2378 2493 2432708 2432593 2.530000e-45 193.0
10 TraesCS5B01G003500 chr7A 92.373 118 9 0 2378 2495 700301355 700301472 4.270000e-38 169.0
11 TraesCS5B01G003500 chr7A 91.525 118 10 0 2378 2495 700339173 700339290 1.990000e-36 163.0
12 TraesCS5B01G003500 chr7D 91.379 116 10 0 2378 2493 610420455 610420340 2.570000e-35 159.0
13 TraesCS5B01G003500 chr7B 91.379 116 10 0 2378 2493 694748317 694748432 2.570000e-35 159.0


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 TraesCS5B01G003500 chr5B 5056454 5058948 2494 False 1583.533333 4608 100.000 1 2495 3 chr5B.!!$F1 2494
1 TraesCS5B01G003500 chr5D 3570191 3572430 2239 False 3092.000000 3092 91.652 1 2249 1 chr5D.!!$F1 2248
2 TraesCS5B01G003500 chr5A 2413714 2415602 1888 False 2595.000000 2595 91.724 1 1864 1 chr5A.!!$F1 1863

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
300 308 1.26295 CATCACAAAGCGAAACCACGA 59.737 47.619 0.0 0.0 35.09 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2256 2296 0.038526 AGCGACACCAGAACTAACCG 60.039 55.0 0.0 0.0 0.0 4.44 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
62 63 6.549364 TGTTGTGATGGTAGATTTTCCTTGTT 59.451 34.615 0.00 0.00 0.00 2.83
206 207 4.196971 GGTTGCATCCGTCCTAATAACTT 58.803 43.478 0.00 0.00 0.00 2.66
287 295 2.158645 CGTGGTTTCGTATGCATCACAA 59.841 45.455 0.19 0.00 0.00 3.33
300 308 1.262950 CATCACAAAGCGAAACCACGA 59.737 47.619 0.00 0.00 35.09 4.35
333 341 3.244215 ACGACATCTTGGTGAGTCATTGT 60.244 43.478 0.00 0.00 0.00 2.71
366 374 8.799367 TGTACTACTAACACATAAGACACATGT 58.201 33.333 0.00 0.00 37.09 3.21
385 393 6.202570 CACATGTTCTAACAAATTTTGGGTGG 59.797 38.462 13.42 3.64 43.03 4.61
387 395 6.739331 TGTTCTAACAAATTTTGGGTGGAT 57.261 33.333 13.42 0.00 35.67 3.41
388 396 7.130681 TGTTCTAACAAATTTTGGGTGGATT 57.869 32.000 13.42 0.75 35.67 3.01
390 398 6.353404 TCTAACAAATTTTGGGTGGATTCC 57.647 37.500 13.42 0.00 34.12 3.01
391 399 6.081356 TCTAACAAATTTTGGGTGGATTCCT 58.919 36.000 13.42 0.00 34.12 3.36
426 450 2.067013 GGAAGTCCACAAGTTAGCGTC 58.933 52.381 0.00 0.00 35.64 5.19
606 634 7.039784 ACACAATGGCTAATACATGACAAAACT 60.040 33.333 0.00 0.00 0.00 2.66
638 666 3.972638 AGTGGAAGATGGCATCTAGATGT 59.027 43.478 29.02 14.14 39.08 3.06
767 796 7.454260 AACAAAGTAAGAAGCCTTGGAATAG 57.546 36.000 0.00 0.00 33.94 1.73
905 935 4.041049 TGTAAGCATTCAAAAGCAACACG 58.959 39.130 0.00 0.00 0.00 4.49
957 987 7.168219 TCATCCATTATAAATAGTGGCCTCAC 58.832 38.462 3.32 0.00 39.29 3.51
962 992 6.569127 TTATAAATAGTGGCCTCACCTCAA 57.431 37.500 3.32 0.00 44.64 3.02
974 1004 3.681897 CCTCACCTCAACTTTCATCTTCG 59.318 47.826 0.00 0.00 0.00 3.79
1084 1114 1.562672 GGAAGTTCCCAGCCCAGCTA 61.563 60.000 11.17 0.00 36.40 3.32
1085 1115 0.548510 GAAGTTCCCAGCCCAGCTAT 59.451 55.000 0.00 0.00 36.40 2.97
1148 1178 4.695560 GCCTAGTGCGAGTGGTTT 57.304 55.556 0.00 0.00 0.00 3.27
1153 1183 2.069273 CTAGTGCGAGTGGTTTTGAGG 58.931 52.381 0.00 0.00 0.00 3.86
1170 1200 0.835941 AGGATTGCGAGGAAGAGCAT 59.164 50.000 0.00 0.00 43.42 3.79
1182 1212 3.715834 AGGAAGAGCATCCAAAGCTAGAT 59.284 43.478 0.00 0.00 43.58 1.98
1191 1221 5.819901 GCATCCAAAGCTAGATTCTTGTAGT 59.180 40.000 0.00 0.00 0.00 2.73
1240 1270 0.681733 GGATATGCCGCTCTCTTGGA 59.318 55.000 0.00 0.00 0.00 3.53
1308 1338 2.880268 CCAGTGTTGTCAGCAATTGAGA 59.120 45.455 10.34 3.08 36.21 3.27
1381 1411 0.036388 TCTAAGTGGCTTCAAGGGCG 60.036 55.000 0.00 0.00 34.31 6.13
1393 1423 0.744281 CAAGGGCGTTCAACAAGGTT 59.256 50.000 0.00 0.00 0.00 3.50
1508 1538 6.553953 TTACTGGTGATGTAGCTTCCATTA 57.446 37.500 0.00 0.00 0.00 1.90
1692 1726 5.371526 AGGAATGTGTGGAAGTGCATATAG 58.628 41.667 0.00 0.00 0.00 1.31
1699 1733 2.369860 TGGAAGTGCATATAGGCCTCTG 59.630 50.000 9.68 7.08 0.00 3.35
1700 1734 2.370189 GGAAGTGCATATAGGCCTCTGT 59.630 50.000 9.68 0.00 0.00 3.41
1733 1772 2.682155 TGGCGGAAAATTAAATGGGC 57.318 45.000 0.00 0.00 0.00 5.36
1744 1783 5.722021 AATTAAATGGGCTAATTAGGGCG 57.278 39.130 14.28 0.00 29.24 6.13
1767 1806 6.145696 GCGTACTTGTGAACAGATTTTAGTCT 59.854 38.462 0.00 0.00 0.00 3.24
1884 1923 6.069440 TCACATTTCATGAGTTTAGGGATCCT 60.069 38.462 12.58 0.00 37.71 3.24
1885 1924 6.261826 CACATTTCATGAGTTTAGGGATCCTC 59.738 42.308 12.58 1.55 34.61 3.71
1938 1977 3.822167 TGCATGCTCAAGTGATTTCTTCA 59.178 39.130 20.33 0.00 0.00 3.02
1965 2004 0.040204 AGCCTTCCCATCCACCAAAG 59.960 55.000 0.00 0.00 0.00 2.77
1976 2015 2.461695 TCCACCAAAGAAACCAAAGCA 58.538 42.857 0.00 0.00 0.00 3.91
2025 2064 4.816385 TCTTCTTGTCAAAGTGCTTCGAAT 59.184 37.500 0.00 0.00 34.78 3.34
2027 2066 5.499139 TCTTGTCAAAGTGCTTCGAATTT 57.501 34.783 0.00 0.00 34.78 1.82
2036 2075 0.179189 GCTTCGAATTTGCTGTCCGG 60.179 55.000 0.00 0.00 0.00 5.14
2038 2077 1.128692 CTTCGAATTTGCTGTCCGGAC 59.871 52.381 28.17 28.17 0.00 4.79
2051 2090 3.677648 CGGACCGTTCGGAGGTGT 61.678 66.667 18.28 0.00 43.01 4.16
2062 2101 0.179076 CGGAGGTGTGAGCATGCATA 60.179 55.000 21.98 4.97 0.00 3.14
2063 2102 1.541889 CGGAGGTGTGAGCATGCATAT 60.542 52.381 21.98 0.00 0.00 1.78
2075 2114 3.748868 CATGCATATGCTGATCTGAGC 57.251 47.619 27.13 0.59 42.66 4.26
2080 2119 2.580815 TGCTGATCTGAGCACCCG 59.419 61.111 3.70 0.00 44.16 5.28
2092 2131 0.108329 AGCACCCGTTAGACCATTCG 60.108 55.000 0.00 0.00 0.00 3.34
2113 2153 0.889306 GCACTACTCCGACCAAGTCT 59.111 55.000 0.00 0.00 0.00 3.24
2115 2155 2.097791 GCACTACTCCGACCAAGTCTAG 59.902 54.545 0.00 0.00 0.00 2.43
2133 2173 1.227527 GGGTTGCTTGGTTTGGCAC 60.228 57.895 0.00 0.00 38.23 5.01
2141 2181 3.289797 TGGTTTGGCACTGAACCAA 57.710 47.368 17.62 4.28 46.29 3.67
2143 2183 0.820871 GGTTTGGCACTGAACCAACA 59.179 50.000 13.42 0.00 46.66 3.33
2146 2186 2.064434 TTGGCACTGAACCAACATCA 57.936 45.000 0.00 0.00 42.23 3.07
2152 2192 3.077484 ACTGAACCAACATCAGGGATG 57.923 47.619 8.26 4.74 46.81 3.51
2163 2203 2.121832 AGGGATGTGTCCGGGTCA 59.878 61.111 0.00 0.00 46.09 4.02
2189 2229 1.912731 TCTCAATTTGGACCATCCGGA 59.087 47.619 6.61 6.61 40.17 5.14
2213 2253 1.976474 GGCCAATGACCAAGCCGAA 60.976 57.895 0.00 0.00 35.30 4.30
2227 2267 2.112815 CCGAACCAAGGGCCGATTC 61.113 63.158 0.00 0.00 0.00 2.52
2251 2291 4.265056 AAGACCGCCCAACGCCTT 62.265 61.111 0.00 0.00 41.76 4.35
2256 2296 3.423154 CGCCCAACGCCTTGTCTC 61.423 66.667 0.00 0.00 33.16 3.36
2257 2297 3.423154 GCCCAACGCCTTGTCTCG 61.423 66.667 0.00 0.00 0.00 4.04
2258 2298 2.742372 CCCAACGCCTTGTCTCGG 60.742 66.667 0.00 0.00 0.00 4.63
2259 2299 2.030562 CCAACGCCTTGTCTCGGT 59.969 61.111 0.00 0.00 0.00 4.69
2260 2300 1.597027 CCAACGCCTTGTCTCGGTT 60.597 57.895 0.00 0.00 0.00 4.44
2261 2301 0.320073 CCAACGCCTTGTCTCGGTTA 60.320 55.000 0.00 0.00 0.00 2.85
2262 2302 1.068474 CAACGCCTTGTCTCGGTTAG 58.932 55.000 0.00 0.00 0.00 2.34
2263 2303 0.677842 AACGCCTTGTCTCGGTTAGT 59.322 50.000 0.00 0.00 0.00 2.24
2264 2304 0.677842 ACGCCTTGTCTCGGTTAGTT 59.322 50.000 0.00 0.00 0.00 2.24
2265 2305 1.336609 ACGCCTTGTCTCGGTTAGTTC 60.337 52.381 0.00 0.00 0.00 3.01
2266 2306 1.067776 CGCCTTGTCTCGGTTAGTTCT 60.068 52.381 0.00 0.00 0.00 3.01
2267 2307 2.338500 GCCTTGTCTCGGTTAGTTCTG 58.662 52.381 0.00 0.00 0.00 3.02
2268 2308 2.931320 GCCTTGTCTCGGTTAGTTCTGG 60.931 54.545 0.00 0.00 0.00 3.86
2269 2309 2.299297 CCTTGTCTCGGTTAGTTCTGGT 59.701 50.000 0.00 0.00 0.00 4.00
2270 2310 3.318017 CTTGTCTCGGTTAGTTCTGGTG 58.682 50.000 0.00 0.00 0.00 4.17
2271 2311 2.313317 TGTCTCGGTTAGTTCTGGTGT 58.687 47.619 0.00 0.00 0.00 4.16
2272 2312 2.295349 TGTCTCGGTTAGTTCTGGTGTC 59.705 50.000 0.00 0.00 0.00 3.67
2273 2313 1.538512 TCTCGGTTAGTTCTGGTGTCG 59.461 52.381 0.00 0.00 0.00 4.35
2274 2314 0.038892 TCGGTTAGTTCTGGTGTCGC 60.039 55.000 0.00 0.00 0.00 5.19
2275 2315 0.038526 CGGTTAGTTCTGGTGTCGCT 60.039 55.000 0.00 0.00 0.00 4.93
2276 2316 1.711206 GGTTAGTTCTGGTGTCGCTC 58.289 55.000 0.00 0.00 0.00 5.03
2277 2317 1.337821 GTTAGTTCTGGTGTCGCTCG 58.662 55.000 0.00 0.00 0.00 5.03
2278 2318 1.068748 GTTAGTTCTGGTGTCGCTCGA 60.069 52.381 0.00 0.00 0.00 4.04
2279 2319 1.460504 TAGTTCTGGTGTCGCTCGAT 58.539 50.000 0.00 0.00 0.00 3.59
2280 2320 0.171455 AGTTCTGGTGTCGCTCGATC 59.829 55.000 0.00 0.00 0.00 3.69
2281 2321 0.171455 GTTCTGGTGTCGCTCGATCT 59.829 55.000 0.00 0.00 0.00 2.75
2282 2322 1.400846 GTTCTGGTGTCGCTCGATCTA 59.599 52.381 0.00 0.00 0.00 1.98
2283 2323 1.015109 TCTGGTGTCGCTCGATCTAC 58.985 55.000 0.00 0.00 0.00 2.59
2284 2324 1.018148 CTGGTGTCGCTCGATCTACT 58.982 55.000 0.00 0.00 0.00 2.57
2285 2325 2.159000 TCTGGTGTCGCTCGATCTACTA 60.159 50.000 0.00 0.00 0.00 1.82
2286 2326 2.210961 TGGTGTCGCTCGATCTACTAG 58.789 52.381 0.00 0.00 0.00 2.57
2287 2327 1.069771 GGTGTCGCTCGATCTACTAGC 60.070 57.143 0.00 0.00 34.55 3.42
2288 2328 1.868498 GTGTCGCTCGATCTACTAGCT 59.132 52.381 0.00 0.00 35.54 3.32
2289 2329 3.058450 GTGTCGCTCGATCTACTAGCTA 58.942 50.000 0.00 0.00 35.54 3.32
2290 2330 3.122278 GTGTCGCTCGATCTACTAGCTAG 59.878 52.174 19.44 19.44 35.54 3.42
2291 2331 3.005578 TGTCGCTCGATCTACTAGCTAGA 59.994 47.826 27.45 7.52 35.54 2.43
2292 2332 3.365820 GTCGCTCGATCTACTAGCTAGAC 59.634 52.174 27.45 6.67 34.08 2.59
2293 2333 3.256383 TCGCTCGATCTACTAGCTAGACT 59.744 47.826 27.45 8.44 34.08 3.24
2294 2334 4.458642 TCGCTCGATCTACTAGCTAGACTA 59.541 45.833 27.45 11.40 34.08 2.59
2295 2335 5.125900 TCGCTCGATCTACTAGCTAGACTAT 59.874 44.000 27.45 15.41 34.08 2.12
2296 2336 5.457799 CGCTCGATCTACTAGCTAGACTATC 59.542 48.000 27.45 20.88 34.08 2.08
2297 2337 5.751990 GCTCGATCTACTAGCTAGACTATCC 59.248 48.000 27.45 10.04 34.08 2.59
2298 2338 6.628621 GCTCGATCTACTAGCTAGACTATCCA 60.629 46.154 27.45 12.69 34.08 3.41
2299 2339 7.426606 TCGATCTACTAGCTAGACTATCCAT 57.573 40.000 27.45 4.63 34.08 3.41
2300 2340 7.269316 TCGATCTACTAGCTAGACTATCCATG 58.731 42.308 27.45 12.21 34.08 3.66
2301 2341 6.018262 CGATCTACTAGCTAGACTATCCATGC 60.018 46.154 27.45 4.99 34.08 4.06
2302 2342 6.381498 TCTACTAGCTAGACTATCCATGCT 57.619 41.667 27.45 2.60 34.92 3.79
2303 2343 6.176896 TCTACTAGCTAGACTATCCATGCTG 58.823 44.000 27.45 0.00 32.72 4.41
2304 2344 4.085733 ACTAGCTAGACTATCCATGCTGG 58.914 47.826 27.45 3.70 39.43 4.85
2315 2355 3.719268 TCCATGCTGGAACATGTTACT 57.281 42.857 21.32 0.00 45.00 2.24
2316 2356 4.032960 TCCATGCTGGAACATGTTACTT 57.967 40.909 21.32 1.76 45.00 2.24
2317 2357 4.406456 TCCATGCTGGAACATGTTACTTT 58.594 39.130 21.32 1.42 45.00 2.66
2318 2358 4.832266 TCCATGCTGGAACATGTTACTTTT 59.168 37.500 21.32 1.75 45.00 2.27
2319 2359 4.925054 CCATGCTGGAACATGTTACTTTTG 59.075 41.667 21.32 12.82 44.88 2.44
2320 2360 5.278907 CCATGCTGGAACATGTTACTTTTGA 60.279 40.000 21.32 0.00 44.88 2.69
2321 2361 5.181690 TGCTGGAACATGTTACTTTTGAC 57.818 39.130 21.32 1.90 38.20 3.18
2322 2362 4.642437 TGCTGGAACATGTTACTTTTGACA 59.358 37.500 21.32 7.87 38.20 3.58
2323 2363 5.126222 TGCTGGAACATGTTACTTTTGACAA 59.874 36.000 21.32 0.00 38.20 3.18
2324 2364 6.183360 TGCTGGAACATGTTACTTTTGACAAT 60.183 34.615 21.32 0.00 38.20 2.71
2325 2365 7.013750 TGCTGGAACATGTTACTTTTGACAATA 59.986 33.333 21.32 0.00 38.20 1.90
2326 2366 7.865385 GCTGGAACATGTTACTTTTGACAATAA 59.135 33.333 21.32 0.00 38.20 1.40
2327 2367 9.180678 CTGGAACATGTTACTTTTGACAATAAC 57.819 33.333 21.32 4.04 38.20 1.89
2328 2368 8.908903 TGGAACATGTTACTTTTGACAATAACT 58.091 29.630 21.32 0.00 0.00 2.24
2329 2369 9.744468 GGAACATGTTACTTTTGACAATAACTT 57.256 29.630 13.89 3.51 0.00 2.66
2384 2424 9.613428 TTATATTAACATGTTGGAACTCTCAGG 57.387 33.333 21.42 0.00 0.00 3.86
2385 2425 2.191128 ACATGTTGGAACTCTCAGGC 57.809 50.000 0.00 0.00 0.00 4.85
2386 2426 1.271597 ACATGTTGGAACTCTCAGGCC 60.272 52.381 0.00 0.00 0.00 5.19
2387 2427 1.004044 CATGTTGGAACTCTCAGGCCT 59.996 52.381 0.00 0.00 0.00 5.19
2388 2428 2.024176 TGTTGGAACTCTCAGGCCTA 57.976 50.000 3.98 0.00 0.00 3.93
2389 2429 1.623811 TGTTGGAACTCTCAGGCCTAC 59.376 52.381 3.98 0.00 0.00 3.18
2390 2430 1.903183 GTTGGAACTCTCAGGCCTACT 59.097 52.381 3.98 0.00 0.00 2.57
2391 2431 1.853963 TGGAACTCTCAGGCCTACTC 58.146 55.000 3.98 0.00 0.00 2.59
2392 2432 1.077169 TGGAACTCTCAGGCCTACTCA 59.923 52.381 3.98 0.00 0.00 3.41
2393 2433 2.180276 GGAACTCTCAGGCCTACTCAA 58.820 52.381 3.98 0.00 0.00 3.02
2394 2434 2.093921 GGAACTCTCAGGCCTACTCAAC 60.094 54.545 3.98 0.00 0.00 3.18
2395 2435 2.614134 ACTCTCAGGCCTACTCAACT 57.386 50.000 3.98 0.00 0.00 3.16
2396 2436 2.896039 ACTCTCAGGCCTACTCAACTT 58.104 47.619 3.98 0.00 0.00 2.66
2397 2437 2.829120 ACTCTCAGGCCTACTCAACTTC 59.171 50.000 3.98 0.00 0.00 3.01
2398 2438 2.828520 CTCTCAGGCCTACTCAACTTCA 59.171 50.000 3.98 0.00 0.00 3.02
2399 2439 3.445008 TCTCAGGCCTACTCAACTTCAT 58.555 45.455 3.98 0.00 0.00 2.57
2400 2440 3.449018 TCTCAGGCCTACTCAACTTCATC 59.551 47.826 3.98 0.00 0.00 2.92
2401 2441 2.166459 TCAGGCCTACTCAACTTCATCG 59.834 50.000 3.98 0.00 0.00 3.84
2402 2442 2.166459 CAGGCCTACTCAACTTCATCGA 59.834 50.000 3.98 0.00 0.00 3.59
2403 2443 2.166664 AGGCCTACTCAACTTCATCGAC 59.833 50.000 1.29 0.00 0.00 4.20
2404 2444 2.186076 GCCTACTCAACTTCATCGACG 58.814 52.381 0.00 0.00 0.00 5.12
2405 2445 2.798680 CCTACTCAACTTCATCGACGG 58.201 52.381 0.00 0.00 0.00 4.79
2406 2446 2.479730 CCTACTCAACTTCATCGACGGG 60.480 54.545 0.00 0.00 0.00 5.28
2407 2447 0.389948 ACTCAACTTCATCGACGGGC 60.390 55.000 0.00 0.00 0.00 6.13
2408 2448 0.108615 CTCAACTTCATCGACGGGCT 60.109 55.000 0.00 0.00 0.00 5.19
2409 2449 1.134367 CTCAACTTCATCGACGGGCTA 59.866 52.381 0.00 0.00 0.00 3.93
2410 2450 1.754803 TCAACTTCATCGACGGGCTAT 59.245 47.619 0.00 0.00 0.00 2.97
2411 2451 1.860950 CAACTTCATCGACGGGCTATG 59.139 52.381 0.00 0.00 0.00 2.23
2412 2452 0.389391 ACTTCATCGACGGGCTATGG 59.611 55.000 0.00 0.00 0.00 2.74
2413 2453 0.389391 CTTCATCGACGGGCTATGGT 59.611 55.000 0.00 0.00 0.00 3.55
2414 2454 0.387929 TTCATCGACGGGCTATGGTC 59.612 55.000 0.00 0.00 0.00 4.02
2418 2458 3.845259 GACGGGCTATGGTCGGCA 61.845 66.667 0.00 0.00 31.36 5.69
2419 2459 3.379865 GACGGGCTATGGTCGGCAA 62.380 63.158 0.00 0.00 31.36 4.52
2420 2460 2.588877 CGGGCTATGGTCGGCAAG 60.589 66.667 0.00 0.00 0.00 4.01
2421 2461 2.902343 GGGCTATGGTCGGCAAGC 60.902 66.667 0.10 0.10 0.00 4.01
2422 2462 3.272334 GGCTATGGTCGGCAAGCG 61.272 66.667 0.00 0.00 35.79 4.68
2423 2463 3.272334 GCTATGGTCGGCAAGCGG 61.272 66.667 0.00 0.00 0.00 5.52
2424 2464 3.272334 CTATGGTCGGCAAGCGGC 61.272 66.667 0.00 0.00 43.74 6.53
2440 2480 2.106938 GCGGTGAGCGGATCATCA 59.893 61.111 7.35 0.00 39.18 3.07
2441 2481 1.301244 GCGGTGAGCGGATCATCAT 60.301 57.895 7.35 0.00 39.18 2.45
2442 2482 1.287730 GCGGTGAGCGGATCATCATC 61.288 60.000 7.35 0.00 39.18 2.92
2443 2483 0.316522 CGGTGAGCGGATCATCATCT 59.683 55.000 7.35 0.00 39.18 2.90
2444 2484 1.269988 CGGTGAGCGGATCATCATCTT 60.270 52.381 7.35 0.00 39.18 2.40
2445 2485 2.411904 GGTGAGCGGATCATCATCTTC 58.588 52.381 0.85 0.00 40.92 2.87
2446 2486 2.224137 GGTGAGCGGATCATCATCTTCA 60.224 50.000 0.85 0.00 40.92 3.02
2447 2487 2.799412 GTGAGCGGATCATCATCTTCAC 59.201 50.000 0.00 0.00 40.92 3.18
2448 2488 2.224137 TGAGCGGATCATCATCTTCACC 60.224 50.000 0.00 0.00 31.12 4.02
2449 2489 1.764723 AGCGGATCATCATCTTCACCA 59.235 47.619 0.00 0.00 0.00 4.17
2450 2490 1.869767 GCGGATCATCATCTTCACCAC 59.130 52.381 0.00 0.00 0.00 4.16
2451 2491 2.487934 CGGATCATCATCTTCACCACC 58.512 52.381 0.00 0.00 0.00 4.61
2452 2492 2.158914 CGGATCATCATCTTCACCACCA 60.159 50.000 0.00 0.00 0.00 4.17
2453 2493 3.682436 CGGATCATCATCTTCACCACCAA 60.682 47.826 0.00 0.00 0.00 3.67
2454 2494 3.629398 GGATCATCATCTTCACCACCAAC 59.371 47.826 0.00 0.00 0.00 3.77
2455 2495 3.071874 TCATCATCTTCACCACCAACC 57.928 47.619 0.00 0.00 0.00 3.77
2456 2496 2.374839 TCATCATCTTCACCACCAACCA 59.625 45.455 0.00 0.00 0.00 3.67
2457 2497 2.270352 TCATCTTCACCACCAACCAC 57.730 50.000 0.00 0.00 0.00 4.16
2458 2498 1.492599 TCATCTTCACCACCAACCACA 59.507 47.619 0.00 0.00 0.00 4.17
2459 2499 2.092158 TCATCTTCACCACCAACCACAA 60.092 45.455 0.00 0.00 0.00 3.33
2460 2500 2.051334 TCTTCACCACCAACCACAAG 57.949 50.000 0.00 0.00 0.00 3.16
2461 2501 1.032014 CTTCACCACCAACCACAAGG 58.968 55.000 0.00 0.00 42.21 3.61
2462 2502 0.626382 TTCACCACCAACCACAAGGA 59.374 50.000 0.00 0.00 38.69 3.36
2463 2503 0.182537 TCACCACCAACCACAAGGAG 59.817 55.000 0.00 0.00 38.69 3.69
2464 2504 0.182537 CACCACCAACCACAAGGAGA 59.817 55.000 0.00 0.00 38.69 3.71
2465 2505 0.923358 ACCACCAACCACAAGGAGAA 59.077 50.000 0.00 0.00 38.69 2.87
2466 2506 1.133792 ACCACCAACCACAAGGAGAAG 60.134 52.381 0.00 0.00 38.69 2.85
2467 2507 0.954452 CACCAACCACAAGGAGAAGC 59.046 55.000 0.00 0.00 38.69 3.86
2468 2508 0.846693 ACCAACCACAAGGAGAAGCT 59.153 50.000 0.00 0.00 38.69 3.74
2469 2509 1.242076 CCAACCACAAGGAGAAGCTG 58.758 55.000 0.00 0.00 38.69 4.24
2470 2510 1.242076 CAACCACAAGGAGAAGCTGG 58.758 55.000 0.00 0.00 38.69 4.85
2471 2511 1.140312 AACCACAAGGAGAAGCTGGA 58.860 50.000 0.00 0.00 38.69 3.86
2472 2512 0.398318 ACCACAAGGAGAAGCTGGAC 59.602 55.000 0.00 0.00 38.69 4.02
2473 2513 0.322008 CCACAAGGAGAAGCTGGACC 60.322 60.000 0.00 0.00 36.89 4.46
2474 2514 0.322008 CACAAGGAGAAGCTGGACCC 60.322 60.000 0.00 0.00 0.00 4.46
2475 2515 1.078848 CAAGGAGAAGCTGGACCCG 60.079 63.158 0.00 0.00 0.00 5.28
2476 2516 2.294078 AAGGAGAAGCTGGACCCGG 61.294 63.158 0.00 0.00 0.00 5.73
2483 2523 4.547367 GCTGGACCCGGCGCTAAT 62.547 66.667 7.64 0.00 38.65 1.73
2484 2524 2.280186 CTGGACCCGGCGCTAATC 60.280 66.667 7.64 0.00 0.00 1.75
2485 2525 3.809374 CTGGACCCGGCGCTAATCC 62.809 68.421 7.64 10.38 0.00 3.01
2486 2526 4.963428 GGACCCGGCGCTAATCCG 62.963 72.222 7.64 0.73 46.05 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 9.487790 CTACCATCACAACAAATAAAAATTGGT 57.512 29.630 0.00 0.00 36.59 3.67
25 26 9.703892 TCTACCATCACAACAAATAAAAATTGG 57.296 29.630 0.00 0.00 32.02 3.16
34 35 7.781324 AGGAAAATCTACCATCACAACAAAT 57.219 32.000 0.00 0.00 0.00 2.32
40 41 8.739039 CATTAACAAGGAAAATCTACCATCACA 58.261 33.333 0.00 0.00 0.00 3.58
41 42 8.739972 ACATTAACAAGGAAAATCTACCATCAC 58.260 33.333 0.00 0.00 0.00 3.06
119 120 2.167662 GGACTAAACCCAACCCACATG 58.832 52.381 0.00 0.00 0.00 3.21
120 121 2.070573 AGGACTAAACCCAACCCACAT 58.929 47.619 0.00 0.00 0.00 3.21
184 185 3.805207 AGTTATTAGGACGGATGCAACC 58.195 45.455 2.19 2.19 0.00 3.77
206 207 2.580962 TGTGGAACTGCATTTGTAGCA 58.419 42.857 0.00 0.00 40.53 3.49
259 267 0.319083 ATACGAAACCACGTGGCTCA 59.681 50.000 34.26 15.79 46.02 4.26
287 295 2.295349 TCTTCTACTCGTGGTTTCGCTT 59.705 45.455 0.00 0.00 0.00 4.68
300 308 3.697045 CCAAGATGTCGTCCTCTTCTACT 59.303 47.826 0.00 0.00 29.34 2.57
366 374 6.556874 AGGAATCCACCCAAAATTTGTTAGAA 59.443 34.615 0.61 0.00 0.00 2.10
380 388 3.699538 GGTTGTTTCATAGGAATCCACCC 59.300 47.826 0.61 0.71 34.65 4.61
606 634 6.121776 TGCCATCTTCCACTAACTTTCTTA 57.878 37.500 0.00 0.00 0.00 2.10
681 709 3.866651 AGAAAGATCGAGACCATGTTGG 58.133 45.455 0.00 0.00 45.02 3.77
743 771 6.071896 GCTATTCCAAGGCTTCTTACTTTGTT 60.072 38.462 0.00 0.00 0.00 2.83
744 772 5.416013 GCTATTCCAAGGCTTCTTACTTTGT 59.584 40.000 0.00 0.00 0.00 2.83
767 796 2.092211 CGAAAGAGACCACGTGTAATGC 59.908 50.000 15.65 0.00 0.00 3.56
905 935 8.314021 TGTGACATGATATATGTCTACCATTCC 58.686 37.037 17.74 0.00 46.25 3.01
957 987 2.160417 GTGGCGAAGATGAAAGTTGAGG 59.840 50.000 0.00 0.00 0.00 3.86
962 992 2.301870 TGGTAGTGGCGAAGATGAAAGT 59.698 45.455 0.00 0.00 0.00 2.66
974 1004 3.389221 CCAATGTTGTTTTGGTAGTGGC 58.611 45.455 0.00 0.00 39.05 5.01
1106 1136 0.394565 CGCAACCCATTCCCCAAAAA 59.605 50.000 0.00 0.00 0.00 1.94
1148 1178 1.406069 GCTCTTCCTCGCAATCCTCAA 60.406 52.381 0.00 0.00 0.00 3.02
1153 1183 1.224965 GGATGCTCTTCCTCGCAATC 58.775 55.000 0.00 0.00 39.89 2.67
1170 1200 6.605471 TCACTACAAGAATCTAGCTTTGGA 57.395 37.500 0.00 0.00 0.00 3.53
1182 1212 9.476202 CGATCCATAACATAATCACTACAAGAA 57.524 33.333 0.00 0.00 0.00 2.52
1191 1221 5.757808 CACACACCGATCCATAACATAATCA 59.242 40.000 0.00 0.00 0.00 2.57
1240 1270 0.912486 CCCCAAGTCCGAGGAAAGAT 59.088 55.000 0.00 0.00 0.00 2.40
1359 1389 2.356125 GCCCTTGAAGCCACTTAGATCA 60.356 50.000 0.00 0.00 0.00 2.92
1381 1411 3.855858 TGGCTTTCAAACCTTGTTGAAC 58.144 40.909 0.01 0.00 44.96 3.18
1393 1423 0.749818 TGCACCGTTCTGGCTTTCAA 60.750 50.000 0.00 0.00 43.94 2.69
1419 1449 0.988063 ACTTGGAGGGAAGGCTCTTC 59.012 55.000 6.43 6.43 0.00 2.87
1508 1538 7.769044 GTGGTATGTGATAGTTTATTGGTCACT 59.231 37.037 0.00 0.00 39.78 3.41
1692 1726 4.216411 TCTATACCAAAACACAGAGGCC 57.784 45.455 0.00 0.00 0.00 5.19
1699 1733 3.537580 TCCGCCATCTATACCAAAACAC 58.462 45.455 0.00 0.00 0.00 3.32
1700 1734 3.916359 TCCGCCATCTATACCAAAACA 57.084 42.857 0.00 0.00 0.00 2.83
1733 1772 5.172934 TGTTCACAAGTACGCCCTAATTAG 58.827 41.667 5.43 5.43 0.00 1.73
1744 1783 8.589335 TGAGACTAAAATCTGTTCACAAGTAC 57.411 34.615 0.00 0.00 0.00 2.73
1884 1923 3.028850 CACGTCCCCTCTAAATAGTGGA 58.971 50.000 9.56 2.24 38.84 4.02
1885 1924 2.102588 CCACGTCCCCTCTAAATAGTGG 59.897 54.545 2.25 2.25 41.29 4.00
1938 1977 3.584848 GTGGATGGGAAGGCTATATGAGT 59.415 47.826 0.00 0.00 0.00 3.41
1999 2038 5.123186 TCGAAGCACTTTGACAAGAAGAAAA 59.877 36.000 0.00 0.00 33.72 2.29
2025 2064 1.595929 GAACGGTCCGGACAGCAAA 60.596 57.895 34.40 0.00 0.00 3.68
2027 2066 4.351938 CGAACGGTCCGGACAGCA 62.352 66.667 34.40 0.00 0.00 4.41
2036 2075 1.080705 CTCACACCTCCGAACGGTC 60.081 63.158 12.93 0.00 36.47 4.79
2038 2077 2.432628 GCTCACACCTCCGAACGG 60.433 66.667 6.94 6.94 0.00 4.44
2074 2113 1.087771 CCGAATGGTCTAACGGGTGC 61.088 60.000 0.00 0.00 41.41 5.01
2075 2114 3.059603 CCGAATGGTCTAACGGGTG 57.940 57.895 0.00 0.00 41.41 4.61
2080 2119 2.167900 AGTAGTGCCCGAATGGTCTAAC 59.832 50.000 0.00 0.00 36.04 2.34
2092 2131 1.218316 CTTGGTCGGAGTAGTGCCC 59.782 63.158 0.00 0.00 0.00 5.36
2113 2153 0.105964 TGCCAAACCAAGCAACCCTA 60.106 50.000 0.00 0.00 35.69 3.53
2115 2155 1.227527 GTGCCAAACCAAGCAACCC 60.228 57.895 0.00 0.00 41.48 4.11
2143 2183 1.306997 ACCCGGACACATCCCTGAT 60.307 57.895 0.73 0.00 42.83 2.90
2146 2186 2.121832 TGACCCGGACACATCCCT 59.878 61.111 0.73 0.00 42.83 4.20
2150 2190 1.374947 CCAAGTGACCCGGACACAT 59.625 57.895 25.26 15.73 40.25 3.21
2151 2191 2.035237 GACCAAGTGACCCGGACACA 62.035 60.000 25.26 11.49 40.25 3.72
2152 2192 1.301479 GACCAAGTGACCCGGACAC 60.301 63.158 19.16 19.16 38.38 3.67
2153 2193 1.458777 AGACCAAGTGACCCGGACA 60.459 57.895 0.73 0.00 0.00 4.02
2154 2194 1.292541 GAGACCAAGTGACCCGGAC 59.707 63.158 0.73 0.00 0.00 4.79
2155 2195 0.761323 TTGAGACCAAGTGACCCGGA 60.761 55.000 0.73 0.00 0.00 5.14
2156 2196 0.324943 ATTGAGACCAAGTGACCCGG 59.675 55.000 0.00 0.00 35.48 5.73
2189 2229 0.625849 CTTGGTCATTGGCCCTAGGT 59.374 55.000 8.29 0.00 0.00 3.08
2213 2253 0.474184 CCATAGAATCGGCCCTTGGT 59.526 55.000 0.00 0.00 0.00 3.67
2222 2262 0.861837 GCGGTCTTGCCATAGAATCG 59.138 55.000 0.00 0.00 36.97 3.34
2234 2274 4.265056 AAGGCGTTGGGCGGTCTT 62.265 61.111 0.00 0.00 44.92 3.01
2239 2279 3.423154 GAGACAAGGCGTTGGGCG 61.423 66.667 22.07 0.00 44.92 6.13
2244 2284 0.677842 ACTAACCGAGACAAGGCGTT 59.322 50.000 0.00 0.00 0.00 4.84
2249 2289 3.243771 ACACCAGAACTAACCGAGACAAG 60.244 47.826 0.00 0.00 0.00 3.16
2250 2290 2.696707 ACACCAGAACTAACCGAGACAA 59.303 45.455 0.00 0.00 0.00 3.18
2251 2291 2.295349 GACACCAGAACTAACCGAGACA 59.705 50.000 0.00 0.00 0.00 3.41
2252 2292 2.667724 CGACACCAGAACTAACCGAGAC 60.668 54.545 0.00 0.00 0.00 3.36
2253 2293 1.538512 CGACACCAGAACTAACCGAGA 59.461 52.381 0.00 0.00 0.00 4.04
2254 2294 1.978542 CGACACCAGAACTAACCGAG 58.021 55.000 0.00 0.00 0.00 4.63
2255 2295 0.038892 GCGACACCAGAACTAACCGA 60.039 55.000 0.00 0.00 0.00 4.69
2256 2296 0.038526 AGCGACACCAGAACTAACCG 60.039 55.000 0.00 0.00 0.00 4.44
2257 2297 1.711206 GAGCGACACCAGAACTAACC 58.289 55.000 0.00 0.00 0.00 2.85
2258 2298 1.068748 TCGAGCGACACCAGAACTAAC 60.069 52.381 0.00 0.00 0.00 2.34
2259 2299 1.241165 TCGAGCGACACCAGAACTAA 58.759 50.000 0.00 0.00 0.00 2.24
2260 2300 1.400846 GATCGAGCGACACCAGAACTA 59.599 52.381 0.00 0.00 0.00 2.24
2261 2301 0.171455 GATCGAGCGACACCAGAACT 59.829 55.000 0.00 0.00 0.00 3.01
2262 2302 0.171455 AGATCGAGCGACACCAGAAC 59.829 55.000 0.00 0.00 0.00 3.01
2263 2303 1.400846 GTAGATCGAGCGACACCAGAA 59.599 52.381 9.13 0.00 0.00 3.02
2264 2304 1.015109 GTAGATCGAGCGACACCAGA 58.985 55.000 9.13 0.00 0.00 3.86
2265 2305 1.018148 AGTAGATCGAGCGACACCAG 58.982 55.000 16.18 0.00 0.00 4.00
2266 2306 2.210961 CTAGTAGATCGAGCGACACCA 58.789 52.381 16.18 0.33 0.00 4.17
2267 2307 1.069771 GCTAGTAGATCGAGCGACACC 60.070 57.143 16.18 0.31 35.34 4.16
2268 2308 1.868498 AGCTAGTAGATCGAGCGACAC 59.132 52.381 16.18 5.91 46.70 3.67
2269 2309 2.242047 AGCTAGTAGATCGAGCGACA 57.758 50.000 16.18 1.87 46.70 4.35
2270 2310 3.365820 GTCTAGCTAGTAGATCGAGCGAC 59.634 52.174 20.10 5.74 46.70 5.19
2271 2311 3.256383 AGTCTAGCTAGTAGATCGAGCGA 59.744 47.826 20.10 0.00 46.70 4.93
2272 2312 3.581755 AGTCTAGCTAGTAGATCGAGCG 58.418 50.000 20.10 0.00 46.70 5.03
2273 2313 5.751990 GGATAGTCTAGCTAGTAGATCGAGC 59.248 48.000 20.10 0.00 40.05 5.03
2274 2314 6.869695 TGGATAGTCTAGCTAGTAGATCGAG 58.130 44.000 20.10 0.00 40.05 4.04
2275 2315 6.854091 TGGATAGTCTAGCTAGTAGATCGA 57.146 41.667 20.10 14.02 40.05 3.59
2276 2316 6.018262 GCATGGATAGTCTAGCTAGTAGATCG 60.018 46.154 20.10 9.45 40.05 3.69
2277 2317 7.012327 CAGCATGGATAGTCTAGCTAGTAGATC 59.988 44.444 20.10 17.93 40.05 2.75
2278 2318 6.828273 CAGCATGGATAGTCTAGCTAGTAGAT 59.172 42.308 20.10 11.35 40.05 1.98
2279 2319 6.176896 CAGCATGGATAGTCTAGCTAGTAGA 58.823 44.000 20.10 7.11 35.20 2.59
2280 2320 6.435430 CAGCATGGATAGTCTAGCTAGTAG 57.565 45.833 20.10 0.00 32.45 2.57
2298 2338 5.301551 TGTCAAAAGTAACATGTTCCAGCAT 59.698 36.000 15.85 0.00 0.00 3.79
2299 2339 4.642437 TGTCAAAAGTAACATGTTCCAGCA 59.358 37.500 15.85 0.00 0.00 4.41
2300 2340 5.181690 TGTCAAAAGTAACATGTTCCAGC 57.818 39.130 15.85 4.43 0.00 4.85
2301 2341 9.180678 GTTATTGTCAAAAGTAACATGTTCCAG 57.819 33.333 15.85 0.96 0.00 3.86
2302 2342 8.908903 AGTTATTGTCAAAAGTAACATGTTCCA 58.091 29.630 15.85 0.00 31.24 3.53
2303 2343 9.744468 AAGTTATTGTCAAAAGTAACATGTTCC 57.256 29.630 15.85 3.12 31.24 3.62
2358 2398 9.613428 CCTGAGAGTTCCAACATGTTAATATAA 57.387 33.333 11.53 0.00 0.00 0.98
2359 2399 7.715249 GCCTGAGAGTTCCAACATGTTAATATA 59.285 37.037 11.53 0.00 0.00 0.86
2360 2400 6.543831 GCCTGAGAGTTCCAACATGTTAATAT 59.456 38.462 11.53 0.00 0.00 1.28
2361 2401 5.880332 GCCTGAGAGTTCCAACATGTTAATA 59.120 40.000 11.53 0.00 0.00 0.98
2362 2402 4.702131 GCCTGAGAGTTCCAACATGTTAAT 59.298 41.667 11.53 0.00 0.00 1.40
2363 2403 4.072131 GCCTGAGAGTTCCAACATGTTAA 58.928 43.478 11.53 0.00 0.00 2.01
2364 2404 3.559171 GGCCTGAGAGTTCCAACATGTTA 60.559 47.826 11.53 0.00 0.00 2.41
2365 2405 2.508526 GCCTGAGAGTTCCAACATGTT 58.491 47.619 4.92 4.92 0.00 2.71
2366 2406 1.271597 GGCCTGAGAGTTCCAACATGT 60.272 52.381 0.00 0.00 0.00 3.21
2367 2407 1.004044 AGGCCTGAGAGTTCCAACATG 59.996 52.381 3.11 0.00 0.00 3.21
2368 2408 1.366319 AGGCCTGAGAGTTCCAACAT 58.634 50.000 3.11 0.00 0.00 2.71
2369 2409 1.623811 GTAGGCCTGAGAGTTCCAACA 59.376 52.381 17.99 0.00 0.00 3.33
2370 2410 1.903183 AGTAGGCCTGAGAGTTCCAAC 59.097 52.381 17.99 0.28 0.00 3.77
2371 2411 2.180276 GAGTAGGCCTGAGAGTTCCAA 58.820 52.381 17.99 0.00 0.00 3.53
2372 2412 1.077169 TGAGTAGGCCTGAGAGTTCCA 59.923 52.381 17.99 0.00 0.00 3.53
2373 2413 1.853963 TGAGTAGGCCTGAGAGTTCC 58.146 55.000 17.99 0.00 0.00 3.62
2374 2414 2.829120 AGTTGAGTAGGCCTGAGAGTTC 59.171 50.000 17.99 4.35 0.00 3.01
2375 2415 2.896039 AGTTGAGTAGGCCTGAGAGTT 58.104 47.619 17.99 0.00 0.00 3.01
2376 2416 2.614134 AGTTGAGTAGGCCTGAGAGT 57.386 50.000 17.99 0.00 0.00 3.24
2377 2417 2.828520 TGAAGTTGAGTAGGCCTGAGAG 59.171 50.000 17.99 0.00 0.00 3.20
2378 2418 2.889512 TGAAGTTGAGTAGGCCTGAGA 58.110 47.619 17.99 0.00 0.00 3.27
2379 2419 3.736433 CGATGAAGTTGAGTAGGCCTGAG 60.736 52.174 17.99 0.00 0.00 3.35
2380 2420 2.166459 CGATGAAGTTGAGTAGGCCTGA 59.834 50.000 17.99 0.00 0.00 3.86
2381 2421 2.166459 TCGATGAAGTTGAGTAGGCCTG 59.834 50.000 17.99 0.00 0.00 4.85
2382 2422 2.166664 GTCGATGAAGTTGAGTAGGCCT 59.833 50.000 11.78 11.78 0.00 5.19
2383 2423 2.541556 GTCGATGAAGTTGAGTAGGCC 58.458 52.381 0.00 0.00 0.00 5.19
2384 2424 2.186076 CGTCGATGAAGTTGAGTAGGC 58.814 52.381 0.00 0.00 0.00 3.93
2385 2425 2.479730 CCCGTCGATGAAGTTGAGTAGG 60.480 54.545 6.11 0.00 0.00 3.18
2386 2426 2.798680 CCCGTCGATGAAGTTGAGTAG 58.201 52.381 6.11 0.00 0.00 2.57
2387 2427 1.135199 GCCCGTCGATGAAGTTGAGTA 60.135 52.381 6.11 0.00 0.00 2.59
2388 2428 0.389948 GCCCGTCGATGAAGTTGAGT 60.390 55.000 6.11 0.00 0.00 3.41
2389 2429 0.108615 AGCCCGTCGATGAAGTTGAG 60.109 55.000 6.11 0.00 0.00 3.02
2390 2430 1.179152 TAGCCCGTCGATGAAGTTGA 58.821 50.000 6.11 0.00 0.00 3.18
2391 2431 1.860950 CATAGCCCGTCGATGAAGTTG 59.139 52.381 6.11 0.00 30.46 3.16
2392 2432 1.202533 CCATAGCCCGTCGATGAAGTT 60.203 52.381 6.11 0.00 30.46 2.66
2393 2433 0.389391 CCATAGCCCGTCGATGAAGT 59.611 55.000 6.11 0.00 30.46 3.01
2394 2434 0.389391 ACCATAGCCCGTCGATGAAG 59.611 55.000 6.11 0.00 30.46 3.02
2395 2435 0.387929 GACCATAGCCCGTCGATGAA 59.612 55.000 6.11 0.00 30.46 2.57
2396 2436 2.038690 GACCATAGCCCGTCGATGA 58.961 57.895 6.11 0.00 30.46 2.92
2397 2437 4.655527 GACCATAGCCCGTCGATG 57.344 61.111 0.00 0.00 0.00 3.84
2401 2441 3.379865 TTGCCGACCATAGCCCGTC 62.380 63.158 0.00 0.00 0.00 4.79
2402 2442 3.385749 CTTGCCGACCATAGCCCGT 62.386 63.158 0.00 0.00 0.00 5.28
2403 2443 2.588877 CTTGCCGACCATAGCCCG 60.589 66.667 0.00 0.00 0.00 6.13
2404 2444 2.902343 GCTTGCCGACCATAGCCC 60.902 66.667 0.00 0.00 0.00 5.19
2405 2445 3.272334 CGCTTGCCGACCATAGCC 61.272 66.667 0.00 0.00 40.02 3.93
2406 2446 3.272334 CCGCTTGCCGACCATAGC 61.272 66.667 0.00 0.00 40.02 2.97
2407 2447 3.272334 GCCGCTTGCCGACCATAG 61.272 66.667 0.00 0.00 40.02 2.23
2421 2461 4.592192 ATGATCCGCTCACCGCCG 62.592 66.667 0.00 0.00 36.48 6.46
2422 2462 2.663188 GATGATCCGCTCACCGCC 60.663 66.667 0.00 0.00 36.48 6.13
2423 2463 1.287730 GATGATGATCCGCTCACCGC 61.288 60.000 0.00 0.00 36.48 5.68
2424 2464 0.316522 AGATGATGATCCGCTCACCG 59.683 55.000 0.00 0.00 36.48 4.94
2425 2465 2.224137 TGAAGATGATGATCCGCTCACC 60.224 50.000 0.00 0.00 36.48 4.02
2426 2466 2.799412 GTGAAGATGATGATCCGCTCAC 59.201 50.000 4.63 4.63 36.48 3.51
2427 2467 2.224137 GGTGAAGATGATGATCCGCTCA 60.224 50.000 0.00 0.00 38.53 4.26
2428 2468 2.224137 TGGTGAAGATGATGATCCGCTC 60.224 50.000 0.00 0.00 0.00 5.03
2429 2469 1.764723 TGGTGAAGATGATGATCCGCT 59.235 47.619 0.00 0.00 0.00 5.52
2430 2470 1.869767 GTGGTGAAGATGATGATCCGC 59.130 52.381 0.00 0.00 0.00 5.54
2431 2471 2.158914 TGGTGGTGAAGATGATGATCCG 60.159 50.000 0.00 0.00 0.00 4.18
2432 2472 3.565764 TGGTGGTGAAGATGATGATCC 57.434 47.619 0.00 0.00 0.00 3.36
2433 2473 3.629398 GGTTGGTGGTGAAGATGATGATC 59.371 47.826 0.00 0.00 0.00 2.92
2434 2474 3.010472 TGGTTGGTGGTGAAGATGATGAT 59.990 43.478 0.00 0.00 0.00 2.45
2435 2475 2.374839 TGGTTGGTGGTGAAGATGATGA 59.625 45.455 0.00 0.00 0.00 2.92
2436 2476 2.489329 GTGGTTGGTGGTGAAGATGATG 59.511 50.000 0.00 0.00 0.00 3.07
2437 2477 2.108075 TGTGGTTGGTGGTGAAGATGAT 59.892 45.455 0.00 0.00 0.00 2.45
2438 2478 1.492599 TGTGGTTGGTGGTGAAGATGA 59.507 47.619 0.00 0.00 0.00 2.92
2439 2479 1.979855 TGTGGTTGGTGGTGAAGATG 58.020 50.000 0.00 0.00 0.00 2.90
2440 2480 2.586425 CTTGTGGTTGGTGGTGAAGAT 58.414 47.619 0.00 0.00 0.00 2.40
2441 2481 1.409521 CCTTGTGGTTGGTGGTGAAGA 60.410 52.381 0.00 0.00 0.00 2.87
2442 2482 1.032014 CCTTGTGGTTGGTGGTGAAG 58.968 55.000 0.00 0.00 0.00 3.02
2443 2483 0.626382 TCCTTGTGGTTGGTGGTGAA 59.374 50.000 0.00 0.00 34.23 3.18
2444 2484 0.182537 CTCCTTGTGGTTGGTGGTGA 59.817 55.000 0.00 0.00 34.23 4.02
2445 2485 0.182537 TCTCCTTGTGGTTGGTGGTG 59.817 55.000 0.00 0.00 34.23 4.17
2446 2486 0.923358 TTCTCCTTGTGGTTGGTGGT 59.077 50.000 0.00 0.00 34.23 4.16
2447 2487 1.609208 CTTCTCCTTGTGGTTGGTGG 58.391 55.000 0.00 0.00 34.23 4.61
2448 2488 0.954452 GCTTCTCCTTGTGGTTGGTG 59.046 55.000 0.00 0.00 34.23 4.17
2449 2489 0.846693 AGCTTCTCCTTGTGGTTGGT 59.153 50.000 0.00 0.00 34.23 3.67
2450 2490 1.242076 CAGCTTCTCCTTGTGGTTGG 58.758 55.000 0.00 0.00 34.23 3.77
2451 2491 1.202806 TCCAGCTTCTCCTTGTGGTTG 60.203 52.381 0.00 0.00 34.23 3.77
2452 2492 1.140312 TCCAGCTTCTCCTTGTGGTT 58.860 50.000 0.00 0.00 34.23 3.67
2453 2493 0.398318 GTCCAGCTTCTCCTTGTGGT 59.602 55.000 0.00 0.00 34.23 4.16
2454 2494 0.322008 GGTCCAGCTTCTCCTTGTGG 60.322 60.000 0.00 0.00 0.00 4.17
2455 2495 0.322008 GGGTCCAGCTTCTCCTTGTG 60.322 60.000 0.00 0.00 0.00 3.33
2456 2496 1.831652 CGGGTCCAGCTTCTCCTTGT 61.832 60.000 0.00 0.00 0.00 3.16
2457 2497 1.078848 CGGGTCCAGCTTCTCCTTG 60.079 63.158 0.00 0.00 0.00 3.61
2458 2498 2.294078 CCGGGTCCAGCTTCTCCTT 61.294 63.158 0.00 0.00 0.00 3.36
2459 2499 2.685380 CCGGGTCCAGCTTCTCCT 60.685 66.667 0.00 0.00 0.00 3.69
2460 2500 4.475135 GCCGGGTCCAGCTTCTCC 62.475 72.222 2.18 0.00 0.00 3.71
2461 2501 4.821589 CGCCGGGTCCAGCTTCTC 62.822 72.222 2.18 0.00 0.00 2.87
2466 2506 4.547367 ATTAGCGCCGGGTCCAGC 62.547 66.667 2.29 0.00 0.00 4.85
2467 2507 2.280186 GATTAGCGCCGGGTCCAG 60.280 66.667 2.29 0.00 0.00 3.86
2468 2508 3.857038 GGATTAGCGCCGGGTCCA 61.857 66.667 2.29 0.00 0.00 4.02
2469 2509 4.963428 CGGATTAGCGCCGGGTCC 62.963 72.222 2.29 6.20 44.87 4.46


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

AutoCloner maintained by Alex Coulton.