Multiple sequence alignment - TraesCS4B01G228800

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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 TraesCS4B01G228800 chr4B 100.000 2705 0 0 1 2705 479410117 479412821 0.000000e+00 4996.0
1 TraesCS4B01G228800 chr3B 98.158 1846 32 2 1 1845 60739644 60741488 0.000000e+00 3219.0
2 TraesCS4B01G228800 chr3B 91.681 1779 134 6 57 1832 21742849 21744616 0.000000e+00 2453.0
3 TraesCS4B01G228800 chr3B 85.859 99 13 1 2608 2705 164566800 164566702 1.320000e-18 104.0
4 TraesCS4B01G228800 chr5B 94.883 1837 80 8 1 1834 57943246 57945071 0.000000e+00 2859.0
5 TraesCS4B01G228800 chr7D 94.281 1836 102 3 2 1835 45586086 45584252 0.000000e+00 2806.0
6 TraesCS4B01G228800 chr7D 92.274 1838 138 4 1 1836 56994378 56996213 0.000000e+00 2604.0
7 TraesCS4B01G228800 chr2D 92.270 1837 140 2 1 1835 544646265 544648101 0.000000e+00 2604.0
8 TraesCS4B01G228800 chr2D 91.911 1842 144 4 1 1839 10712855 10711016 0.000000e+00 2571.0
9 TraesCS4B01G228800 chr2B 96.800 1375 41 3 472 1843 598569939 598568565 0.000000e+00 2292.0
10 TraesCS4B01G228800 chr7A 95.203 1376 65 1 459 1833 671485429 671486804 0.000000e+00 2174.0
11 TraesCS4B01G228800 chr7B 83.400 1506 229 13 1 1492 738998659 738997161 0.000000e+00 1376.0
12 TraesCS4B01G228800 chr7B 85.776 689 96 2 3 691 739078681 739077995 0.000000e+00 728.0
13 TraesCS4B01G228800 chr7B 84.375 96 14 1 2602 2697 658456556 658456462 2.870000e-15 93.5
14 TraesCS4B01G228800 chr7B 91.489 47 4 0 2602 2648 14168708 14168754 6.250000e-07 65.8
15 TraesCS4B01G228800 chr4D 89.834 482 35 12 1824 2296 389497487 389497963 8.280000e-170 606.0
16 TraesCS4B01G228800 chr4D 96.970 99 3 0 2362 2460 389517148 389517246 1.670000e-37 167.0
17 TraesCS4B01G228800 chr4D 92.188 64 5 0 2611 2674 122298023 122297960 1.030000e-14 91.6
18 TraesCS4B01G228800 chr4D 82.692 104 16 2 2602 2704 293377318 293377216 1.030000e-14 91.6
19 TraesCS4B01G228800 chr4A 88.060 536 20 9 1845 2364 71169867 71170374 1.790000e-166 595.0
20 TraesCS4B01G228800 chr4A 94.845 97 5 0 2362 2458 71172073 71172169 4.660000e-33 152.0
21 TraesCS4B01G228800 chr1D 85.577 104 15 0 2602 2705 401021529 401021632 2.850000e-20 110.0
22 TraesCS4B01G228800 chr1B 86.111 72 10 0 2602 2673 229502512 229502583 8.030000e-11 78.7


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 TraesCS4B01G228800 chr4B 479410117 479412821 2704 False 4996.0 4996 100.0000 1 2705 1 chr4B.!!$F1 2704
1 TraesCS4B01G228800 chr3B 60739644 60741488 1844 False 3219.0 3219 98.1580 1 1845 1 chr3B.!!$F2 1844
2 TraesCS4B01G228800 chr3B 21742849 21744616 1767 False 2453.0 2453 91.6810 57 1832 1 chr3B.!!$F1 1775
3 TraesCS4B01G228800 chr5B 57943246 57945071 1825 False 2859.0 2859 94.8830 1 1834 1 chr5B.!!$F1 1833
4 TraesCS4B01G228800 chr7D 45584252 45586086 1834 True 2806.0 2806 94.2810 2 1835 1 chr7D.!!$R1 1833
5 TraesCS4B01G228800 chr7D 56994378 56996213 1835 False 2604.0 2604 92.2740 1 1836 1 chr7D.!!$F1 1835
6 TraesCS4B01G228800 chr2D 544646265 544648101 1836 False 2604.0 2604 92.2700 1 1835 1 chr2D.!!$F1 1834
7 TraesCS4B01G228800 chr2D 10711016 10712855 1839 True 2571.0 2571 91.9110 1 1839 1 chr2D.!!$R1 1838
8 TraesCS4B01G228800 chr2B 598568565 598569939 1374 True 2292.0 2292 96.8000 472 1843 1 chr2B.!!$R1 1371
9 TraesCS4B01G228800 chr7A 671485429 671486804 1375 False 2174.0 2174 95.2030 459 1833 1 chr7A.!!$F1 1374
10 TraesCS4B01G228800 chr7B 738997161 738998659 1498 True 1376.0 1376 83.4000 1 1492 1 chr7B.!!$R2 1491
11 TraesCS4B01G228800 chr7B 739077995 739078681 686 True 728.0 728 85.7760 3 691 1 chr7B.!!$R3 688
12 TraesCS4B01G228800 chr4A 71169867 71172169 2302 False 373.5 595 91.4525 1845 2458 2 chr4A.!!$F1 613

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
789 792 1.070105 CGAGTGAACCCGGGAACAA 59.93 57.895 32.02 6.67 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2265 2288 0.035056 AGCAAAACCGAGATGGAGGG 60.035 55.0 0.0 0.0 42.0 4.3 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
68 69 5.999205 ATCAATTGTACAATCCTTGCCAA 57.001 34.783 21.02 2.73 31.95 4.52
571 574 5.694006 CCAATTAATGCTTTCGGACACAAAA 59.306 36.000 0.00 0.00 0.00 2.44
623 626 2.516906 TCCATGCTTTTGATGCAGACA 58.483 42.857 0.00 0.00 44.04 3.41
789 792 1.070105 CGAGTGAACCCGGGAACAA 59.930 57.895 32.02 6.67 0.00 2.83
868 875 2.027625 GAGAGTGGCGACCCAAACG 61.028 63.158 0.00 0.00 44.33 3.60
1154 1163 1.352352 CCTCAGGAACAACACCATCCT 59.648 52.381 0.00 0.00 44.37 3.24
1364 1381 4.277174 TGTAAAAATCAACTGTGATGCCGT 59.723 37.500 0.00 0.00 44.02 5.68
1510 1531 1.764723 CTGCACTGATGGGGATGTCTA 59.235 52.381 0.00 0.00 0.00 2.59
1702 1724 1.181741 TCAGAACGAGCTGGCTCACT 61.182 55.000 20.39 13.43 42.86 3.41
1866 1889 2.120232 GGCGATCTTACATGACTGTCG 58.880 52.381 0.00 3.91 36.79 4.35
1868 1891 2.784380 GCGATCTTACATGACTGTCGAC 59.216 50.000 9.11 9.11 36.79 4.20
1874 1897 4.519350 TCTTACATGACTGTCGACTGTTCT 59.481 41.667 26.07 15.10 36.79 3.01
1914 1937 8.445361 AACAAACTTCCTAGAGAGGGTAATAA 57.555 34.615 0.00 0.00 43.94 1.40
1947 1970 8.648698 AATATATAAATGCTGCATAACACCCA 57.351 30.769 16.58 0.00 0.00 4.51
1948 1971 4.924305 ATAAATGCTGCATAACACCCAG 57.076 40.909 16.58 0.00 0.00 4.45
1950 1973 4.326255 GCTGCATAACACCCAGCT 57.674 55.556 4.74 0.00 46.28 4.24
1951 1974 1.805254 GCTGCATAACACCCAGCTG 59.195 57.895 6.78 6.78 46.28 4.24
1952 1975 0.677731 GCTGCATAACACCCAGCTGA 60.678 55.000 17.39 0.00 46.28 4.26
1953 1976 2.020694 GCTGCATAACACCCAGCTGAT 61.021 52.381 17.39 0.00 46.28 2.90
1954 1977 2.372264 CTGCATAACACCCAGCTGATT 58.628 47.619 17.39 6.51 0.00 2.57
1955 1978 2.756760 CTGCATAACACCCAGCTGATTT 59.243 45.455 17.39 4.84 0.00 2.17
1956 1979 3.164268 TGCATAACACCCAGCTGATTTT 58.836 40.909 17.39 4.95 0.00 1.82
1957 1980 4.339748 TGCATAACACCCAGCTGATTTTA 58.660 39.130 17.39 7.12 0.00 1.52
1958 1981 4.769488 TGCATAACACCCAGCTGATTTTAA 59.231 37.500 17.39 0.00 0.00 1.52
1959 1982 5.421693 TGCATAACACCCAGCTGATTTTAAT 59.578 36.000 17.39 0.00 0.00 1.40
1960 1983 5.979517 GCATAACACCCAGCTGATTTTAATC 59.020 40.000 17.39 0.32 35.97 1.75
1961 1984 6.507023 CATAACACCCAGCTGATTTTAATCC 58.493 40.000 17.39 0.00 34.50 3.01
1962 1985 3.016736 ACACCCAGCTGATTTTAATCCG 58.983 45.455 17.39 0.00 34.50 4.18
1963 1986 2.024414 ACCCAGCTGATTTTAATCCGC 58.976 47.619 17.39 9.90 43.35 5.54
1964 1987 2.023673 CCCAGCTGATTTTAATCCGCA 58.976 47.619 17.39 0.00 44.80 5.69
1965 1988 2.624838 CCCAGCTGATTTTAATCCGCAT 59.375 45.455 17.39 4.28 44.80 4.73
1966 1989 3.304928 CCCAGCTGATTTTAATCCGCATC 60.305 47.826 17.39 0.00 44.80 3.91
1967 1990 3.304928 CCAGCTGATTTTAATCCGCATCC 60.305 47.826 17.39 0.00 44.80 3.51
1999 2022 1.784283 CATTTCGTGCGTGTTTTTCCC 59.216 47.619 0.00 0.00 0.00 3.97
2002 2025 1.657181 CGTGCGTGTTTTTCCCTGC 60.657 57.895 0.00 0.00 0.00 4.85
2156 2179 3.119743 TGTGCGCAGAAGTATTACGTACT 60.120 43.478 12.22 0.00 45.56 2.73
2157 2180 3.239941 GTGCGCAGAAGTATTACGTACTG 59.760 47.826 12.22 0.00 42.83 2.74
2158 2181 3.119743 TGCGCAGAAGTATTACGTACTGT 60.120 43.478 5.66 0.00 42.83 3.55
2159 2182 4.094739 TGCGCAGAAGTATTACGTACTGTA 59.905 41.667 5.66 0.00 42.83 2.74
2160 2183 4.435877 GCGCAGAAGTATTACGTACTGTAC 59.564 45.833 0.30 7.90 42.83 2.90
2178 2201 0.330604 ACGTAGTAGAGCCTGACCCA 59.669 55.000 0.00 0.00 41.94 4.51
2233 2256 4.681978 ACGTTGCCCAGCTCGGAC 62.682 66.667 0.00 0.00 36.56 4.79
2271 2294 1.425831 TCGGAAATTTTGACCCCTCCA 59.574 47.619 0.00 0.00 0.00 3.86
2276 2299 2.717639 ATTTTGACCCCTCCATCTCG 57.282 50.000 0.00 0.00 0.00 4.04
2279 2302 0.546747 TTGACCCCTCCATCTCGGTT 60.547 55.000 0.00 0.00 35.57 4.44
2281 2304 0.618981 GACCCCTCCATCTCGGTTTT 59.381 55.000 0.00 0.00 35.57 2.43
2315 2343 3.996150 AGCACACATCTTGTTCCAAAG 57.004 42.857 0.00 0.00 35.67 2.77
2317 2345 3.701040 AGCACACATCTTGTTCCAAAGTT 59.299 39.130 0.00 0.00 35.67 2.66
2331 2359 5.514274 TCCAAAGTTCCATCAGTTTTGTC 57.486 39.130 0.00 0.00 0.00 3.18
2334 2362 4.552166 AAGTTCCATCAGTTTTGTCGTG 57.448 40.909 0.00 0.00 0.00 4.35
2340 2379 1.098712 TCAGTTTTGTCGTGGCCACC 61.099 55.000 29.95 17.38 0.00 4.61
2360 2399 2.476619 CCATCTCGGTTTTGCTATAGCG 59.523 50.000 19.55 4.57 45.83 4.26
2364 2403 4.107622 TCTCGGTTTTGCTATAGCGTTAC 58.892 43.478 19.55 15.28 45.83 2.50
2366 2405 4.435425 TCGGTTTTGCTATAGCGTTACAT 58.565 39.130 19.55 0.00 45.83 2.29
2367 2406 4.269123 TCGGTTTTGCTATAGCGTTACATG 59.731 41.667 19.55 12.14 45.83 3.21
2368 2407 4.033587 CGGTTTTGCTATAGCGTTACATGT 59.966 41.667 19.55 2.69 45.83 3.21
2371 2410 6.250527 GGTTTTGCTATAGCGTTACATGTTTG 59.749 38.462 19.55 0.00 45.83 2.93
2372 2411 4.530094 TGCTATAGCGTTACATGTTTGC 57.470 40.909 19.55 6.08 45.83 3.68
2398 4138 2.031769 CGTCGTAAGTCACCTGTGTGTA 60.032 50.000 0.00 0.00 43.26 2.90
2417 4157 7.988547 GTGTGTACACGTTTGATTTATTTTCC 58.011 34.615 20.61 0.00 37.10 3.13
2419 4159 7.644551 TGTGTACACGTTTGATTTATTTTCCAC 59.355 33.333 20.61 0.00 0.00 4.02
2458 4198 0.549469 TGAGGAGTGGATGCATGCAT 59.451 50.000 32.66 32.66 39.69 3.96
2459 4199 0.952280 GAGGAGTGGATGCATGCATG 59.048 55.000 36.73 22.70 36.70 4.06
2460 4200 0.467474 AGGAGTGGATGCATGCATGG 60.467 55.000 36.73 10.03 36.70 3.66
2461 4201 0.466739 GGAGTGGATGCATGCATGGA 60.467 55.000 36.73 25.66 36.70 3.41
2462 4202 1.617322 GAGTGGATGCATGCATGGAT 58.383 50.000 36.73 30.95 41.76 3.41
2463 4203 1.269723 GAGTGGATGCATGCATGGATG 59.730 52.381 36.73 21.79 39.04 3.51
2474 4214 2.104267 CATGGATGCAGTGTGAGGC 58.896 57.895 0.00 0.00 0.00 4.70
2475 4215 0.678684 CATGGATGCAGTGTGAGGCA 60.679 55.000 0.00 0.00 45.23 4.75
2490 4230 2.049433 GCACGAGCCACACGTAGT 60.049 61.111 0.00 0.00 42.07 2.73
2501 4241 4.598257 ACGTAGTGATGCTGCCAC 57.402 55.556 0.00 0.00 42.51 5.01
2502 4242 1.671166 ACGTAGTGATGCTGCCACA 59.329 52.632 10.84 2.34 42.51 4.17
2503 4243 0.670546 ACGTAGTGATGCTGCCACAC 60.671 55.000 15.09 15.09 42.51 3.82
2504 4244 0.670239 CGTAGTGATGCTGCCACACA 60.670 55.000 21.52 9.97 37.01 3.72
2505 4245 1.522668 GTAGTGATGCTGCCACACAA 58.477 50.000 21.52 3.12 37.01 3.33
2506 4246 1.197721 GTAGTGATGCTGCCACACAAC 59.802 52.381 21.52 9.74 37.01 3.32
2507 4247 0.179009 AGTGATGCTGCCACACAACT 60.179 50.000 21.52 5.68 37.01 3.16
2508 4248 0.039798 GTGATGCTGCCACACAACTG 60.040 55.000 17.03 0.00 34.81 3.16
2509 4249 0.466007 TGATGCTGCCACACAACTGT 60.466 50.000 0.00 0.00 0.00 3.55
2510 4250 0.239347 GATGCTGCCACACAACTGTC 59.761 55.000 0.00 0.00 0.00 3.51
2511 4251 1.174712 ATGCTGCCACACAACTGTCC 61.175 55.000 0.00 0.00 0.00 4.02
2512 4252 2.896801 GCTGCCACACAACTGTCCG 61.897 63.158 0.00 0.00 0.00 4.79
2513 4253 2.896801 CTGCCACACAACTGTCCGC 61.897 63.158 0.00 0.00 0.00 5.54
2514 4254 2.899838 GCCACACAACTGTCCGCA 60.900 61.111 0.00 0.00 0.00 5.69
2515 4255 3.022287 CCACACAACTGTCCGCAC 58.978 61.111 0.00 0.00 0.00 5.34
2516 4256 1.523711 CCACACAACTGTCCGCACT 60.524 57.895 0.00 0.00 0.00 4.40
2517 4257 1.095228 CCACACAACTGTCCGCACTT 61.095 55.000 0.00 0.00 0.00 3.16
2518 4258 0.027979 CACACAACTGTCCGCACTTG 59.972 55.000 0.00 0.00 0.00 3.16
2519 4259 0.392461 ACACAACTGTCCGCACTTGT 60.392 50.000 0.00 0.00 33.82 3.16
2520 4260 0.027979 CACAACTGTCCGCACTTGTG 59.972 55.000 0.00 0.00 40.37 3.33
2521 4261 0.392461 ACAACTGTCCGCACTTGTGT 60.392 50.000 2.61 0.00 32.85 3.72
2522 4262 0.304705 CAACTGTCCGCACTTGTGTC 59.695 55.000 2.61 0.00 0.00 3.67
2523 4263 1.151777 AACTGTCCGCACTTGTGTCG 61.152 55.000 2.61 6.61 0.00 4.35
2524 4264 2.279851 TGTCCGCACTTGTGTCGG 60.280 61.111 21.50 21.50 44.16 4.79
2525 4265 3.041940 GTCCGCACTTGTGTCGGG 61.042 66.667 24.51 14.75 43.10 5.14
2526 4266 4.308458 TCCGCACTTGTGTCGGGG 62.308 66.667 24.51 12.96 43.10 5.73
2527 4267 4.619227 CCGCACTTGTGTCGGGGT 62.619 66.667 20.49 0.00 39.52 4.95
2528 4268 3.345808 CGCACTTGTGTCGGGGTG 61.346 66.667 2.61 0.00 0.00 4.61
2529 4269 2.978010 GCACTTGTGTCGGGGTGG 60.978 66.667 2.61 0.00 0.00 4.61
2530 4270 2.508928 CACTTGTGTCGGGGTGGT 59.491 61.111 0.00 0.00 0.00 4.16
2531 4271 1.597027 CACTTGTGTCGGGGTGGTC 60.597 63.158 0.00 0.00 0.00 4.02
2532 4272 2.357034 CTTGTGTCGGGGTGGTCG 60.357 66.667 0.00 0.00 0.00 4.79
2533 4273 3.876589 CTTGTGTCGGGGTGGTCGG 62.877 68.421 0.00 0.00 0.00 4.79
2543 4283 2.357517 GTGGTCGGCACACCTGAG 60.358 66.667 5.01 0.00 37.34 3.35
2544 4284 2.523168 TGGTCGGCACACCTGAGA 60.523 61.111 5.01 0.00 37.34 3.27
2545 4285 2.048127 GGTCGGCACACCTGAGAC 60.048 66.667 0.00 0.00 33.08 3.36
2546 4286 2.574955 GGTCGGCACACCTGAGACT 61.575 63.158 0.00 0.00 33.08 3.24
2547 4287 1.373497 GTCGGCACACCTGAGACTG 60.373 63.158 0.00 0.00 0.00 3.51
2548 4288 2.047844 CGGCACACCTGAGACTGG 60.048 66.667 0.00 0.00 0.00 4.00
2549 4289 2.359230 GGCACACCTGAGACTGGC 60.359 66.667 0.00 0.00 0.00 4.85
2550 4290 2.427320 GCACACCTGAGACTGGCA 59.573 61.111 0.00 0.00 0.00 4.92
2551 4291 1.227943 GCACACCTGAGACTGGCAA 60.228 57.895 0.00 0.00 0.00 4.52
2552 4292 1.233285 GCACACCTGAGACTGGCAAG 61.233 60.000 0.00 0.00 0.00 4.01
2553 4293 0.394192 CACACCTGAGACTGGCAAGA 59.606 55.000 0.00 0.00 0.00 3.02
2554 4294 1.131638 ACACCTGAGACTGGCAAGAA 58.868 50.000 0.00 0.00 0.00 2.52
2555 4295 1.701847 ACACCTGAGACTGGCAAGAAT 59.298 47.619 0.00 0.00 0.00 2.40
2556 4296 2.082231 CACCTGAGACTGGCAAGAATG 58.918 52.381 0.00 0.00 0.00 2.67
2574 4314 2.579787 CGGAGCTTCGACGCGATT 60.580 61.111 15.93 0.00 35.23 3.34
2575 4315 2.158959 CGGAGCTTCGACGCGATTT 61.159 57.895 15.93 0.00 35.23 2.17
2576 4316 1.345176 GGAGCTTCGACGCGATTTG 59.655 57.895 15.93 0.00 35.23 2.32
2577 4317 1.345176 GAGCTTCGACGCGATTTGG 59.655 57.895 15.93 0.40 35.23 3.28
2578 4318 1.076533 GAGCTTCGACGCGATTTGGA 61.077 55.000 15.93 0.00 35.23 3.53
2579 4319 0.669318 AGCTTCGACGCGATTTGGAA 60.669 50.000 15.93 2.35 35.23 3.53
2580 4320 0.247301 GCTTCGACGCGATTTGGAAG 60.247 55.000 15.93 14.19 35.23 3.46
2581 4321 0.370273 CTTCGACGCGATTTGGAAGG 59.630 55.000 15.93 0.00 35.23 3.46
2582 4322 1.632046 TTCGACGCGATTTGGAAGGC 61.632 55.000 15.93 0.00 35.23 4.35
2583 4323 2.387445 CGACGCGATTTGGAAGGCA 61.387 57.895 15.93 0.00 0.00 4.75
2584 4324 1.134694 GACGCGATTTGGAAGGCAC 59.865 57.895 15.93 0.00 0.00 5.01
2586 4326 0.036765 ACGCGATTTGGAAGGCACTA 60.037 50.000 15.93 0.00 38.49 2.74
2587 4327 1.083489 CGCGATTTGGAAGGCACTAA 58.917 50.000 0.00 0.00 38.49 2.24
2588 4328 1.062587 CGCGATTTGGAAGGCACTAAG 59.937 52.381 0.00 0.00 38.49 2.18
2589 4329 2.356135 GCGATTTGGAAGGCACTAAGA 58.644 47.619 0.00 0.00 38.49 2.10
2590 4330 2.352960 GCGATTTGGAAGGCACTAAGAG 59.647 50.000 0.00 0.00 38.49 2.85
2591 4331 2.352960 CGATTTGGAAGGCACTAAGAGC 59.647 50.000 0.00 0.00 38.49 4.09
2592 4332 2.949177 TTTGGAAGGCACTAAGAGCA 57.051 45.000 0.00 0.00 38.49 4.26
2593 4333 2.949177 TTGGAAGGCACTAAGAGCAA 57.051 45.000 0.00 0.00 38.49 3.91
2594 4334 2.185004 TGGAAGGCACTAAGAGCAAC 57.815 50.000 0.00 0.00 38.49 4.17
2595 4335 1.699634 TGGAAGGCACTAAGAGCAACT 59.300 47.619 0.00 0.00 38.49 3.16
2596 4336 2.106511 TGGAAGGCACTAAGAGCAACTT 59.893 45.455 2.10 2.10 38.49 2.66
2597 4337 2.744741 GGAAGGCACTAAGAGCAACTTC 59.255 50.000 0.00 0.00 38.49 3.01
2598 4338 3.403038 GAAGGCACTAAGAGCAACTTCA 58.597 45.455 0.00 0.00 38.49 3.02
2599 4339 3.492102 AGGCACTAAGAGCAACTTCAA 57.508 42.857 0.00 0.00 39.72 2.69
2600 4340 4.026356 AGGCACTAAGAGCAACTTCAAT 57.974 40.909 0.00 0.00 39.72 2.57
2601 4341 5.165961 AGGCACTAAGAGCAACTTCAATA 57.834 39.130 0.00 0.00 39.72 1.90
2602 4342 5.560724 AGGCACTAAGAGCAACTTCAATAA 58.439 37.500 0.00 0.00 39.72 1.40
2603 4343 5.412904 AGGCACTAAGAGCAACTTCAATAAC 59.587 40.000 0.00 0.00 39.72 1.89
2604 4344 5.412904 GGCACTAAGAGCAACTTCAATAACT 59.587 40.000 0.00 0.00 39.72 2.24
2605 4345 6.072452 GGCACTAAGAGCAACTTCAATAACTT 60.072 38.462 0.00 0.00 39.72 2.66
2606 4346 7.018235 GCACTAAGAGCAACTTCAATAACTTC 58.982 38.462 0.00 0.00 39.72 3.01
2607 4347 7.307989 GCACTAAGAGCAACTTCAATAACTTCA 60.308 37.037 0.00 0.00 39.72 3.02
2608 4348 8.559536 CACTAAGAGCAACTTCAATAACTTCAA 58.440 33.333 0.00 0.00 39.72 2.69
2609 4349 9.289782 ACTAAGAGCAACTTCAATAACTTCAAT 57.710 29.630 0.00 0.00 39.72 2.57
2610 4350 9.552114 CTAAGAGCAACTTCAATAACTTCAATG 57.448 33.333 0.00 0.00 39.72 2.82
2611 4351 6.917533 AGAGCAACTTCAATAACTTCAATGG 58.082 36.000 0.00 0.00 0.00 3.16
2612 4352 6.029346 AGCAACTTCAATAACTTCAATGGG 57.971 37.500 0.00 0.00 0.00 4.00
2613 4353 5.047092 AGCAACTTCAATAACTTCAATGGGG 60.047 40.000 0.00 0.00 0.00 4.96
2614 4354 5.170748 CAACTTCAATAACTTCAATGGGGC 58.829 41.667 0.00 0.00 0.00 5.80
2615 4355 3.443681 ACTTCAATAACTTCAATGGGGCG 59.556 43.478 0.00 0.00 0.00 6.13
2616 4356 3.358111 TCAATAACTTCAATGGGGCGA 57.642 42.857 0.00 0.00 0.00 5.54
2617 4357 3.897239 TCAATAACTTCAATGGGGCGAT 58.103 40.909 0.00 0.00 0.00 4.58
2618 4358 3.882888 TCAATAACTTCAATGGGGCGATC 59.117 43.478 0.00 0.00 0.00 3.69
2619 4359 2.341846 TAACTTCAATGGGGCGATCC 57.658 50.000 0.00 0.00 0.00 3.36
2620 4360 0.331278 AACTTCAATGGGGCGATCCA 59.669 50.000 0.00 0.00 41.60 3.41
2621 4361 0.331278 ACTTCAATGGGGCGATCCAA 59.669 50.000 1.33 0.00 40.62 3.53
2622 4362 1.272425 ACTTCAATGGGGCGATCCAAA 60.272 47.619 1.33 0.00 40.62 3.28
2623 4363 1.134946 CTTCAATGGGGCGATCCAAAC 59.865 52.381 1.33 0.00 40.62 2.93
2624 4364 1.029408 TCAATGGGGCGATCCAAACG 61.029 55.000 1.33 0.00 40.62 3.60
2625 4365 1.752694 AATGGGGCGATCCAAACGG 60.753 57.895 1.33 0.00 40.62 4.44
2626 4366 2.204865 AATGGGGCGATCCAAACGGA 62.205 55.000 1.33 0.00 40.62 4.69
2627 4367 2.822701 GGGGCGATCCAAACGGAC 60.823 66.667 0.00 0.00 34.62 4.79
2628 4368 3.192922 GGGCGATCCAAACGGACG 61.193 66.667 0.00 0.00 34.62 4.79
2629 4369 3.192922 GGCGATCCAAACGGACGG 61.193 66.667 0.00 0.00 34.62 4.79
2630 4370 2.433664 GCGATCCAAACGGACGGT 60.434 61.111 0.00 0.00 34.62 4.83
2631 4371 2.736682 GCGATCCAAACGGACGGTG 61.737 63.158 0.00 0.00 34.62 4.94
2632 4372 1.080366 CGATCCAAACGGACGGTGA 60.080 57.895 0.00 0.00 34.62 4.02
2633 4373 0.459585 CGATCCAAACGGACGGTGAT 60.460 55.000 0.00 0.00 34.62 3.06
2634 4374 1.734163 GATCCAAACGGACGGTGATT 58.266 50.000 0.00 0.00 34.62 2.57
2635 4375 2.081462 GATCCAAACGGACGGTGATTT 58.919 47.619 0.00 0.00 34.62 2.17
2636 4376 1.515081 TCCAAACGGACGGTGATTTC 58.485 50.000 0.00 0.00 0.00 2.17
2637 4377 1.202663 TCCAAACGGACGGTGATTTCA 60.203 47.619 0.00 0.00 0.00 2.69
2638 4378 1.810151 CCAAACGGACGGTGATTTCAT 59.190 47.619 0.00 0.00 0.00 2.57
2639 4379 2.159572 CCAAACGGACGGTGATTTCATC 60.160 50.000 0.00 0.00 0.00 2.92
2640 4380 1.734163 AACGGACGGTGATTTCATCC 58.266 50.000 0.00 0.00 0.00 3.51
2641 4381 2.297625 CGGACGGTGATTTCATCCG 58.702 57.895 15.35 15.35 45.61 4.18
2643 4383 1.734163 GGACGGTGATTTCATCCGTT 58.266 50.000 20.31 10.24 46.02 4.44
2644 4384 2.081462 GGACGGTGATTTCATCCGTTT 58.919 47.619 20.31 6.56 46.02 3.60
2645 4385 2.486592 GGACGGTGATTTCATCCGTTTT 59.513 45.455 20.31 6.06 46.02 2.43
2646 4386 3.057806 GGACGGTGATTTCATCCGTTTTT 60.058 43.478 20.31 5.80 46.02 1.94
2665 4405 2.427232 TTATCCGTTTAGATCGGCCG 57.573 50.000 22.12 22.12 46.49 6.13
2666 4406 0.038892 TATCCGTTTAGATCGGCCGC 60.039 55.000 23.51 7.63 46.49 6.53
2667 4407 2.710724 ATCCGTTTAGATCGGCCGCC 62.711 60.000 23.51 15.11 46.49 6.13
2668 4408 2.965462 CGTTTAGATCGGCCGCCC 60.965 66.667 23.51 14.70 0.00 6.13
2692 4432 2.691984 GGCGTTCGCCTTCTTTTAAA 57.308 45.000 25.91 0.00 46.99 1.52
2693 4433 3.211803 GGCGTTCGCCTTCTTTTAAAT 57.788 42.857 25.91 0.00 46.99 1.40
2694 4434 4.345271 GGCGTTCGCCTTCTTTTAAATA 57.655 40.909 25.91 0.00 46.99 1.40
2695 4435 4.916870 GGCGTTCGCCTTCTTTTAAATAT 58.083 39.130 25.91 0.00 46.99 1.28
2696 4436 4.733405 GGCGTTCGCCTTCTTTTAAATATG 59.267 41.667 25.91 0.00 46.99 1.78
2697 4437 4.733405 GCGTTCGCCTTCTTTTAAATATGG 59.267 41.667 5.87 0.00 0.00 2.74
2698 4438 5.270853 CGTTCGCCTTCTTTTAAATATGGG 58.729 41.667 0.00 0.00 0.00 4.00
2699 4439 5.163693 CGTTCGCCTTCTTTTAAATATGGGT 60.164 40.000 0.00 0.00 0.00 4.51
2700 4440 6.263344 GTTCGCCTTCTTTTAAATATGGGTC 58.737 40.000 0.00 0.00 0.00 4.46
2701 4441 4.573201 TCGCCTTCTTTTAAATATGGGTCG 59.427 41.667 0.00 0.09 0.00 4.79
2702 4442 4.261031 CGCCTTCTTTTAAATATGGGTCGG 60.261 45.833 0.00 0.00 0.00 4.79
2703 4443 4.499188 GCCTTCTTTTAAATATGGGTCGGC 60.499 45.833 0.00 0.00 0.00 5.54
2704 4444 4.642885 CCTTCTTTTAAATATGGGTCGGCA 59.357 41.667 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 3.768878 TGAAAACCCCCATGACGTAAAT 58.231 40.909 0.00 0.00 0.00 1.40
265 267 1.767672 CAGCCTCCATCCCTGCCTA 60.768 63.158 0.00 0.00 0.00 3.93
571 574 1.254026 TGAGGTCGACGTTCCATTCT 58.746 50.000 12.67 0.00 0.00 2.40
623 626 4.383010 GGGGATTCGGATTTTGCAGATTTT 60.383 41.667 0.00 0.00 0.00 1.82
789 792 5.210430 TCCATATGACATCCCAAATGCTTT 58.790 37.500 3.65 0.00 0.00 3.51
868 875 2.158645 GGTGTTGTGTTTTGTTGCCAAC 59.841 45.455 0.00 0.00 36.74 3.77
1154 1163 2.135189 CAGTATCCTTCCCATCCCCAA 58.865 52.381 0.00 0.00 0.00 4.12
1380 1397 0.030092 CTCCTCCCCAAGTATCCCCA 60.030 60.000 0.00 0.00 0.00 4.96
1510 1531 2.409975 CCCATACACGTTCGACAGTTT 58.590 47.619 0.00 0.00 0.00 2.66
1702 1724 2.161855 CCTTGTTGTGGCTGCAATCTA 58.838 47.619 0.50 0.00 0.00 1.98
1840 1863 3.704566 AGTCATGTAAGATCGCCACCTTA 59.295 43.478 0.00 0.00 0.00 2.69
1844 1867 2.860735 GACAGTCATGTAAGATCGCCAC 59.139 50.000 0.00 0.00 40.68 5.01
1845 1868 2.479560 CGACAGTCATGTAAGATCGCCA 60.480 50.000 0.41 0.00 40.68 5.69
1846 1869 2.120232 CGACAGTCATGTAAGATCGCC 58.880 52.381 0.41 0.00 40.68 5.54
1847 1870 2.784380 GTCGACAGTCATGTAAGATCGC 59.216 50.000 11.55 0.00 40.68 4.58
1848 1871 4.031691 CAGTCGACAGTCATGTAAGATCG 58.968 47.826 19.50 0.00 40.68 3.69
1849 1872 4.987832 ACAGTCGACAGTCATGTAAGATC 58.012 43.478 19.50 0.00 40.68 2.75
1850 1873 5.184096 AGAACAGTCGACAGTCATGTAAGAT 59.816 40.000 19.50 0.00 40.68 2.40
1866 1889 8.617809 TGTTTTTACAAGGTCAATAGAACAGTC 58.382 33.333 0.00 0.00 32.39 3.51
1868 1891 9.796120 TTTGTTTTTACAAGGTCAATAGAACAG 57.204 29.630 0.00 0.00 32.39 3.16
1874 1897 8.973182 AGGAAGTTTGTTTTTACAAGGTCAATA 58.027 29.630 0.00 0.00 0.00 1.90
1949 1972 2.350772 GCCGGATGCGGATTAAAATCAG 60.351 50.000 31.38 0.00 37.15 2.90
1950 1973 1.606668 GCCGGATGCGGATTAAAATCA 59.393 47.619 31.38 0.00 37.15 2.57
1951 1974 1.606668 TGCCGGATGCGGATTAAAATC 59.393 47.619 31.38 9.33 45.60 2.17
1952 1975 1.686355 TGCCGGATGCGGATTAAAAT 58.314 45.000 31.38 0.00 45.60 1.82
1953 1976 1.464734 TTGCCGGATGCGGATTAAAA 58.535 45.000 31.38 11.55 45.60 1.52
1954 1977 1.403679 CTTTGCCGGATGCGGATTAAA 59.596 47.619 31.38 22.67 45.60 1.52
1955 1978 1.021202 CTTTGCCGGATGCGGATTAA 58.979 50.000 31.38 17.22 45.60 1.40
1956 1979 0.107410 ACTTTGCCGGATGCGGATTA 60.107 50.000 31.38 11.80 45.60 1.75
1957 1980 1.378514 ACTTTGCCGGATGCGGATT 60.379 52.632 31.38 4.38 45.60 3.01
1958 1981 2.114670 CACTTTGCCGGATGCGGAT 61.115 57.895 31.38 5.38 45.60 4.18
1959 1982 2.745884 CACTTTGCCGGATGCGGA 60.746 61.111 31.38 11.85 45.60 5.54
1960 1983 4.481112 GCACTTTGCCGGATGCGG 62.481 66.667 22.84 22.84 45.60 5.69
1961 1984 3.736100 TGCACTTTGCCGGATGCG 61.736 61.111 5.05 0.00 44.23 4.73
1962 1985 2.126346 GTGCACTTTGCCGGATGC 60.126 61.111 10.32 6.90 44.23 3.91
1963 1986 0.244450 AATGTGCACTTTGCCGGATG 59.756 50.000 19.41 0.00 44.23 3.51
1964 1987 0.968405 AAATGTGCACTTTGCCGGAT 59.032 45.000 19.41 0.00 44.23 4.18
1965 1988 0.313672 GAAATGTGCACTTTGCCGGA 59.686 50.000 19.41 0.00 44.23 5.14
1966 1989 1.003262 CGAAATGTGCACTTTGCCGG 61.003 55.000 19.41 0.00 44.23 6.13
1967 1990 0.317770 ACGAAATGTGCACTTTGCCG 60.318 50.000 25.10 25.10 44.23 5.69
1999 2022 0.743701 GTGGAGCCACTCATCAGCAG 60.744 60.000 12.30 0.00 43.12 4.24
2002 2025 2.189594 TTTGTGGAGCCACTCATCAG 57.810 50.000 19.47 0.00 46.30 2.90
2028 2051 1.741706 TCCAACCTCGATCGTGTCTAC 59.258 52.381 15.94 0.00 0.00 2.59
2156 2179 2.636830 GGTCAGGCTCTACTACGTACA 58.363 52.381 0.00 0.00 0.00 2.90
2157 2180 1.946081 GGGTCAGGCTCTACTACGTAC 59.054 57.143 0.00 0.00 0.00 3.67
2158 2181 1.561076 TGGGTCAGGCTCTACTACGTA 59.439 52.381 0.00 0.00 0.00 3.57
2159 2182 0.330604 TGGGTCAGGCTCTACTACGT 59.669 55.000 0.00 0.00 0.00 3.57
2160 2183 1.025812 CTGGGTCAGGCTCTACTACG 58.974 60.000 0.00 0.00 0.00 3.51
2233 2256 3.123804 CCGAATGGAACGTAGAGATTGG 58.876 50.000 0.00 0.00 37.49 3.16
2259 2282 0.546747 ACCGAGATGGAGGGGTCAAA 60.547 55.000 0.00 0.00 42.00 2.69
2265 2288 0.035056 AGCAAAACCGAGATGGAGGG 60.035 55.000 0.00 0.00 42.00 4.30
2310 2338 4.202010 ACGACAAAACTGATGGAACTTTGG 60.202 41.667 0.00 0.00 32.50 3.28
2315 2343 2.604614 GCCACGACAAAACTGATGGAAC 60.605 50.000 0.00 0.00 0.00 3.62
2317 2345 1.234821 GCCACGACAAAACTGATGGA 58.765 50.000 0.00 0.00 0.00 3.41
2340 2379 3.123804 ACGCTATAGCAAAACCGAGATG 58.876 45.455 23.99 5.98 42.21 2.90
2360 2399 3.215244 CGACGACAAGCAAACATGTAAC 58.785 45.455 0.00 0.00 0.00 2.50
2364 2403 3.059868 ACTTACGACGACAAGCAAACATG 60.060 43.478 0.00 0.00 0.00 3.21
2366 2405 2.536803 GACTTACGACGACAAGCAAACA 59.463 45.455 0.00 0.00 0.00 2.83
2367 2406 2.536803 TGACTTACGACGACAAGCAAAC 59.463 45.455 0.00 0.00 0.00 2.93
2368 2407 2.536803 GTGACTTACGACGACAAGCAAA 59.463 45.455 0.00 0.00 0.00 3.68
2371 2410 1.058404 GGTGACTTACGACGACAAGC 58.942 55.000 0.00 2.36 0.00 4.01
2372 2411 2.287427 ACAGGTGACTTACGACGACAAG 60.287 50.000 0.00 7.13 40.21 3.16
2398 4138 5.216648 CCGTGGAAAATAAATCAAACGTGT 58.783 37.500 0.00 0.00 30.81 4.49
2417 4157 2.724977 TCTAAGTTCTCACTGCCGTG 57.275 50.000 1.20 1.20 42.59 4.94
2419 4159 2.989840 CAGTTCTAAGTTCTCACTGCCG 59.010 50.000 0.00 0.00 31.60 5.69
2458 4198 1.302752 GTGCCTCACACTGCATCCA 60.303 57.895 0.00 0.00 46.41 3.41
2459 4199 3.583383 GTGCCTCACACTGCATCC 58.417 61.111 0.00 0.00 46.41 3.51
2473 4213 2.049433 ACTACGTGTGGCTCGTGC 60.049 61.111 0.00 0.00 41.62 5.34
2474 4214 0.109272 ATCACTACGTGTGGCTCGTG 60.109 55.000 15.08 4.72 46.20 4.35
2475 4215 0.109272 CATCACTACGTGTGGCTCGT 60.109 55.000 15.08 7.82 46.20 4.18
2476 4216 1.413767 GCATCACTACGTGTGGCTCG 61.414 60.000 15.08 5.85 46.20 5.03
2477 4217 0.108615 AGCATCACTACGTGTGGCTC 60.109 55.000 15.08 7.07 46.20 4.70
2478 4218 0.390340 CAGCATCACTACGTGTGGCT 60.390 55.000 15.08 13.67 46.20 4.75
2479 4219 1.970917 GCAGCATCACTACGTGTGGC 61.971 60.000 15.08 12.14 46.20 5.01
2480 4220 1.361668 GGCAGCATCACTACGTGTGG 61.362 60.000 15.08 1.80 46.20 4.17
2482 4222 0.670546 GTGGCAGCATCACTACGTGT 60.671 55.000 0.00 0.00 34.79 4.49
2483 4223 0.670239 TGTGGCAGCATCACTACGTG 60.670 55.000 0.00 0.00 36.21 4.49
2484 4224 0.670546 GTGTGGCAGCATCACTACGT 60.671 55.000 10.67 0.00 36.21 3.57
2485 4225 0.670239 TGTGTGGCAGCATCACTACG 60.670 55.000 16.50 0.00 36.21 3.51
2486 4226 1.197721 GTTGTGTGGCAGCATCACTAC 59.802 52.381 16.50 15.23 36.21 2.73
2487 4227 1.072173 AGTTGTGTGGCAGCATCACTA 59.928 47.619 16.50 9.11 36.21 2.74
2488 4228 0.179009 AGTTGTGTGGCAGCATCACT 60.179 50.000 16.50 0.38 36.21 3.41
2489 4229 0.039798 CAGTTGTGTGGCAGCATCAC 60.040 55.000 10.94 10.94 35.82 3.06
2490 4230 0.466007 ACAGTTGTGTGGCAGCATCA 60.466 50.000 0.00 0.00 34.75 3.07
2491 4231 0.239347 GACAGTTGTGTGGCAGCATC 59.761 55.000 0.00 0.00 36.88 3.91
2492 4232 1.174712 GGACAGTTGTGTGGCAGCAT 61.175 55.000 0.00 0.00 36.88 3.79
2493 4233 1.823470 GGACAGTTGTGTGGCAGCA 60.823 57.895 0.00 0.00 36.88 4.41
2494 4234 2.896801 CGGACAGTTGTGTGGCAGC 61.897 63.158 0.00 0.00 36.88 5.25
2495 4235 2.896801 GCGGACAGTTGTGTGGCAG 61.897 63.158 0.00 0.00 36.88 4.85
2496 4236 2.899838 GCGGACAGTTGTGTGGCA 60.900 61.111 0.00 0.00 36.88 4.92
2497 4237 2.899838 TGCGGACAGTTGTGTGGC 60.900 61.111 0.00 0.00 36.88 5.01
2498 4238 1.095228 AAGTGCGGACAGTTGTGTGG 61.095 55.000 10.52 0.00 38.05 4.17
2499 4239 2.393557 AAGTGCGGACAGTTGTGTG 58.606 52.632 10.52 0.00 38.05 3.82
2500 4240 4.954933 AAGTGCGGACAGTTGTGT 57.045 50.000 10.52 0.00 38.05 3.72
2504 4244 1.151777 CGACACAAGTGCGGACAGTT 61.152 55.000 10.52 0.00 40.15 3.16
2505 4245 1.591594 CGACACAAGTGCGGACAGT 60.592 57.895 10.52 4.42 0.00 3.55
2506 4246 2.310233 CCGACACAAGTGCGGACAG 61.310 63.158 22.58 3.70 45.93 3.51
2507 4247 2.279851 CCGACACAAGTGCGGACA 60.280 61.111 22.58 0.00 45.93 4.02
2508 4248 3.041940 CCCGACACAAGTGCGGAC 61.042 66.667 26.18 0.00 45.93 4.79
2509 4249 4.308458 CCCCGACACAAGTGCGGA 62.308 66.667 26.18 0.00 45.93 5.54
2510 4250 4.619227 ACCCCGACACAAGTGCGG 62.619 66.667 21.09 21.09 44.16 5.69
2511 4251 3.345808 CACCCCGACACAAGTGCG 61.346 66.667 0.00 5.25 0.00 5.34
2512 4252 2.978010 CCACCCCGACACAAGTGC 60.978 66.667 0.00 0.00 0.00 4.40
2513 4253 1.597027 GACCACCCCGACACAAGTG 60.597 63.158 0.00 0.00 0.00 3.16
2514 4254 2.826702 GACCACCCCGACACAAGT 59.173 61.111 0.00 0.00 0.00 3.16
2515 4255 2.357034 CGACCACCCCGACACAAG 60.357 66.667 0.00 0.00 0.00 3.16
2516 4256 3.931247 CCGACCACCCCGACACAA 61.931 66.667 0.00 0.00 0.00 3.33
2526 4266 2.357517 CTCAGGTGTGCCGACCAC 60.358 66.667 4.19 0.00 44.90 4.16
2527 4267 2.523168 TCTCAGGTGTGCCGACCA 60.523 61.111 4.19 0.00 38.63 4.02
2528 4268 2.048127 GTCTCAGGTGTGCCGACC 60.048 66.667 0.00 0.00 40.50 4.79
2529 4269 1.373497 CAGTCTCAGGTGTGCCGAC 60.373 63.158 0.00 0.00 40.50 4.79
2530 4270 2.574018 CCAGTCTCAGGTGTGCCGA 61.574 63.158 0.00 0.00 40.50 5.54
2531 4271 2.047844 CCAGTCTCAGGTGTGCCG 60.048 66.667 0.00 0.00 40.50 5.69
2532 4272 2.359230 GCCAGTCTCAGGTGTGCC 60.359 66.667 0.00 0.00 0.00 5.01
2533 4273 1.227943 TTGCCAGTCTCAGGTGTGC 60.228 57.895 0.00 0.00 0.00 4.57
2534 4274 0.394192 TCTTGCCAGTCTCAGGTGTG 59.606 55.000 0.00 0.00 0.00 3.82
2535 4275 1.131638 TTCTTGCCAGTCTCAGGTGT 58.868 50.000 0.00 0.00 0.00 4.16
2536 4276 2.082231 CATTCTTGCCAGTCTCAGGTG 58.918 52.381 0.00 0.00 0.00 4.00
2537 4277 1.612726 GCATTCTTGCCAGTCTCAGGT 60.613 52.381 0.00 0.00 43.38 4.00
2538 4278 1.093159 GCATTCTTGCCAGTCTCAGG 58.907 55.000 0.00 0.00 43.38 3.86
2539 4279 0.725686 CGCATTCTTGCCAGTCTCAG 59.274 55.000 0.00 0.00 46.57 3.35
2540 4280 0.674581 CCGCATTCTTGCCAGTCTCA 60.675 55.000 0.00 0.00 46.57 3.27
2541 4281 0.391661 TCCGCATTCTTGCCAGTCTC 60.392 55.000 0.00 0.00 46.57 3.36
2542 4282 0.392193 CTCCGCATTCTTGCCAGTCT 60.392 55.000 0.00 0.00 46.57 3.24
2543 4283 1.986575 GCTCCGCATTCTTGCCAGTC 61.987 60.000 0.00 0.00 46.57 3.51
2544 4284 2.042831 GCTCCGCATTCTTGCCAGT 61.043 57.895 0.00 0.00 46.57 4.00
2545 4285 1.310933 AAGCTCCGCATTCTTGCCAG 61.311 55.000 0.00 0.00 46.57 4.85
2546 4286 1.303561 AAGCTCCGCATTCTTGCCA 60.304 52.632 0.00 0.00 46.57 4.92
2547 4287 1.431036 GAAGCTCCGCATTCTTGCC 59.569 57.895 0.00 0.00 46.57 4.52
2548 4288 1.061570 CGAAGCTCCGCATTCTTGC 59.938 57.895 0.00 0.00 45.78 4.01
2549 4289 0.371645 GTCGAAGCTCCGCATTCTTG 59.628 55.000 0.00 0.00 0.00 3.02
2550 4290 1.078759 CGTCGAAGCTCCGCATTCTT 61.079 55.000 0.00 0.00 0.00 2.52
2551 4291 1.517257 CGTCGAAGCTCCGCATTCT 60.517 57.895 0.00 0.00 0.00 2.40
2552 4292 2.998667 CGTCGAAGCTCCGCATTC 59.001 61.111 0.00 0.00 0.00 2.67
2553 4293 3.188786 GCGTCGAAGCTCCGCATT 61.189 61.111 16.42 0.00 46.26 3.56
2557 4297 2.158959 AAATCGCGTCGAAGCTCCG 61.159 57.895 20.83 4.84 39.99 4.63
2558 4298 1.345176 CAAATCGCGTCGAAGCTCC 59.655 57.895 20.83 0.00 39.99 4.70
2559 4299 1.076533 TCCAAATCGCGTCGAAGCTC 61.077 55.000 20.83 0.00 39.99 4.09
2560 4300 0.669318 TTCCAAATCGCGTCGAAGCT 60.669 50.000 20.83 0.11 39.99 3.74
2561 4301 0.247301 CTTCCAAATCGCGTCGAAGC 60.247 55.000 13.70 13.70 39.99 3.86
2562 4302 0.370273 CCTTCCAAATCGCGTCGAAG 59.630 55.000 5.77 10.61 39.99 3.79
2563 4303 1.632046 GCCTTCCAAATCGCGTCGAA 61.632 55.000 5.77 1.12 39.99 3.71
2564 4304 2.098233 GCCTTCCAAATCGCGTCGA 61.098 57.895 5.77 4.51 41.13 4.20
2565 4305 2.387445 TGCCTTCCAAATCGCGTCG 61.387 57.895 5.77 0.00 0.00 5.12
2566 4306 1.134694 GTGCCTTCCAAATCGCGTC 59.865 57.895 5.77 0.00 0.00 5.19
2567 4307 0.036765 TAGTGCCTTCCAAATCGCGT 60.037 50.000 5.77 0.00 0.00 6.01
2568 4308 1.062587 CTTAGTGCCTTCCAAATCGCG 59.937 52.381 0.00 0.00 0.00 5.87
2569 4309 2.352960 CTCTTAGTGCCTTCCAAATCGC 59.647 50.000 0.00 0.00 0.00 4.58
2570 4310 2.352960 GCTCTTAGTGCCTTCCAAATCG 59.647 50.000 0.00 0.00 0.00 3.34
2571 4311 3.347216 TGCTCTTAGTGCCTTCCAAATC 58.653 45.455 3.76 0.00 0.00 2.17
2572 4312 3.439857 TGCTCTTAGTGCCTTCCAAAT 57.560 42.857 3.76 0.00 0.00 2.32
2573 4313 2.884639 GTTGCTCTTAGTGCCTTCCAAA 59.115 45.455 3.76 0.00 0.00 3.28
2574 4314 2.106511 AGTTGCTCTTAGTGCCTTCCAA 59.893 45.455 3.76 0.00 0.00 3.53
2575 4315 1.699634 AGTTGCTCTTAGTGCCTTCCA 59.300 47.619 3.76 0.00 0.00 3.53
2576 4316 2.481289 AGTTGCTCTTAGTGCCTTCC 57.519 50.000 3.76 0.00 0.00 3.46
2577 4317 3.403038 TGAAGTTGCTCTTAGTGCCTTC 58.597 45.455 14.07 14.07 36.40 3.46
2578 4318 3.492102 TGAAGTTGCTCTTAGTGCCTT 57.508 42.857 3.76 1.19 36.40 4.35
2579 4319 3.492102 TTGAAGTTGCTCTTAGTGCCT 57.508 42.857 3.76 0.00 36.40 4.75
2580 4320 5.412904 AGTTATTGAAGTTGCTCTTAGTGCC 59.587 40.000 3.76 0.00 36.40 5.01
2581 4321 6.487689 AGTTATTGAAGTTGCTCTTAGTGC 57.512 37.500 0.00 0.00 36.40 4.40
2582 4322 8.087982 TGAAGTTATTGAAGTTGCTCTTAGTG 57.912 34.615 0.00 0.00 36.40 2.74
2583 4323 8.677148 TTGAAGTTATTGAAGTTGCTCTTAGT 57.323 30.769 0.00 0.00 36.40 2.24
2584 4324 9.552114 CATTGAAGTTATTGAAGTTGCTCTTAG 57.448 33.333 0.00 0.00 36.40 2.18
2585 4325 8.514594 CCATTGAAGTTATTGAAGTTGCTCTTA 58.485 33.333 0.00 0.00 36.40 2.10
2586 4326 7.373493 CCATTGAAGTTATTGAAGTTGCTCTT 58.627 34.615 0.00 0.00 39.32 2.85
2587 4327 6.071728 CCCATTGAAGTTATTGAAGTTGCTCT 60.072 38.462 0.00 0.00 0.00 4.09
2588 4328 6.095377 CCCATTGAAGTTATTGAAGTTGCTC 58.905 40.000 0.00 0.00 0.00 4.26
2589 4329 5.047092 CCCCATTGAAGTTATTGAAGTTGCT 60.047 40.000 0.00 0.00 0.00 3.91
2590 4330 5.170748 CCCCATTGAAGTTATTGAAGTTGC 58.829 41.667 0.00 0.00 0.00 4.17
2591 4331 5.170748 GCCCCATTGAAGTTATTGAAGTTG 58.829 41.667 0.00 0.00 0.00 3.16
2592 4332 4.082245 CGCCCCATTGAAGTTATTGAAGTT 60.082 41.667 0.00 0.00 0.00 2.66
2593 4333 3.443681 CGCCCCATTGAAGTTATTGAAGT 59.556 43.478 0.00 0.00 0.00 3.01
2594 4334 3.694072 TCGCCCCATTGAAGTTATTGAAG 59.306 43.478 0.00 0.00 0.00 3.02
2595 4335 3.691575 TCGCCCCATTGAAGTTATTGAA 58.308 40.909 0.00 0.00 0.00 2.69
2596 4336 3.358111 TCGCCCCATTGAAGTTATTGA 57.642 42.857 0.00 0.00 0.00 2.57
2597 4337 3.004734 GGATCGCCCCATTGAAGTTATTG 59.995 47.826 0.00 0.00 0.00 1.90
2598 4338 3.222603 GGATCGCCCCATTGAAGTTATT 58.777 45.455 0.00 0.00 0.00 1.40
2599 4339 2.174639 TGGATCGCCCCATTGAAGTTAT 59.825 45.455 0.00 0.00 0.00 1.89
2600 4340 1.562008 TGGATCGCCCCATTGAAGTTA 59.438 47.619 0.00 0.00 0.00 2.24
2601 4341 0.331278 TGGATCGCCCCATTGAAGTT 59.669 50.000 0.00 0.00 0.00 2.66
2602 4342 0.331278 TTGGATCGCCCCATTGAAGT 59.669 50.000 0.00 0.00 35.87 3.01
2603 4343 1.134946 GTTTGGATCGCCCCATTGAAG 59.865 52.381 0.00 0.00 35.87 3.02
2604 4344 1.181786 GTTTGGATCGCCCCATTGAA 58.818 50.000 0.00 0.00 35.87 2.69
2605 4345 1.029408 CGTTTGGATCGCCCCATTGA 61.029 55.000 0.00 0.00 35.87 2.57
2606 4346 1.433064 CGTTTGGATCGCCCCATTG 59.567 57.895 0.00 0.00 35.87 2.82
2607 4347 1.752694 CCGTTTGGATCGCCCCATT 60.753 57.895 0.00 0.00 37.49 3.16
2608 4348 2.124320 CCGTTTGGATCGCCCCAT 60.124 61.111 0.00 0.00 37.49 4.00
2609 4349 3.323286 TCCGTTTGGATCGCCCCA 61.323 61.111 0.00 0.00 40.17 4.96
2615 4355 7.422576 GATGAAATCACCGTCCGTTTGGATC 62.423 48.000 0.00 0.00 45.03 3.36
2616 4356 5.688569 GATGAAATCACCGTCCGTTTGGAT 61.689 45.833 0.00 0.00 45.03 3.41
2617 4357 1.202663 TGAAATCACCGTCCGTTTGGA 60.203 47.619 0.00 0.00 43.88 3.53
2618 4358 1.231221 TGAAATCACCGTCCGTTTGG 58.769 50.000 0.00 0.00 0.00 3.28
2619 4359 3.117434 GATGAAATCACCGTCCGTTTG 57.883 47.619 0.00 0.00 44.70 2.93
2651 4391 2.965462 GGGCGGCCGATCTAAACG 60.965 66.667 33.48 0.00 0.00 3.60
2652 4392 2.965462 CGGGCGGCCGATCTAAAC 60.965 66.667 44.11 9.05 34.88 2.01
2674 4414 4.733405 CCATATTTAAAAGAAGGCGAACGC 59.267 41.667 10.81 10.81 41.06 4.84
2675 4415 5.163693 ACCCATATTTAAAAGAAGGCGAACG 60.164 40.000 0.00 0.00 0.00 3.95
2676 4416 6.203808 ACCCATATTTAAAAGAAGGCGAAC 57.796 37.500 0.00 0.00 0.00 3.95
2677 4417 5.065474 CGACCCATATTTAAAAGAAGGCGAA 59.935 40.000 0.00 0.00 0.00 4.70
2678 4418 4.573201 CGACCCATATTTAAAAGAAGGCGA 59.427 41.667 0.00 0.00 0.00 5.54
2679 4419 4.261031 CCGACCCATATTTAAAAGAAGGCG 60.261 45.833 0.00 0.00 0.00 5.52
2680 4420 4.499188 GCCGACCCATATTTAAAAGAAGGC 60.499 45.833 0.00 0.00 0.00 4.35
2681 4421 4.642885 TGCCGACCCATATTTAAAAGAAGG 59.357 41.667 0.00 0.00 0.00 3.46
2682 4422 5.828299 TGCCGACCCATATTTAAAAGAAG 57.172 39.130 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.