Multiple sequence alignment - TraesCS7D01G384000

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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 TraesCS7D01G384000 chr7D 100.000 2339 0 0 1 2339 497977494 497975156 0.000000e+00 4320
1 TraesCS7D01G384000 chr7D 94.667 975 28 13 1 971 538343367 538342413 0.000000e+00 1491
2 TraesCS7D01G384000 chr7D 94.251 974 30 13 1 968 235516945 235517898 0.000000e+00 1465
3 TraesCS7D01G384000 chr7D 93.884 981 41 15 1 969 14186487 14187460 0.000000e+00 1461
4 TraesCS7D01G384000 chr7D 94.033 972 30 13 1 968 558170800 558169853 0.000000e+00 1448
5 TraesCS7D01G384000 chr6D 95.885 972 29 11 1 968 263358049 263359013 0.000000e+00 1563
6 TraesCS7D01G384000 chr6D 94.467 976 24 12 1 969 99230182 99229230 0.000000e+00 1476
7 TraesCS7D01G384000 chr6D 93.421 988 28 16 1 971 382582052 382581085 0.000000e+00 1430
8 TraesCS7D01G384000 chr6D 95.679 324 10 4 2018 2337 396457143 396456820 3.450000e-143 518
9 TraesCS7D01G384000 chr5D 94.672 976 39 10 1 969 544215002 544215971 0.000000e+00 1502
10 TraesCS7D01G384000 chr5D 96.562 320 8 3 2022 2339 481733200 481732882 5.720000e-146 527
11 TraesCS7D01G384000 chr5D 95.975 323 12 1 2017 2339 226735262 226734941 7.410000e-145 523
12 TraesCS7D01G384000 chr5D 95.107 327 13 3 2016 2339 302321464 302321790 1.600000e-141 512
13 TraesCS7D01G384000 chr5D 95.385 325 10 5 2018 2339 385900403 385900725 1.600000e-141 512
14 TraesCS7D01G384000 chr4D 93.973 979 41 13 1 968 469334 470305 0.000000e+00 1465
15 TraesCS7D01G384000 chr7B 94.105 458 17 2 974 1429 526433092 526432643 0.000000e+00 688
16 TraesCS7D01G384000 chr7B 85.141 249 13 8 1430 1673 526432537 526432308 1.400000e-57 233
17 TraesCS7D01G384000 chr2D 95.166 331 13 3 2011 2339 166854341 166854670 9.580000e-144 520
18 TraesCS7D01G384000 chr2D 94.880 332 14 3 2009 2339 628903270 628903599 1.240000e-142 516
19 TraesCS7D01G384000 chr2D 95.356 323 13 2 2018 2339 324945614 324945293 1.600000e-141 512
20 TraesCS7D01G384000 chr3D 95.077 325 12 4 2018 2339 1911152 1910829 2.070000e-140 508
21 TraesCS7D01G384000 chr7A 86.008 486 25 16 1244 1706 563604112 563603647 4.520000e-132 481
22 TraesCS7D01G384000 chr7A 86.813 182 11 8 1728 1909 563603570 563603402 8.530000e-45 191


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 TraesCS7D01G384000 chr7D 497975156 497977494 2338 True 4320.0 4320 100.0000 1 2339 1 chr7D.!!$R1 2338
1 TraesCS7D01G384000 chr7D 538342413 538343367 954 True 1491.0 1491 94.6670 1 971 1 chr7D.!!$R2 970
2 TraesCS7D01G384000 chr7D 235516945 235517898 953 False 1465.0 1465 94.2510 1 968 1 chr7D.!!$F2 967
3 TraesCS7D01G384000 chr7D 14186487 14187460 973 False 1461.0 1461 93.8840 1 969 1 chr7D.!!$F1 968
4 TraesCS7D01G384000 chr7D 558169853 558170800 947 True 1448.0 1448 94.0330 1 968 1 chr7D.!!$R3 967
5 TraesCS7D01G384000 chr6D 263358049 263359013 964 False 1563.0 1563 95.8850 1 968 1 chr6D.!!$F1 967
6 TraesCS7D01G384000 chr6D 99229230 99230182 952 True 1476.0 1476 94.4670 1 969 1 chr6D.!!$R1 968
7 TraesCS7D01G384000 chr6D 382581085 382582052 967 True 1430.0 1430 93.4210 1 971 1 chr6D.!!$R2 970
8 TraesCS7D01G384000 chr5D 544215002 544215971 969 False 1502.0 1502 94.6720 1 969 1 chr5D.!!$F3 968
9 TraesCS7D01G384000 chr4D 469334 470305 971 False 1465.0 1465 93.9730 1 968 1 chr4D.!!$F1 967
10 TraesCS7D01G384000 chr7B 526432308 526433092 784 True 460.5 688 89.6230 974 1673 2 chr7B.!!$R1 699
11 TraesCS7D01G384000 chr7A 563603402 563604112 710 True 336.0 481 86.4105 1244 1909 2 chr7A.!!$R1 665

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
272 294 1.270907 GATGCTCCCATACCGGATCT 58.729 55.0 9.46 0.0 36.56 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 2096 0.031178 CACAACTGAGCCCTTGTTGC 59.969 55.0 0.0 0.0 43.19 4.17 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
272 294 1.270907 GATGCTCCCATACCGGATCT 58.729 55.000 9.46 0.00 36.56 2.75
844 896 1.903877 CTGGAGTCCAATCGGCCTGT 61.904 60.000 14.17 0.00 30.80 4.00
1339 1394 1.686587 TGTTCAGCCTCTTCGACTGAA 59.313 47.619 10.42 10.42 45.56 3.02
1370 1425 2.278792 CGTGCCGATCGATCTGCA 60.279 61.111 32.43 32.43 43.24 4.41
1372 1427 2.106938 TGCCGATCGATCTGCACC 59.893 61.111 32.43 11.94 41.14 5.01
1373 1428 3.032609 GCCGATCGATCTGCACCG 61.033 66.667 29.78 14.51 37.06 4.94
1374 1429 2.721859 CCGATCGATCTGCACCGA 59.278 61.111 22.43 3.98 39.25 4.69
1375 1430 1.658717 CCGATCGATCTGCACCGAC 60.659 63.158 22.43 0.00 37.64 4.79
1376 1431 1.064134 CGATCGATCTGCACCGACA 59.936 57.895 22.43 0.00 37.64 4.35
1377 1432 1.202973 CGATCGATCTGCACCGACAC 61.203 60.000 22.43 0.00 37.64 3.67
1417 1474 7.098477 AGCTAGTAGTATCTGTGTATCCGTAG 58.902 42.308 0.00 0.00 0.00 3.51
1422 1479 5.926663 AGTATCTGTGTATCCGTAGTCTGA 58.073 41.667 0.00 0.00 0.00 3.27
1426 1483 4.335594 TCTGTGTATCCGTAGTCTGATGTG 59.664 45.833 0.00 0.00 0.00 3.21
1454 1617 6.518208 TTTTTAGGGCGTAATTTGCTGTAT 57.482 33.333 0.00 0.00 0.00 2.29
1457 1620 6.518208 TTAGGGCGTAATTTGCTGTATTTT 57.482 33.333 0.00 0.00 0.00 1.82
1559 1739 6.270927 ACATATATAACAGTGTCCTGATGGCT 59.729 38.462 0.00 0.00 41.50 4.75
1634 1816 8.556517 AACTTCGTTTGCTACTTTTTATGTTC 57.443 30.769 0.00 0.00 0.00 3.18
1656 1838 0.952497 AGACGTTCTCACCGCTCGTA 60.952 55.000 0.00 0.00 34.93 3.43
1670 1853 2.728225 CGCTCGTACTCGTGATCAAGTT 60.728 50.000 8.54 0.28 38.33 2.66
1706 1889 1.026182 CAATGCGGCTGCCAGAGTAA 61.026 55.000 20.29 0.00 41.78 2.24
1708 1891 0.107017 ATGCGGCTGCCAGAGTAATT 60.107 50.000 20.29 0.00 41.78 1.40
1709 1892 0.322456 TGCGGCTGCCAGAGTAATTT 60.322 50.000 20.29 0.00 41.78 1.82
1710 1893 0.099436 GCGGCTGCCAGAGTAATTTG 59.901 55.000 20.29 0.00 33.98 2.32
1713 1896 2.019984 GGCTGCCAGAGTAATTTGGAG 58.980 52.381 15.17 0.09 36.55 3.86
1715 1898 3.347216 GCTGCCAGAGTAATTTGGAGAA 58.653 45.455 3.57 0.00 36.55 2.87
1717 1900 4.583871 CTGCCAGAGTAATTTGGAGAAGT 58.416 43.478 3.57 0.00 36.55 3.01
1719 1902 6.313519 TGCCAGAGTAATTTGGAGAAGTAT 57.686 37.500 3.57 0.00 36.55 2.12
1720 1903 6.721318 TGCCAGAGTAATTTGGAGAAGTATT 58.279 36.000 3.57 0.00 36.55 1.89
1721 1904 6.823689 TGCCAGAGTAATTTGGAGAAGTATTC 59.176 38.462 3.57 0.00 39.08 1.75
1722 1905 6.261158 GCCAGAGTAATTTGGAGAAGTATTCC 59.739 42.308 3.57 0.00 39.38 3.01
1723 1906 7.852744 GCCAGAGTAATTTGGAGAAGTATTCCT 60.853 40.741 3.57 0.00 39.38 3.36
1736 1974 4.801330 AGTATTCCTGACATTCACGTGA 57.199 40.909 15.76 15.76 0.00 4.35
1755 1993 4.101119 CGTGACATAACTATTCTTCCCCCT 59.899 45.833 0.00 0.00 0.00 4.79
1761 1999 8.260099 ACATAACTATTCTTCCCCCTAAGTAC 57.740 38.462 0.00 0.00 0.00 2.73
1762 2000 7.847848 ACATAACTATTCTTCCCCCTAAGTACA 59.152 37.037 0.00 0.00 0.00 2.90
1763 2001 6.809976 AACTATTCTTCCCCCTAAGTACAG 57.190 41.667 0.00 0.00 0.00 2.74
1764 2002 4.654724 ACTATTCTTCCCCCTAAGTACAGC 59.345 45.833 0.00 0.00 0.00 4.40
1825 2063 1.673168 CATTAGCTTGGGAGGAGCAC 58.327 55.000 0.00 0.00 42.56 4.40
1826 2064 0.179000 ATTAGCTTGGGAGGAGCACG 59.821 55.000 0.00 0.00 42.56 5.34
1843 2081 2.266055 GGGAGACGACTGCCCTTG 59.734 66.667 14.20 0.00 46.76 3.61
1852 2090 0.179936 GACTGCCCTTGAGGATCCAG 59.820 60.000 15.82 2.15 38.24 3.86
1866 2104 2.295885 GATCCAGATCCTGCAACAAGG 58.704 52.381 0.00 0.00 38.84 3.61
1867 2105 0.329261 TCCAGATCCTGCAACAAGGG 59.671 55.000 0.00 0.00 37.96 3.95
1868 2106 1.318158 CCAGATCCTGCAACAAGGGC 61.318 60.000 0.00 0.00 37.96 5.19
1869 2107 0.323178 CAGATCCTGCAACAAGGGCT 60.323 55.000 0.00 0.00 37.96 5.19
1870 2108 0.034670 AGATCCTGCAACAAGGGCTC 60.035 55.000 0.00 0.00 37.96 4.70
1871 2109 0.322816 GATCCTGCAACAAGGGCTCA 60.323 55.000 0.00 0.00 37.96 4.26
1872 2110 0.323178 ATCCTGCAACAAGGGCTCAG 60.323 55.000 0.00 0.00 37.96 3.35
1873 2111 1.228367 CCTGCAACAAGGGCTCAGT 60.228 57.895 0.00 0.00 33.28 3.41
1874 2112 0.825010 CCTGCAACAAGGGCTCAGTT 60.825 55.000 0.00 0.00 33.28 3.16
1875 2113 0.313043 CTGCAACAAGGGCTCAGTTG 59.687 55.000 15.32 15.32 44.01 3.16
1876 2114 0.395586 TGCAACAAGGGCTCAGTTGT 60.396 50.000 19.17 4.77 43.31 3.32
1877 2115 0.031178 GCAACAAGGGCTCAGTTGTG 59.969 55.000 19.17 4.50 43.31 3.33
1878 2116 1.679139 CAACAAGGGCTCAGTTGTGA 58.321 50.000 12.33 0.00 36.98 3.58
1885 2123 3.957260 CTCAGTTGTGAGCCCACG 58.043 61.111 0.00 0.00 43.89 4.94
1886 2124 2.280797 TCAGTTGTGAGCCCACGC 60.281 61.111 0.00 0.00 46.06 5.34
1887 2125 2.591429 CAGTTGTGAGCCCACGCA 60.591 61.111 0.00 0.00 46.06 5.24
1888 2126 2.281070 AGTTGTGAGCCCACGCAG 60.281 61.111 0.00 0.00 46.06 5.18
1889 2127 2.280797 GTTGTGAGCCCACGCAGA 60.281 61.111 0.00 0.00 46.06 4.26
1890 2128 1.891919 GTTGTGAGCCCACGCAGAA 60.892 57.895 0.00 0.00 46.06 3.02
1891 2129 1.891919 TTGTGAGCCCACGCAGAAC 60.892 57.895 0.00 0.00 46.06 3.01
1892 2130 2.280797 GTGAGCCCACGCAGAACA 60.281 61.111 0.00 0.00 37.52 3.18
1893 2131 1.891919 GTGAGCCCACGCAGAACAA 60.892 57.895 0.00 0.00 37.52 2.83
1894 2132 1.597854 TGAGCCCACGCAGAACAAG 60.598 57.895 0.00 0.00 37.52 3.16
1895 2133 2.970974 GAGCCCACGCAGAACAAGC 61.971 63.158 0.00 0.00 37.52 4.01
1902 2140 4.950744 GCAGAACAAGCGTTGCAT 57.049 50.000 0.00 0.00 34.75 3.96
1903 2141 2.427360 GCAGAACAAGCGTTGCATG 58.573 52.632 0.00 0.00 34.75 4.06
1904 2142 1.005294 GCAGAACAAGCGTTGCATGG 61.005 55.000 0.00 0.00 34.75 3.66
1905 2143 0.592637 CAGAACAAGCGTTGCATGGA 59.407 50.000 0.00 0.00 34.75 3.41
1938 2180 2.636830 GTGAGCCTGACATATGTTGCT 58.363 47.619 21.34 21.34 32.83 3.91
1941 2183 3.273434 GAGCCTGACATATGTTGCTTGA 58.727 45.455 21.81 1.13 31.18 3.02
1946 2188 4.201753 CCTGACATATGTTGCTTGAACGAG 60.202 45.833 10.30 0.00 37.38 4.18
1947 2189 3.684305 TGACATATGTTGCTTGAACGAGG 59.316 43.478 10.30 0.00 37.38 4.63
1948 2190 2.420022 ACATATGTTGCTTGAACGAGGC 59.580 45.455 1.41 0.00 37.38 4.70
1949 2191 2.177394 TATGTTGCTTGAACGAGGCA 57.823 45.000 0.00 0.00 37.38 4.75
1950 2192 0.877071 ATGTTGCTTGAACGAGGCAG 59.123 50.000 0.00 0.00 37.38 4.85
1951 2193 1.081840 GTTGCTTGAACGAGGCAGC 60.082 57.895 0.00 0.00 37.28 5.25
1952 2194 1.525765 TTGCTTGAACGAGGCAGCA 60.526 52.632 0.00 0.00 37.28 4.41
1953 2195 1.509644 TTGCTTGAACGAGGCAGCAG 61.510 55.000 0.00 0.00 37.28 4.24
1954 2196 1.669115 GCTTGAACGAGGCAGCAGA 60.669 57.895 0.00 0.00 0.00 4.26
1955 2197 1.905922 GCTTGAACGAGGCAGCAGAC 61.906 60.000 0.00 0.00 0.00 3.51
1956 2198 0.601046 CTTGAACGAGGCAGCAGACA 60.601 55.000 0.00 0.00 0.00 3.41
1957 2199 0.035317 TTGAACGAGGCAGCAGACAT 59.965 50.000 0.00 0.00 0.00 3.06
1958 2200 0.390340 TGAACGAGGCAGCAGACATC 60.390 55.000 0.00 0.00 0.00 3.06
1959 2201 1.078848 AACGAGGCAGCAGACATCC 60.079 57.895 0.00 0.00 0.00 3.51
1960 2202 2.584418 CGAGGCAGCAGACATCCG 60.584 66.667 0.00 0.00 0.00 4.18
1961 2203 2.894387 GAGGCAGCAGACATCCGC 60.894 66.667 0.00 0.00 0.00 5.54
1962 2204 4.827087 AGGCAGCAGACATCCGCG 62.827 66.667 0.00 0.00 0.00 6.46
1964 2206 3.857854 GCAGCAGACATCCGCGTG 61.858 66.667 4.92 0.00 0.00 5.34
1965 2207 3.857854 CAGCAGACATCCGCGTGC 61.858 66.667 4.92 7.26 36.10 5.34
1968 2210 2.583319 CAGACATCCGCGTGCGAT 60.583 61.111 16.91 4.66 42.83 4.58
1969 2211 2.278857 AGACATCCGCGTGCGATC 60.279 61.111 16.91 7.63 42.83 3.69
1970 2212 3.330853 GACATCCGCGTGCGATCC 61.331 66.667 16.91 0.00 42.83 3.36
1992 2234 3.873805 GCTGAAGCCAAGTGTTTCC 57.126 52.632 0.00 0.00 34.31 3.13
1993 2235 0.315251 GCTGAAGCCAAGTGTTTCCC 59.685 55.000 0.00 0.00 34.31 3.97
1994 2236 1.986882 CTGAAGCCAAGTGTTTCCCT 58.013 50.000 0.00 0.00 0.00 4.20
1995 2237 2.310538 CTGAAGCCAAGTGTTTCCCTT 58.689 47.619 0.00 0.00 0.00 3.95
1996 2238 3.486383 CTGAAGCCAAGTGTTTCCCTTA 58.514 45.455 0.00 0.00 0.00 2.69
1997 2239 3.486383 TGAAGCCAAGTGTTTCCCTTAG 58.514 45.455 0.00 0.00 0.00 2.18
1998 2240 3.117663 TGAAGCCAAGTGTTTCCCTTAGT 60.118 43.478 0.00 0.00 0.00 2.24
1999 2241 3.595190 AGCCAAGTGTTTCCCTTAGTT 57.405 42.857 0.00 0.00 0.00 2.24
2000 2242 3.910989 AGCCAAGTGTTTCCCTTAGTTT 58.089 40.909 0.00 0.00 0.00 2.66
2001 2243 4.286707 AGCCAAGTGTTTCCCTTAGTTTT 58.713 39.130 0.00 0.00 0.00 2.43
2002 2244 4.714802 AGCCAAGTGTTTCCCTTAGTTTTT 59.285 37.500 0.00 0.00 0.00 1.94
2025 2267 9.528489 TTTTTAGTGTCCTCTATGGCTATTTTT 57.472 29.630 0.00 0.00 35.26 1.94
2102 2344 7.974243 AAATTAAAAATAATACACCGTCGGC 57.026 32.000 12.28 0.00 0.00 5.54
2103 2345 5.482686 TTAAAAATAATACACCGTCGGCC 57.517 39.130 12.28 0.00 0.00 6.13
2104 2346 2.994186 AAATAATACACCGTCGGCCT 57.006 45.000 12.28 0.00 0.00 5.19
2105 2347 2.234300 AATAATACACCGTCGGCCTG 57.766 50.000 12.28 5.69 0.00 4.85
2106 2348 1.117150 ATAATACACCGTCGGCCTGT 58.883 50.000 12.28 11.97 0.00 4.00
2107 2349 0.896923 TAATACACCGTCGGCCTGTT 59.103 50.000 12.28 3.65 0.00 3.16
2108 2350 0.672401 AATACACCGTCGGCCTGTTG 60.672 55.000 12.28 4.04 0.00 3.33
2109 2351 1.823169 ATACACCGTCGGCCTGTTGT 61.823 55.000 12.28 10.42 0.00 3.32
2110 2352 1.177895 TACACCGTCGGCCTGTTGTA 61.178 55.000 12.28 9.35 0.00 2.41
2111 2353 1.736645 CACCGTCGGCCTGTTGTAG 60.737 63.158 12.28 0.00 0.00 2.74
2119 2361 4.598257 CCTGTTGTAGGCCGACTG 57.402 61.111 17.46 9.05 40.38 3.51
2120 2362 1.079127 CCTGTTGTAGGCCGACTGG 60.079 63.158 17.46 13.70 40.38 4.00
2137 2379 4.162690 GCCCTAGTCGGCCCACAG 62.163 72.222 2.46 0.00 43.66 3.66
2138 2380 4.162690 CCCTAGTCGGCCCACAGC 62.163 72.222 2.46 0.00 42.60 4.40
2139 2381 3.390521 CCTAGTCGGCCCACAGCA 61.391 66.667 2.46 0.00 46.50 4.41
2140 2382 2.662596 CTAGTCGGCCCACAGCAA 59.337 61.111 2.46 0.00 46.50 3.91
2141 2383 1.448540 CTAGTCGGCCCACAGCAAG 60.449 63.158 2.46 0.00 46.50 4.01
2142 2384 3.605749 TAGTCGGCCCACAGCAAGC 62.606 63.158 2.46 0.00 46.50 4.01
2147 2389 3.064324 GCCCACAGCAAGCCGATT 61.064 61.111 0.00 0.00 42.97 3.34
2148 2390 2.879907 CCCACAGCAAGCCGATTG 59.120 61.111 0.00 0.00 42.20 2.67
2149 2391 2.703798 CCCACAGCAAGCCGATTGG 61.704 63.158 0.00 0.00 39.47 3.16
2150 2392 1.675310 CCACAGCAAGCCGATTGGA 60.675 57.895 1.98 0.00 39.47 3.53
2151 2393 1.503542 CACAGCAAGCCGATTGGAC 59.496 57.895 1.98 0.00 39.47 4.02
2152 2394 0.957395 CACAGCAAGCCGATTGGACT 60.957 55.000 1.98 0.00 39.47 3.85
2153 2395 0.674895 ACAGCAAGCCGATTGGACTC 60.675 55.000 1.98 0.00 39.47 3.36
2154 2396 1.078143 AGCAAGCCGATTGGACTCC 60.078 57.895 1.98 0.00 39.47 3.85
2155 2397 1.377202 GCAAGCCGATTGGACTCCA 60.377 57.895 1.98 0.00 39.47 3.86
2156 2398 1.372087 GCAAGCCGATTGGACTCCAG 61.372 60.000 1.98 0.00 39.47 3.86
2157 2399 0.036010 CAAGCCGATTGGACTCCAGT 60.036 55.000 1.98 0.00 37.49 4.00
2158 2400 0.250513 AAGCCGATTGGACTCCAGTC 59.749 55.000 10.01 10.01 44.04 3.51
2161 2403 4.522971 GATTGGACTCCAGTCGGC 57.477 61.111 4.91 0.00 45.65 5.54
2162 2404 1.153349 GATTGGACTCCAGTCGGCC 60.153 63.158 4.91 0.00 45.65 6.13
2163 2405 1.613630 ATTGGACTCCAGTCGGCCT 60.614 57.895 0.00 0.00 45.65 5.19
2164 2406 0.325296 ATTGGACTCCAGTCGGCCTA 60.325 55.000 0.00 0.00 45.65 3.93
2165 2407 1.255667 TTGGACTCCAGTCGGCCTAC 61.256 60.000 0.00 0.00 45.65 3.18
2166 2408 1.681327 GGACTCCAGTCGGCCTACA 60.681 63.158 10.45 0.00 45.65 2.74
2167 2409 1.668101 GGACTCCAGTCGGCCTACAG 61.668 65.000 10.45 0.99 45.65 2.74
2168 2410 2.286127 GACTCCAGTCGGCCTACAGC 62.286 65.000 10.45 0.00 36.58 4.40
2169 2411 2.037367 TCCAGTCGGCCTACAGCT 59.963 61.111 10.45 0.00 43.05 4.24
2177 2419 3.775654 GCCTACAGCTGGCCGACT 61.776 66.667 19.93 0.00 44.32 4.18
2178 2420 2.185350 CCTACAGCTGGCCGACTG 59.815 66.667 19.93 20.22 39.86 3.51
2179 2421 2.185350 CTACAGCTGGCCGACTGG 59.815 66.667 24.17 7.92 38.25 4.00
2197 2439 3.953775 CCCTTGTCGGCCCACTGT 61.954 66.667 1.09 0.00 0.00 3.55
2198 2440 2.669569 CCTTGTCGGCCCACTGTG 60.670 66.667 1.09 0.00 0.00 3.66
2199 2441 2.669569 CTTGTCGGCCCACTGTGG 60.670 66.667 20.01 20.01 37.25 4.17
2208 2450 4.007457 CCACTGTGGGCTGATTGG 57.993 61.111 19.23 0.00 32.67 3.16
2209 2451 1.679977 CCACTGTGGGCTGATTGGG 60.680 63.158 19.23 0.00 32.67 4.12
2210 2452 1.075482 CACTGTGGGCTGATTGGGT 59.925 57.895 0.00 0.00 0.00 4.51
2211 2453 0.962356 CACTGTGGGCTGATTGGGTC 60.962 60.000 0.00 0.00 0.00 4.46
2212 2454 1.379044 CTGTGGGCTGATTGGGTCC 60.379 63.158 0.00 0.00 0.00 4.46
2213 2455 1.852157 TGTGGGCTGATTGGGTCCT 60.852 57.895 0.00 0.00 0.00 3.85
2214 2456 1.379044 GTGGGCTGATTGGGTCCTG 60.379 63.158 0.00 0.00 0.00 3.86
2215 2457 1.852157 TGGGCTGATTGGGTCCTGT 60.852 57.895 0.00 0.00 0.00 4.00
2216 2458 1.077429 GGGCTGATTGGGTCCTGTC 60.077 63.158 0.00 0.00 0.00 3.51
2217 2459 1.450312 GGCTGATTGGGTCCTGTCG 60.450 63.158 0.00 0.00 0.00 4.35
2218 2460 1.450312 GCTGATTGGGTCCTGTCGG 60.450 63.158 0.00 0.00 0.00 4.79
2219 2461 1.450312 CTGATTGGGTCCTGTCGGC 60.450 63.158 0.00 0.00 0.00 5.54
2220 2462 2.124695 GATTGGGTCCTGTCGGCC 60.125 66.667 0.00 0.00 0.00 6.13
2221 2463 2.933287 ATTGGGTCCTGTCGGCCA 60.933 61.111 2.24 0.00 0.00 5.36
2222 2464 2.876368 GATTGGGTCCTGTCGGCCAG 62.876 65.000 2.24 0.00 41.15 4.85
2225 2467 4.767255 GGTCCTGTCGGCCAGCTG 62.767 72.222 6.78 6.78 40.06 4.24
2226 2468 4.008933 GTCCTGTCGGCCAGCTGT 62.009 66.667 13.81 0.00 40.06 4.40
2227 2469 3.695606 TCCTGTCGGCCAGCTGTC 61.696 66.667 13.81 0.00 40.06 3.51
2239 2481 4.803426 GCTGTCGGCCGACTGGAG 62.803 72.222 45.27 38.02 44.80 3.86
2240 2482 4.803426 CTGTCGGCCGACTGGAGC 62.803 72.222 46.72 28.03 44.80 4.70
2242 2484 3.138798 GTCGGCCGACTGGAGCTA 61.139 66.667 43.32 12.44 41.57 3.32
2243 2485 2.361992 TCGGCCGACTGGAGCTAA 60.362 61.111 27.28 0.00 37.49 3.09
2244 2486 1.756950 TCGGCCGACTGGAGCTAAT 60.757 57.895 27.28 0.00 37.49 1.73
2245 2487 1.144057 CGGCCGACTGGAGCTAATT 59.856 57.895 24.07 0.00 37.49 1.40
2246 2488 1.154205 CGGCCGACTGGAGCTAATTG 61.154 60.000 24.07 0.00 37.49 2.32
2247 2489 0.815615 GGCCGACTGGAGCTAATTGG 60.816 60.000 0.00 0.00 37.49 3.16
2248 2490 1.440145 GCCGACTGGAGCTAATTGGC 61.440 60.000 5.52 5.52 37.49 4.52
2249 2491 0.179000 CCGACTGGAGCTAATTGGCT 59.821 55.000 17.07 17.07 46.11 4.75
2256 2498 2.772739 AGCTAATTGGCTCGCTGTG 58.227 52.632 10.99 0.00 38.24 3.66
2257 2499 0.745845 AGCTAATTGGCTCGCTGTGG 60.746 55.000 10.99 0.00 38.24 4.17
2258 2500 1.718757 GCTAATTGGCTCGCTGTGGG 61.719 60.000 6.53 0.00 0.00 4.61
2259 2501 1.718757 CTAATTGGCTCGCTGTGGGC 61.719 60.000 4.05 4.05 37.64 5.36
2260 2502 2.196997 TAATTGGCTCGCTGTGGGCT 62.197 55.000 13.44 0.00 39.13 5.19
2261 2503 2.196997 AATTGGCTCGCTGTGGGCTA 62.197 55.000 13.44 3.56 39.13 3.93
2262 2504 2.196997 ATTGGCTCGCTGTGGGCTAA 62.197 55.000 14.26 14.26 39.13 3.09
2263 2505 2.190578 GGCTCGCTGTGGGCTAAT 59.809 61.111 13.44 0.00 39.13 1.73
2264 2506 1.452108 GGCTCGCTGTGGGCTAATT 60.452 57.895 13.44 0.00 39.13 1.40
2265 2507 1.718757 GGCTCGCTGTGGGCTAATTG 61.719 60.000 13.44 0.00 39.13 2.32
2266 2508 1.026718 GCTCGCTGTGGGCTAATTGT 61.027 55.000 5.68 0.00 39.13 2.71
2267 2509 1.453155 CTCGCTGTGGGCTAATTGTT 58.547 50.000 0.00 0.00 39.13 2.83
2268 2510 1.812571 CTCGCTGTGGGCTAATTGTTT 59.187 47.619 0.00 0.00 39.13 2.83
2269 2511 2.228822 CTCGCTGTGGGCTAATTGTTTT 59.771 45.455 0.00 0.00 39.13 2.43
2270 2512 2.625790 TCGCTGTGGGCTAATTGTTTTT 59.374 40.909 0.00 0.00 39.13 1.94
2271 2513 2.730928 CGCTGTGGGCTAATTGTTTTTG 59.269 45.455 0.00 0.00 39.13 2.44
2272 2514 2.480037 GCTGTGGGCTAATTGTTTTTGC 59.520 45.455 0.00 0.00 38.06 3.68
2273 2515 3.726607 CTGTGGGCTAATTGTTTTTGCA 58.273 40.909 0.00 0.00 0.00 4.08
2274 2516 4.125703 CTGTGGGCTAATTGTTTTTGCAA 58.874 39.130 0.00 0.00 0.00 4.08
2275 2517 4.517285 TGTGGGCTAATTGTTTTTGCAAA 58.483 34.783 8.05 8.05 31.63 3.68
2276 2518 4.943705 TGTGGGCTAATTGTTTTTGCAAAA 59.056 33.333 20.46 20.46 31.63 2.44
2277 2519 5.415701 TGTGGGCTAATTGTTTTTGCAAAAA 59.584 32.000 28.85 28.85 35.67 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
316 338 7.853929 ACGAGTACACAAAAATGTTTCATGTAC 59.146 33.333 17.54 17.54 41.49 2.90
875 927 1.394266 ATAATACACCGTCGGCCCGT 61.394 55.000 12.28 9.00 0.00 5.28
978 1033 2.818296 CGAACTCGAAGCAAAGGCGC 62.818 60.000 0.00 0.00 43.53 6.53
1045 1100 4.452733 GTCCTTGGTCGGGCTCGG 62.453 72.222 5.94 0.00 36.95 4.63
1251 1306 1.032657 TCTCCTTCTTCTCCTCGGCG 61.033 60.000 0.00 0.00 0.00 6.46
1314 1369 1.066858 TCGAAGAGGCTGAACATGTCC 60.067 52.381 0.00 0.00 0.00 4.02
1372 1427 2.585263 CGGTAAATAGCCGGTGTCG 58.415 57.895 1.90 0.00 44.98 4.35
1383 1438 7.718753 ACACAGATACTACTAGCTACGGTAAAT 59.281 37.037 0.00 0.00 0.00 1.40
1449 1612 7.739498 AGTACTACCACCAAACAAAATACAG 57.261 36.000 0.00 0.00 0.00 2.74
1487 1651 9.959721 AAAATCTCCCAATACATATATTACGCT 57.040 29.630 0.00 0.00 29.44 5.07
1535 1700 6.592994 CAGCCATCAGGACACTGTTATATATG 59.407 42.308 0.00 0.00 45.14 1.78
1545 1725 2.158623 TCAAAACAGCCATCAGGACACT 60.159 45.455 0.00 0.00 36.89 3.55
1593 1773 5.730550 ACGAAGTTAAGATCAGTGGCATAA 58.269 37.500 0.00 0.00 37.78 1.90
1634 1816 0.784778 GAGCGGTGAGAACGTCTTTG 59.215 55.000 0.00 0.00 0.00 2.77
1656 1838 5.811399 TGTTTCAAAACTTGATCACGAGT 57.189 34.783 6.16 0.00 41.99 4.18
1670 1853 3.379240 CATTGTGCCGTGATGTTTCAAA 58.621 40.909 0.00 0.00 32.48 2.69
1706 1889 7.337942 GTGAATGTCAGGAATACTTCTCCAAAT 59.662 37.037 0.00 0.00 35.20 2.32
1708 1891 6.173339 GTGAATGTCAGGAATACTTCTCCAA 58.827 40.000 0.00 0.00 35.20 3.53
1709 1892 5.624509 CGTGAATGTCAGGAATACTTCTCCA 60.625 44.000 0.00 0.00 34.44 3.86
1710 1893 4.806247 CGTGAATGTCAGGAATACTTCTCC 59.194 45.833 0.00 0.00 34.44 3.71
1713 1896 5.062308 GTCACGTGAATGTCAGGAATACTTC 59.938 44.000 21.95 0.00 35.94 3.01
1715 1898 4.021456 TGTCACGTGAATGTCAGGAATACT 60.021 41.667 21.95 0.00 35.94 2.12
1717 1900 4.529109 TGTCACGTGAATGTCAGGAATA 57.471 40.909 21.95 0.00 35.94 1.75
1719 1902 2.900716 TGTCACGTGAATGTCAGGAA 57.099 45.000 21.95 0.00 35.94 3.36
1720 1903 4.021456 AGTTATGTCACGTGAATGTCAGGA 60.021 41.667 21.95 3.66 35.94 3.86
1721 1904 4.245660 AGTTATGTCACGTGAATGTCAGG 58.754 43.478 21.95 0.00 38.16 3.86
1722 1905 7.489435 AGAATAGTTATGTCACGTGAATGTCAG 59.511 37.037 21.95 0.00 0.00 3.51
1723 1906 7.320399 AGAATAGTTATGTCACGTGAATGTCA 58.680 34.615 21.95 14.50 0.00 3.58
1724 1907 7.757097 AGAATAGTTATGTCACGTGAATGTC 57.243 36.000 21.95 8.48 0.00 3.06
1726 1909 7.254455 GGGAAGAATAGTTATGTCACGTGAATG 60.254 40.741 21.95 0.00 0.00 2.67
1736 1974 7.847848 TGTACTTAGGGGGAAGAATAGTTATGT 59.152 37.037 0.00 0.00 0.00 2.29
1755 1993 6.614694 TCAAGAAATACCCAGCTGTACTTA 57.385 37.500 13.81 0.00 0.00 2.24
1761 1999 5.649782 ACAATTCAAGAAATACCCAGCTG 57.350 39.130 6.78 6.78 0.00 4.24
1762 2000 5.047092 CCAACAATTCAAGAAATACCCAGCT 60.047 40.000 0.00 0.00 0.00 4.24
1763 2001 5.047377 TCCAACAATTCAAGAAATACCCAGC 60.047 40.000 0.00 0.00 0.00 4.85
1764 2002 6.588719 TCCAACAATTCAAGAAATACCCAG 57.411 37.500 0.00 0.00 0.00 4.45
1825 2063 3.382832 AAGGGCAGTCGTCTCCCG 61.383 66.667 10.01 0.00 44.70 5.14
1826 2064 2.232298 CTCAAGGGCAGTCGTCTCCC 62.232 65.000 8.42 8.42 40.36 4.30
1852 2090 0.322816 TGAGCCCTTGTTGCAGGATC 60.323 55.000 0.47 0.47 35.71 3.36
1856 2094 0.313043 CAACTGAGCCCTTGTTGCAG 59.687 55.000 0.00 0.00 35.39 4.41
1857 2095 0.395586 ACAACTGAGCCCTTGTTGCA 60.396 50.000 0.00 0.00 43.19 4.08
1858 2096 0.031178 CACAACTGAGCCCTTGTTGC 59.969 55.000 0.00 0.00 43.19 4.17
1859 2097 1.605710 CTCACAACTGAGCCCTTGTTG 59.394 52.381 0.00 0.00 44.44 3.33
1860 2098 1.972872 CTCACAACTGAGCCCTTGTT 58.027 50.000 0.00 0.00 37.72 2.83
1861 2099 3.713902 CTCACAACTGAGCCCTTGT 57.286 52.632 0.00 0.00 37.72 3.16
1868 2106 2.320587 GCGTGGGCTCACAACTGAG 61.321 63.158 18.70 0.00 46.17 3.35
1869 2107 2.280797 GCGTGGGCTCACAACTGA 60.281 61.111 18.70 0.00 43.79 3.41
1870 2108 2.591429 TGCGTGGGCTCACAACTG 60.591 61.111 18.70 0.58 43.79 3.16
1871 2109 2.281070 CTGCGTGGGCTCACAACT 60.281 61.111 18.70 0.00 43.79 3.16
1872 2110 1.891919 TTCTGCGTGGGCTCACAAC 60.892 57.895 18.70 8.77 43.79 3.32
1873 2111 1.891919 GTTCTGCGTGGGCTCACAA 60.892 57.895 18.70 2.89 43.79 3.33
1874 2112 2.280797 GTTCTGCGTGGGCTCACA 60.281 61.111 18.70 0.00 43.79 3.58
1875 2113 1.845809 CTTGTTCTGCGTGGGCTCAC 61.846 60.000 6.66 6.66 40.82 3.51
1876 2114 1.597854 CTTGTTCTGCGTGGGCTCA 60.598 57.895 0.00 0.00 40.82 4.26
1877 2115 2.970974 GCTTGTTCTGCGTGGGCTC 61.971 63.158 0.00 0.00 40.82 4.70
1878 2116 2.980233 GCTTGTTCTGCGTGGGCT 60.980 61.111 0.00 0.00 40.82 5.19
1885 2123 1.005294 CCATGCAACGCTTGTTCTGC 61.005 55.000 0.00 0.00 32.15 4.26
1886 2124 0.592637 TCCATGCAACGCTTGTTCTG 59.407 50.000 0.00 0.00 32.15 3.02
1887 2125 0.593128 GTCCATGCAACGCTTGTTCT 59.407 50.000 0.00 0.00 32.15 3.01
1888 2126 0.725784 CGTCCATGCAACGCTTGTTC 60.726 55.000 6.01 0.00 32.15 3.18
1889 2127 1.163420 TCGTCCATGCAACGCTTGTT 61.163 50.000 12.46 0.00 39.90 2.83
1890 2128 0.955428 ATCGTCCATGCAACGCTTGT 60.955 50.000 12.46 0.00 39.90 3.16
1891 2129 1.006086 TATCGTCCATGCAACGCTTG 58.994 50.000 12.46 0.00 39.90 4.01
1892 2130 1.732941 TTATCGTCCATGCAACGCTT 58.267 45.000 12.46 6.66 39.90 4.68
1893 2131 1.599071 CATTATCGTCCATGCAACGCT 59.401 47.619 12.46 7.09 39.90 5.07
1894 2132 1.921573 GCATTATCGTCCATGCAACGC 60.922 52.381 12.46 0.00 44.49 4.84
1895 2133 2.022808 GCATTATCGTCCATGCAACG 57.977 50.000 11.38 11.38 44.49 4.10
1899 2137 2.738846 CACCTAGCATTATCGTCCATGC 59.261 50.000 7.18 7.18 45.30 4.06
1900 2138 4.240888 CTCACCTAGCATTATCGTCCATG 58.759 47.826 0.00 0.00 0.00 3.66
1901 2139 4.527509 CTCACCTAGCATTATCGTCCAT 57.472 45.455 0.00 0.00 0.00 3.41
1926 2164 3.485877 GCCTCGTTCAAGCAACATATGTC 60.486 47.826 9.23 0.00 34.20 3.06
1927 2165 2.420022 GCCTCGTTCAAGCAACATATGT 59.580 45.455 1.41 1.41 34.20 2.29
1928 2166 2.419673 TGCCTCGTTCAAGCAACATATG 59.580 45.455 0.00 0.00 34.20 1.78
1930 2172 2.076100 CTGCCTCGTTCAAGCAACATA 58.924 47.619 0.00 0.00 35.79 2.29
1932 2174 1.785041 GCTGCCTCGTTCAAGCAACA 61.785 55.000 0.00 0.00 35.79 3.33
1938 2180 0.035317 ATGTCTGCTGCCTCGTTCAA 59.965 50.000 0.00 0.00 0.00 2.69
1941 2183 1.078848 GGATGTCTGCTGCCTCGTT 60.079 57.895 0.00 0.00 0.00 3.85
1947 2189 3.857854 CACGCGGATGTCTGCTGC 61.858 66.667 12.47 0.00 45.75 5.25
1948 2190 3.857854 GCACGCGGATGTCTGCTG 61.858 66.667 12.47 9.65 45.75 4.41
1951 2193 2.580470 GATCGCACGCGGATGTCTG 61.580 63.158 12.47 0.00 40.25 3.51
1952 2194 2.278857 GATCGCACGCGGATGTCT 60.279 61.111 12.47 0.00 40.25 3.41
1953 2195 3.330853 GGATCGCACGCGGATGTC 61.331 66.667 12.47 1.35 40.25 3.06
1974 2216 0.315251 GGGAAACACTTGGCTTCAGC 59.685 55.000 0.00 0.00 41.14 4.26
1975 2217 1.986882 AGGGAAACACTTGGCTTCAG 58.013 50.000 0.00 0.00 0.00 3.02
1976 2218 2.452600 AAGGGAAACACTTGGCTTCA 57.547 45.000 0.00 0.00 0.00 3.02
1977 2219 3.487372 ACTAAGGGAAACACTTGGCTTC 58.513 45.455 0.00 0.00 30.52 3.86
1978 2220 3.595190 ACTAAGGGAAACACTTGGCTT 57.405 42.857 0.00 0.00 30.52 4.35
1979 2221 3.595190 AACTAAGGGAAACACTTGGCT 57.405 42.857 0.00 0.00 30.52 4.75
1980 2222 4.665833 AAAACTAAGGGAAACACTTGGC 57.334 40.909 0.00 0.00 30.52 4.52
1999 2241 9.528489 AAAAATAGCCATAGAGGACACTAAAAA 57.472 29.630 0.00 0.00 41.22 1.94
2076 2318 8.862074 GCCGACGGTGTATTATTTTTAATTTTT 58.138 29.630 16.73 0.00 0.00 1.94
2077 2319 7.488792 GGCCGACGGTGTATTATTTTTAATTTT 59.511 33.333 16.73 0.00 0.00 1.82
2078 2320 6.974048 GGCCGACGGTGTATTATTTTTAATTT 59.026 34.615 16.73 0.00 0.00 1.82
2079 2321 6.319405 AGGCCGACGGTGTATTATTTTTAATT 59.681 34.615 16.73 0.00 0.00 1.40
2080 2322 5.824097 AGGCCGACGGTGTATTATTTTTAAT 59.176 36.000 16.73 0.00 0.00 1.40
2081 2323 5.064962 CAGGCCGACGGTGTATTATTTTTAA 59.935 40.000 16.73 0.00 0.00 1.52
2082 2324 4.571580 CAGGCCGACGGTGTATTATTTTTA 59.428 41.667 16.73 0.00 0.00 1.52
2083 2325 3.375922 CAGGCCGACGGTGTATTATTTTT 59.624 43.478 16.73 0.00 0.00 1.94
2084 2326 2.940410 CAGGCCGACGGTGTATTATTTT 59.060 45.455 16.73 0.00 0.00 1.82
2085 2327 2.093341 ACAGGCCGACGGTGTATTATTT 60.093 45.455 16.73 0.00 0.00 1.40
2086 2328 1.483415 ACAGGCCGACGGTGTATTATT 59.517 47.619 16.73 0.00 0.00 1.40
2087 2329 1.117150 ACAGGCCGACGGTGTATTAT 58.883 50.000 16.73 0.00 0.00 1.28
2088 2330 0.896923 AACAGGCCGACGGTGTATTA 59.103 50.000 16.73 0.00 0.00 0.98
2089 2331 0.672401 CAACAGGCCGACGGTGTATT 60.672 55.000 16.73 2.79 0.00 1.89
2090 2332 1.079405 CAACAGGCCGACGGTGTAT 60.079 57.895 16.73 1.72 0.00 2.29
2091 2333 1.177895 TACAACAGGCCGACGGTGTA 61.178 55.000 16.73 14.47 0.00 2.90
2092 2334 2.430382 CTACAACAGGCCGACGGTGT 62.430 60.000 16.73 16.25 0.00 4.16
2093 2335 1.736645 CTACAACAGGCCGACGGTG 60.737 63.158 16.73 9.43 0.00 4.94
2094 2336 2.654877 CTACAACAGGCCGACGGT 59.345 61.111 16.73 0.00 0.00 4.83
2095 2337 2.125673 CCTACAACAGGCCGACGG 60.126 66.667 10.29 10.29 37.70 4.79
2103 2345 4.598257 CCAGTCGGCCTACAACAG 57.402 61.111 10.45 0.00 0.00 3.16
2121 2363 4.162690 GCTGTGGGCCGACTAGGG 62.163 72.222 19.42 7.73 41.48 3.53
2122 2364 2.859273 CTTGCTGTGGGCCGACTAGG 62.859 65.000 19.42 10.07 44.97 3.02
2123 2365 1.448540 CTTGCTGTGGGCCGACTAG 60.449 63.158 19.42 14.72 40.92 2.57
2124 2366 2.662596 CTTGCTGTGGGCCGACTA 59.337 61.111 19.42 4.76 40.92 2.59
2130 2372 3.064324 AATCGGCTTGCTGTGGGC 61.064 61.111 1.11 0.00 42.22 5.36
2131 2373 2.703798 CCAATCGGCTTGCTGTGGG 61.704 63.158 1.11 0.00 33.20 4.61
2132 2374 1.675310 TCCAATCGGCTTGCTGTGG 60.675 57.895 1.11 3.37 33.20 4.17
2133 2375 0.957395 AGTCCAATCGGCTTGCTGTG 60.957 55.000 1.11 0.00 33.20 3.66
2134 2376 0.674895 GAGTCCAATCGGCTTGCTGT 60.675 55.000 1.11 0.00 33.20 4.40
2135 2377 1.372087 GGAGTCCAATCGGCTTGCTG 61.372 60.000 3.60 0.00 33.20 4.41
2136 2378 1.078143 GGAGTCCAATCGGCTTGCT 60.078 57.895 3.60 0.00 33.20 3.91
2137 2379 1.372087 CTGGAGTCCAATCGGCTTGC 61.372 60.000 14.17 0.00 33.20 4.01
2138 2380 0.036010 ACTGGAGTCCAATCGGCTTG 60.036 55.000 14.17 1.04 30.80 4.01
2139 2381 0.250513 GACTGGAGTCCAATCGGCTT 59.749 55.000 14.17 0.00 39.07 4.35
2140 2382 1.901085 GACTGGAGTCCAATCGGCT 59.099 57.895 14.17 0.00 39.07 5.52
2141 2383 4.522971 GACTGGAGTCCAATCGGC 57.477 61.111 14.17 0.00 39.07 5.54
2144 2386 1.153349 GGCCGACTGGAGTCCAATC 60.153 63.158 14.17 12.36 41.86 2.67
2145 2387 0.325296 TAGGCCGACTGGAGTCCAAT 60.325 55.000 14.17 1.94 41.86 3.16
2146 2388 1.077805 TAGGCCGACTGGAGTCCAA 59.922 57.895 14.17 0.00 41.86 3.53
2147 2389 1.681327 GTAGGCCGACTGGAGTCCA 60.681 63.158 12.40 12.40 41.86 4.02
2148 2390 1.668101 CTGTAGGCCGACTGGAGTCC 61.668 65.000 17.46 0.73 41.86 3.85
2149 2391 1.810532 CTGTAGGCCGACTGGAGTC 59.189 63.158 17.46 0.00 41.47 3.36
2150 2392 2.352032 GCTGTAGGCCGACTGGAGT 61.352 63.158 21.31 0.00 37.49 3.85
2151 2393 2.055042 AGCTGTAGGCCGACTGGAG 61.055 63.158 21.31 10.55 43.05 3.86
2152 2394 2.037367 AGCTGTAGGCCGACTGGA 59.963 61.111 21.31 0.01 43.05 3.86
2153 2395 2.185350 CAGCTGTAGGCCGACTGG 59.815 66.667 21.31 13.30 43.05 4.00
2154 2396 2.185350 CCAGCTGTAGGCCGACTG 59.815 66.667 17.46 17.16 43.05 3.51
2155 2397 3.775654 GCCAGCTGTAGGCCGACT 61.776 66.667 17.46 0.00 46.50 4.18
2161 2403 2.185350 CAGTCGGCCAGCTGTAGG 59.815 66.667 13.81 0.00 0.00 3.18
2162 2404 2.185350 CCAGTCGGCCAGCTGTAG 59.815 66.667 13.81 3.41 0.00 2.74
2180 2422 3.953775 ACAGTGGGCCGACAAGGG 61.954 66.667 20.91 8.79 41.48 3.95
2181 2423 2.669569 CACAGTGGGCCGACAAGG 60.670 66.667 20.91 11.26 44.97 3.61
2182 2424 2.669569 CCACAGTGGGCCGACAAG 60.670 66.667 20.91 14.11 32.67 3.16
2191 2433 1.679977 CCCAATCAGCCCACAGTGG 60.680 63.158 13.35 13.35 37.25 4.00
2192 2434 0.962356 GACCCAATCAGCCCACAGTG 60.962 60.000 0.00 0.00 0.00 3.66
2193 2435 1.380302 GACCCAATCAGCCCACAGT 59.620 57.895 0.00 0.00 0.00 3.55
2194 2436 1.379044 GGACCCAATCAGCCCACAG 60.379 63.158 0.00 0.00 0.00 3.66
2195 2437 1.852157 AGGACCCAATCAGCCCACA 60.852 57.895 0.00 0.00 0.00 4.17
2196 2438 1.379044 CAGGACCCAATCAGCCCAC 60.379 63.158 0.00 0.00 0.00 4.61
2197 2439 1.852157 ACAGGACCCAATCAGCCCA 60.852 57.895 0.00 0.00 0.00 5.36
2198 2440 1.077429 GACAGGACCCAATCAGCCC 60.077 63.158 0.00 0.00 0.00 5.19
2199 2441 1.450312 CGACAGGACCCAATCAGCC 60.450 63.158 0.00 0.00 0.00 4.85
2200 2442 1.450312 CCGACAGGACCCAATCAGC 60.450 63.158 0.00 0.00 41.02 4.26
2201 2443 1.450312 GCCGACAGGACCCAATCAG 60.450 63.158 0.00 0.00 41.02 2.90
2202 2444 2.668632 GCCGACAGGACCCAATCA 59.331 61.111 0.00 0.00 41.02 2.57
2203 2445 2.124695 GGCCGACAGGACCCAATC 60.125 66.667 0.00 0.00 40.69 2.67
2225 2467 2.017559 ATTAGCTCCAGTCGGCCGAC 62.018 60.000 43.92 43.92 44.86 4.79
2226 2468 1.327690 AATTAGCTCCAGTCGGCCGA 61.328 55.000 27.28 27.28 0.00 5.54
2227 2469 1.144057 AATTAGCTCCAGTCGGCCG 59.856 57.895 22.12 22.12 0.00 6.13
2228 2470 0.815615 CCAATTAGCTCCAGTCGGCC 60.816 60.000 0.00 0.00 0.00 6.13
2229 2471 1.440145 GCCAATTAGCTCCAGTCGGC 61.440 60.000 0.00 0.00 0.00 5.54
2230 2472 0.179000 AGCCAATTAGCTCCAGTCGG 59.821 55.000 0.00 0.00 39.48 4.79
2231 2473 3.768633 AGCCAATTAGCTCCAGTCG 57.231 52.632 0.00 0.00 39.48 4.18
2239 2481 1.718757 CCCACAGCGAGCCAATTAGC 61.719 60.000 0.00 0.00 0.00 3.09
2240 2482 1.718757 GCCCACAGCGAGCCAATTAG 61.719 60.000 0.00 0.00 0.00 1.73
2241 2483 1.748879 GCCCACAGCGAGCCAATTA 60.749 57.895 0.00 0.00 0.00 1.40
2242 2484 3.064324 GCCCACAGCGAGCCAATT 61.064 61.111 0.00 0.00 0.00 2.32
2251 2493 2.480037 GCAAAAACAATTAGCCCACAGC 59.520 45.455 0.00 0.00 44.25 4.40
2252 2494 3.726607 TGCAAAAACAATTAGCCCACAG 58.273 40.909 0.00 0.00 0.00 3.66
2253 2495 3.827008 TGCAAAAACAATTAGCCCACA 57.173 38.095 0.00 0.00 0.00 4.17
2254 2496 5.491635 TTTTGCAAAAACAATTAGCCCAC 57.508 34.783 21.94 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.