Multiple sequence alignment - TraesCS2B01G021600

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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 TraesCS2B01G021600 chr2B 100.000 2294 0 0 1 2294 10366719 10369012 0.000000e+00 4237
1 TraesCS2B01G021600 chr2B 83.642 1999 281 26 3 1986 179866694 179864727 0.000000e+00 1838
2 TraesCS2B01G021600 chr5A 86.212 2067 258 20 1 2049 665420626 665418569 0.000000e+00 2213
3 TraesCS2B01G021600 chr5A 81.450 1283 221 12 770 2045 54518856 54517584 0.000000e+00 1035
4 TraesCS2B01G021600 chr5A 83.333 258 38 4 2040 2294 469432119 469432374 1.370000e-57 233
5 TraesCS2B01G021600 chr7D 86.220 2032 257 15 33 2049 477854693 477852670 0.000000e+00 2180
6 TraesCS2B01G021600 chr7D 85.366 246 33 3 2037 2280 70687417 70687661 3.780000e-63 252
7 TraesCS2B01G021600 chr1D 85.659 2050 271 19 1 2037 316208878 316210917 0.000000e+00 2135
8 TraesCS2B01G021600 chr1D 84.109 258 36 5 2039 2294 316570908 316571162 6.330000e-61 244
9 TraesCS2B01G021600 chr1A 85.034 2058 291 13 1 2049 558730997 558728948 0.000000e+00 2078
10 TraesCS2B01G021600 chr1A 83.265 245 36 4 2039 2280 497037720 497037478 1.070000e-53 220
11 TraesCS2B01G021600 chr7A 85.083 2058 277 21 1 2049 724235950 724233914 0.000000e+00 2073
12 TraesCS2B01G021600 chr7A 85.483 1853 249 14 205 2049 720111833 720109993 0.000000e+00 1914
13 TraesCS2B01G021600 chr7A 84.848 330 39 7 1 328 720112092 720111772 2.840000e-84 322
14 TraesCS2B01G021600 chr1B 84.762 1995 274 26 64 2045 594141854 594143831 0.000000e+00 1973
15 TraesCS2B01G021600 chr4A 88.111 1615 165 18 13 1610 405765632 405767236 0.000000e+00 1893
16 TraesCS2B01G021600 chr5D 85.366 246 33 3 2037 2280 563683446 563683690 3.780000e-63 252
17 TraesCS2B01G021600 chr7B 84.146 164 26 0 2039 2202 48919944 48919781 2.360000e-35 159
18 TraesCS2B01G021600 chr4B 75.781 256 58 4 2039 2292 612710687 612710434 2.390000e-25 126
19 TraesCS2B01G021600 chr2A 93.878 49 3 0 2036 2084 759079261 759079309 8.790000e-10 75


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 TraesCS2B01G021600 chr2B 10366719 10369012 2293 False 4237 4237 100.0000 1 2294 1 chr2B.!!$F1 2293
1 TraesCS2B01G021600 chr2B 179864727 179866694 1967 True 1838 1838 83.6420 3 1986 1 chr2B.!!$R1 1983
2 TraesCS2B01G021600 chr5A 665418569 665420626 2057 True 2213 2213 86.2120 1 2049 1 chr5A.!!$R2 2048
3 TraesCS2B01G021600 chr5A 54517584 54518856 1272 True 1035 1035 81.4500 770 2045 1 chr5A.!!$R1 1275
4 TraesCS2B01G021600 chr7D 477852670 477854693 2023 True 2180 2180 86.2200 33 2049 1 chr7D.!!$R1 2016
5 TraesCS2B01G021600 chr1D 316208878 316210917 2039 False 2135 2135 85.6590 1 2037 1 chr1D.!!$F1 2036
6 TraesCS2B01G021600 chr1A 558728948 558730997 2049 True 2078 2078 85.0340 1 2049 1 chr1A.!!$R2 2048
7 TraesCS2B01G021600 chr7A 724233914 724235950 2036 True 2073 2073 85.0830 1 2049 1 chr7A.!!$R1 2048
8 TraesCS2B01G021600 chr7A 720109993 720112092 2099 True 1118 1914 85.1655 1 2049 2 chr7A.!!$R2 2048
9 TraesCS2B01G021600 chr1B 594141854 594143831 1977 False 1973 1973 84.7620 64 2045 1 chr1B.!!$F1 1981
10 TraesCS2B01G021600 chr4A 405765632 405767236 1604 False 1893 1893 88.1110 13 1610 1 chr4A.!!$F1 1597

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
871 970 0.249953 TCAAAGCGAGGCCAACGTTA 60.25 50.0 20.09 1.22 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2052 2168 0.036388 ATCTCAATGTCCACCGCGTT 60.036 50.0 4.92 0.0 0.0 4.84 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
39 40 7.148086 CCAAATATGAAGATTTTCTCCGTGGAA 60.148 37.037 0.00 0.00 34.31 3.53
56 57 2.042433 TGGAATTCGAACCCAATCCCTT 59.958 45.455 16.19 0.00 0.00 3.95
85 86 0.563173 AATCTCCTCCGATCCCCTCA 59.437 55.000 0.00 0.00 0.00 3.86
87 88 1.456919 TCTCCTCCGATCCCCTCATA 58.543 55.000 0.00 0.00 0.00 2.15
229 297 5.099042 AGGCTTGTTAGTATGTTAGGGTG 57.901 43.478 0.00 0.00 0.00 4.61
274 350 2.199208 GGGCTAGGGTTAGGGTTGTTA 58.801 52.381 0.00 0.00 0.00 2.41
275 351 2.577563 GGGCTAGGGTTAGGGTTGTTAA 59.422 50.000 0.00 0.00 0.00 2.01
276 352 3.203710 GGGCTAGGGTTAGGGTTGTTAAT 59.796 47.826 0.00 0.00 0.00 1.40
277 353 4.325579 GGGCTAGGGTTAGGGTTGTTAATT 60.326 45.833 0.00 0.00 0.00 1.40
297 373 9.931210 GTTAATTAGTATGTTATGGTTGTGCTC 57.069 33.333 0.00 0.00 0.00 4.26
341 430 9.020731 GGGGTTAGGGTTATTGTTTCATATATG 57.979 37.037 6.36 6.36 0.00 1.78
364 459 4.684242 GTGTTAGGGCTTTGTATTTTGTGC 59.316 41.667 0.00 0.00 0.00 4.57
374 469 7.062255 GGCTTTGTATTTTGTGCTAATCTTCAC 59.938 37.037 0.00 0.00 0.00 3.18
385 480 6.813649 TGTGCTAATCTTCACATGACTACTTC 59.186 38.462 0.00 0.00 38.18 3.01
457 552 6.888105 AGGACATGTGTGTATGTTCATCATA 58.112 36.000 1.15 0.00 41.15 2.15
461 556 7.056006 ACATGTGTGTATGTTCATCATATGGT 58.944 34.615 0.00 0.00 40.54 3.55
489 584 5.529060 AGACGCCATCTTGAAAGGAAATATC 59.471 40.000 0.00 0.00 31.62 1.63
495 590 6.318648 CCATCTTGAAAGGAAATATCGAACCA 59.681 38.462 0.00 0.00 0.00 3.67
520 615 0.807496 GGATGAGCTTGACTTGGTGC 59.193 55.000 0.00 0.00 0.00 5.01
558 653 0.392193 ATGCCGAGCTCTTGGAACAG 60.392 55.000 12.85 0.00 42.39 3.16
659 754 2.838202 ACATCCGTTGGAAGACCATACT 59.162 45.455 0.00 0.00 46.34 2.12
696 791 1.883275 CGTTGGGTTGCATACAAGGAA 59.117 47.619 10.75 0.00 36.16 3.36
700 795 2.156098 GGGTTGCATACAAGGAAACGA 58.844 47.619 0.00 0.00 36.16 3.85
701 796 2.095415 GGGTTGCATACAAGGAAACGAC 60.095 50.000 0.00 0.00 36.16 4.34
754 850 2.080286 TGCTACGAAGAAGGTTGAGC 57.920 50.000 0.00 0.00 0.00 4.26
792 888 4.974438 AACCAGGACGCCTCCCCA 62.974 66.667 0.00 0.00 37.25 4.96
808 904 2.238646 TCCCCATTGGTTGCTAGTAGTG 59.761 50.000 1.20 0.00 34.77 2.74
826 922 1.077429 GCTCCTCCCATGGACCAAC 60.077 63.158 15.22 0.00 31.94 3.77
838 934 4.785346 ATGGACCAACATGAGATTAGCT 57.215 40.909 0.00 0.00 0.00 3.32
858 957 3.189495 GCTAACCTCCTTTGACTCAAAGC 59.811 47.826 21.67 8.57 46.44 3.51
868 967 1.901650 GACTCAAAGCGAGGCCAACG 61.902 60.000 16.13 16.13 45.06 4.10
871 970 0.249953 TCAAAGCGAGGCCAACGTTA 60.250 50.000 20.09 1.22 0.00 3.18
885 984 2.088950 ACGTTAACCCCGATGTCAAG 57.911 50.000 0.00 0.00 0.00 3.02
889 988 2.107950 TAACCCCGATGTCAAGCAAG 57.892 50.000 0.00 0.00 0.00 4.01
959 1065 6.754702 AAATGAAGTTGATCTCCATGACAG 57.245 37.500 0.00 0.00 0.00 3.51
968 1074 1.352017 TCTCCATGACAGCAATGTGGT 59.648 47.619 0.00 0.00 0.00 4.16
1071 1177 2.561419 CGAAGGTCCTGGTGAAGAAGTA 59.439 50.000 0.00 0.00 0.00 2.24
1118 1230 0.109551 GCCGAAGCTTTCAAGAAGGC 60.110 55.000 8.66 8.66 42.83 4.35
1123 1235 3.671702 CGAAGCTTTCAAGAAGGCATTCC 60.672 47.826 17.41 4.44 44.63 3.01
1157 1269 2.094545 GGACACCATTGTTCAAGGATGC 60.095 50.000 0.00 0.00 35.47 3.91
1161 1273 3.019564 ACCATTGTTCAAGGATGCTAGC 58.980 45.455 8.10 8.10 0.00 3.42
1169 1281 1.690219 AAGGATGCTAGCCTCGTGGG 61.690 60.000 13.29 0.00 33.76 4.61
1182 1294 1.597027 CGTGGGTGAAGTGGTGGTC 60.597 63.158 0.00 0.00 0.00 4.02
1213 1325 6.723977 TGGCAAAGGTATATTTCTTGGAGTTT 59.276 34.615 0.00 0.00 0.00 2.66
1220 1332 6.098266 GGTATATTTCTTGGAGTTTGGCCAAT 59.902 38.462 21.26 4.81 43.90 3.16
1307 1420 2.611292 GGAATTGAAGATGTGGCTCGAG 59.389 50.000 8.45 8.45 0.00 4.04
1315 1428 1.751924 GATGTGGCTCGAGGACTACTT 59.248 52.381 15.58 4.71 0.00 2.24
1330 1443 5.128171 AGGACTACTTGGTTACGCATTATCA 59.872 40.000 0.00 0.00 0.00 2.15
1353 1466 3.040147 CACATAAGGTGGTCAACTCGT 57.960 47.619 0.00 0.00 44.04 4.18
1361 1474 2.735134 GGTGGTCAACTCGTACATCAAC 59.265 50.000 0.00 0.00 0.00 3.18
1366 1479 1.790043 CAACTCGTACATCAACGTGCA 59.210 47.619 0.00 0.00 43.31 4.57
1417 1530 3.088532 GTCCATGGATTGTGTAGGCAAA 58.911 45.455 19.62 0.00 31.63 3.68
1424 1537 2.810439 TTGTGTAGGCAAAACCATGC 57.190 45.000 0.00 0.00 45.67 4.06
1432 1545 2.531522 GCAAAACCATGCAAAGGAGT 57.468 45.000 14.81 0.47 45.70 3.85
1442 1555 1.771854 TGCAAAGGAGTACCCACTTGA 59.228 47.619 14.17 3.58 34.21 3.02
1456 1569 4.591498 ACCCACTTGACACATAGTGAGTTA 59.409 41.667 7.24 0.00 43.45 2.24
1457 1570 4.929808 CCCACTTGACACATAGTGAGTTAC 59.070 45.833 7.24 0.00 43.45 2.50
1462 1575 6.206243 ACTTGACACATAGTGAGTTACGTACT 59.794 38.462 3.88 0.00 40.71 2.73
1572 1686 8.847196 CATGATTTCCAACTCAATATCATCACT 58.153 33.333 0.00 0.00 32.13 3.41
1614 1728 3.632145 ACAAGTCATGGACCTTGTGAAAC 59.368 43.478 18.99 0.00 34.91 2.78
1629 1743 5.621197 TGTGAAACCCATCTTTCATTACG 57.379 39.130 0.00 0.00 41.17 3.18
1641 1755 7.279981 CCATCTTTCATTACGAGGTGAAATACA 59.720 37.037 11.87 3.78 41.80 2.29
1665 1779 2.799176 GCATGGAAGGCGAAGGAAT 58.201 52.632 0.00 0.00 29.35 3.01
1754 1868 3.643554 GCCACCACTAACCCGGGT 61.644 66.667 24.16 24.16 34.59 5.28
1769 1883 1.378531 CGGGTATGGTTCATGTGGTG 58.621 55.000 0.00 0.00 0.00 4.17
1810 1924 3.888930 ACAACAATTCACAACGGAAGGAT 59.111 39.130 0.00 0.00 0.00 3.24
1815 1929 1.254026 TCACAACGGAAGGATCGTCT 58.746 50.000 0.00 0.00 40.18 4.18
1864 1978 0.524862 GAGCAATGTGTGAGGGCTTG 59.475 55.000 0.00 0.00 34.44 4.01
1922 2036 6.039047 GCACATTCTGGATCAGACAATACAAT 59.961 38.462 0.00 0.00 40.46 2.71
2030 2146 1.284982 CTGGAGTGGTTCTTGCGTCG 61.285 60.000 0.00 0.00 0.00 5.12
2039 2155 2.223377 GGTTCTTGCGTCGTTTGAGAAT 59.777 45.455 0.00 0.00 0.00 2.40
2056 2172 6.422776 TGAGAATCAAGGAATTCTTAACGC 57.577 37.500 5.23 0.00 45.97 4.84
2057 2173 5.063438 TGAGAATCAAGGAATTCTTAACGCG 59.937 40.000 3.53 3.53 45.97 6.01
2058 2174 4.332819 AGAATCAAGGAATTCTTAACGCGG 59.667 41.667 12.47 0.00 42.05 6.46
2059 2175 3.048337 TCAAGGAATTCTTAACGCGGT 57.952 42.857 12.47 6.42 33.68 5.68
2060 2176 2.739913 TCAAGGAATTCTTAACGCGGTG 59.260 45.455 7.07 0.00 33.68 4.94
2061 2177 1.734163 AGGAATTCTTAACGCGGTGG 58.266 50.000 7.07 0.00 0.00 4.61
2062 2178 1.276989 AGGAATTCTTAACGCGGTGGA 59.723 47.619 7.07 1.34 0.00 4.02
2063 2179 1.395954 GGAATTCTTAACGCGGTGGAC 59.604 52.381 7.07 0.00 0.00 4.02
2064 2180 2.070783 GAATTCTTAACGCGGTGGACA 58.929 47.619 7.07 0.00 0.00 4.02
2065 2181 2.396590 ATTCTTAACGCGGTGGACAT 57.603 45.000 7.07 0.00 0.00 3.06
2066 2182 2.172851 TTCTTAACGCGGTGGACATT 57.827 45.000 7.07 0.00 0.00 2.71
2067 2183 1.434555 TCTTAACGCGGTGGACATTG 58.565 50.000 7.07 0.00 0.00 2.82
2068 2184 1.001068 TCTTAACGCGGTGGACATTGA 59.999 47.619 7.07 0.00 0.00 2.57
2069 2185 1.393539 CTTAACGCGGTGGACATTGAG 59.606 52.381 7.07 0.00 0.00 3.02
2070 2186 0.604073 TAACGCGGTGGACATTGAGA 59.396 50.000 7.07 0.00 0.00 3.27
2071 2187 0.036388 AACGCGGTGGACATTGAGAT 60.036 50.000 12.47 0.00 0.00 2.75
2072 2188 0.036388 ACGCGGTGGACATTGAGATT 60.036 50.000 12.47 0.00 0.00 2.40
2073 2189 0.652592 CGCGGTGGACATTGAGATTC 59.347 55.000 0.00 0.00 0.00 2.52
2074 2190 1.017387 GCGGTGGACATTGAGATTCC 58.983 55.000 0.00 0.00 0.00 3.01
2075 2191 1.407437 GCGGTGGACATTGAGATTCCT 60.407 52.381 0.00 0.00 0.00 3.36
2076 2192 2.283298 CGGTGGACATTGAGATTCCTG 58.717 52.381 0.00 0.00 0.00 3.86
2077 2193 2.648059 GGTGGACATTGAGATTCCTGG 58.352 52.381 0.00 0.00 0.00 4.45
2078 2194 2.648059 GTGGACATTGAGATTCCTGGG 58.352 52.381 0.00 0.00 0.00 4.45
2079 2195 1.064463 TGGACATTGAGATTCCTGGGC 60.064 52.381 0.00 0.00 0.00 5.36
2080 2196 1.064463 GGACATTGAGATTCCTGGGCA 60.064 52.381 0.00 0.00 0.00 5.36
2081 2197 2.423947 GGACATTGAGATTCCTGGGCAT 60.424 50.000 0.00 0.00 0.00 4.40
2082 2198 2.621998 GACATTGAGATTCCTGGGCATG 59.378 50.000 0.00 0.00 0.00 4.06
2083 2199 1.340248 CATTGAGATTCCTGGGCATGC 59.660 52.381 9.90 9.90 0.00 4.06
2084 2200 0.396139 TTGAGATTCCTGGGCATGCC 60.396 55.000 29.47 29.47 0.00 4.40
2096 2212 3.069946 CATGCCCCGTTGCACCAT 61.070 61.111 0.00 0.00 45.48 3.55
2097 2213 2.755469 ATGCCCCGTTGCACCATC 60.755 61.111 0.00 0.00 45.48 3.51
2098 2214 3.286694 ATGCCCCGTTGCACCATCT 62.287 57.895 0.00 0.00 45.48 2.90
2099 2215 1.920734 ATGCCCCGTTGCACCATCTA 61.921 55.000 0.00 0.00 45.48 1.98
2100 2216 1.152963 GCCCCGTTGCACCATCTAT 60.153 57.895 0.00 0.00 0.00 1.98
2101 2217 1.447317 GCCCCGTTGCACCATCTATG 61.447 60.000 0.00 0.00 0.00 2.23
2112 2228 1.531423 CCATCTATGGTGCATGAGGC 58.469 55.000 0.00 0.00 43.05 4.70
2113 2229 1.202842 CCATCTATGGTGCATGAGGCA 60.203 52.381 0.00 0.00 44.66 4.75
2135 2251 6.317857 GCACTTTTGCTTGAACTTCTATAGG 58.682 40.000 0.00 0.00 46.17 2.57
2136 2252 6.623767 GCACTTTTGCTTGAACTTCTATAGGG 60.624 42.308 0.00 0.00 46.17 3.53
2137 2253 6.655003 CACTTTTGCTTGAACTTCTATAGGGA 59.345 38.462 0.00 0.00 0.00 4.20
2138 2254 7.174946 CACTTTTGCTTGAACTTCTATAGGGAA 59.825 37.037 0.00 0.00 0.00 3.97
2139 2255 7.890655 ACTTTTGCTTGAACTTCTATAGGGAAT 59.109 33.333 0.00 0.00 0.00 3.01
2140 2256 7.630242 TTTGCTTGAACTTCTATAGGGAATG 57.370 36.000 0.00 0.00 0.00 2.67
2141 2257 6.313519 TGCTTGAACTTCTATAGGGAATGT 57.686 37.500 0.00 0.00 0.00 2.71
2142 2258 6.721318 TGCTTGAACTTCTATAGGGAATGTT 58.279 36.000 0.00 0.00 0.00 2.71
2143 2259 7.175104 TGCTTGAACTTCTATAGGGAATGTTT 58.825 34.615 0.00 0.00 0.00 2.83
2144 2260 7.336931 TGCTTGAACTTCTATAGGGAATGTTTC 59.663 37.037 0.00 0.00 0.00 2.78
2153 2269 8.207350 TCTATAGGGAATGTTTCCTTATGGAG 57.793 38.462 15.72 9.57 46.82 3.86
2154 2270 6.848562 ATAGGGAATGTTTCCTTATGGAGT 57.151 37.500 9.40 0.00 46.66 3.85
2155 2271 7.226059 ATAGGGAATGTTTCCTTATGGAGTT 57.774 36.000 9.40 0.00 46.66 3.01
2156 2272 7.062957 ATAGGGAATGTTTCCTTATGGAGTTG 58.937 38.462 9.40 0.00 46.66 3.16
2157 2273 5.582689 GGAATGTTTCCTTATGGAGTTGG 57.417 43.478 0.00 0.00 46.57 3.77
2158 2274 4.142160 GGAATGTTTCCTTATGGAGTTGGC 60.142 45.833 0.00 0.00 46.57 4.52
2159 2275 2.802719 TGTTTCCTTATGGAGTTGGCC 58.197 47.619 0.00 0.00 44.24 5.36
2160 2276 1.743394 GTTTCCTTATGGAGTTGGCCG 59.257 52.381 0.00 0.00 44.24 6.13
2161 2277 1.281419 TTCCTTATGGAGTTGGCCGA 58.719 50.000 0.00 0.00 44.24 5.54
2162 2278 1.507140 TCCTTATGGAGTTGGCCGAT 58.493 50.000 0.00 0.00 37.46 4.18
2163 2279 1.140852 TCCTTATGGAGTTGGCCGATG 59.859 52.381 0.00 0.00 37.46 3.84
2164 2280 1.140852 CCTTATGGAGTTGGCCGATGA 59.859 52.381 0.00 0.00 34.57 2.92
2165 2281 2.224621 CCTTATGGAGTTGGCCGATGAT 60.225 50.000 0.00 0.00 34.57 2.45
2166 2282 2.839486 TATGGAGTTGGCCGATGATC 57.161 50.000 0.00 0.00 0.00 2.92
2167 2283 1.135094 ATGGAGTTGGCCGATGATCT 58.865 50.000 0.00 0.00 0.00 2.75
2168 2284 0.911769 TGGAGTTGGCCGATGATCTT 59.088 50.000 0.00 0.00 0.00 2.40
2169 2285 1.134401 TGGAGTTGGCCGATGATCTTC 60.134 52.381 0.00 0.00 0.00 2.87
2170 2286 1.134401 GGAGTTGGCCGATGATCTTCA 60.134 52.381 9.10 0.00 0.00 3.02
2171 2287 2.632377 GAGTTGGCCGATGATCTTCAA 58.368 47.619 9.10 0.00 0.00 2.69
2172 2288 3.209410 GAGTTGGCCGATGATCTTCAAT 58.791 45.455 9.10 0.00 0.00 2.57
2173 2289 4.380531 GAGTTGGCCGATGATCTTCAATA 58.619 43.478 9.10 0.00 0.00 1.90
2174 2290 4.978099 AGTTGGCCGATGATCTTCAATAT 58.022 39.130 9.10 0.00 0.00 1.28
2175 2291 5.380043 AGTTGGCCGATGATCTTCAATATT 58.620 37.500 9.10 0.00 0.00 1.28
2176 2292 5.240183 AGTTGGCCGATGATCTTCAATATTG 59.760 40.000 9.29 9.29 0.00 1.90
2177 2293 4.717877 TGGCCGATGATCTTCAATATTGT 58.282 39.130 14.97 0.00 0.00 2.71
2178 2294 5.132502 TGGCCGATGATCTTCAATATTGTT 58.867 37.500 14.97 0.00 0.00 2.83
2179 2295 5.008911 TGGCCGATGATCTTCAATATTGTTG 59.991 40.000 14.97 9.20 0.00 3.33
2180 2296 5.009010 GGCCGATGATCTTCAATATTGTTGT 59.991 40.000 14.97 0.90 0.00 3.32
2181 2297 6.138761 GCCGATGATCTTCAATATTGTTGTC 58.861 40.000 14.97 9.72 0.00 3.18
2182 2298 6.017605 GCCGATGATCTTCAATATTGTTGTCT 60.018 38.462 14.97 0.00 0.00 3.41
2183 2299 7.571026 CCGATGATCTTCAATATTGTTGTCTC 58.429 38.462 14.97 7.76 0.00 3.36
2184 2300 7.279342 CGATGATCTTCAATATTGTTGTCTCG 58.721 38.462 14.97 11.53 0.00 4.04
2185 2301 6.349973 TGATCTTCAATATTGTTGTCTCGC 57.650 37.500 14.97 0.67 0.00 5.03
2186 2302 6.108687 TGATCTTCAATATTGTTGTCTCGCT 58.891 36.000 14.97 0.00 0.00 4.93
2187 2303 6.595326 TGATCTTCAATATTGTTGTCTCGCTT 59.405 34.615 14.97 0.00 0.00 4.68
2188 2304 6.801539 TCTTCAATATTGTTGTCTCGCTTT 57.198 33.333 14.97 0.00 0.00 3.51
2189 2305 6.831769 TCTTCAATATTGTTGTCTCGCTTTC 58.168 36.000 14.97 0.00 0.00 2.62
2190 2306 6.650807 TCTTCAATATTGTTGTCTCGCTTTCT 59.349 34.615 14.97 0.00 0.00 2.52
2191 2307 6.408858 TCAATATTGTTGTCTCGCTTTCTC 57.591 37.500 14.97 0.00 0.00 2.87
2192 2308 5.351465 TCAATATTGTTGTCTCGCTTTCTCC 59.649 40.000 14.97 0.00 0.00 3.71
2193 2309 1.497991 TTGTTGTCTCGCTTTCTCCG 58.502 50.000 0.00 0.00 0.00 4.63
2194 2310 0.671796 TGTTGTCTCGCTTTCTCCGA 59.328 50.000 0.00 0.00 0.00 4.55
2195 2311 1.061485 GTTGTCTCGCTTTCTCCGAC 58.939 55.000 0.00 0.00 0.00 4.79
2196 2312 0.671796 TTGTCTCGCTTTCTCCGACA 59.328 50.000 0.00 0.00 33.25 4.35
2197 2313 0.671796 TGTCTCGCTTTCTCCGACAA 59.328 50.000 0.00 0.00 32.26 3.18
2198 2314 1.335964 TGTCTCGCTTTCTCCGACAAG 60.336 52.381 0.00 0.00 32.26 3.16
2199 2315 0.959553 TCTCGCTTTCTCCGACAAGT 59.040 50.000 0.00 0.00 0.00 3.16
2200 2316 1.340248 TCTCGCTTTCTCCGACAAGTT 59.660 47.619 0.00 0.00 0.00 2.66
2201 2317 1.457303 CTCGCTTTCTCCGACAAGTTG 59.543 52.381 0.00 0.00 0.00 3.16
2202 2318 1.202486 TCGCTTTCTCCGACAAGTTGT 60.202 47.619 8.61 8.61 0.00 3.32
2203 2319 1.597663 CGCTTTCTCCGACAAGTTGTT 59.402 47.619 10.45 0.00 0.00 2.83
2204 2320 2.348591 CGCTTTCTCCGACAAGTTGTTC 60.349 50.000 10.45 2.90 0.00 3.18
2205 2321 2.348591 GCTTTCTCCGACAAGTTGTTCG 60.349 50.000 10.45 14.05 0.00 3.95
2206 2322 1.214367 TTCTCCGACAAGTTGTTCGC 58.786 50.000 10.45 0.00 0.00 4.70
2207 2323 0.599204 TCTCCGACAAGTTGTTCGCC 60.599 55.000 10.45 0.00 0.00 5.54
2208 2324 0.600255 CTCCGACAAGTTGTTCGCCT 60.600 55.000 10.45 0.00 0.00 5.52
2209 2325 0.179067 TCCGACAAGTTGTTCGCCTT 60.179 50.000 10.45 0.00 0.00 4.35
2210 2326 0.234884 CCGACAAGTTGTTCGCCTTC 59.765 55.000 10.45 0.00 0.00 3.46
2211 2327 1.217882 CGACAAGTTGTTCGCCTTCT 58.782 50.000 10.45 0.00 0.00 2.85
2212 2328 1.597663 CGACAAGTTGTTCGCCTTCTT 59.402 47.619 10.45 0.00 0.00 2.52
2213 2329 2.599848 CGACAAGTTGTTCGCCTTCTTG 60.600 50.000 10.45 0.00 40.54 3.02
2214 2330 2.365582 ACAAGTTGTTCGCCTTCTTGT 58.634 42.857 1.64 0.00 42.15 3.16
2215 2331 2.097466 ACAAGTTGTTCGCCTTCTTGTG 59.903 45.455 1.64 0.00 44.20 3.33
2216 2332 0.663153 AGTTGTTCGCCTTCTTGTGC 59.337 50.000 0.00 0.00 0.00 4.57
2217 2333 0.380378 GTTGTTCGCCTTCTTGTGCA 59.620 50.000 0.00 0.00 0.00 4.57
2218 2334 0.662619 TTGTTCGCCTTCTTGTGCAG 59.337 50.000 0.00 0.00 0.00 4.41
2219 2335 1.081840 GTTCGCCTTCTTGTGCAGC 60.082 57.895 0.00 0.00 0.00 5.25
2220 2336 2.260869 TTCGCCTTCTTGTGCAGCC 61.261 57.895 0.00 0.00 0.00 4.85
2221 2337 2.956799 TTCGCCTTCTTGTGCAGCCA 62.957 55.000 0.00 0.00 0.00 4.75
2222 2338 2.554636 CGCCTTCTTGTGCAGCCAA 61.555 57.895 0.00 0.00 0.00 4.52
2223 2339 1.870055 CGCCTTCTTGTGCAGCCAAT 61.870 55.000 0.00 0.00 0.00 3.16
2224 2340 0.319405 GCCTTCTTGTGCAGCCAATT 59.681 50.000 0.00 0.00 0.00 2.32
2225 2341 1.670967 GCCTTCTTGTGCAGCCAATTC 60.671 52.381 0.00 0.00 0.00 2.17
2226 2342 1.891150 CCTTCTTGTGCAGCCAATTCT 59.109 47.619 0.00 0.00 0.00 2.40
2227 2343 2.094854 CCTTCTTGTGCAGCCAATTCTC 60.095 50.000 0.00 0.00 0.00 2.87
2228 2344 2.275134 TCTTGTGCAGCCAATTCTCA 57.725 45.000 0.00 0.00 0.00 3.27
2229 2345 2.799017 TCTTGTGCAGCCAATTCTCAT 58.201 42.857 0.00 0.00 0.00 2.90
2230 2346 2.490509 TCTTGTGCAGCCAATTCTCATG 59.509 45.455 0.00 0.00 0.00 3.07
2231 2347 0.528924 TGTGCAGCCAATTCTCATGC 59.471 50.000 0.00 0.00 37.40 4.06
2232 2348 0.528924 GTGCAGCCAATTCTCATGCA 59.471 50.000 0.00 0.00 44.10 3.96
2233 2349 0.528924 TGCAGCCAATTCTCATGCAC 59.471 50.000 0.00 0.00 41.65 4.57
2234 2350 0.524816 GCAGCCAATTCTCATGCACG 60.525 55.000 0.00 0.00 36.88 5.34
2235 2351 1.089112 CAGCCAATTCTCATGCACGA 58.911 50.000 0.00 0.00 0.00 4.35
2236 2352 1.469703 CAGCCAATTCTCATGCACGAA 59.530 47.619 0.00 0.00 0.00 3.85
2237 2353 2.095110 CAGCCAATTCTCATGCACGAAA 60.095 45.455 0.00 0.00 0.00 3.46
2238 2354 2.557924 AGCCAATTCTCATGCACGAAAA 59.442 40.909 0.00 0.00 0.00 2.29
2239 2355 3.005684 AGCCAATTCTCATGCACGAAAAA 59.994 39.130 0.00 0.00 0.00 1.94
2255 2371 2.519771 AAAAAGTTATCCCGGGGGTC 57.480 50.000 23.50 9.19 36.47 4.46
2256 2372 1.677490 AAAAGTTATCCCGGGGGTCT 58.323 50.000 23.50 11.48 36.47 3.85
2257 2373 1.677490 AAAGTTATCCCGGGGGTCTT 58.323 50.000 23.50 16.73 36.47 3.01
2258 2374 0.916809 AAGTTATCCCGGGGGTCTTG 59.083 55.000 23.50 0.00 36.47 3.02
2259 2375 0.043637 AGTTATCCCGGGGGTCTTGA 59.956 55.000 23.50 0.00 36.47 3.02
2260 2376 1.137697 GTTATCCCGGGGGTCTTGAT 58.862 55.000 23.50 7.30 36.47 2.57
2261 2377 1.493446 GTTATCCCGGGGGTCTTGATT 59.507 52.381 23.50 0.00 36.47 2.57
2262 2378 1.901648 TATCCCGGGGGTCTTGATTT 58.098 50.000 23.50 0.00 36.47 2.17
2263 2379 1.007607 ATCCCGGGGGTCTTGATTTT 58.992 50.000 23.50 0.00 36.47 1.82
2264 2380 0.330267 TCCCGGGGGTCTTGATTTTC 59.670 55.000 23.50 0.00 36.47 2.29
2265 2381 0.331616 CCCGGGGGTCTTGATTTTCT 59.668 55.000 14.71 0.00 0.00 2.52
2266 2382 1.682087 CCCGGGGGTCTTGATTTTCTC 60.682 57.143 14.71 0.00 0.00 2.87
2267 2383 1.369625 CGGGGGTCTTGATTTTCTCG 58.630 55.000 0.00 0.00 0.00 4.04
2268 2384 1.066430 CGGGGGTCTTGATTTTCTCGA 60.066 52.381 0.00 0.00 0.00 4.04
2269 2385 2.357075 GGGGGTCTTGATTTTCTCGAC 58.643 52.381 0.00 0.00 0.00 4.20
2270 2386 2.000447 GGGGTCTTGATTTTCTCGACG 59.000 52.381 0.00 0.00 0.00 5.12
2271 2387 2.000447 GGGTCTTGATTTTCTCGACGG 59.000 52.381 0.00 0.00 0.00 4.79
2272 2388 2.000447 GGTCTTGATTTTCTCGACGGG 59.000 52.381 0.00 0.00 0.00 5.28
2273 2389 2.000447 GTCTTGATTTTCTCGACGGGG 59.000 52.381 0.00 0.00 0.00 5.73
2274 2390 1.897133 TCTTGATTTTCTCGACGGGGA 59.103 47.619 0.00 0.00 0.00 4.81
2275 2391 2.000447 CTTGATTTTCTCGACGGGGAC 59.000 52.381 0.00 0.00 0.00 4.46
2276 2392 0.970640 TGATTTTCTCGACGGGGACA 59.029 50.000 0.00 0.00 0.00 4.02
2277 2393 1.553248 TGATTTTCTCGACGGGGACAT 59.447 47.619 0.00 0.00 0.00 3.06
2278 2394 2.027561 TGATTTTCTCGACGGGGACATT 60.028 45.455 0.00 0.00 0.00 2.71
2279 2395 2.088950 TTTTCTCGACGGGGACATTC 57.911 50.000 0.00 0.00 0.00 2.67
2280 2396 1.263356 TTTCTCGACGGGGACATTCT 58.737 50.000 0.00 0.00 0.00 2.40
2281 2397 2.133281 TTCTCGACGGGGACATTCTA 57.867 50.000 0.00 0.00 0.00 2.10
2282 2398 1.676746 TCTCGACGGGGACATTCTAG 58.323 55.000 0.00 0.00 0.00 2.43
2283 2399 1.211212 TCTCGACGGGGACATTCTAGA 59.789 52.381 0.00 0.00 0.00 2.43
2284 2400 1.604755 CTCGACGGGGACATTCTAGAG 59.395 57.143 0.00 0.00 0.00 2.43
2285 2401 1.211212 TCGACGGGGACATTCTAGAGA 59.789 52.381 0.00 0.00 0.00 3.10
2286 2402 1.604755 CGACGGGGACATTCTAGAGAG 59.395 57.143 0.00 0.00 0.00 3.20
2287 2403 1.957877 GACGGGGACATTCTAGAGAGG 59.042 57.143 0.00 0.00 0.00 3.69
2288 2404 1.569548 ACGGGGACATTCTAGAGAGGA 59.430 52.381 0.00 0.00 0.00 3.71
2289 2405 2.024273 ACGGGGACATTCTAGAGAGGAA 60.024 50.000 0.00 0.00 0.00 3.36
2290 2406 3.235200 CGGGGACATTCTAGAGAGGAAT 58.765 50.000 0.00 0.00 34.21 3.01
2291 2407 4.140994 ACGGGGACATTCTAGAGAGGAATA 60.141 45.833 0.00 0.00 32.86 1.75
2292 2408 4.833380 CGGGGACATTCTAGAGAGGAATAA 59.167 45.833 0.00 0.00 32.86 1.40
2293 2409 5.047660 CGGGGACATTCTAGAGAGGAATAAG 60.048 48.000 0.00 0.00 32.86 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 7.013655 CCACGGAGAAAATCTTCATATTTGGAT 59.986 37.037 0.00 0.00 33.64 3.41
39 40 1.923148 AGGAAGGGATTGGGTTCGAAT 59.077 47.619 0.00 0.00 0.00 3.34
56 57 2.243994 TCGGAGGAGATTACCTTGAGGA 59.756 50.000 3.59 0.00 40.73 3.71
150 159 8.827832 ATCTCCATACAAATTTCAAGATCCAA 57.172 30.769 0.00 0.00 0.00 3.53
229 297 4.595986 ACATAACAACACCCATAACCCTC 58.404 43.478 0.00 0.00 0.00 4.30
274 350 8.623903 CATGAGCACAACCATAACATACTAATT 58.376 33.333 0.00 0.00 0.00 1.40
275 351 7.229306 CCATGAGCACAACCATAACATACTAAT 59.771 37.037 0.00 0.00 0.00 1.73
276 352 6.542005 CCATGAGCACAACCATAACATACTAA 59.458 38.462 0.00 0.00 0.00 2.24
277 353 6.054941 CCATGAGCACAACCATAACATACTA 58.945 40.000 0.00 0.00 0.00 1.82
287 363 1.887854 CAATGACCATGAGCACAACCA 59.112 47.619 0.00 0.00 0.00 3.67
297 373 2.760092 CCCCCACTTAACAATGACCATG 59.240 50.000 0.00 0.00 0.00 3.66
341 430 4.684242 GCACAAAATACAAAGCCCTAACAC 59.316 41.667 0.00 0.00 0.00 3.32
364 459 5.980116 CCGGAAGTAGTCATGTGAAGATTAG 59.020 44.000 0.00 0.00 0.00 1.73
374 469 6.090483 ACATATCTTCCGGAAGTAGTCATG 57.910 41.667 36.74 30.29 39.38 3.07
385 480 4.178540 ACACAACGTAACATATCTTCCGG 58.821 43.478 0.00 0.00 0.00 5.14
457 552 2.086869 CAAGATGGCGTCTTTGACCAT 58.913 47.619 19.08 0.00 44.80 3.55
461 556 2.813754 CCTTTCAAGATGGCGTCTTTGA 59.186 45.455 19.08 15.96 44.80 2.69
489 584 1.141881 CTCATCCGGGTCTGGTTCG 59.858 63.158 0.00 0.00 0.00 3.95
495 590 0.616111 AGTCAAGCTCATCCGGGTCT 60.616 55.000 0.00 0.00 0.00 3.85
520 615 5.163703 CGGCATAGCTAGGACTACTATCAAG 60.164 48.000 10.11 0.00 0.00 3.02
558 653 7.069826 TCCATCCAATTCAAATATTTCCTCACC 59.930 37.037 0.00 0.00 0.00 4.02
659 754 2.589798 ACGTTTCTCGGAGTTCACAA 57.410 45.000 4.69 0.00 44.69 3.33
696 791 3.501062 TGTCTAGTGATTCAGACGTCGTT 59.499 43.478 10.46 0.00 43.38 3.85
700 795 3.367498 GCCTTGTCTAGTGATTCAGACGT 60.367 47.826 0.00 0.00 43.38 4.34
701 796 3.119316 AGCCTTGTCTAGTGATTCAGACG 60.119 47.826 0.00 0.00 43.38 4.18
754 850 2.162681 CAAGTCCAAGGCCAAACTAGG 58.837 52.381 5.01 0.00 0.00 3.02
765 861 1.512926 CGTCCTGGTTCAAGTCCAAG 58.487 55.000 0.00 0.00 34.35 3.61
792 888 2.840651 AGGAGCACTACTAGCAACCAAT 59.159 45.455 0.00 0.00 34.69 3.16
826 922 6.481644 GTCAAAGGAGGTTAGCTAATCTCATG 59.518 42.308 36.02 30.24 43.55 3.07
831 927 5.978814 TGAGTCAAAGGAGGTTAGCTAATC 58.021 41.667 9.88 9.33 0.00 1.75
858 957 2.036571 GGGGTTAACGTTGGCCTCG 61.037 63.158 11.99 16.71 0.00 4.63
868 967 1.816074 TGCTTGACATCGGGGTTAAC 58.184 50.000 0.00 0.00 0.00 2.01
871 970 1.244019 GCTTGCTTGACATCGGGGTT 61.244 55.000 0.00 0.00 0.00 4.11
936 1042 5.125097 GCTGTCATGGAGATCAACTTCATTT 59.875 40.000 0.00 0.00 41.68 2.32
959 1065 1.061131 CGTCGAGATCAACCACATTGC 59.939 52.381 0.00 0.00 38.29 3.56
968 1074 4.385748 GCACATAATATGCGTCGAGATCAA 59.614 41.667 0.00 0.00 32.45 2.57
1071 1177 1.977544 CGTGAACCCCTCCTCGTCT 60.978 63.158 0.00 0.00 0.00 4.18
1118 1230 2.029288 CGATGATCCCGCCGGAATG 61.029 63.158 5.05 0.00 43.10 2.67
1123 1235 3.911698 TGTCCGATGATCCCGCCG 61.912 66.667 0.00 0.00 0.00 6.46
1157 1269 0.108615 CACTTCACCCACGAGGCTAG 60.109 60.000 0.00 0.00 40.58 3.42
1161 1273 1.301716 CACCACTTCACCCACGAGG 60.302 63.158 0.00 0.00 43.78 4.63
1169 1281 1.663702 CCGTCGACCACCACTTCAC 60.664 63.158 10.58 0.00 0.00 3.18
1182 1294 2.234300 ATATACCTTTGCCACCGTCG 57.766 50.000 0.00 0.00 0.00 5.12
1213 1325 1.349688 AGTACGGTGAGAAATTGGCCA 59.650 47.619 0.00 0.00 0.00 5.36
1220 1332 1.689813 TGCTCCAAGTACGGTGAGAAA 59.310 47.619 11.27 0.00 0.00 2.52
1307 1420 5.353938 TGATAATGCGTAACCAAGTAGTCC 58.646 41.667 0.00 0.00 0.00 3.85
1315 1428 4.143986 TGTGGATGATAATGCGTAACCA 57.856 40.909 0.00 0.00 0.00 3.67
1366 1479 4.380531 CTCCTCATATGCAACCGTGTAAT 58.619 43.478 0.00 0.00 0.00 1.89
1381 1494 0.994247 TGGACATTGTGGCTCCTCAT 59.006 50.000 0.00 0.00 0.00 2.90
1417 1530 1.427368 TGGGTACTCCTTTGCATGGTT 59.573 47.619 6.22 0.00 36.20 3.67
1424 1537 3.139077 GTGTCAAGTGGGTACTCCTTTG 58.861 50.000 0.00 0.00 35.69 2.77
1432 1545 4.801330 CTCACTATGTGTCAAGTGGGTA 57.199 45.455 3.83 0.00 42.72 3.69
1442 1555 6.404074 GGCTTAGTACGTAACTCACTATGTGT 60.404 42.308 0.00 0.00 39.80 3.72
1456 1569 0.037605 GCACAGGTGGCTTAGTACGT 60.038 55.000 1.10 0.00 0.00 3.57
1457 1570 0.246635 AGCACAGGTGGCTTAGTACG 59.753 55.000 1.10 0.00 38.81 3.67
1462 1575 1.003355 GCTCAGCACAGGTGGCTTA 60.003 57.895 0.00 0.00 40.23 3.09
1572 1686 3.640498 TGTTGAATGCTCATGGTTGGAAA 59.360 39.130 0.00 0.00 0.00 3.13
1614 1728 4.137116 TCACCTCGTAATGAAAGATGGG 57.863 45.455 0.00 0.00 0.00 4.00
1629 1743 2.436417 TGCCTTGCTGTATTTCACCTC 58.564 47.619 0.00 0.00 0.00 3.85
1641 1755 2.753043 CGCCTTCCATGCCTTGCT 60.753 61.111 0.00 0.00 0.00 3.91
1662 1776 4.361451 ACAACATCTTGAATGCGGATTC 57.639 40.909 21.41 21.41 38.85 2.52
1665 1779 3.627123 CCATACAACATCTTGAATGCGGA 59.373 43.478 0.00 0.00 0.00 5.54
1754 1868 1.064758 GGCTCCACCACATGAACCATA 60.065 52.381 0.00 0.00 38.86 2.74
1810 1924 0.892755 ACGGCCAAATACTCAGACGA 59.107 50.000 2.24 0.00 0.00 4.20
1815 1929 1.832883 AATGCACGGCCAAATACTCA 58.167 45.000 2.24 0.00 0.00 3.41
1864 1978 2.433664 CCGGCCGGTAGTGTTCAC 60.434 66.667 36.64 0.00 0.00 3.18
1911 2025 5.302568 CCAATATGGTGCCATTGTATTGTCT 59.697 40.000 9.19 0.00 37.82 3.41
1987 2102 4.916041 ATCATTGTTCTCCCTCTCAACA 57.084 40.909 0.00 0.00 0.00 3.33
1994 2109 4.785376 ACTCCAGTTATCATTGTTCTCCCT 59.215 41.667 0.00 0.00 0.00 4.20
1995 2110 4.878397 CACTCCAGTTATCATTGTTCTCCC 59.122 45.833 0.00 0.00 0.00 4.30
2030 2146 7.271438 GCGTTAAGAATTCCTTGATTCTCAAAC 59.729 37.037 0.65 7.69 43.66 2.93
2039 2155 2.739913 CACCGCGTTAAGAATTCCTTGA 59.260 45.455 4.92 0.00 36.34 3.02
2045 2161 2.172851 TGTCCACCGCGTTAAGAATT 57.827 45.000 4.92 0.00 0.00 2.17
2049 2165 1.393539 CTCAATGTCCACCGCGTTAAG 59.606 52.381 4.92 0.00 0.00 1.85
2050 2166 1.001068 TCTCAATGTCCACCGCGTTAA 59.999 47.619 4.92 0.00 0.00 2.01
2051 2167 0.604073 TCTCAATGTCCACCGCGTTA 59.396 50.000 4.92 0.00 0.00 3.18
2052 2168 0.036388 ATCTCAATGTCCACCGCGTT 60.036 50.000 4.92 0.00 0.00 4.84
2053 2169 0.036388 AATCTCAATGTCCACCGCGT 60.036 50.000 4.92 0.00 0.00 6.01
2054 2170 0.652592 GAATCTCAATGTCCACCGCG 59.347 55.000 0.00 0.00 0.00 6.46
2055 2171 1.017387 GGAATCTCAATGTCCACCGC 58.983 55.000 0.00 0.00 0.00 5.68
2056 2172 2.283298 CAGGAATCTCAATGTCCACCG 58.717 52.381 0.00 0.00 33.57 4.94
2057 2173 2.648059 CCAGGAATCTCAATGTCCACC 58.352 52.381 0.00 0.00 33.57 4.61
2058 2174 2.648059 CCCAGGAATCTCAATGTCCAC 58.352 52.381 0.00 0.00 33.57 4.02
2059 2175 1.064463 GCCCAGGAATCTCAATGTCCA 60.064 52.381 0.00 0.00 33.57 4.02
2060 2176 1.064463 TGCCCAGGAATCTCAATGTCC 60.064 52.381 0.00 0.00 0.00 4.02
2061 2177 2.425143 TGCCCAGGAATCTCAATGTC 57.575 50.000 0.00 0.00 0.00 3.06
2062 2178 2.662866 CATGCCCAGGAATCTCAATGT 58.337 47.619 0.00 0.00 0.00 2.71
2063 2179 1.340248 GCATGCCCAGGAATCTCAATG 59.660 52.381 6.36 0.00 0.00 2.82
2064 2180 1.700955 GCATGCCCAGGAATCTCAAT 58.299 50.000 6.36 0.00 0.00 2.57
2065 2181 0.396139 GGCATGCCCAGGAATCTCAA 60.396 55.000 27.24 0.00 0.00 3.02
2066 2182 1.228228 GGCATGCCCAGGAATCTCA 59.772 57.895 27.24 0.00 0.00 3.27
2067 2183 4.170947 GGCATGCCCAGGAATCTC 57.829 61.111 27.24 0.00 0.00 2.75
2079 2195 3.067480 GATGGTGCAACGGGGCATG 62.067 63.158 6.54 0.00 46.92 4.06
2080 2196 1.920734 TAGATGGTGCAACGGGGCAT 61.921 55.000 6.54 0.00 46.92 4.40
2081 2197 1.920734 ATAGATGGTGCAACGGGGCA 61.921 55.000 0.00 0.00 42.53 5.36
2082 2198 1.152963 ATAGATGGTGCAACGGGGC 60.153 57.895 0.00 0.00 38.12 5.80
2083 2199 0.819259 CCATAGATGGTGCAACGGGG 60.819 60.000 0.00 0.00 43.05 5.73
2084 2200 2.706636 CCATAGATGGTGCAACGGG 58.293 57.895 0.00 0.00 43.05 5.28
2112 2228 6.655003 TCCCTATAGAAGTTCAAGCAAAAGTG 59.345 38.462 5.50 0.00 0.00 3.16
2113 2229 6.779860 TCCCTATAGAAGTTCAAGCAAAAGT 58.220 36.000 5.50 0.00 0.00 2.66
2114 2230 7.687941 TTCCCTATAGAAGTTCAAGCAAAAG 57.312 36.000 5.50 0.00 0.00 2.27
2115 2231 7.669722 ACATTCCCTATAGAAGTTCAAGCAAAA 59.330 33.333 5.50 0.00 0.00 2.44
2116 2232 7.175104 ACATTCCCTATAGAAGTTCAAGCAAA 58.825 34.615 5.50 0.00 0.00 3.68
2117 2233 6.721318 ACATTCCCTATAGAAGTTCAAGCAA 58.279 36.000 5.50 0.00 0.00 3.91
2118 2234 6.313519 ACATTCCCTATAGAAGTTCAAGCA 57.686 37.500 5.50 0.00 0.00 3.91
2119 2235 7.201741 GGAAACATTCCCTATAGAAGTTCAAGC 60.202 40.741 5.50 0.00 44.30 4.01
2120 2236 8.214721 GGAAACATTCCCTATAGAAGTTCAAG 57.785 38.462 5.50 0.00 44.30 3.02
2136 2252 4.142160 GGCCAACTCCATAAGGAAACATTC 60.142 45.833 0.00 0.00 45.19 2.67
2137 2253 3.769300 GGCCAACTCCATAAGGAAACATT 59.231 43.478 0.00 0.00 45.19 2.71
2138 2254 3.365472 GGCCAACTCCATAAGGAAACAT 58.635 45.455 0.00 0.00 45.19 2.71
2139 2255 2.802719 GGCCAACTCCATAAGGAAACA 58.197 47.619 0.00 0.00 45.19 2.83
2140 2256 1.743394 CGGCCAACTCCATAAGGAAAC 59.257 52.381 2.24 0.00 45.19 2.78
2141 2257 1.631388 TCGGCCAACTCCATAAGGAAA 59.369 47.619 2.24 0.00 45.19 3.13
2142 2258 1.281419 TCGGCCAACTCCATAAGGAA 58.719 50.000 2.24 0.00 45.19 3.36
2143 2259 1.140852 CATCGGCCAACTCCATAAGGA 59.859 52.381 2.24 0.00 43.21 3.36
2144 2260 1.140852 TCATCGGCCAACTCCATAAGG 59.859 52.381 2.24 0.00 0.00 2.69
2145 2261 2.620251 TCATCGGCCAACTCCATAAG 57.380 50.000 2.24 0.00 0.00 1.73
2146 2262 2.705658 AGATCATCGGCCAACTCCATAA 59.294 45.455 2.24 0.00 0.00 1.90
2147 2263 2.329267 AGATCATCGGCCAACTCCATA 58.671 47.619 2.24 0.00 0.00 2.74
2148 2264 1.135094 AGATCATCGGCCAACTCCAT 58.865 50.000 2.24 0.00 0.00 3.41
2149 2265 0.911769 AAGATCATCGGCCAACTCCA 59.088 50.000 2.24 0.00 0.00 3.86
2150 2266 1.134401 TGAAGATCATCGGCCAACTCC 60.134 52.381 2.24 0.00 0.00 3.85
2151 2267 2.315925 TGAAGATCATCGGCCAACTC 57.684 50.000 2.24 0.00 0.00 3.01
2152 2268 2.787473 TTGAAGATCATCGGCCAACT 57.213 45.000 2.24 0.00 0.00 3.16
2153 2269 5.009010 ACAATATTGAAGATCATCGGCCAAC 59.991 40.000 22.16 0.00 0.00 3.77
2154 2270 5.132502 ACAATATTGAAGATCATCGGCCAA 58.867 37.500 22.16 0.00 0.00 4.52
2155 2271 4.717877 ACAATATTGAAGATCATCGGCCA 58.282 39.130 22.16 0.00 0.00 5.36
2156 2272 5.009010 ACAACAATATTGAAGATCATCGGCC 59.991 40.000 22.16 0.00 0.00 6.13
2157 2273 6.017605 AGACAACAATATTGAAGATCATCGGC 60.018 38.462 22.16 1.87 0.00 5.54
2158 2274 7.488187 AGACAACAATATTGAAGATCATCGG 57.512 36.000 22.16 1.88 0.00 4.18
2159 2275 7.279342 CGAGACAACAATATTGAAGATCATCG 58.721 38.462 22.16 15.92 0.00 3.84
2160 2276 7.042187 AGCGAGACAACAATATTGAAGATCATC 60.042 37.037 22.16 9.35 0.00 2.92
2161 2277 6.765036 AGCGAGACAACAATATTGAAGATCAT 59.235 34.615 22.16 1.78 0.00 2.45
2162 2278 6.108687 AGCGAGACAACAATATTGAAGATCA 58.891 36.000 22.16 0.00 0.00 2.92
2163 2279 6.595772 AGCGAGACAACAATATTGAAGATC 57.404 37.500 22.16 12.56 0.00 2.75
2164 2280 6.992063 AAGCGAGACAACAATATTGAAGAT 57.008 33.333 22.16 4.41 0.00 2.40
2165 2281 6.650807 AGAAAGCGAGACAACAATATTGAAGA 59.349 34.615 22.16 0.00 0.00 2.87
2166 2282 6.835914 AGAAAGCGAGACAACAATATTGAAG 58.164 36.000 22.16 14.81 0.00 3.02
2167 2283 6.128282 GGAGAAAGCGAGACAACAATATTGAA 60.128 38.462 22.16 0.00 0.00 2.69
2168 2284 5.351465 GGAGAAAGCGAGACAACAATATTGA 59.649 40.000 22.16 0.00 0.00 2.57
2169 2285 5.563842 GGAGAAAGCGAGACAACAATATTG 58.436 41.667 14.01 14.01 0.00 1.90
2170 2286 4.330074 CGGAGAAAGCGAGACAACAATATT 59.670 41.667 0.00 0.00 0.00 1.28
2171 2287 3.865745 CGGAGAAAGCGAGACAACAATAT 59.134 43.478 0.00 0.00 0.00 1.28
2172 2288 3.057104 TCGGAGAAAGCGAGACAACAATA 60.057 43.478 0.00 0.00 0.00 1.90
2173 2289 2.069273 CGGAGAAAGCGAGACAACAAT 58.931 47.619 0.00 0.00 0.00 2.71
2174 2290 1.067974 TCGGAGAAAGCGAGACAACAA 59.932 47.619 0.00 0.00 0.00 2.83
2175 2291 0.671796 TCGGAGAAAGCGAGACAACA 59.328 50.000 0.00 0.00 0.00 3.33
2176 2292 1.061485 GTCGGAGAAAGCGAGACAAC 58.939 55.000 0.00 0.00 39.69 3.32
2177 2293 0.671796 TGTCGGAGAAAGCGAGACAA 59.328 50.000 0.00 0.00 39.69 3.18
2178 2294 0.671796 TTGTCGGAGAAAGCGAGACA 59.328 50.000 0.00 0.00 39.69 3.41
2179 2295 1.336056 ACTTGTCGGAGAAAGCGAGAC 60.336 52.381 0.00 0.00 39.69 3.36
2180 2296 0.959553 ACTTGTCGGAGAAAGCGAGA 59.040 50.000 0.00 0.00 39.69 4.04
2181 2297 1.457303 CAACTTGTCGGAGAAAGCGAG 59.543 52.381 0.00 0.00 39.69 5.03
2182 2298 1.202486 ACAACTTGTCGGAGAAAGCGA 60.202 47.619 0.00 0.00 39.69 4.93
2183 2299 1.217882 ACAACTTGTCGGAGAAAGCG 58.782 50.000 0.00 0.00 39.69 4.68
2184 2300 2.348591 CGAACAACTTGTCGGAGAAAGC 60.349 50.000 0.00 0.00 39.69 3.51
2185 2301 2.348591 GCGAACAACTTGTCGGAGAAAG 60.349 50.000 12.57 0.00 39.69 2.62
2186 2302 1.595794 GCGAACAACTTGTCGGAGAAA 59.404 47.619 12.57 0.00 39.69 2.52
2187 2303 1.214367 GCGAACAACTTGTCGGAGAA 58.786 50.000 12.57 0.00 39.69 2.87
2188 2304 0.599204 GGCGAACAACTTGTCGGAGA 60.599 55.000 12.57 0.00 0.00 3.71
2189 2305 0.600255 AGGCGAACAACTTGTCGGAG 60.600 55.000 12.57 0.99 0.00 4.63
2190 2306 0.179067 AAGGCGAACAACTTGTCGGA 60.179 50.000 12.57 0.00 0.00 4.55
2191 2307 0.234884 GAAGGCGAACAACTTGTCGG 59.765 55.000 12.57 3.11 0.00 4.79
2192 2308 1.217882 AGAAGGCGAACAACTTGTCG 58.782 50.000 0.00 2.67 0.00 4.35
2193 2309 2.354821 ACAAGAAGGCGAACAACTTGTC 59.645 45.455 0.00 0.00 44.75 3.18
2194 2310 2.365582 ACAAGAAGGCGAACAACTTGT 58.634 42.857 0.00 0.00 43.72 3.16
2195 2311 2.719798 CACAAGAAGGCGAACAACTTG 58.280 47.619 0.00 0.00 42.11 3.16
2196 2312 1.065551 GCACAAGAAGGCGAACAACTT 59.934 47.619 0.00 0.00 0.00 2.66
2197 2313 0.663153 GCACAAGAAGGCGAACAACT 59.337 50.000 0.00 0.00 0.00 3.16
2198 2314 0.380378 TGCACAAGAAGGCGAACAAC 59.620 50.000 0.00 0.00 0.00 3.32
2199 2315 0.662619 CTGCACAAGAAGGCGAACAA 59.337 50.000 0.00 0.00 0.00 2.83
2200 2316 1.785041 GCTGCACAAGAAGGCGAACA 61.785 55.000 0.00 0.00 0.00 3.18
2201 2317 1.081840 GCTGCACAAGAAGGCGAAC 60.082 57.895 0.00 0.00 0.00 3.95
2202 2318 2.260869 GGCTGCACAAGAAGGCGAA 61.261 57.895 0.50 0.00 36.07 4.70
2203 2319 2.669569 GGCTGCACAAGAAGGCGA 60.670 61.111 0.50 0.00 36.07 5.54
2205 2321 0.319405 AATTGGCTGCACAAGAAGGC 59.681 50.000 0.50 0.00 46.13 4.35
2206 2322 1.891150 AGAATTGGCTGCACAAGAAGG 59.109 47.619 0.50 0.00 33.23 3.46
2207 2323 2.555325 TGAGAATTGGCTGCACAAGAAG 59.445 45.455 0.50 0.00 33.23 2.85
2208 2324 2.585330 TGAGAATTGGCTGCACAAGAA 58.415 42.857 0.50 0.00 33.23 2.52
2209 2325 2.275134 TGAGAATTGGCTGCACAAGA 57.725 45.000 0.50 0.00 33.23 3.02
2210 2326 2.876091 CATGAGAATTGGCTGCACAAG 58.124 47.619 0.50 0.00 33.23 3.16
2211 2327 1.067425 GCATGAGAATTGGCTGCACAA 60.067 47.619 0.50 3.95 33.13 3.33
2212 2328 0.528924 GCATGAGAATTGGCTGCACA 59.471 50.000 0.50 0.00 33.13 4.57
2213 2329 0.528924 TGCATGAGAATTGGCTGCAC 59.471 50.000 0.50 0.00 37.88 4.57
2214 2330 0.528924 GTGCATGAGAATTGGCTGCA 59.471 50.000 0.50 0.00 40.29 4.41
2215 2331 0.524816 CGTGCATGAGAATTGGCTGC 60.525 55.000 0.00 0.00 0.00 5.25
2216 2332 1.089112 TCGTGCATGAGAATTGGCTG 58.911 50.000 3.97 0.00 0.00 4.85
2217 2333 1.825090 TTCGTGCATGAGAATTGGCT 58.175 45.000 8.93 0.00 0.00 4.75
2218 2334 2.634982 TTTCGTGCATGAGAATTGGC 57.365 45.000 8.93 0.00 0.00 4.52
2236 2352 1.997791 AGACCCCCGGGATAACTTTTT 59.002 47.619 26.32 0.00 38.96 1.94
2237 2353 1.677490 AGACCCCCGGGATAACTTTT 58.323 50.000 26.32 0.00 38.96 2.27
2238 2354 1.283905 CAAGACCCCCGGGATAACTTT 59.716 52.381 26.32 5.53 38.96 2.66
2239 2355 0.916809 CAAGACCCCCGGGATAACTT 59.083 55.000 26.32 18.10 38.96 2.66
2240 2356 0.043637 TCAAGACCCCCGGGATAACT 59.956 55.000 26.32 12.84 38.96 2.24
2241 2357 1.137697 ATCAAGACCCCCGGGATAAC 58.862 55.000 26.32 10.52 38.96 1.89
2242 2358 1.901648 AATCAAGACCCCCGGGATAA 58.098 50.000 26.32 0.00 38.96 1.75
2243 2359 1.901648 AAATCAAGACCCCCGGGATA 58.098 50.000 26.32 0.00 38.96 2.59
2244 2360 1.007607 AAAATCAAGACCCCCGGGAT 58.992 50.000 26.32 10.14 38.96 3.85
2245 2361 0.330267 GAAAATCAAGACCCCCGGGA 59.670 55.000 26.32 0.00 38.96 5.14
2246 2362 0.331616 AGAAAATCAAGACCCCCGGG 59.668 55.000 15.80 15.80 42.03 5.73
2247 2363 1.751437 GAGAAAATCAAGACCCCCGG 58.249 55.000 0.00 0.00 0.00 5.73
2248 2364 1.066430 TCGAGAAAATCAAGACCCCCG 60.066 52.381 0.00 0.00 0.00 5.73
2249 2365 2.357075 GTCGAGAAAATCAAGACCCCC 58.643 52.381 0.00 0.00 0.00 5.40
2250 2366 2.000447 CGTCGAGAAAATCAAGACCCC 59.000 52.381 0.00 0.00 0.00 4.95
2251 2367 2.000447 CCGTCGAGAAAATCAAGACCC 59.000 52.381 0.00 0.00 0.00 4.46
2252 2368 2.000447 CCCGTCGAGAAAATCAAGACC 59.000 52.381 0.00 0.00 0.00 3.85
2253 2369 2.000447 CCCCGTCGAGAAAATCAAGAC 59.000 52.381 0.00 0.00 0.00 3.01
2254 2370 1.897133 TCCCCGTCGAGAAAATCAAGA 59.103 47.619 0.00 0.00 0.00 3.02
2255 2371 2.000447 GTCCCCGTCGAGAAAATCAAG 59.000 52.381 0.00 0.00 0.00 3.02
2256 2372 1.345089 TGTCCCCGTCGAGAAAATCAA 59.655 47.619 0.00 0.00 0.00 2.57
2257 2373 0.970640 TGTCCCCGTCGAGAAAATCA 59.029 50.000 0.00 0.00 0.00 2.57
2258 2374 2.311124 ATGTCCCCGTCGAGAAAATC 57.689 50.000 0.00 0.00 0.00 2.17
2259 2375 2.236395 AGAATGTCCCCGTCGAGAAAAT 59.764 45.455 0.00 0.00 0.00 1.82
2260 2376 1.621814 AGAATGTCCCCGTCGAGAAAA 59.378 47.619 0.00 0.00 0.00 2.29
2261 2377 1.263356 AGAATGTCCCCGTCGAGAAA 58.737 50.000 0.00 0.00 0.00 2.52
2262 2378 2.022195 CTAGAATGTCCCCGTCGAGAA 58.978 52.381 0.00 0.00 0.00 2.87
2263 2379 1.211212 TCTAGAATGTCCCCGTCGAGA 59.789 52.381 0.00 0.00 0.00 4.04
2264 2380 1.604755 CTCTAGAATGTCCCCGTCGAG 59.395 57.143 0.00 0.00 0.00 4.04
2265 2381 1.211212 TCTCTAGAATGTCCCCGTCGA 59.789 52.381 0.00 0.00 0.00 4.20
2266 2382 1.604755 CTCTCTAGAATGTCCCCGTCG 59.395 57.143 0.00 0.00 0.00 5.12
2267 2383 1.957877 CCTCTCTAGAATGTCCCCGTC 59.042 57.143 0.00 0.00 0.00 4.79
2268 2384 1.569548 TCCTCTCTAGAATGTCCCCGT 59.430 52.381 0.00 0.00 0.00 5.28
2269 2385 2.366640 TCCTCTCTAGAATGTCCCCG 57.633 55.000 0.00 0.00 0.00 5.73
2270 2386 6.353404 CTTATTCCTCTCTAGAATGTCCCC 57.647 45.833 0.00 0.00 35.59 4.81


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

AutoCloner maintained by Alex Coulton.