Multiple sequence alignment - TraesCS6D01G106000

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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 TraesCS6D01G106000 chr6D 100.000 2147 0 0 1 2147 69220050 69217904 0.000000e+00 3965
1 TraesCS6D01G106000 chr6D 87.427 342 31 8 895 1232 69197927 69197594 1.200000e-102 383
2 TraesCS6D01G106000 chr6D 83.069 378 48 7 1360 1728 69197574 69197204 1.590000e-86 329
3 TraesCS6D01G106000 chr6A 88.962 1223 69 28 34 1232 87302747 87301567 0.000000e+00 1450
4 TraesCS6D01G106000 chr6A 87.037 324 27 7 893 1211 87298702 87298389 3.390000e-93 351
5 TraesCS6D01G106000 chr6A 85.976 328 24 11 1608 1925 87301284 87300969 4.420000e-87 331
6 TraesCS6D01G106000 chr6A 84.000 350 41 6 885 1231 360194680 360195017 2.660000e-84 322
7 TraesCS6D01G106000 chr6A 80.307 391 56 12 1359 1735 87298365 87297982 2.100000e-70 276
8 TraesCS6D01G106000 chr6B 86.010 579 57 8 1360 1925 144276221 144275654 1.100000e-167 599
9 TraesCS6D01G106000 chr6B 84.700 634 42 15 8 623 144277595 144276999 1.100000e-162 582
10 TraesCS6D01G106000 chr6B 86.533 349 15 14 888 1232 144276605 144276285 2.620000e-94 355
11 TraesCS6D01G106000 chr2D 86.610 351 32 9 885 1232 407453574 407453912 7.240000e-100 374
12 TraesCS6D01G106000 chr2D 90.385 104 8 2 1255 1357 83963607 83963505 3.720000e-28 135
13 TraesCS6D01G106000 chr7D 86.416 346 32 5 888 1232 475101041 475100710 4.350000e-97 364
14 TraesCS6D01G106000 chr7D 93.491 169 10 1 1980 2147 533432116 533431948 1.270000e-62 250
15 TraesCS6D01G106000 chr7D 89.423 104 10 1 1255 1357 407261202 407261305 1.730000e-26 130
16 TraesCS6D01G106000 chr3A 85.465 344 33 8 893 1232 152000812 152000482 2.040000e-90 342
17 TraesCS6D01G106000 chr3A 93.678 174 10 1 1975 2147 164813 164640 2.110000e-65 259
18 TraesCS6D01G106000 chr4D 87.050 278 33 3 888 1162 328704064 328703787 5.750000e-81 311
19 TraesCS6D01G106000 chr4D 94.220 173 8 2 1973 2144 483167733 483167904 1.630000e-66 263
20 TraesCS6D01G106000 chr4D 94.578 166 8 1 1980 2144 55273301 55273136 2.730000e-64 255
21 TraesCS6D01G106000 chr4B 93.567 171 7 4 1976 2144 518086832 518086664 3.540000e-63 252
22 TraesCS6D01G106000 chr2A 92.614 176 12 1 1973 2147 764779168 764778993 3.540000e-63 252
23 TraesCS6D01G106000 chr2B 92.135 178 11 3 1972 2147 728231715 728231539 4.580000e-62 248
24 TraesCS6D01G106000 chr5B 92.941 170 10 2 1977 2144 537788228 537788397 1.650000e-61 246
25 TraesCS6D01G106000 chr7A 92.486 173 9 4 1973 2144 2798014 2798183 5.920000e-61 244
26 TraesCS6D01G106000 chr7A 92.784 97 7 0 1258 1354 457749325 457749421 7.990000e-30 141
27 TraesCS6D01G106000 chr1D 90.654 107 10 0 1258 1364 74280185 74280079 2.220000e-30 143
28 TraesCS6D01G106000 chr1D 88.034 117 11 3 1242 1357 422309130 422309016 3.720000e-28 135
29 TraesCS6D01G106000 chr3D 90.566 106 9 1 1253 1358 603946157 603946261 2.870000e-29 139
30 TraesCS6D01G106000 chr1B 90.566 106 9 1 1253 1357 301472177 301472072 2.870000e-29 139
31 TraesCS6D01G106000 chr5D 90.385 104 10 0 1257 1360 537167435 537167332 1.030000e-28 137
32 TraesCS6D01G106000 chr5D 85.950 121 15 2 1254 1374 429243173 429243291 6.220000e-26 128


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 TraesCS6D01G106000 chr6D 69217904 69220050 2146 True 3965 3965 100.000000 1 2147 1 chr6D.!!$R1 2146
1 TraesCS6D01G106000 chr6D 69197204 69197927 723 True 356 383 85.248000 895 1728 2 chr6D.!!$R2 833
2 TraesCS6D01G106000 chr6A 87297982 87302747 4765 True 602 1450 85.570500 34 1925 4 chr6A.!!$R1 1891
3 TraesCS6D01G106000 chr6B 144275654 144277595 1941 True 512 599 85.747667 8 1925 3 chr6B.!!$R1 1917

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
914 1108 0.036875 AAGCTGCAGGGTAGGTGTTC 59.963 55.0 17.12 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1956 2225 0.234884 GACGGTGCGTTTTTCTCTGG 59.765 55.0 0.0 0.0 41.37 3.86 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
23 24 2.930887 ATACGGCATACGGATCATGCAC 60.931 50.000 15.92 6.80 44.68 4.57
26 27 0.588252 GCATACGGATCATGCACCAC 59.412 55.000 10.72 0.00 46.47 4.16
66 67 0.729690 CGAGAGATCTCACAGCGACA 59.270 55.000 24.39 0.00 43.00 4.35
69 70 1.202394 AGAGATCTCACAGCGACATGC 60.202 52.381 24.39 0.00 46.98 4.06
100 105 1.449601 GAGGCGCCTCCGATGAAAA 60.450 57.895 40.99 0.00 40.77 2.29
118 123 1.350193 AACTCGCTAGAACATGCACG 58.650 50.000 0.00 0.00 0.00 5.34
228 234 1.514657 CACGCAACGCAATCATGGG 60.515 57.895 0.00 0.00 44.57 4.00
251 273 2.278332 GGAATGAATCCCCTAGTGGC 57.722 55.000 0.00 0.00 43.00 5.01
252 274 1.777272 GGAATGAATCCCCTAGTGGCT 59.223 52.381 0.00 0.00 43.00 4.75
266 288 0.543749 GTGGCTCCTGCTAATCACCT 59.456 55.000 0.00 0.00 39.59 4.00
313 340 1.969923 CCTCCTGCCTCTCTAATCTGG 59.030 57.143 0.00 0.00 0.00 3.86
314 341 1.344114 CTCCTGCCTCTCTAATCTGGC 59.656 57.143 0.00 0.00 45.10 4.85
320 347 3.988819 GCCTCTCTAATCTGGCAAGTAG 58.011 50.000 0.00 0.00 44.34 2.57
346 378 4.006989 TCCAATCCAAGTAACCATCAACG 58.993 43.478 0.00 0.00 0.00 4.10
479 517 2.428890 AGAAGAAGACATCCGCCTAGTG 59.571 50.000 0.00 0.00 0.00 2.74
491 529 3.976339 CCTAGTGGCCTCTTGATCG 57.024 57.895 13.50 0.00 0.00 3.69
507 545 2.202932 CGAGGAAGCGATGGTGGG 60.203 66.667 0.00 0.00 0.00 4.61
558 612 3.788766 GCTGTGCGTGCTTACCCG 61.789 66.667 0.00 0.00 0.00 5.28
679 787 0.385390 AAAAGCGAAGGCCAACACAG 59.615 50.000 5.01 0.00 41.24 3.66
719 870 2.151202 TGTTCAAGATTCCTCCGTTGC 58.849 47.619 0.00 0.00 0.00 4.17
806 962 6.414890 GCAATTGCTTACTCGTAATCTCTTC 58.585 40.000 23.21 0.00 38.21 2.87
807 963 6.036083 GCAATTGCTTACTCGTAATCTCTTCA 59.964 38.462 23.21 0.00 38.21 3.02
833 989 3.122937 GATGAAATCGAAGCAAACGCT 57.877 42.857 0.00 0.00 35.52 5.07
836 992 2.157668 TGAAATCGAAGCAAACGCTCTC 59.842 45.455 0.00 0.00 39.40 3.20
843 999 2.863153 CAAACGCTCTCGGCAAGG 59.137 61.111 0.00 0.00 41.91 3.61
844 1000 1.961277 CAAACGCTCTCGGCAAGGT 60.961 57.895 0.00 0.00 41.91 3.50
914 1108 0.036875 AAGCTGCAGGGTAGGTGTTC 59.963 55.000 17.12 0.00 0.00 3.18
1006 1206 1.379044 AGCAAGGAAAGGATGGGCG 60.379 57.895 0.00 0.00 0.00 6.13
1222 1425 0.322975 TCTGCTCTCAACCTTCTGCC 59.677 55.000 0.00 0.00 0.00 4.85
1225 1428 0.392327 GCTCTCAACCTTCTGCCCTC 60.392 60.000 0.00 0.00 0.00 4.30
1233 1436 0.322906 CCTTCTGCCCTCAGTTTCCC 60.323 60.000 0.00 0.00 41.10 3.97
1234 1437 0.322906 CTTCTGCCCTCAGTTTCCCC 60.323 60.000 0.00 0.00 41.10 4.81
1235 1438 0.772124 TTCTGCCCTCAGTTTCCCCT 60.772 55.000 0.00 0.00 41.10 4.79
1241 1473 1.918957 CCCTCAGTTTCCCCTCAGAAT 59.081 52.381 0.00 0.00 0.00 2.40
1245 1477 4.226168 CCTCAGTTTCCCCTCAGAATACTT 59.774 45.833 0.00 0.00 0.00 2.24
1250 1482 5.077564 GTTTCCCCTCAGAATACTTTGGTT 58.922 41.667 0.00 0.00 0.00 3.67
1259 1491 9.057089 CCTCAGAATACTTTGGTTCCATATTAC 57.943 37.037 0.00 0.00 0.00 1.89
1260 1492 9.838339 CTCAGAATACTTTGGTTCCATATTACT 57.162 33.333 0.00 0.00 0.00 2.24
1261 1493 9.832445 TCAGAATACTTTGGTTCCATATTACTC 57.168 33.333 0.00 0.00 0.00 2.59
1265 1497 6.002653 ACTTTGGTTCCATATTACTCCCTC 57.997 41.667 0.00 0.00 0.00 4.30
1266 1498 5.104067 ACTTTGGTTCCATATTACTCCCTCC 60.104 44.000 0.00 0.00 0.00 4.30
1267 1499 2.969950 TGGTTCCATATTACTCCCTCCG 59.030 50.000 0.00 0.00 0.00 4.63
1268 1500 2.970640 GGTTCCATATTACTCCCTCCGT 59.029 50.000 0.00 0.00 0.00 4.69
1269 1501 3.390311 GGTTCCATATTACTCCCTCCGTT 59.610 47.826 0.00 0.00 0.00 4.44
1270 1502 4.590222 GGTTCCATATTACTCCCTCCGTTA 59.410 45.833 0.00 0.00 0.00 3.18
1271 1503 5.247792 GGTTCCATATTACTCCCTCCGTTAT 59.752 44.000 0.00 0.00 0.00 1.89
1272 1504 6.438425 GGTTCCATATTACTCCCTCCGTTATA 59.562 42.308 0.00 0.00 0.00 0.98
1273 1505 7.038799 GGTTCCATATTACTCCCTCCGTTATAA 60.039 40.741 0.00 0.00 0.00 0.98
1274 1506 8.370182 GTTCCATATTACTCCCTCCGTTATAAA 58.630 37.037 0.00 0.00 0.00 1.40
1275 1507 8.495160 TCCATATTACTCCCTCCGTTATAAAA 57.505 34.615 0.00 0.00 0.00 1.52
1276 1508 9.108111 TCCATATTACTCCCTCCGTTATAAAAT 57.892 33.333 0.00 0.00 0.00 1.82
1282 1514 7.005709 ACTCCCTCCGTTATAAAATAGATGG 57.994 40.000 0.00 0.00 0.00 3.51
1283 1515 5.801380 TCCCTCCGTTATAAAATAGATGGC 58.199 41.667 0.00 0.00 0.00 4.40
1284 1516 4.941873 CCCTCCGTTATAAAATAGATGGCC 59.058 45.833 0.00 0.00 0.00 5.36
1285 1517 5.280521 CCCTCCGTTATAAAATAGATGGCCT 60.281 44.000 3.32 0.00 0.00 5.19
1286 1518 6.070424 CCCTCCGTTATAAAATAGATGGCCTA 60.070 42.308 3.32 0.00 0.00 3.93
1287 1519 7.391620 CCTCCGTTATAAAATAGATGGCCTAA 58.608 38.462 3.32 0.00 0.00 2.69
1288 1520 7.333672 CCTCCGTTATAAAATAGATGGCCTAAC 59.666 40.741 3.32 0.00 0.00 2.34
1289 1521 7.970102 TCCGTTATAAAATAGATGGCCTAACT 58.030 34.615 3.32 3.07 0.00 2.24
1290 1522 8.434392 TCCGTTATAAAATAGATGGCCTAACTT 58.566 33.333 3.32 0.00 0.00 2.66
1291 1523 9.063615 CCGTTATAAAATAGATGGCCTAACTTT 57.936 33.333 3.32 0.00 0.00 2.66
1327 1559 7.448748 AGTGCAAAGTTAGTATAAAACTGGG 57.551 36.000 0.00 1.32 39.39 4.45
1328 1560 7.002276 AGTGCAAAGTTAGTATAAAACTGGGT 58.998 34.615 0.00 0.00 39.39 4.51
1329 1561 7.174426 AGTGCAAAGTTAGTATAAAACTGGGTC 59.826 37.037 0.00 0.00 39.39 4.46
1330 1562 6.999272 TGCAAAGTTAGTATAAAACTGGGTCA 59.001 34.615 3.21 0.00 39.39 4.02
1331 1563 7.668052 TGCAAAGTTAGTATAAAACTGGGTCAT 59.332 33.333 3.21 0.00 39.39 3.06
1332 1564 8.182227 GCAAAGTTAGTATAAAACTGGGTCATC 58.818 37.037 3.21 0.00 39.39 2.92
1333 1565 9.449719 CAAAGTTAGTATAAAACTGGGTCATCT 57.550 33.333 3.21 0.00 39.39 2.90
1340 1572 9.408648 AGTATAAAACTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 36.93 3.28
1341 1573 9.403583 GTATAAAACTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
1342 1574 8.893563 ATAAAACTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
1343 1575 6.590234 AAACTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
1344 1576 4.261801 ACTGGGTCATCTATTTTGGAACG 58.738 43.478 0.00 0.00 0.00 3.95
1345 1577 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
1346 1578 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
1347 1579 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
1348 1580 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
1349 1581 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1350 1582 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
1351 1583 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
1352 1584 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
1355 1587 6.138263 TCTATTTTGGAACGGAGGGAGTATA 58.862 40.000 0.00 0.00 0.00 1.47
1421 1654 4.154918 CACCTTTGTTGATTAGCAGTCTCC 59.845 45.833 0.00 0.00 0.00 3.71
1443 1676 4.202264 CCGCTCTGTATCCTGAAATAACCT 60.202 45.833 0.00 0.00 0.00 3.50
1516 1776 8.135382 AGTACCTAACAAGAAGCTAATGAGAA 57.865 34.615 0.00 0.00 0.00 2.87
1527 1787 9.654663 AAGAAGCTAATGAGAAACTTTATACGT 57.345 29.630 0.00 0.00 0.00 3.57
1550 1810 9.095065 ACGTAGTAATTTTACATGGATGAGTTC 57.905 33.333 0.00 0.00 41.94 3.01
1551 1811 9.093970 CGTAGTAATTTTACATGGATGAGTTCA 57.906 33.333 0.00 0.00 36.12 3.18
1560 1820 5.819991 ACATGGATGAGTTCAGGTGTATTT 58.180 37.500 0.00 0.00 0.00 1.40
1565 1825 4.927267 TGAGTTCAGGTGTATTTGGGAT 57.073 40.909 0.00 0.00 0.00 3.85
1593 1853 8.784043 ACTCATACATTTTCCAAAGTCACTTAC 58.216 33.333 0.00 0.00 0.00 2.34
1630 1890 0.868406 CAGACGTGCCCTTGTTTCTC 59.132 55.000 0.00 0.00 0.00 2.87
1645 1905 5.181690 TGTTTCTCCGGTTCAATCTTTTG 57.818 39.130 0.00 0.00 0.00 2.44
1751 2011 9.032420 GTAACAGTTACTTTCATGGCTATAGAC 57.968 37.037 15.22 0.00 33.37 2.59
1752 2012 7.182817 ACAGTTACTTTCATGGCTATAGACA 57.817 36.000 11.61 11.61 37.54 3.41
1753 2013 7.620880 ACAGTTACTTTCATGGCTATAGACAA 58.379 34.615 13.50 0.00 36.16 3.18
1754 2014 8.267894 ACAGTTACTTTCATGGCTATAGACAAT 58.732 33.333 13.50 0.00 36.16 2.71
1755 2015 9.764363 CAGTTACTTTCATGGCTATAGACAATA 57.236 33.333 13.50 0.19 36.16 1.90
1816 2076 9.549078 TTTATTGTTTCCATTTTAAAGGGTGTC 57.451 29.630 8.27 1.44 0.00 3.67
1817 2077 6.546428 TTGTTTCCATTTTAAAGGGTGTCA 57.454 33.333 8.27 3.77 0.00 3.58
1818 2078 5.908341 TGTTTCCATTTTAAAGGGTGTCAC 58.092 37.500 8.27 0.00 0.00 3.67
1819 2079 5.163395 TGTTTCCATTTTAAAGGGTGTCACC 60.163 40.000 14.13 14.13 37.60 4.02
1820 2080 3.150767 TCCATTTTAAAGGGTGTCACCG 58.849 45.455 15.93 0.00 39.83 4.94
1821 2081 2.888414 CCATTTTAAAGGGTGTCACCGT 59.112 45.455 15.93 13.74 39.83 4.83
1822 2082 3.305064 CCATTTTAAAGGGTGTCACCGTG 60.305 47.826 17.70 3.78 39.83 4.94
1823 2083 2.713863 TTTAAAGGGTGTCACCGTGT 57.286 45.000 17.70 14.76 39.83 4.49
1844 2104 5.292101 GTGTCATTCTGTAGGTCTGTAATGC 59.708 44.000 0.00 0.00 0.00 3.56
1862 2122 6.812656 TGTAATGCACTAAAATTGAATGGCAG 59.187 34.615 0.00 0.00 33.09 4.85
1878 2138 1.446792 CAGTGCCGTACTCAGCCTG 60.447 63.158 0.00 0.00 37.60 4.85
1879 2139 1.606601 AGTGCCGTACTCAGCCTGA 60.607 57.895 0.00 0.00 33.17 3.86
1914 2183 4.276058 ACATTCCCTTTGATGCTTTTGG 57.724 40.909 0.00 0.00 0.00 3.28
1925 2194 4.410099 TGATGCTTTTGGAATCTTCACCT 58.590 39.130 0.00 0.00 31.22 4.00
1926 2195 4.219070 TGATGCTTTTGGAATCTTCACCTG 59.781 41.667 0.00 0.00 31.22 4.00
1927 2196 3.831323 TGCTTTTGGAATCTTCACCTGA 58.169 40.909 0.00 0.00 0.00 3.86
1929 2198 4.219070 TGCTTTTGGAATCTTCACCTGATG 59.781 41.667 0.00 0.00 0.00 3.07
1932 2201 5.503634 TTTGGAATCTTCACCTGATGAGA 57.496 39.130 0.00 0.00 38.99 3.27
1933 2202 5.705397 TTGGAATCTTCACCTGATGAGAT 57.295 39.130 0.00 0.00 38.99 2.75
1934 2203 5.287674 TGGAATCTTCACCTGATGAGATC 57.712 43.478 0.00 0.00 38.99 2.75
1936 2205 4.347583 GGAATCTTCACCTGATGAGATCCT 59.652 45.833 13.39 0.00 38.99 3.24
1937 2206 4.959560 ATCTTCACCTGATGAGATCCTG 57.040 45.455 0.00 0.00 38.99 3.86
1938 2207 3.986435 TCTTCACCTGATGAGATCCTGA 58.014 45.455 0.00 0.00 38.99 3.86
1942 2211 2.169978 CACCTGATGAGATCCTGAAGCA 59.830 50.000 0.00 0.00 0.00 3.91
1944 2213 2.699321 CCTGATGAGATCCTGAAGCAGA 59.301 50.000 0.00 0.00 32.44 4.26
1946 2215 4.373527 CTGATGAGATCCTGAAGCAGAAG 58.626 47.826 0.00 0.00 32.44 2.85
1947 2216 4.028825 TGATGAGATCCTGAAGCAGAAGA 58.971 43.478 0.00 0.00 32.44 2.87
1948 2217 4.099727 TGATGAGATCCTGAAGCAGAAGAG 59.900 45.833 0.00 0.00 32.44 2.85
1949 2218 3.706183 TGAGATCCTGAAGCAGAAGAGA 58.294 45.455 0.00 0.00 32.44 3.10
1950 2219 3.700539 TGAGATCCTGAAGCAGAAGAGAG 59.299 47.826 0.00 0.00 32.44 3.20
1951 2220 3.033184 AGATCCTGAAGCAGAAGAGAGG 58.967 50.000 0.00 0.00 32.44 3.69
1952 2221 0.901124 TCCTGAAGCAGAAGAGAGGC 59.099 55.000 0.00 0.00 32.44 4.70
1953 2222 0.903942 CCTGAAGCAGAAGAGAGGCT 59.096 55.000 0.00 0.00 40.14 4.58
1954 2223 2.106566 CCTGAAGCAGAAGAGAGGCTA 58.893 52.381 0.00 0.00 36.76 3.93
1955 2224 2.499289 CCTGAAGCAGAAGAGAGGCTAA 59.501 50.000 0.00 0.00 36.76 3.09
1956 2225 3.520569 CTGAAGCAGAAGAGAGGCTAAC 58.479 50.000 0.00 0.00 36.76 2.34
1958 2227 1.944177 AGCAGAAGAGAGGCTAACCA 58.056 50.000 0.00 0.00 39.06 3.67
1959 2228 1.830477 AGCAGAAGAGAGGCTAACCAG 59.170 52.381 0.00 0.00 39.06 4.00
1962 4101 3.360867 CAGAAGAGAGGCTAACCAGAGA 58.639 50.000 0.00 0.00 39.06 3.10
1964 4103 4.221703 CAGAAGAGAGGCTAACCAGAGAAA 59.778 45.833 0.00 0.00 39.06 2.52
1967 4106 4.900684 AGAGAGGCTAACCAGAGAAAAAC 58.099 43.478 0.00 0.00 39.06 2.43
1970 4109 1.877443 GGCTAACCAGAGAAAAACGCA 59.123 47.619 0.00 0.00 35.26 5.24
1974 4113 0.463116 ACCAGAGAAAAACGCACCGT 60.463 50.000 0.00 0.00 43.97 4.83
1976 4115 0.234884 CAGAGAAAAACGCACCGTCC 59.765 55.000 0.00 0.00 39.99 4.79
1977 4116 0.883370 AGAGAAAAACGCACCGTCCC 60.883 55.000 0.00 0.00 39.99 4.46
1978 4117 0.883370 GAGAAAAACGCACCGTCCCT 60.883 55.000 0.00 0.00 39.99 4.20
1979 4118 0.393820 AGAAAAACGCACCGTCCCTA 59.606 50.000 0.00 0.00 39.99 3.53
1982 4121 2.736579 AAAACGCACCGTCCCTACCC 62.737 60.000 0.00 0.00 39.99 3.69
2047 4186 4.548513 CCCTAGGCCTCCGCTCCT 62.549 72.222 9.68 0.00 36.51 3.69
2048 4187 2.915137 CCTAGGCCTCCGCTCCTC 60.915 72.222 9.68 0.00 34.02 3.71
2049 4188 2.197324 CTAGGCCTCCGCTCCTCT 59.803 66.667 9.68 0.00 34.02 3.69
2050 4189 1.901464 CTAGGCCTCCGCTCCTCTC 60.901 68.421 9.68 0.00 34.02 3.20
2051 4190 2.351924 CTAGGCCTCCGCTCCTCTCT 62.352 65.000 9.68 0.00 34.02 3.10
2052 4191 2.346284 TAGGCCTCCGCTCCTCTCTC 62.346 65.000 9.68 0.00 34.02 3.20
2055 4269 2.600731 CTCCGCTCCTCTCTCCCT 59.399 66.667 0.00 0.00 0.00 4.20
2058 4272 2.600731 CGCTCCTCTCTCCCTCCT 59.399 66.667 0.00 0.00 0.00 3.69
2059 4273 1.528309 CGCTCCTCTCTCCCTCCTC 60.528 68.421 0.00 0.00 0.00 3.71
2060 4274 1.152546 GCTCCTCTCTCCCTCCTCC 60.153 68.421 0.00 0.00 0.00 4.30
2103 4574 3.357079 GTTGCCTGGCCAGTGACG 61.357 66.667 30.63 16.64 0.00 4.35
2104 4575 4.641645 TTGCCTGGCCAGTGACGG 62.642 66.667 30.63 17.57 0.00 4.79
2145 4616 3.195698 GCGGTGGTGGCGATCTTC 61.196 66.667 0.00 0.00 0.00 2.87
2146 4617 2.579201 CGGTGGTGGCGATCTTCT 59.421 61.111 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.660607 CATGATCCGTATGCCGTATGC 59.339 52.381 0.00 0.00 41.77 3.14
1 2 1.660607 GCATGATCCGTATGCCGTATG 59.339 52.381 0.00 0.00 43.88 2.39
2 3 2.010145 GCATGATCCGTATGCCGTAT 57.990 50.000 0.00 0.00 43.88 3.06
3 4 3.507597 GCATGATCCGTATGCCGTA 57.492 52.632 0.00 0.00 43.88 4.02
4 5 4.361253 GCATGATCCGTATGCCGT 57.639 55.556 0.00 0.00 43.88 5.68
23 24 3.127376 TCAAGATTTGATGACATGCGTGG 59.873 43.478 11.36 0.00 34.08 4.94
26 27 3.688272 GGTCAAGATTTGATGACATGCG 58.312 45.455 8.04 0.00 46.07 4.73
66 67 1.532868 GCCTCGCTTGATTTATCGCAT 59.467 47.619 0.00 0.00 0.00 4.73
90 95 3.057104 TGTTCTAGCGAGTTTTCATCGGA 60.057 43.478 0.00 0.00 40.50 4.55
91 96 3.250744 TGTTCTAGCGAGTTTTCATCGG 58.749 45.455 0.00 0.00 40.50 4.18
92 97 4.780324 GCATGTTCTAGCGAGTTTTCATCG 60.780 45.833 0.00 0.00 43.00 3.84
100 105 1.078759 GCGTGCATGTTCTAGCGAGT 61.079 55.000 7.93 0.00 0.00 4.18
136 141 3.701604 ATCGAGTCAGCGGCGGAAC 62.702 63.158 9.78 1.73 0.00 3.62
137 142 2.501223 AAATCGAGTCAGCGGCGGAA 62.501 55.000 9.78 0.00 0.00 4.30
193 199 2.435059 GCAAGCAGAGGGGACGTC 60.435 66.667 7.13 7.13 44.49 4.34
196 202 2.743928 CGTGCAAGCAGAGGGGAC 60.744 66.667 0.00 0.00 0.00 4.46
237 259 0.761802 CAGGAGCCACTAGGGGATTC 59.238 60.000 17.67 7.59 37.04 2.52
238 260 1.348775 GCAGGAGCCACTAGGGGATT 61.349 60.000 17.67 0.57 37.04 3.01
239 261 1.768077 GCAGGAGCCACTAGGGGAT 60.768 63.158 17.67 9.11 37.04 3.85
240 262 1.590339 TAGCAGGAGCCACTAGGGGA 61.590 60.000 17.67 0.00 43.56 4.81
241 263 0.691078 TTAGCAGGAGCCACTAGGGG 60.691 60.000 6.68 6.68 43.56 4.79
242 264 1.346068 GATTAGCAGGAGCCACTAGGG 59.654 57.143 0.00 0.00 43.56 3.53
243 265 2.042464 TGATTAGCAGGAGCCACTAGG 58.958 52.381 0.00 0.00 43.56 3.02
244 266 2.224161 GGTGATTAGCAGGAGCCACTAG 60.224 54.545 0.00 0.00 43.56 2.57
245 267 1.762957 GGTGATTAGCAGGAGCCACTA 59.237 52.381 0.00 0.00 43.56 2.74
246 268 0.543749 GGTGATTAGCAGGAGCCACT 59.456 55.000 0.00 0.00 43.56 4.00
247 269 0.543749 AGGTGATTAGCAGGAGCCAC 59.456 55.000 0.00 0.00 43.56 5.01
248 270 1.065199 CAAGGTGATTAGCAGGAGCCA 60.065 52.381 0.00 0.00 43.56 4.75
249 271 1.065126 ACAAGGTGATTAGCAGGAGCC 60.065 52.381 0.00 0.00 43.56 4.70
250 272 2.012673 CACAAGGTGATTAGCAGGAGC 58.987 52.381 0.00 0.00 36.99 4.70
251 273 3.265791 GTCACAAGGTGATTAGCAGGAG 58.734 50.000 2.02 0.00 44.63 3.69
252 274 2.353704 CGTCACAAGGTGATTAGCAGGA 60.354 50.000 2.02 0.00 44.63 3.86
266 288 1.315981 TTTGGGCAAGTGCGTCACAA 61.316 50.000 11.58 0.00 43.26 3.33
313 340 7.201705 GGTTACTTGGATTGGATTACTACTTGC 60.202 40.741 0.00 0.00 0.00 4.01
314 341 7.827236 TGGTTACTTGGATTGGATTACTACTTG 59.173 37.037 0.00 0.00 0.00 3.16
315 342 7.924541 TGGTTACTTGGATTGGATTACTACTT 58.075 34.615 0.00 0.00 0.00 2.24
316 343 7.504926 TGGTTACTTGGATTGGATTACTACT 57.495 36.000 0.00 0.00 0.00 2.57
320 347 7.480810 GTTGATGGTTACTTGGATTGGATTAC 58.519 38.462 0.00 0.00 0.00 1.89
427 465 0.546598 ACCTCCCGTTCCATTCCATC 59.453 55.000 0.00 0.00 0.00 3.51
491 529 1.450312 CACCCACCATCGCTTCCTC 60.450 63.158 0.00 0.00 0.00 3.71
497 535 2.114670 CACATCCACCCACCATCGC 61.115 63.158 0.00 0.00 0.00 4.58
507 545 1.626356 TAGGGCAGCTCCACATCCAC 61.626 60.000 0.00 0.00 36.21 4.02
558 612 8.947115 ACACAACAACCTAGAATTAGAATTAGC 58.053 33.333 0.00 0.00 0.00 3.09
691 799 1.742268 GGAATCTTGAACAGAGCCAGC 59.258 52.381 0.00 0.00 33.87 4.85
719 870 0.317269 CAGCACGGACACTTTGCAAG 60.317 55.000 0.00 0.00 38.81 4.01
806 962 6.728854 CGTTTGCTTCGATTTCATCAAAATTG 59.271 34.615 0.00 0.00 37.70 2.32
807 963 6.616260 GCGTTTGCTTCGATTTCATCAAAATT 60.616 34.615 0.00 0.00 36.52 1.82
833 989 3.706373 GGCTGGACCTTGCCGAGA 61.706 66.667 12.16 0.00 39.71 4.04
857 1013 4.564782 AAGCAATGAAGAGAGGATGACA 57.435 40.909 0.00 0.00 0.00 3.58
914 1108 3.508840 GAGGCGGGCAATTCCACG 61.509 66.667 3.78 0.00 36.21 4.94
967 1161 1.413227 GCTCTCCCTAGCCCTTCCTTA 60.413 57.143 0.00 0.00 36.45 2.69
1222 1425 3.777522 AGTATTCTGAGGGGAAACTGAGG 59.222 47.826 0.00 0.00 0.00 3.86
1225 1428 4.702131 CCAAAGTATTCTGAGGGGAAACTG 59.298 45.833 0.00 0.00 0.00 3.16
1233 1436 9.057089 GTAATATGGAACCAAAGTATTCTGAGG 57.943 37.037 0.00 0.00 0.00 3.86
1234 1437 9.838339 AGTAATATGGAACCAAAGTATTCTGAG 57.162 33.333 0.00 0.00 0.00 3.35
1235 1438 9.832445 GAGTAATATGGAACCAAAGTATTCTGA 57.168 33.333 0.00 0.00 0.00 3.27
1241 1473 6.100714 GGAGGGAGTAATATGGAACCAAAGTA 59.899 42.308 0.00 0.00 0.00 2.24
1245 1477 3.389983 CGGAGGGAGTAATATGGAACCAA 59.610 47.826 0.00 0.00 0.00 3.67
1250 1482 8.495160 TTTTATAACGGAGGGAGTAATATGGA 57.505 34.615 0.00 0.00 0.00 3.41
1259 1491 5.875359 GCCATCTATTTTATAACGGAGGGAG 59.125 44.000 9.51 0.00 0.00 4.30
1260 1492 5.280317 GGCCATCTATTTTATAACGGAGGGA 60.280 44.000 0.00 0.00 0.00 4.20
1261 1493 4.941873 GGCCATCTATTTTATAACGGAGGG 59.058 45.833 0.00 0.00 0.00 4.30
1265 1497 8.617290 AAGTTAGGCCATCTATTTTATAACGG 57.383 34.615 5.01 0.00 0.00 4.44
1301 1533 9.005777 CCCAGTTTTATACTAACTTTGCACTAA 57.994 33.333 0.00 0.00 34.56 2.24
1302 1534 8.158789 ACCCAGTTTTATACTAACTTTGCACTA 58.841 33.333 0.00 0.00 34.56 2.74
1303 1535 7.002276 ACCCAGTTTTATACTAACTTTGCACT 58.998 34.615 0.00 0.00 34.56 4.40
1304 1536 7.040961 TGACCCAGTTTTATACTAACTTTGCAC 60.041 37.037 0.00 0.00 34.56 4.57
1305 1537 6.999272 TGACCCAGTTTTATACTAACTTTGCA 59.001 34.615 0.00 0.00 34.56 4.08
1306 1538 7.443259 TGACCCAGTTTTATACTAACTTTGC 57.557 36.000 0.00 0.00 34.56 3.68
1307 1539 9.449719 AGATGACCCAGTTTTATACTAACTTTG 57.550 33.333 0.00 0.00 34.56 2.77
1314 1546 9.408648 CCAAAATAGATGACCCAGTTTTATACT 57.591 33.333 0.00 0.00 37.68 2.12
1315 1547 9.403583 TCCAAAATAGATGACCCAGTTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
1316 1548 9.983024 TTCCAAAATAGATGACCCAGTTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
1317 1549 8.749354 GTTCCAAAATAGATGACCCAGTTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
1318 1550 7.094549 CGTTCCAAAATAGATGACCCAGTTTTA 60.095 37.037 0.00 0.00 0.00 1.52
1319 1551 6.294508 CGTTCCAAAATAGATGACCCAGTTTT 60.295 38.462 0.00 0.00 0.00 2.43
1320 1552 5.183140 CGTTCCAAAATAGATGACCCAGTTT 59.817 40.000 0.00 0.00 0.00 2.66
1321 1553 4.700213 CGTTCCAAAATAGATGACCCAGTT 59.300 41.667 0.00 0.00 0.00 3.16
1322 1554 4.261801 CGTTCCAAAATAGATGACCCAGT 58.738 43.478 0.00 0.00 0.00 4.00
1323 1555 3.627577 CCGTTCCAAAATAGATGACCCAG 59.372 47.826 0.00 0.00 0.00 4.45
1324 1556 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
1325 1557 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
1326 1558 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
1327 1559 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
1328 1560 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
1329 1561 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
1330 1562 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
1331 1563 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
1332 1564 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
1333 1565 6.013984 GGATATACTCCCTCCGTTCCAAAATA 60.014 42.308 0.00 0.00 38.19 1.40
1334 1566 5.221864 GGATATACTCCCTCCGTTCCAAAAT 60.222 44.000 0.00 0.00 38.19 1.82
1335 1567 4.102054 GGATATACTCCCTCCGTTCCAAAA 59.898 45.833 0.00 0.00 38.19 2.44
1336 1568 3.644738 GGATATACTCCCTCCGTTCCAAA 59.355 47.826 0.00 0.00 38.19 3.28
1337 1569 3.116862 AGGATATACTCCCTCCGTTCCAA 60.117 47.826 0.00 0.00 46.27 3.53
1338 1570 2.449730 AGGATATACTCCCTCCGTTCCA 59.550 50.000 0.00 0.00 46.27 3.53
1339 1571 3.172471 AGGATATACTCCCTCCGTTCC 57.828 52.381 0.00 0.00 46.27 3.62
1340 1572 5.548181 AAAAGGATATACTCCCTCCGTTC 57.452 43.478 0.00 0.00 46.27 3.95
1341 1573 5.970501 AAAAAGGATATACTCCCTCCGTT 57.029 39.130 0.00 0.00 46.27 4.44
1369 1601 7.324375 CGCAATCGCTTCATATCACAAATTATT 59.676 33.333 0.00 0.00 35.30 1.40
1371 1603 6.135400 CGCAATCGCTTCATATCACAAATTA 58.865 36.000 0.00 0.00 35.30 1.40
1384 1617 1.298859 AAGGTGTCCGCAATCGCTTC 61.299 55.000 0.00 0.00 35.30 3.86
1421 1654 4.747108 CAGGTTATTTCAGGATACAGAGCG 59.253 45.833 0.00 0.00 41.41 5.03
1443 1676 9.890629 AATCTCAGAGTAAATTAACACATAGCA 57.109 29.630 0.00 0.00 0.00 3.49
1527 1787 9.613428 CCTGAACTCATCCATGTAAAATTACTA 57.387 33.333 5.05 0.00 34.77 1.82
1532 1792 6.248433 ACACCTGAACTCATCCATGTAAAAT 58.752 36.000 0.00 0.00 0.00 1.82
1545 1805 6.415573 AGTTATCCCAAATACACCTGAACTC 58.584 40.000 0.00 0.00 0.00 3.01
1550 1810 7.279615 TGTATGAGTTATCCCAAATACACCTG 58.720 38.462 0.00 0.00 0.00 4.00
1551 1811 7.446106 TGTATGAGTTATCCCAAATACACCT 57.554 36.000 0.00 0.00 0.00 4.00
1560 1820 7.893302 ACTTTGGAAAATGTATGAGTTATCCCA 59.107 33.333 0.00 0.00 0.00 4.37
1565 1825 8.918202 AGTGACTTTGGAAAATGTATGAGTTA 57.082 30.769 0.00 0.00 0.00 2.24
1593 1853 3.075148 TCTGAGTCTGACAGGACTAACG 58.925 50.000 10.88 0.00 45.32 3.18
1630 1890 0.965439 TGCCCAAAAGATTGAACCGG 59.035 50.000 0.00 0.00 38.94 5.28
1645 1905 6.318144 CAGATTCCATCATCTATGTAATGCCC 59.682 42.308 0.00 0.00 31.86 5.36
1719 1979 6.206829 GCCATGAAAGTAACTGTTACCTCTTT 59.793 38.462 23.22 17.75 36.81 2.52
1729 1989 8.668510 ATTGTCTATAGCCATGAAAGTAACTG 57.331 34.615 0.00 0.00 0.00 3.16
1816 2076 2.231478 AGACCTACAGAATGACACGGTG 59.769 50.000 6.58 6.58 39.69 4.94
1817 2077 2.231478 CAGACCTACAGAATGACACGGT 59.769 50.000 0.00 0.00 39.69 4.83
1818 2078 2.231478 ACAGACCTACAGAATGACACGG 59.769 50.000 0.00 0.00 39.69 4.94
1819 2079 3.577649 ACAGACCTACAGAATGACACG 57.422 47.619 0.00 0.00 39.69 4.49
1820 2080 5.292101 GCATTACAGACCTACAGAATGACAC 59.708 44.000 0.00 0.00 39.69 3.67
1821 2081 5.046663 TGCATTACAGACCTACAGAATGACA 60.047 40.000 0.00 0.00 39.69 3.58
1822 2082 5.292101 GTGCATTACAGACCTACAGAATGAC 59.708 44.000 0.00 0.00 39.69 3.06
1823 2083 5.187772 AGTGCATTACAGACCTACAGAATGA 59.812 40.000 0.00 0.00 39.69 2.57
1878 2138 5.012893 AGGGAATGTTTCATTCAGGAACTC 58.987 41.667 19.46 5.07 34.60 3.01
1879 2139 5.003096 AGGGAATGTTTCATTCAGGAACT 57.997 39.130 19.46 9.43 43.88 3.01
1880 2140 5.728637 AAGGGAATGTTTCATTCAGGAAC 57.271 39.130 19.46 6.15 0.00 3.62
1914 2183 5.070180 TCAGGATCTCATCAGGTGAAGATTC 59.930 44.000 0.00 0.00 36.14 2.52
1925 2194 4.028825 TCTTCTGCTTCAGGATCTCATCA 58.971 43.478 0.00 0.00 31.51 3.07
1926 2195 4.341806 TCTCTTCTGCTTCAGGATCTCATC 59.658 45.833 0.00 0.00 31.51 2.92
1927 2196 4.288398 TCTCTTCTGCTTCAGGATCTCAT 58.712 43.478 0.00 0.00 31.51 2.90
1929 2198 3.068590 CCTCTCTTCTGCTTCAGGATCTC 59.931 52.174 0.00 0.00 31.51 2.75
1932 2201 1.485895 GCCTCTCTTCTGCTTCAGGAT 59.514 52.381 0.00 0.00 31.51 3.24
1933 2202 0.901124 GCCTCTCTTCTGCTTCAGGA 59.099 55.000 0.00 0.00 31.51 3.86
1934 2203 0.903942 AGCCTCTCTTCTGCTTCAGG 59.096 55.000 0.00 0.00 31.51 3.86
1936 2205 2.234908 GGTTAGCCTCTCTTCTGCTTCA 59.765 50.000 0.00 0.00 36.57 3.02
1937 2206 2.234908 TGGTTAGCCTCTCTTCTGCTTC 59.765 50.000 0.00 0.00 36.57 3.86
1938 2207 2.235898 CTGGTTAGCCTCTCTTCTGCTT 59.764 50.000 0.00 0.00 36.57 3.91
1942 2211 3.748645 TCTCTGGTTAGCCTCTCTTCT 57.251 47.619 0.00 0.00 35.27 2.85
1944 2213 5.309638 GTTTTTCTCTGGTTAGCCTCTCTT 58.690 41.667 0.00 0.00 35.27 2.85
1946 2215 3.680458 CGTTTTTCTCTGGTTAGCCTCTC 59.320 47.826 0.00 0.00 35.27 3.20
1947 2216 3.665190 CGTTTTTCTCTGGTTAGCCTCT 58.335 45.455 0.00 0.00 35.27 3.69
1948 2217 2.159824 GCGTTTTTCTCTGGTTAGCCTC 59.840 50.000 0.00 0.00 35.27 4.70
1949 2218 2.152016 GCGTTTTTCTCTGGTTAGCCT 58.848 47.619 0.00 0.00 35.27 4.58
1950 2219 1.877443 TGCGTTTTTCTCTGGTTAGCC 59.123 47.619 0.00 0.00 0.00 3.93
1951 2220 2.350484 GGTGCGTTTTTCTCTGGTTAGC 60.350 50.000 0.00 0.00 0.00 3.09
1952 2221 2.096417 CGGTGCGTTTTTCTCTGGTTAG 60.096 50.000 0.00 0.00 0.00 2.34
1953 2222 1.868498 CGGTGCGTTTTTCTCTGGTTA 59.132 47.619 0.00 0.00 0.00 2.85
1954 2223 0.661020 CGGTGCGTTTTTCTCTGGTT 59.339 50.000 0.00 0.00 0.00 3.67
1955 2224 0.463116 ACGGTGCGTTTTTCTCTGGT 60.463 50.000 0.00 0.00 36.35 4.00
1956 2225 0.234884 GACGGTGCGTTTTTCTCTGG 59.765 55.000 0.00 0.00 41.37 3.86
1958 2227 0.883370 GGGACGGTGCGTTTTTCTCT 60.883 55.000 0.00 0.00 41.37 3.10
1959 2228 0.883370 AGGGACGGTGCGTTTTTCTC 60.883 55.000 0.00 0.00 41.37 2.87
1962 4101 0.886043 GGTAGGGACGGTGCGTTTTT 60.886 55.000 0.00 0.00 41.37 1.94
1964 4103 2.344872 GGTAGGGACGGTGCGTTT 59.655 61.111 0.00 0.00 41.37 3.60
2030 4169 4.548513 AGGAGCGGAGGCCTAGGG 62.549 72.222 4.42 0.00 41.24 3.53
2031 4170 2.915137 GAGGAGCGGAGGCCTAGG 60.915 72.222 4.42 3.67 41.24 3.02
2032 4171 1.901464 GAGAGGAGCGGAGGCCTAG 60.901 68.421 4.42 3.81 41.24 3.02
2033 4172 2.196229 GAGAGGAGCGGAGGCCTA 59.804 66.667 4.42 0.00 41.24 3.93
2034 4173 3.731766 GAGAGAGGAGCGGAGGCCT 62.732 68.421 3.86 3.86 41.24 5.19
2035 4174 3.223589 GAGAGAGGAGCGGAGGCC 61.224 72.222 0.00 0.00 41.24 5.19
2036 4175 3.223589 GGAGAGAGGAGCGGAGGC 61.224 72.222 0.00 0.00 40.37 4.70
2037 4176 2.520741 GGGAGAGAGGAGCGGAGG 60.521 72.222 0.00 0.00 0.00 4.30
2038 4177 1.528309 GAGGGAGAGAGGAGCGGAG 60.528 68.421 0.00 0.00 0.00 4.63
2039 4178 2.598467 GAGGGAGAGAGGAGCGGA 59.402 66.667 0.00 0.00 0.00 5.54
2040 4179 2.520741 GGAGGGAGAGAGGAGCGG 60.521 72.222 0.00 0.00 0.00 5.52
2041 4180 1.528309 GAGGAGGGAGAGAGGAGCG 60.528 68.421 0.00 0.00 0.00 5.03
2044 4183 1.943730 GCAGGAGGAGGGAGAGAGGA 61.944 65.000 0.00 0.00 0.00 3.71
2045 4184 1.457455 GCAGGAGGAGGGAGAGAGG 60.457 68.421 0.00 0.00 0.00 3.69
2046 4185 1.457455 GGCAGGAGGAGGGAGAGAG 60.457 68.421 0.00 0.00 0.00 3.20
2047 4186 2.693017 GGCAGGAGGAGGGAGAGA 59.307 66.667 0.00 0.00 0.00 3.10
2048 4187 2.837291 CGGCAGGAGGAGGGAGAG 60.837 72.222 0.00 0.00 0.00 3.20
2085 4299 3.357079 GTCACTGGCCAGGCAACG 61.357 66.667 35.42 18.07 46.39 4.10
2086 4300 3.357079 CGTCACTGGCCAGGCAAC 61.357 66.667 35.42 26.19 0.00 4.17
2128 4599 3.195698 GAAGATCGCCACCACCGC 61.196 66.667 0.00 0.00 0.00 5.68
2129 4600 2.579201 AGAAGATCGCCACCACCG 59.421 61.111 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.