Multiple sequence alignment - TraesCS1B01G001200

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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 TraesCS1B01G001200 chr1B 100.000 2504 0 0 1 2504 1267513 1265010 0.000000e+00 4625
1 TraesCS1B01G001200 chr1B 94.569 1823 91 6 1 1820 1274257 1272440 0.000000e+00 2811
2 TraesCS1B01G001200 chr1B 94.466 1825 90 8 1 1820 1372302 1370484 0.000000e+00 2800
3 TraesCS1B01G001200 chr1B 94.457 1822 92 6 1 1820 1348746 1346932 0.000000e+00 2796
4 TraesCS1B01G001200 chr1B 93.056 1829 91 18 1 1820 1294026 1292225 0.000000e+00 2641
5 TraesCS1B01G001200 chr1B 93.132 1820 90 13 1 1816 1308361 1306573 0.000000e+00 2636
6 TraesCS1B01G001200 chr1B 92.562 1842 92 25 1 1820 1281409 1279591 0.000000e+00 2601
7 TraesCS1B01G001200 chr1B 92.773 1619 64 12 199 1809 1414249 1412676 0.000000e+00 2292
8 TraesCS1B01G001200 chr1B 85.822 1065 101 23 1071 2114 1322946 1321911 0.000000e+00 1085
9 TraesCS1B01G001200 chr1B 95.344 494 19 2 1487 1977 1394248 1393756 0.000000e+00 782
10 TraesCS1B01G001200 chr1B 95.510 490 18 2 1487 1972 1316330 1315841 0.000000e+00 780
11 TraesCS1B01G001200 chr1B 95.092 489 21 1 1487 1972 1289404 1288916 0.000000e+00 767
12 TraesCS1B01G001200 chr1B 84.343 792 98 9 717 1484 1317155 1316366 0.000000e+00 752
13 TraesCS1B01G001200 chr1B 91.382 557 37 9 150 698 1395607 1395054 0.000000e+00 752
14 TraesCS1B01G001200 chr1B 91.321 507 35 6 199 698 1319658 1319154 0.000000e+00 684
15 TraesCS1B01G001200 chr1B 85.156 640 95 0 845 1484 1296829 1296190 0.000000e+00 656
16 TraesCS1B01G001200 chr1B 90.618 469 34 4 238 698 1345660 1345194 4.580000e-172 614
17 TraesCS1B01G001200 chr1B 88.462 312 30 5 2195 2504 467901685 467901378 3.040000e-99 372
18 TraesCS1B01G001200 chr1B 92.941 255 12 3 1836 2085 1322052 1321799 1.420000e-97 366
19 TraesCS1B01G001200 chr1B 92.857 224 10 2 1975 2194 1393897 1393676 1.120000e-83 320
20 TraesCS1B01G001200 chr1B 92.857 224 11 2 1975 2194 1399580 1399358 1.120000e-83 320
21 TraesCS1B01G001200 chr1B 91.228 228 10 6 1975 2194 1295803 1295578 4.050000e-78 302
22 TraesCS1B01G001200 chr1B 93.122 189 8 2 2011 2194 1276046 1275858 3.170000e-69 272
23 TraesCS1B01G001200 chr1B 94.798 173 9 0 1805 1977 1399610 1399438 1.140000e-68 270
24 TraesCS1B01G001200 chr1B 94.194 155 9 0 1 155 1297536 1297382 1.160000e-58 237
25 TraesCS1B01G001200 chr1B 94.156 154 9 0 1 154 1369359 1369206 4.160000e-58 235
26 TraesCS1B01G001200 chr1B 93.548 155 10 0 1 155 1290828 1290674 5.390000e-57 231
27 TraesCS1B01G001200 chr1B 92.806 139 6 1 1975 2109 1315979 1315841 5.460000e-47 198
28 TraesCS1B01G001200 chr1B 91.667 144 7 5 1835 1977 1265539 1265400 7.070000e-46 195
29 TraesCS1B01G001200 chr1B 91.667 144 7 5 1975 2114 1265679 1265537 7.070000e-46 195
30 TraesCS1B01G001200 chr1B 93.333 90 6 0 2105 2194 1283766 1283677 1.560000e-27 134
31 TraesCS1B01G001200 chr1B 91.111 90 8 0 2105 2194 1310709 1310620 3.380000e-24 122
32 TraesCS1B01G001200 chr1A 89.324 1124 80 9 728 1820 1194697 1193583 0.000000e+00 1375
33 TraesCS1B01G001200 chr1A 90.191 367 24 5 1613 1977 1192064 1191708 3.770000e-128 468
34 TraesCS1B01G001200 chr1A 89.252 214 15 6 1982 2192 1191837 1191629 6.870000e-66 261
35 TraesCS1B01G001200 chr1D 84.936 1321 127 26 717 1977 2106090 2104782 0.000000e+00 1271
36 TraesCS1B01G001200 chr1D 93.074 231 15 1 717 947 2107768 2107539 1.110000e-88 337
37 TraesCS1B01G001200 chr4D 90.354 311 29 1 2195 2504 473839637 473839947 8.340000e-110 407
38 TraesCS1B01G001200 chr7B 89.389 311 31 2 2195 2504 637348231 637348540 8.400000e-105 390
39 TraesCS1B01G001200 chr5D 89.137 313 31 3 2194 2504 368740376 368740065 1.090000e-103 387
40 TraesCS1B01G001200 chr6D 88.854 314 34 1 2192 2504 433634031 433634344 3.910000e-103 385
41 TraesCS1B01G001200 chr3D 90.580 276 25 1 2195 2469 598338753 598338478 5.090000e-97 364
42 TraesCS1B01G001200 chr3D 90.217 276 26 1 2195 2469 362876922 362876647 2.370000e-95 359
43 TraesCS1B01G001200 chr2D 89.531 277 28 1 2194 2469 595556482 595556206 1.430000e-92 350
44 TraesCS1B01G001200 chr3A 88.406 276 28 3 2195 2469 502108974 502108702 1.860000e-86 329


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 TraesCS1B01G001200 chr1B 1265010 1267513 2503 True 1671.666667 4625 94.444667 1 2504 3 chr1B.!!$R3 2503
1 TraesCS1B01G001200 chr1B 1412676 1414249 1573 True 2292.000000 2292 92.773000 199 1809 1 chr1B.!!$R1 1610
2 TraesCS1B01G001200 chr1B 1345194 1348746 3552 True 1705.000000 2796 92.537500 1 1820 2 chr1B.!!$R8 1819
3 TraesCS1B01G001200 chr1B 1369206 1372302 3096 True 1517.500000 2800 94.311000 1 1820 2 chr1B.!!$R9 1819
4 TraesCS1B01G001200 chr1B 1272440 1283766 11326 True 1454.500000 2811 93.396500 1 2194 4 chr1B.!!$R4 2193
5 TraesCS1B01G001200 chr1B 1306573 1310709 4136 True 1379.000000 2636 92.121500 1 2194 2 chr1B.!!$R6 2193
6 TraesCS1B01G001200 chr1B 1288916 1297536 8620 True 805.666667 2641 92.045667 1 2194 6 chr1B.!!$R5 2193
7 TraesCS1B01G001200 chr1B 1315841 1322946 7105 True 644.166667 1085 90.457167 199 2114 6 chr1B.!!$R7 1915
8 TraesCS1B01G001200 chr1B 1393676 1399610 5934 True 488.800000 782 93.447600 150 2194 5 chr1B.!!$R10 2044
9 TraesCS1B01G001200 chr1A 1191629 1194697 3068 True 701.333333 1375 89.589000 728 2192 3 chr1A.!!$R1 1464
10 TraesCS1B01G001200 chr1D 2104782 2107768 2986 True 804.000000 1271 89.005000 717 1977 2 chr1D.!!$R1 1260

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
978 11199 0.609131 ACGGCCTATTGCAGCTTGTT 60.609 50.0 0.0 0.0 43.89 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2281 23797 0.033405 TCGGTTCCAGAGGGTAGGAG 60.033 60.0 0.0 0.0 34.91 3.69 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
186 4822 2.269978 GCCATGAGCAAAAGCCTCA 58.730 52.632 0.00 0.00 42.91 3.86
327 4969 4.827284 AGTATAATTGCCGGCTTTTGCTAT 59.173 37.500 29.70 16.53 46.54 2.97
367 5010 9.787532 ACACATAACAATTTGGAATTTATCTCG 57.212 29.630 0.78 0.00 0.00 4.04
457 5104 3.920446 TGCGCAACAAATCTAGTCTACA 58.080 40.909 8.16 0.00 0.00 2.74
664 5311 1.734707 GCTCGCCGTAGCTCAGTAAAA 60.735 52.381 0.00 0.00 39.50 1.52
908 11128 1.059913 CCGCCCTCCATTTCCTCTAT 58.940 55.000 0.00 0.00 0.00 1.98
952 11172 2.579787 CGGCGAGAAATCGAGCGT 60.580 61.111 0.00 0.00 34.64 5.07
974 11194 2.202932 CGACGGCCTATTGCAGCT 60.203 61.111 0.00 0.00 43.89 4.24
978 11199 0.609131 ACGGCCTATTGCAGCTTGTT 60.609 50.000 0.00 0.00 43.89 2.83
1049 11270 1.753078 GAAGGGGGTTCGGCAATCC 60.753 63.158 0.00 0.00 30.81 3.01
1266 11488 3.760035 GGCCGGCTCTTCGACTCA 61.760 66.667 28.56 0.00 0.00 3.41
1317 11551 0.550914 TGTGGTTTGAGGCAAGGACT 59.449 50.000 0.00 0.00 0.00 3.85
1361 11595 3.058160 GGTTGTGCGGCTGCTGAT 61.058 61.111 20.27 0.00 43.34 2.90
1485 11770 0.249120 ACAATGATGAGGGCGACGAA 59.751 50.000 0.00 0.00 0.00 3.85
1886 18277 5.405935 AAAACAACCAGCCTAATCATTCC 57.594 39.130 0.00 0.00 0.00 3.01
1887 18278 3.737559 ACAACCAGCCTAATCATTCCA 57.262 42.857 0.00 0.00 0.00 3.53
1888 18279 4.046286 ACAACCAGCCTAATCATTCCAA 57.954 40.909 0.00 0.00 0.00 3.53
1889 18280 4.019174 ACAACCAGCCTAATCATTCCAAG 58.981 43.478 0.00 0.00 0.00 3.61
1890 18281 4.019174 CAACCAGCCTAATCATTCCAAGT 58.981 43.478 0.00 0.00 0.00 3.16
1891 18282 5.192927 CAACCAGCCTAATCATTCCAAGTA 58.807 41.667 0.00 0.00 0.00 2.24
1892 18283 5.450818 ACCAGCCTAATCATTCCAAGTAA 57.549 39.130 0.00 0.00 0.00 2.24
1893 18284 5.826643 ACCAGCCTAATCATTCCAAGTAAA 58.173 37.500 0.00 0.00 0.00 2.01
1894 18285 6.435164 ACCAGCCTAATCATTCCAAGTAAAT 58.565 36.000 0.00 0.00 0.00 1.40
1895 18286 6.547510 ACCAGCCTAATCATTCCAAGTAAATC 59.452 38.462 0.00 0.00 0.00 2.17
1896 18287 6.547141 CCAGCCTAATCATTCCAAGTAAATCA 59.453 38.462 0.00 0.00 0.00 2.57
1897 18288 7.068593 CCAGCCTAATCATTCCAAGTAAATCAA 59.931 37.037 0.00 0.00 0.00 2.57
1898 18289 8.636213 CAGCCTAATCATTCCAAGTAAATCAAT 58.364 33.333 0.00 0.00 0.00 2.57
1899 18290 8.854117 AGCCTAATCATTCCAAGTAAATCAATC 58.146 33.333 0.00 0.00 0.00 2.67
1900 18291 8.632679 GCCTAATCATTCCAAGTAAATCAATCA 58.367 33.333 0.00 0.00 0.00 2.57
1903 18294 8.882415 AATCATTCCAAGTAAATCAATCATGC 57.118 30.769 0.00 0.00 0.00 4.06
1904 18295 6.808829 TCATTCCAAGTAAATCAATCATGCC 58.191 36.000 0.00 0.00 0.00 4.40
1905 18296 6.608405 TCATTCCAAGTAAATCAATCATGCCT 59.392 34.615 0.00 0.00 0.00 4.75
1906 18297 6.855763 TTCCAAGTAAATCAATCATGCCTT 57.144 33.333 0.00 0.00 0.00 4.35
1907 18298 6.855763 TCCAAGTAAATCAATCATGCCTTT 57.144 33.333 0.00 0.00 0.00 3.11
1908 18299 7.243604 TCCAAGTAAATCAATCATGCCTTTT 57.756 32.000 0.00 0.00 0.00 2.27
1909 18300 7.678837 TCCAAGTAAATCAATCATGCCTTTTT 58.321 30.769 0.00 0.00 0.00 1.94
1929 18320 3.829886 TTATGTGTGCTTTGCTAGTGC 57.170 42.857 0.00 0.00 40.20 4.40
1977 18368 9.403583 AGAAGCCATATTCTTTCGGTTAATAAA 57.596 29.630 0.00 0.00 36.05 1.40
1980 18371 9.965824 AGCCATATTCTTTCGGTTAATAAATTG 57.034 29.630 0.00 0.00 0.00 2.32
1981 18372 8.699749 GCCATATTCTTTCGGTTAATAAATTGC 58.300 33.333 0.00 0.00 0.00 3.56
1982 18373 9.191995 CCATATTCTTTCGGTTAATAAATTGCC 57.808 33.333 0.00 0.00 0.00 4.52
1984 18755 6.591750 TTCTTTCGGTTAATAAATTGCCCA 57.408 33.333 0.00 0.00 0.00 5.36
1988 18759 8.097662 TCTTTCGGTTAATAAATTGCCCATTTT 58.902 29.630 0.00 0.00 36.43 1.82
1989 18760 8.622948 TTTCGGTTAATAAATTGCCCATTTTT 57.377 26.923 0.00 0.00 36.43 1.94
2117 20450 6.912591 GCCATATTCTTTCGGTTAACAATGAG 59.087 38.462 8.10 0.35 0.00 2.90
2128 20461 9.443323 TTCGGTTAACAATGAGAAGATAATTGA 57.557 29.630 8.10 0.00 35.67 2.57
2137 20470 8.350722 CAATGAGAAGATAATTGACCCATTCTG 58.649 37.037 0.00 0.00 33.96 3.02
2194 20528 9.720769 TCTACCTGAATTCGTTAAGAAAGAATT 57.279 29.630 11.29 11.29 44.36 2.17
2195 20529 9.760660 CTACCTGAATTCGTTAAGAAAGAATTG 57.239 33.333 14.89 6.43 42.51 2.32
2197 20531 8.630037 ACCTGAATTCGTTAAGAAAGAATTGTT 58.370 29.630 14.89 0.00 42.51 2.83
2234 22503 8.758829 ACAATTTGTAATTAGGGGAAAATCTCC 58.241 33.333 0.00 0.00 44.54 3.71
2242 22511 2.901975 GGAAAATCTCCCCTTGCCC 58.098 57.895 0.00 0.00 38.44 5.36
2250 23766 1.564348 TCTCCCCTTGCCCAAACTATC 59.436 52.381 0.00 0.00 0.00 2.08
2256 23772 1.468520 CTTGCCCAAACTATCGTGTGG 59.531 52.381 0.00 0.00 46.43 4.17
2258 23774 1.202830 TGCCCAAACTATCGTGTGGTT 60.203 47.619 5.88 0.00 45.57 3.67
2259 23775 1.883926 GCCCAAACTATCGTGTGGTTT 59.116 47.619 5.88 0.79 45.57 3.27
2264 23780 2.467566 ACTATCGTGTGGTTTGTCCC 57.532 50.000 0.00 0.00 34.77 4.46
2265 23781 1.337447 ACTATCGTGTGGTTTGTCCCG 60.337 52.381 0.00 0.00 34.77 5.14
2266 23782 0.671163 TATCGTGTGGTTTGTCCCGC 60.671 55.000 0.00 0.00 34.77 6.13
2269 23785 2.272471 TGTGGTTTGTCCCGCACA 59.728 55.556 0.00 0.00 40.01 4.57
2270 23786 1.821759 TGTGGTTTGTCCCGCACAG 60.822 57.895 0.00 0.00 40.01 3.66
2271 23787 1.525077 GTGGTTTGTCCCGCACAGA 60.525 57.895 0.00 0.00 35.97 3.41
2272 23788 1.525077 TGGTTTGTCCCGCACAGAC 60.525 57.895 0.00 0.00 39.04 3.51
2274 23790 2.970324 TTTGTCCCGCACAGACGC 60.970 61.111 0.00 0.00 35.97 5.19
2277 23793 4.681978 GTCCCGCACAGACGCCTT 62.682 66.667 0.00 0.00 0.00 4.35
2278 23794 3.936203 TCCCGCACAGACGCCTTT 61.936 61.111 0.00 0.00 0.00 3.11
2279 23795 3.423154 CCCGCACAGACGCCTTTC 61.423 66.667 0.00 0.00 0.00 2.62
2280 23796 3.777925 CCGCACAGACGCCTTTCG 61.778 66.667 0.00 0.00 45.38 3.46
2281 23797 4.430423 CGCACAGACGCCTTTCGC 62.430 66.667 0.00 0.00 43.23 4.70
2283 23799 3.016474 GCACAGACGCCTTTCGCTC 62.016 63.158 0.00 0.00 43.23 5.03
2284 23800 2.048127 ACAGACGCCTTTCGCTCC 60.048 61.111 0.00 0.00 43.23 4.70
2285 23801 2.262915 CAGACGCCTTTCGCTCCT 59.737 61.111 0.00 0.00 43.23 3.69
2286 23802 1.248785 ACAGACGCCTTTCGCTCCTA 61.249 55.000 0.00 0.00 43.23 2.94
2287 23803 0.802607 CAGACGCCTTTCGCTCCTAC 60.803 60.000 0.00 0.00 43.23 3.18
2288 23804 1.518792 GACGCCTTTCGCTCCTACC 60.519 63.158 0.00 0.00 43.23 3.18
2290 23806 2.722201 CGCCTTTCGCTCCTACCCT 61.722 63.158 0.00 0.00 34.21 4.34
2292 23808 1.331399 GCCTTTCGCTCCTACCCTCT 61.331 60.000 0.00 0.00 0.00 3.69
2293 23809 0.461961 CCTTTCGCTCCTACCCTCTG 59.538 60.000 0.00 0.00 0.00 3.35
2294 23810 0.461961 CTTTCGCTCCTACCCTCTGG 59.538 60.000 0.00 0.00 37.80 3.86
2295 23811 0.040646 TTTCGCTCCTACCCTCTGGA 59.959 55.000 0.00 0.00 34.81 3.86
2296 23812 0.040646 TTCGCTCCTACCCTCTGGAA 59.959 55.000 0.00 0.00 34.81 3.53
2297 23813 0.683504 TCGCTCCTACCCTCTGGAAC 60.684 60.000 0.00 0.00 34.81 3.62
2299 23815 1.677637 GCTCCTACCCTCTGGAACCG 61.678 65.000 0.00 0.00 34.81 4.44
2300 23816 0.033405 CTCCTACCCTCTGGAACCGA 60.033 60.000 0.00 0.00 34.81 4.69
2301 23817 0.635009 TCCTACCCTCTGGAACCGAT 59.365 55.000 0.00 0.00 34.81 4.18
2303 23819 0.105039 CTACCCTCTGGAACCGATGC 59.895 60.000 0.00 0.00 34.81 3.91
2304 23820 1.335132 TACCCTCTGGAACCGATGCC 61.335 60.000 0.00 0.00 34.81 4.40
2306 23822 1.604378 CCTCTGGAACCGATGCCTT 59.396 57.895 0.00 0.00 0.00 4.35
2307 23823 0.462759 CCTCTGGAACCGATGCCTTC 60.463 60.000 0.00 0.00 0.00 3.46
2308 23824 0.462759 CTCTGGAACCGATGCCTTCC 60.463 60.000 0.00 0.00 37.11 3.46
2311 23827 0.035439 TGGAACCGATGCCTTCCTTC 60.035 55.000 0.00 0.00 37.44 3.46
2312 23828 1.090052 GGAACCGATGCCTTCCTTCG 61.090 60.000 0.00 0.00 39.88 3.79
2313 23829 1.706287 GAACCGATGCCTTCCTTCGC 61.706 60.000 0.00 0.00 39.13 4.70
2314 23830 2.185310 AACCGATGCCTTCCTTCGCT 62.185 55.000 0.00 0.00 39.13 4.93
2316 23832 1.709147 CCGATGCCTTCCTTCGCTTG 61.709 60.000 0.00 0.00 39.13 4.01
2317 23833 1.021390 CGATGCCTTCCTTCGCTTGT 61.021 55.000 0.00 0.00 34.89 3.16
2318 23834 0.449388 GATGCCTTCCTTCGCTTGTG 59.551 55.000 0.00 0.00 0.00 3.33
2319 23835 0.250901 ATGCCTTCCTTCGCTTGTGT 60.251 50.000 0.00 0.00 0.00 3.72
2320 23836 0.884704 TGCCTTCCTTCGCTTGTGTC 60.885 55.000 0.00 0.00 0.00 3.67
2321 23837 0.603975 GCCTTCCTTCGCTTGTGTCT 60.604 55.000 0.00 0.00 0.00 3.41
2323 23839 1.001406 CCTTCCTTCGCTTGTGTCTCT 59.999 52.381 0.00 0.00 0.00 3.10
2324 23840 2.333014 CTTCCTTCGCTTGTGTCTCTC 58.667 52.381 0.00 0.00 0.00 3.20
2325 23841 0.603569 TCCTTCGCTTGTGTCTCTCC 59.396 55.000 0.00 0.00 0.00 3.71
2327 23843 1.671261 CCTTCGCTTGTGTCTCTCCAG 60.671 57.143 0.00 0.00 0.00 3.86
2328 23844 1.270826 CTTCGCTTGTGTCTCTCCAGA 59.729 52.381 0.00 0.00 0.00 3.86
2329 23845 1.550327 TCGCTTGTGTCTCTCCAGAT 58.450 50.000 0.00 0.00 0.00 2.90
2330 23846 1.203287 TCGCTTGTGTCTCTCCAGATG 59.797 52.381 0.00 0.00 0.00 2.90
2331 23847 1.738365 CGCTTGTGTCTCTCCAGATGG 60.738 57.143 0.00 0.00 0.00 3.51
2332 23848 1.277557 GCTTGTGTCTCTCCAGATGGT 59.722 52.381 0.00 0.00 36.34 3.55
2333 23849 2.497675 GCTTGTGTCTCTCCAGATGGTA 59.502 50.000 0.00 0.00 36.34 3.25
2334 23850 3.133721 GCTTGTGTCTCTCCAGATGGTAT 59.866 47.826 0.00 0.00 36.34 2.73
2335 23851 4.342378 GCTTGTGTCTCTCCAGATGGTATA 59.658 45.833 0.00 0.00 36.34 1.47
2336 23852 5.163405 GCTTGTGTCTCTCCAGATGGTATAA 60.163 44.000 0.00 0.00 36.34 0.98
2337 23853 6.471233 TTGTGTCTCTCCAGATGGTATAAG 57.529 41.667 0.00 0.00 36.34 1.73
2338 23854 5.519808 TGTGTCTCTCCAGATGGTATAAGT 58.480 41.667 0.00 0.00 36.34 2.24
2339 23855 6.669631 TGTGTCTCTCCAGATGGTATAAGTA 58.330 40.000 0.00 0.00 36.34 2.24
2340 23856 6.773200 TGTGTCTCTCCAGATGGTATAAGTAG 59.227 42.308 0.00 0.00 36.34 2.57
2342 23858 6.773200 TGTCTCTCCAGATGGTATAAGTAGTG 59.227 42.308 0.00 0.00 36.34 2.74
2343 23859 5.770663 TCTCTCCAGATGGTATAAGTAGTGC 59.229 44.000 0.00 0.00 36.34 4.40
2344 23860 4.833380 TCTCCAGATGGTATAAGTAGTGCC 59.167 45.833 0.00 0.00 36.34 5.01
2345 23861 4.816126 TCCAGATGGTATAAGTAGTGCCT 58.184 43.478 0.00 0.00 36.34 4.75
2346 23862 4.588951 TCCAGATGGTATAAGTAGTGCCTG 59.411 45.833 0.00 0.00 36.34 4.85
2348 23864 5.538813 CCAGATGGTATAAGTAGTGCCTGTA 59.461 44.000 0.00 0.00 0.00 2.74
2349 23865 6.041637 CCAGATGGTATAAGTAGTGCCTGTAA 59.958 42.308 0.00 0.00 0.00 2.41
2350 23866 6.924060 CAGATGGTATAAGTAGTGCCTGTAAC 59.076 42.308 0.00 0.00 0.00 2.50
2351 23867 5.603170 TGGTATAAGTAGTGCCTGTAACC 57.397 43.478 0.00 0.00 0.00 2.85
2352 23868 5.024785 TGGTATAAGTAGTGCCTGTAACCA 58.975 41.667 0.00 0.00 0.00 3.67
2354 23870 6.183360 TGGTATAAGTAGTGCCTGTAACCATC 60.183 42.308 0.00 0.00 0.00 3.51
2356 23872 4.634012 AAGTAGTGCCTGTAACCATCAA 57.366 40.909 0.00 0.00 0.00 2.57
2357 23873 4.844349 AGTAGTGCCTGTAACCATCAAT 57.156 40.909 0.00 0.00 0.00 2.57
2358 23874 4.770795 AGTAGTGCCTGTAACCATCAATC 58.229 43.478 0.00 0.00 0.00 2.67
2360 23876 4.032960 AGTGCCTGTAACCATCAATCAA 57.967 40.909 0.00 0.00 0.00 2.57
2361 23877 4.603131 AGTGCCTGTAACCATCAATCAAT 58.397 39.130 0.00 0.00 0.00 2.57
2362 23878 5.754782 AGTGCCTGTAACCATCAATCAATA 58.245 37.500 0.00 0.00 0.00 1.90
2366 23882 5.822519 GCCTGTAACCATCAATCAATACAGA 59.177 40.000 11.24 0.00 41.57 3.41
2367 23883 6.017605 GCCTGTAACCATCAATCAATACAGAG 60.018 42.308 11.24 4.40 41.57 3.35
2369 23885 7.935755 CCTGTAACCATCAATCAATACAGAGAT 59.064 37.037 11.24 0.00 41.57 2.75
2370 23886 9.334947 CTGTAACCATCAATCAATACAGAGATT 57.665 33.333 5.09 0.00 41.57 2.40
2375 23891 9.911788 ACCATCAATCAATACAGAGATTTTACT 57.088 29.630 0.00 0.00 32.43 2.24
2385 23901 8.789881 ATACAGAGATTTTACTTTCGATCTCG 57.210 34.615 6.57 0.00 45.69 4.04
2386 23902 6.853720 ACAGAGATTTTACTTTCGATCTCGA 58.146 36.000 0.00 0.00 45.69 4.04
2399 23915 2.459324 CGATCTCGAACACGTTATCACG 59.541 50.000 0.00 0.00 46.92 4.35
2400 23916 5.135032 CGATCTCGAACACGTTATCACGC 62.135 52.174 0.00 0.00 46.06 5.34
2411 23927 4.422997 CGTTATCACGCACATAGAACAG 57.577 45.455 0.00 0.00 40.18 3.16
2412 23928 3.301835 CGTTATCACGCACATAGAACAGC 60.302 47.826 0.00 0.00 40.18 4.40
2413 23929 1.656652 ATCACGCACATAGAACAGCC 58.343 50.000 0.00 0.00 0.00 4.85
2414 23930 0.320050 TCACGCACATAGAACAGCCA 59.680 50.000 0.00 0.00 0.00 4.75
2415 23931 0.723414 CACGCACATAGAACAGCCAG 59.277 55.000 0.00 0.00 0.00 4.85
2417 23933 1.717937 GCACATAGAACAGCCAGCG 59.282 57.895 0.00 0.00 0.00 5.18
2418 23934 0.740868 GCACATAGAACAGCCAGCGA 60.741 55.000 0.00 0.00 0.00 4.93
2419 23935 1.284657 CACATAGAACAGCCAGCGAG 58.715 55.000 0.00 0.00 0.00 5.03
2420 23936 1.134995 CACATAGAACAGCCAGCGAGA 60.135 52.381 0.00 0.00 0.00 4.04
2421 23937 1.135915 ACATAGAACAGCCAGCGAGAG 59.864 52.381 0.00 0.00 0.00 3.20
2434 23950 3.368046 CGAGAGCGAAAAAGGCAAC 57.632 52.632 0.00 0.00 40.82 4.17
2435 23951 0.586319 CGAGAGCGAAAAAGGCAACA 59.414 50.000 0.00 0.00 40.82 3.33
2436 23952 1.398960 CGAGAGCGAAAAAGGCAACAG 60.399 52.381 0.00 0.00 40.82 3.16
2437 23953 1.873591 GAGAGCGAAAAAGGCAACAGA 59.126 47.619 0.00 0.00 41.41 3.41
2438 23954 1.876156 AGAGCGAAAAAGGCAACAGAG 59.124 47.619 0.00 0.00 41.41 3.35
2439 23955 1.873591 GAGCGAAAAAGGCAACAGAGA 59.126 47.619 0.00 0.00 41.41 3.10
2440 23956 1.876156 AGCGAAAAAGGCAACAGAGAG 59.124 47.619 0.00 0.00 41.41 3.20
2441 23957 1.873591 GCGAAAAAGGCAACAGAGAGA 59.126 47.619 0.00 0.00 41.41 3.10
2442 23958 2.096019 GCGAAAAAGGCAACAGAGAGAG 60.096 50.000 0.00 0.00 41.41 3.20
2443 23959 2.481952 CGAAAAAGGCAACAGAGAGAGG 59.518 50.000 0.00 0.00 41.41 3.69
2444 23960 3.744660 GAAAAAGGCAACAGAGAGAGGA 58.255 45.455 0.00 0.00 41.41 3.71
2445 23961 3.415457 AAAAGGCAACAGAGAGAGGAG 57.585 47.619 0.00 0.00 41.41 3.69
2446 23962 2.022718 AAGGCAACAGAGAGAGGAGT 57.977 50.000 0.00 0.00 41.41 3.85
2447 23963 1.555967 AGGCAACAGAGAGAGGAGTC 58.444 55.000 0.00 0.00 41.41 3.36
2448 23964 0.172352 GGCAACAGAGAGAGGAGTCG 59.828 60.000 0.00 0.00 0.00 4.18
2449 23965 1.169577 GCAACAGAGAGAGGAGTCGA 58.830 55.000 0.00 0.00 0.00 4.20
2450 23966 1.132262 GCAACAGAGAGAGGAGTCGAG 59.868 57.143 0.00 0.00 0.00 4.04
2451 23967 2.705730 CAACAGAGAGAGGAGTCGAGA 58.294 52.381 0.00 0.00 0.00 4.04
2452 23968 2.677836 CAACAGAGAGAGGAGTCGAGAG 59.322 54.545 0.00 0.00 0.00 3.20
2453 23969 1.209504 ACAGAGAGAGGAGTCGAGAGG 59.790 57.143 0.00 0.00 0.00 3.69
2454 23970 0.837272 AGAGAGAGGAGTCGAGAGGG 59.163 60.000 0.00 0.00 0.00 4.30
2455 23971 0.834612 GAGAGAGGAGTCGAGAGGGA 59.165 60.000 0.00 0.00 0.00 4.20
2456 23972 0.837272 AGAGAGGAGTCGAGAGGGAG 59.163 60.000 0.00 0.00 0.00 4.30
2457 23973 0.818040 GAGAGGAGTCGAGAGGGAGC 60.818 65.000 0.00 0.00 0.00 4.70
2458 23974 1.077357 GAGGAGTCGAGAGGGAGCA 60.077 63.158 0.00 0.00 0.00 4.26
2459 23975 1.379309 AGGAGTCGAGAGGGAGCAC 60.379 63.158 0.00 0.00 0.00 4.40
2460 23976 1.379309 GGAGTCGAGAGGGAGCACT 60.379 63.158 0.00 0.00 0.00 4.40
2461 23977 1.381165 GGAGTCGAGAGGGAGCACTC 61.381 65.000 0.00 0.00 37.77 3.51
2464 23980 4.200283 CGAGAGGGAGCACTCGCC 62.200 72.222 10.75 4.40 46.54 5.54
2465 23981 4.200283 GAGAGGGAGCACTCGCCG 62.200 72.222 10.75 0.00 42.72 6.46
2472 23988 4.760047 AGCACTCGCCGCCGATTT 62.760 61.111 0.00 0.00 43.47 2.17
2473 23989 4.223964 GCACTCGCCGCCGATTTC 62.224 66.667 0.00 0.00 43.47 2.17
2474 23990 2.509336 CACTCGCCGCCGATTTCT 60.509 61.111 0.00 0.00 43.47 2.52
2475 23991 1.226859 CACTCGCCGCCGATTTCTA 60.227 57.895 0.00 0.00 43.47 2.10
2476 23992 1.226888 ACTCGCCGCCGATTTCTAC 60.227 57.895 0.00 0.00 43.47 2.59
2477 23993 1.226859 CTCGCCGCCGATTTCTACA 60.227 57.895 0.00 0.00 43.47 2.74
2478 23994 1.209275 CTCGCCGCCGATTTCTACAG 61.209 60.000 0.00 0.00 43.47 2.74
2479 23995 2.237751 CGCCGCCGATTTCTACAGG 61.238 63.158 0.00 0.00 36.29 4.00
2480 23996 1.887707 GCCGCCGATTTCTACAGGG 60.888 63.158 0.00 0.00 0.00 4.45
2481 23997 1.820581 CCGCCGATTTCTACAGGGA 59.179 57.895 0.00 0.00 0.00 4.20
2482 23998 0.529992 CCGCCGATTTCTACAGGGAC 60.530 60.000 0.00 0.00 0.00 4.46
2483 23999 0.174845 CGCCGATTTCTACAGGGACA 59.825 55.000 0.00 0.00 0.00 4.02
2484 24000 1.404986 CGCCGATTTCTACAGGGACAA 60.405 52.381 0.00 0.00 0.00 3.18
2485 24001 2.741878 CGCCGATTTCTACAGGGACAAT 60.742 50.000 0.00 0.00 0.00 2.71
2486 24002 2.872858 GCCGATTTCTACAGGGACAATC 59.127 50.000 0.00 0.00 0.00 2.67
2487 24003 3.432326 GCCGATTTCTACAGGGACAATCT 60.432 47.826 0.00 0.00 0.00 2.40
2488 24004 4.122776 CCGATTTCTACAGGGACAATCTG 58.877 47.826 0.00 0.00 38.16 2.90
2489 24005 4.141937 CCGATTTCTACAGGGACAATCTGA 60.142 45.833 0.00 0.00 36.22 3.27
2490 24006 5.453903 CCGATTTCTACAGGGACAATCTGAT 60.454 44.000 0.00 0.00 36.22 2.90
2491 24007 5.464722 CGATTTCTACAGGGACAATCTGATG 59.535 44.000 0.00 0.00 36.22 3.07
2492 24008 4.760530 TTCTACAGGGACAATCTGATGG 57.239 45.455 0.00 0.00 36.22 3.51
2493 24009 3.994317 TCTACAGGGACAATCTGATGGA 58.006 45.455 0.00 0.00 36.22 3.41
2494 24010 4.560739 TCTACAGGGACAATCTGATGGAT 58.439 43.478 0.00 0.00 36.22 3.41
2495 24011 3.572632 ACAGGGACAATCTGATGGATG 57.427 47.619 0.00 0.00 36.22 3.51
2496 24012 3.117745 ACAGGGACAATCTGATGGATGA 58.882 45.455 0.00 0.00 36.22 2.92
2497 24013 3.136077 ACAGGGACAATCTGATGGATGAG 59.864 47.826 0.00 0.00 36.22 2.90
2498 24014 2.709934 AGGGACAATCTGATGGATGAGG 59.290 50.000 0.00 0.00 34.45 3.86
2499 24015 2.707791 GGGACAATCTGATGGATGAGGA 59.292 50.000 0.00 0.00 34.45 3.71
2500 24016 3.137176 GGGACAATCTGATGGATGAGGAA 59.863 47.826 0.00 0.00 34.45 3.36
2501 24017 4.202545 GGGACAATCTGATGGATGAGGAAT 60.203 45.833 0.00 0.00 34.45 3.01
2502 24018 5.383476 GGACAATCTGATGGATGAGGAATT 58.617 41.667 0.00 0.00 34.45 2.17
2503 24019 6.466326 GGGACAATCTGATGGATGAGGAATTA 60.466 42.308 0.00 0.00 34.45 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
186 4822 0.946528 GGTTTTGTCGCGGGTTAACT 59.053 50.000 6.13 0.00 0.00 2.24
266 4904 0.602562 ACATGTGGCATTTCAACCCG 59.397 50.000 0.00 0.00 0.00 5.28
505 5152 3.620488 TGCCTGACCATATTTGTCTTCC 58.380 45.455 4.30 0.00 33.83 3.46
632 5279 1.527370 GGCGAGCCCTCCATTTAGT 59.473 57.895 1.97 0.00 0.00 2.24
711 5359 8.356657 TGCTAGAGATGCTCTAATAACTTCTTC 58.643 37.037 5.75 0.00 41.74 2.87
712 5360 8.243961 TGCTAGAGATGCTCTAATAACTTCTT 57.756 34.615 5.75 0.00 41.74 2.52
713 5361 7.723616 TCTGCTAGAGATGCTCTAATAACTTCT 59.276 37.037 5.75 0.00 41.74 2.85
714 5362 7.881142 TCTGCTAGAGATGCTCTAATAACTTC 58.119 38.462 5.75 0.00 41.74 3.01
828 11011 2.362375 GGGCTTTTCATGGGCCGA 60.362 61.111 0.00 0.00 46.10 5.54
908 11128 3.385749 GAAATGCGGCGGAGAGGGA 62.386 63.158 9.78 0.00 0.00 4.20
952 11172 1.813753 GCAATAGGCCGTCGAAGCA 60.814 57.895 10.54 0.00 36.11 3.91
974 11194 0.603172 TTCGATCCGGCGGAAAACAA 60.603 50.000 34.58 19.49 34.34 2.83
978 11199 1.034356 TATCTTCGATCCGGCGGAAA 58.966 50.000 34.58 21.52 34.34 3.13
1049 11270 1.799258 GCAACACCTGAAGCCACCAG 61.799 60.000 0.00 0.00 0.00 4.00
1199 11421 3.421687 CTCGATCCAGCGCTGCAGA 62.422 63.158 31.96 23.88 0.00 4.26
1361 11595 1.555075 GTTGGTACTCATCCCAGAGCA 59.445 52.381 0.00 0.00 39.26 4.26
1537 11828 1.693062 AGGAGATCTACTAGTCGCCGA 59.307 52.381 5.36 0.00 39.04 5.54
1864 18255 4.837860 TGGAATGATTAGGCTGGTTGTTTT 59.162 37.500 0.00 0.00 0.00 2.43
1867 18258 3.737559 TGGAATGATTAGGCTGGTTGT 57.262 42.857 0.00 0.00 0.00 3.32
1868 18259 4.019174 ACTTGGAATGATTAGGCTGGTTG 58.981 43.478 0.00 0.00 0.00 3.77
1869 18260 4.322057 ACTTGGAATGATTAGGCTGGTT 57.678 40.909 0.00 0.00 0.00 3.67
1870 18261 5.450818 TTACTTGGAATGATTAGGCTGGT 57.549 39.130 0.00 0.00 0.00 4.00
1873 18264 8.773033 ATTGATTTACTTGGAATGATTAGGCT 57.227 30.769 0.00 0.00 0.00 4.58
1874 18265 8.632679 TGATTGATTTACTTGGAATGATTAGGC 58.367 33.333 0.00 0.00 0.00 3.93
1877 18268 9.970395 GCATGATTGATTTACTTGGAATGATTA 57.030 29.630 0.00 0.00 0.00 1.75
1878 18269 7.929785 GGCATGATTGATTTACTTGGAATGATT 59.070 33.333 0.00 0.00 0.00 2.57
1879 18270 7.289317 AGGCATGATTGATTTACTTGGAATGAT 59.711 33.333 0.00 0.00 0.00 2.45
1880 18271 6.608405 AGGCATGATTGATTTACTTGGAATGA 59.392 34.615 0.00 0.00 0.00 2.57
1881 18272 6.812998 AGGCATGATTGATTTACTTGGAATG 58.187 36.000 0.00 0.00 0.00 2.67
1882 18273 7.427989 AAGGCATGATTGATTTACTTGGAAT 57.572 32.000 0.00 0.00 0.00 3.01
1883 18274 6.855763 AAGGCATGATTGATTTACTTGGAA 57.144 33.333 0.00 0.00 0.00 3.53
1884 18275 6.855763 AAAGGCATGATTGATTTACTTGGA 57.144 33.333 0.00 0.00 0.00 3.53
1885 18276 7.910441 AAAAAGGCATGATTGATTTACTTGG 57.090 32.000 0.00 0.00 0.00 3.61
1906 18297 4.981674 GCACTAGCAAAGCACACATAAAAA 59.018 37.500 0.00 0.00 41.58 1.94
1907 18298 4.545610 GCACTAGCAAAGCACACATAAAA 58.454 39.130 0.00 0.00 41.58 1.52
1908 18299 4.159377 GCACTAGCAAAGCACACATAAA 57.841 40.909 0.00 0.00 41.58 1.40
1909 18300 3.829886 GCACTAGCAAAGCACACATAA 57.170 42.857 0.00 0.00 41.58 1.90
1922 18313 8.496751 GCCTTTTAATTACTACTATGCACTAGC 58.503 37.037 0.00 0.00 42.57 3.42
1923 18314 9.542462 TGCCTTTTAATTACTACTATGCACTAG 57.458 33.333 0.00 0.00 0.00 2.57
1924 18315 9.893634 TTGCCTTTTAATTACTACTATGCACTA 57.106 29.630 0.00 0.00 0.00 2.74
1925 18316 8.801882 TTGCCTTTTAATTACTACTATGCACT 57.198 30.769 0.00 0.00 0.00 4.40
1926 18317 9.503427 CTTTGCCTTTTAATTACTACTATGCAC 57.497 33.333 0.00 0.00 0.00 4.57
1927 18318 9.456147 TCTTTGCCTTTTAATTACTACTATGCA 57.544 29.630 0.00 0.00 0.00 3.96
2089 20421 7.925043 TTGTTAACCGAAAGAATATGGCTTA 57.075 32.000 2.48 0.00 0.00 3.09
2117 20450 7.872113 AGAACAGAATGGGTCAATTATCTTC 57.128 36.000 0.00 0.00 43.62 2.87
2128 20461 6.706295 TGAAAACAAAAAGAACAGAATGGGT 58.294 32.000 0.00 0.00 43.62 4.51
2137 20470 6.477742 GCATGGTTCTGAAAACAAAAAGAAC 58.522 36.000 5.96 5.96 45.00 3.01
2224 22493 0.041090 TGGGCAAGGGGAGATTTTCC 59.959 55.000 0.00 0.00 46.00 3.13
2225 22494 1.937191 TTGGGCAAGGGGAGATTTTC 58.063 50.000 0.00 0.00 0.00 2.29
2226 22495 1.977854 GTTTGGGCAAGGGGAGATTTT 59.022 47.619 0.00 0.00 0.00 1.82
2231 22500 1.747206 CGATAGTTTGGGCAAGGGGAG 60.747 57.143 0.00 0.00 0.00 4.30
2232 22501 0.254747 CGATAGTTTGGGCAAGGGGA 59.745 55.000 0.00 0.00 0.00 4.81
2233 22502 2.793831 CGATAGTTTGGGCAAGGGG 58.206 57.895 0.00 0.00 0.00 4.79
2250 23766 2.897846 TGCGGGACAAACCACACG 60.898 61.111 0.00 0.00 41.20 4.49
2256 23772 2.935955 CGTCTGTGCGGGACAAAC 59.064 61.111 3.39 0.00 32.80 2.93
2258 23774 4.980805 GGCGTCTGTGCGGGACAA 62.981 66.667 3.39 0.00 32.80 3.18
2262 23778 3.423154 GAAAGGCGTCTGTGCGGG 61.423 66.667 0.00 0.00 35.06 6.13
2263 23779 3.777925 CGAAAGGCGTCTGTGCGG 61.778 66.667 0.00 0.00 35.06 5.69
2264 23780 4.430423 GCGAAAGGCGTCTGTGCG 62.430 66.667 0.00 0.00 43.41 5.34
2274 23790 0.461961 CAGAGGGTAGGAGCGAAAGG 59.538 60.000 0.00 0.00 0.00 3.11
2276 23792 0.040646 TCCAGAGGGTAGGAGCGAAA 59.959 55.000 0.00 0.00 34.93 3.46
2277 23793 0.040646 TTCCAGAGGGTAGGAGCGAA 59.959 55.000 0.00 0.00 34.91 4.70
2278 23794 0.683504 GTTCCAGAGGGTAGGAGCGA 60.684 60.000 0.00 0.00 34.91 4.93
2279 23795 1.677637 GGTTCCAGAGGGTAGGAGCG 61.678 65.000 0.00 0.00 36.15 5.03
2280 23796 1.677637 CGGTTCCAGAGGGTAGGAGC 61.678 65.000 0.00 0.00 34.91 4.70
2281 23797 0.033405 TCGGTTCCAGAGGGTAGGAG 60.033 60.000 0.00 0.00 34.91 3.69
2283 23799 0.753262 CATCGGTTCCAGAGGGTAGG 59.247 60.000 0.00 0.00 34.93 3.18
2284 23800 0.105039 GCATCGGTTCCAGAGGGTAG 59.895 60.000 0.00 0.00 34.93 3.18
2285 23801 1.335132 GGCATCGGTTCCAGAGGGTA 61.335 60.000 0.00 0.00 34.93 3.69
2286 23802 2.670148 GGCATCGGTTCCAGAGGGT 61.670 63.158 0.00 0.00 34.93 4.34
2287 23803 1.915078 AAGGCATCGGTTCCAGAGGG 61.915 60.000 0.00 0.00 0.00 4.30
2288 23804 0.462759 GAAGGCATCGGTTCCAGAGG 60.463 60.000 0.00 0.00 0.00 3.69
2290 23806 0.909610 AGGAAGGCATCGGTTCCAGA 60.910 55.000 5.40 0.00 44.20 3.86
2292 23808 0.035439 GAAGGAAGGCATCGGTTCCA 60.035 55.000 5.40 0.00 44.20 3.53
2293 23809 1.090052 CGAAGGAAGGCATCGGTTCC 61.090 60.000 0.00 0.00 42.38 3.62
2294 23810 1.706287 GCGAAGGAAGGCATCGGTTC 61.706 60.000 0.00 0.00 37.08 3.62
2295 23811 1.745489 GCGAAGGAAGGCATCGGTT 60.745 57.895 0.00 0.00 37.08 4.44
2296 23812 2.125106 GCGAAGGAAGGCATCGGT 60.125 61.111 0.00 0.00 37.08 4.69
2297 23813 1.450312 AAGCGAAGGAAGGCATCGG 60.450 57.895 0.00 0.00 37.08 4.18
2299 23815 0.449388 CACAAGCGAAGGAAGGCATC 59.551 55.000 0.00 0.00 0.00 3.91
2300 23816 0.250901 ACACAAGCGAAGGAAGGCAT 60.251 50.000 0.00 0.00 0.00 4.40
2301 23817 0.884704 GACACAAGCGAAGGAAGGCA 60.885 55.000 0.00 0.00 0.00 4.75
2303 23819 1.001406 AGAGACACAAGCGAAGGAAGG 59.999 52.381 0.00 0.00 0.00 3.46
2304 23820 2.333014 GAGAGACACAAGCGAAGGAAG 58.667 52.381 0.00 0.00 0.00 3.46
2306 23822 0.603569 GGAGAGACACAAGCGAAGGA 59.396 55.000 0.00 0.00 0.00 3.36
2307 23823 0.318441 TGGAGAGACACAAGCGAAGG 59.682 55.000 0.00 0.00 0.00 3.46
2308 23824 1.270826 TCTGGAGAGACACAAGCGAAG 59.729 52.381 0.00 0.00 0.00 3.79
2311 23827 1.638133 CATCTGGAGAGACACAAGCG 58.362 55.000 0.00 0.00 0.00 4.68
2312 23828 1.277557 ACCATCTGGAGAGACACAAGC 59.722 52.381 2.55 0.00 38.94 4.01
2313 23829 6.097554 ACTTATACCATCTGGAGAGACACAAG 59.902 42.308 2.55 0.00 38.94 3.16
2314 23830 5.958380 ACTTATACCATCTGGAGAGACACAA 59.042 40.000 2.55 0.00 38.94 3.33
2316 23832 6.773685 ACTACTTATACCATCTGGAGAGACAC 59.226 42.308 2.55 0.00 38.94 3.67
2317 23833 6.773200 CACTACTTATACCATCTGGAGAGACA 59.227 42.308 2.55 0.00 38.94 3.41
2318 23834 6.294286 GCACTACTTATACCATCTGGAGAGAC 60.294 46.154 2.55 0.00 38.94 3.36
2319 23835 5.770663 GCACTACTTATACCATCTGGAGAGA 59.229 44.000 2.55 0.00 38.94 3.10
2320 23836 5.047660 GGCACTACTTATACCATCTGGAGAG 60.048 48.000 2.55 0.00 38.94 3.20
2321 23837 4.833380 GGCACTACTTATACCATCTGGAGA 59.167 45.833 2.55 0.00 38.94 3.71
2323 23839 4.588951 CAGGCACTACTTATACCATCTGGA 59.411 45.833 2.55 0.00 36.02 3.86
2324 23840 4.345257 ACAGGCACTACTTATACCATCTGG 59.655 45.833 0.00 0.00 36.02 3.86
2325 23841 5.537300 ACAGGCACTACTTATACCATCTG 57.463 43.478 0.00 0.00 36.02 2.90
2327 23843 6.183360 TGGTTACAGGCACTACTTATACCATC 60.183 42.308 0.00 0.00 36.02 3.51
2328 23844 5.664006 TGGTTACAGGCACTACTTATACCAT 59.336 40.000 0.00 0.00 36.02 3.55
2329 23845 5.024785 TGGTTACAGGCACTACTTATACCA 58.975 41.667 0.00 0.00 36.02 3.25
2330 23846 5.603170 TGGTTACAGGCACTACTTATACC 57.397 43.478 0.00 0.00 36.02 2.73
2331 23847 6.812998 TGATGGTTACAGGCACTACTTATAC 58.187 40.000 0.00 0.00 36.02 1.47
2332 23848 7.426606 TTGATGGTTACAGGCACTACTTATA 57.573 36.000 0.00 0.00 36.02 0.98
2333 23849 5.950544 TGATGGTTACAGGCACTACTTAT 57.049 39.130 0.00 0.00 36.02 1.73
2334 23850 5.748670 TTGATGGTTACAGGCACTACTTA 57.251 39.130 0.00 0.00 36.02 2.24
2335 23851 4.634012 TTGATGGTTACAGGCACTACTT 57.366 40.909 0.00 0.00 36.02 2.24
2336 23852 4.225042 TGATTGATGGTTACAGGCACTACT 59.775 41.667 0.00 0.00 36.02 2.57
2337 23853 4.513442 TGATTGATGGTTACAGGCACTAC 58.487 43.478 0.00 0.00 36.02 2.73
2338 23854 4.835284 TGATTGATGGTTACAGGCACTA 57.165 40.909 0.00 0.00 36.02 2.74
2339 23855 3.719268 TGATTGATGGTTACAGGCACT 57.281 42.857 0.00 0.00 43.88 4.40
2340 23856 4.989279 ATTGATTGATGGTTACAGGCAC 57.011 40.909 0.00 0.00 0.00 5.01
2342 23858 5.822519 TCTGTATTGATTGATGGTTACAGGC 59.177 40.000 7.75 0.00 37.93 4.85
2343 23859 7.275183 TCTCTGTATTGATTGATGGTTACAGG 58.725 38.462 7.75 1.07 37.93 4.00
2344 23860 8.899427 ATCTCTGTATTGATTGATGGTTACAG 57.101 34.615 0.00 0.00 38.44 2.74
2345 23861 9.685276 AAATCTCTGTATTGATTGATGGTTACA 57.315 29.630 0.00 0.00 33.72 2.41
2349 23865 9.911788 AGTAAAATCTCTGTATTGATTGATGGT 57.088 29.630 0.00 0.00 33.72 3.55
2360 23876 8.622157 TCGAGATCGAAAGTAAAATCTCTGTAT 58.378 33.333 1.76 0.00 46.30 2.29
2361 23877 7.982224 TCGAGATCGAAAGTAAAATCTCTGTA 58.018 34.615 1.76 0.00 46.30 2.74
2362 23878 6.853720 TCGAGATCGAAAGTAAAATCTCTGT 58.146 36.000 1.76 0.00 46.30 3.41
2378 23894 2.459324 CGTGATAACGTGTTCGAGATCG 59.541 50.000 0.00 0.00 40.62 3.69
2379 23895 2.213575 GCGTGATAACGTGTTCGAGATC 59.786 50.000 4.14 0.00 40.62 2.75
2380 23896 2.182825 GCGTGATAACGTGTTCGAGAT 58.817 47.619 4.14 0.00 40.62 2.75
2382 23898 1.057285 GTGCGTGATAACGTGTTCGAG 59.943 52.381 4.14 0.00 40.62 4.04
2384 23900 0.779408 TGTGCGTGATAACGTGTTCG 59.221 50.000 4.14 0.00 43.34 3.95
2385 23901 3.855379 TCTATGTGCGTGATAACGTGTTC 59.145 43.478 4.14 0.00 35.26 3.18
2386 23902 3.840468 TCTATGTGCGTGATAACGTGTT 58.160 40.909 4.14 0.00 35.26 3.32
2388 23904 3.610677 TGTTCTATGTGCGTGATAACGTG 59.389 43.478 4.14 0.00 35.26 4.49
2389 23905 3.840468 TGTTCTATGTGCGTGATAACGT 58.160 40.909 4.14 0.00 35.26 3.99
2390 23906 3.301835 GCTGTTCTATGTGCGTGATAACG 60.302 47.826 0.00 0.00 0.00 3.18
2391 23907 3.001330 GGCTGTTCTATGTGCGTGATAAC 59.999 47.826 0.00 0.00 0.00 1.89
2393 23909 2.167487 TGGCTGTTCTATGTGCGTGATA 59.833 45.455 0.00 0.00 0.00 2.15
2394 23910 1.066215 TGGCTGTTCTATGTGCGTGAT 60.066 47.619 0.00 0.00 0.00 3.06
2395 23911 0.320050 TGGCTGTTCTATGTGCGTGA 59.680 50.000 0.00 0.00 0.00 4.35
2396 23912 0.723414 CTGGCTGTTCTATGTGCGTG 59.277 55.000 0.00 0.00 0.00 5.34
2397 23913 1.021390 GCTGGCTGTTCTATGTGCGT 61.021 55.000 0.00 0.00 0.00 5.24
2399 23915 0.740868 TCGCTGGCTGTTCTATGTGC 60.741 55.000 0.00 0.00 0.00 4.57
2400 23916 1.134995 TCTCGCTGGCTGTTCTATGTG 60.135 52.381 0.00 0.00 0.00 3.21
2401 23917 1.135915 CTCTCGCTGGCTGTTCTATGT 59.864 52.381 0.00 0.00 0.00 2.29
2402 23918 1.850377 CTCTCGCTGGCTGTTCTATG 58.150 55.000 0.00 0.00 0.00 2.23
2404 23920 1.513158 GCTCTCGCTGGCTGTTCTA 59.487 57.895 0.00 0.00 0.00 2.10
2407 23923 2.715532 TTTCGCTCTCGCTGGCTGTT 62.716 55.000 0.00 0.00 35.26 3.16
2409 23925 1.568612 TTTTTCGCTCTCGCTGGCTG 61.569 55.000 0.00 0.00 35.26 4.85
2410 23926 1.294659 CTTTTTCGCTCTCGCTGGCT 61.295 55.000 0.00 0.00 35.26 4.75
2411 23927 1.133458 CTTTTTCGCTCTCGCTGGC 59.867 57.895 0.00 0.00 35.26 4.85
2412 23928 1.790387 CCTTTTTCGCTCTCGCTGG 59.210 57.895 0.00 0.00 35.26 4.85
2413 23929 1.133458 GCCTTTTTCGCTCTCGCTG 59.867 57.895 0.00 0.00 35.26 5.18
2414 23930 0.884704 TTGCCTTTTTCGCTCTCGCT 60.885 50.000 0.00 0.00 35.26 4.93
2415 23931 0.726118 GTTGCCTTTTTCGCTCTCGC 60.726 55.000 0.00 0.00 35.26 5.03
2417 23933 1.873591 TCTGTTGCCTTTTTCGCTCTC 59.126 47.619 0.00 0.00 0.00 3.20
2418 23934 1.876156 CTCTGTTGCCTTTTTCGCTCT 59.124 47.619 0.00 0.00 0.00 4.09
2419 23935 1.873591 TCTCTGTTGCCTTTTTCGCTC 59.126 47.619 0.00 0.00 0.00 5.03
2420 23936 1.876156 CTCTCTGTTGCCTTTTTCGCT 59.124 47.619 0.00 0.00 0.00 4.93
2421 23937 1.873591 TCTCTCTGTTGCCTTTTTCGC 59.126 47.619 0.00 0.00 0.00 4.70
2422 23938 2.481952 CCTCTCTCTGTTGCCTTTTTCG 59.518 50.000 0.00 0.00 0.00 3.46
2423 23939 3.744660 TCCTCTCTCTGTTGCCTTTTTC 58.255 45.455 0.00 0.00 0.00 2.29
2424 23940 3.137360 ACTCCTCTCTCTGTTGCCTTTTT 59.863 43.478 0.00 0.00 0.00 1.94
2425 23941 2.708325 ACTCCTCTCTCTGTTGCCTTTT 59.292 45.455 0.00 0.00 0.00 2.27
2426 23942 2.301583 GACTCCTCTCTCTGTTGCCTTT 59.698 50.000 0.00 0.00 0.00 3.11
2427 23943 1.899142 GACTCCTCTCTCTGTTGCCTT 59.101 52.381 0.00 0.00 0.00 4.35
2428 23944 1.555967 GACTCCTCTCTCTGTTGCCT 58.444 55.000 0.00 0.00 0.00 4.75
2430 23946 1.132262 CTCGACTCCTCTCTCTGTTGC 59.868 57.143 0.00 0.00 0.00 4.17
2431 23947 2.677836 CTCTCGACTCCTCTCTCTGTTG 59.322 54.545 0.00 0.00 0.00 3.33
2432 23948 2.355716 CCTCTCGACTCCTCTCTCTGTT 60.356 54.545 0.00 0.00 0.00 3.16
2433 23949 1.209504 CCTCTCGACTCCTCTCTCTGT 59.790 57.143 0.00 0.00 0.00 3.41
2434 23950 1.475034 CCCTCTCGACTCCTCTCTCTG 60.475 61.905 0.00 0.00 0.00 3.35
2435 23951 0.837272 CCCTCTCGACTCCTCTCTCT 59.163 60.000 0.00 0.00 0.00 3.10
2436 23952 0.834612 TCCCTCTCGACTCCTCTCTC 59.165 60.000 0.00 0.00 0.00 3.20
2437 23953 0.837272 CTCCCTCTCGACTCCTCTCT 59.163 60.000 0.00 0.00 0.00 3.10
2438 23954 0.818040 GCTCCCTCTCGACTCCTCTC 60.818 65.000 0.00 0.00 0.00 3.20
2439 23955 1.226262 GCTCCCTCTCGACTCCTCT 59.774 63.158 0.00 0.00 0.00 3.69
2440 23956 1.077357 TGCTCCCTCTCGACTCCTC 60.077 63.158 0.00 0.00 0.00 3.71
2441 23957 1.379309 GTGCTCCCTCTCGACTCCT 60.379 63.158 0.00 0.00 0.00 3.69
2442 23958 1.379309 AGTGCTCCCTCTCGACTCC 60.379 63.158 0.00 0.00 0.00 3.85
2443 23959 2.103410 GAGTGCTCCCTCTCGACTC 58.897 63.158 0.00 0.00 0.00 3.36
2444 23960 4.329831 GAGTGCTCCCTCTCGACT 57.670 61.111 0.00 0.00 0.00 4.18
2448 23964 4.200283 CGGCGAGTGCTCCCTCTC 62.200 72.222 0.00 0.00 42.25 3.20
2455 23971 4.760047 AAATCGGCGGCGAGTGCT 62.760 61.111 36.74 19.76 42.25 4.40
2456 23972 4.223964 GAAATCGGCGGCGAGTGC 62.224 66.667 36.74 30.80 41.71 4.40
2457 23973 1.226859 TAGAAATCGGCGGCGAGTG 60.227 57.895 36.74 7.82 0.00 3.51
2458 23974 1.226888 GTAGAAATCGGCGGCGAGT 60.227 57.895 36.74 33.04 0.00 4.18
2459 23975 1.209275 CTGTAGAAATCGGCGGCGAG 61.209 60.000 36.74 18.42 0.00 5.03
2460 23976 1.226859 CTGTAGAAATCGGCGGCGA 60.227 57.895 36.40 36.40 0.00 5.54
2461 23977 2.237751 CCTGTAGAAATCGGCGGCG 61.238 63.158 27.15 27.15 0.00 6.46
2462 23978 1.887707 CCCTGTAGAAATCGGCGGC 60.888 63.158 7.21 0.00 0.00 6.53
2463 23979 0.529992 GTCCCTGTAGAAATCGGCGG 60.530 60.000 7.21 0.00 0.00 6.13
2464 23980 0.174845 TGTCCCTGTAGAAATCGGCG 59.825 55.000 0.00 0.00 0.00 6.46
2465 23981 2.396590 TTGTCCCTGTAGAAATCGGC 57.603 50.000 0.00 0.00 0.00 5.54
2466 23982 4.122776 CAGATTGTCCCTGTAGAAATCGG 58.877 47.826 0.00 0.00 33.47 4.18
2467 23983 5.011090 TCAGATTGTCCCTGTAGAAATCG 57.989 43.478 0.00 0.00 33.47 3.34
2468 23984 5.762218 CCATCAGATTGTCCCTGTAGAAATC 59.238 44.000 0.00 0.00 33.57 2.17
2469 23985 5.429762 TCCATCAGATTGTCCCTGTAGAAAT 59.570 40.000 0.00 0.00 33.57 2.17
2470 23986 4.782691 TCCATCAGATTGTCCCTGTAGAAA 59.217 41.667 0.00 0.00 33.57 2.52
2471 23987 4.361783 TCCATCAGATTGTCCCTGTAGAA 58.638 43.478 0.00 0.00 33.57 2.10
2472 23988 3.994317 TCCATCAGATTGTCCCTGTAGA 58.006 45.455 0.00 0.00 33.57 2.59
2473 23989 4.346127 TCATCCATCAGATTGTCCCTGTAG 59.654 45.833 0.00 0.00 30.59 2.74
2474 23990 4.297768 TCATCCATCAGATTGTCCCTGTA 58.702 43.478 0.00 0.00 30.59 2.74
2475 23991 3.117745 TCATCCATCAGATTGTCCCTGT 58.882 45.455 0.00 0.00 30.59 4.00
2476 23992 3.496337 CCTCATCCATCAGATTGTCCCTG 60.496 52.174 0.00 0.00 30.59 4.45
2477 23993 2.709934 CCTCATCCATCAGATTGTCCCT 59.290 50.000 0.00 0.00 30.59 4.20
2478 23994 2.707791 TCCTCATCCATCAGATTGTCCC 59.292 50.000 0.00 0.00 30.59 4.46
2479 23995 4.428294 TTCCTCATCCATCAGATTGTCC 57.572 45.455 0.00 0.00 30.59 4.02


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

AutoCloner maintained by Alex Coulton.