Multiple sequence alignment - TraesCS5B01G262100

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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 TraesCS5B01G262100 chr5B 100.000 2105 0 0 1 2105 446570813 446572917 0.000000e+00 3888.0
1 TraesCS5B01G262100 chr5A 95.700 1000 34 7 1 993 481106139 481107136 0.000000e+00 1600.0
2 TraesCS5B01G262100 chr5A 88.660 291 19 9 1765 2042 481108407 481108696 2.000000e-90 342.0
3 TraesCS5B01G262100 chr5A 89.498 219 14 2 1422 1633 481107674 481107890 3.440000e-68 268.0
4 TraesCS5B01G262100 chr5A 96.000 150 5 1 1271 1419 481107152 481107301 2.090000e-60 243.0
5 TraesCS5B01G262100 chr5A 98.374 123 2 0 1631 1753 481108023 481108145 1.260000e-52 217.0
6 TraesCS5B01G262100 chr2D 98.592 284 3 1 993 1275 638430350 638430633 3.120000e-138 501.0
7 TraesCS5B01G262100 chr2D 92.500 40 3 0 1519 1558 634834370 634834409 8.110000e-05 58.4
8 TraesCS5B01G262100 chr3B 98.246 285 3 2 993 1275 796327847 796328131 4.030000e-137 497.0
9 TraesCS5B01G262100 chr5D 98.239 284 4 1 993 1275 6170990 6170707 1.450000e-136 496.0
10 TraesCS5B01G262100 chr5D 98.239 284 4 1 993 1275 503297825 503298108 1.450000e-136 496.0
11 TraesCS5B01G262100 chr5D 97.887 284 5 1 993 1275 6270056 6269773 6.750000e-135 490.0
12 TraesCS5B01G262100 chr1D 98.239 284 3 2 993 1275 254440961 254441243 1.450000e-136 496.0
13 TraesCS5B01G262100 chr1D 96.831 284 8 1 993 1275 51866024 51865741 6.800000e-130 473.0
14 TraesCS5B01G262100 chr4B 97.887 284 5 1 993 1275 308673849 308673566 6.750000e-135 490.0
15 TraesCS5B01G262100 chr3D 97.183 284 5 3 993 1275 323520971 323521252 5.250000e-131 477.0
16 TraesCS5B01G262100 chr2A 95.000 40 2 0 1518 1557 387646809 387646848 1.740000e-06 63.9


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 TraesCS5B01G262100 chr5B 446570813 446572917 2104 False 3888 3888 100.0000 1 2105 1 chr5B.!!$F1 2104
1 TraesCS5B01G262100 chr5A 481106139 481108696 2557 False 534 1600 93.6464 1 2042 5 chr5A.!!$F1 2041

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
77 78 0.178967 TTTGTCAGCCATTGCCTCCA 60.179 50.0 0.0 0.0 38.69 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2075 2874 0.109689 GTGCTGCTAAGACGACTCGT 60.11 55.0 3.08 3.08 45.1 4.18 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
24 25 0.890996 CCTTGGAGGTGGAACTGTGC 60.891 60.000 0.00 0.00 36.74 4.57
26 27 1.347707 CTTGGAGGTGGAACTGTGCTA 59.652 52.381 0.00 0.00 36.74 3.49
33 34 1.127567 TGGAACTGTGCTACTGCCCT 61.128 55.000 0.00 0.00 38.71 5.19
44 45 4.402474 GTGCTACTGCCCTCCATTTAAAAT 59.598 41.667 0.00 0.00 38.71 1.82
45 46 5.022787 TGCTACTGCCCTCCATTTAAAATT 58.977 37.500 0.00 0.00 38.71 1.82
46 47 5.483583 TGCTACTGCCCTCCATTTAAAATTT 59.516 36.000 0.00 0.00 38.71 1.82
47 48 6.013812 TGCTACTGCCCTCCATTTAAAATTTT 60.014 34.615 8.75 8.75 38.71 1.82
69 70 5.549742 TTCATTTTCCTTTTGTCAGCCAT 57.450 34.783 0.00 0.00 0.00 4.40
77 78 0.178967 TTTGTCAGCCATTGCCTCCA 60.179 50.000 0.00 0.00 38.69 3.86
79 80 0.609957 TGTCAGCCATTGCCTCCAAG 60.610 55.000 0.00 0.00 38.69 3.61
80 81 0.610232 GTCAGCCATTGCCTCCAAGT 60.610 55.000 0.00 0.00 38.69 3.16
82 83 1.354031 TCAGCCATTGCCTCCAAGTTA 59.646 47.619 0.00 0.00 38.69 2.24
83 84 1.474077 CAGCCATTGCCTCCAAGTTAC 59.526 52.381 0.00 0.00 38.69 2.50
85 86 1.616994 GCCATTGCCTCCAAGTTACCT 60.617 52.381 0.00 0.00 33.80 3.08
111 113 4.044308 TCTGCCTCACATCCCCTTTTATA 58.956 43.478 0.00 0.00 0.00 0.98
166 168 6.625740 GCATGTAAAATTCATGGCTACTGTGT 60.626 38.462 7.49 0.00 41.77 3.72
169 171 7.390823 TGTAAAATTCATGGCTACTGTGTCTA 58.609 34.615 0.00 0.00 0.00 2.59
170 172 7.880713 TGTAAAATTCATGGCTACTGTGTCTAA 59.119 33.333 0.00 0.00 0.00 2.10
171 173 6.992063 AAATTCATGGCTACTGTGTCTAAG 57.008 37.500 0.00 0.00 0.00 2.18
172 174 4.471904 TTCATGGCTACTGTGTCTAAGG 57.528 45.455 0.00 0.00 0.00 2.69
174 176 4.290093 TCATGGCTACTGTGTCTAAGGAT 58.710 43.478 0.00 0.00 0.00 3.24
257 262 5.537188 TGTTGTTTGAAATGGAAGTATGCC 58.463 37.500 0.00 0.00 0.00 4.40
377 382 9.660180 AGAACTAAGTATCAAATTTCTCTCCAC 57.340 33.333 0.00 0.00 0.00 4.02
600 606 5.511888 CCCTCCAAAATTTGCAGAAGACAAT 60.512 40.000 0.00 0.00 0.00 2.71
763 769 6.531503 TGTTCACTAACCCAAAATTTGTGA 57.468 33.333 4.92 0.00 39.14 3.58
855 861 7.772292 GCATGGAGGAGATTATTGCTGATTATA 59.228 37.037 0.00 0.00 0.00 0.98
867 873 3.694072 TGCTGATTATAAAAGTGGCGCTT 59.306 39.130 7.64 7.64 39.52 4.68
995 1002 6.753913 ATATCAAGTGAGGAAGGCATAAGA 57.246 37.500 0.00 0.00 0.00 2.10
996 1003 4.478206 TCAAGTGAGGAAGGCATAAGAG 57.522 45.455 0.00 0.00 0.00 2.85
997 1004 3.198635 TCAAGTGAGGAAGGCATAAGAGG 59.801 47.826 0.00 0.00 0.00 3.69
998 1005 2.839228 AGTGAGGAAGGCATAAGAGGT 58.161 47.619 0.00 0.00 0.00 3.85
1000 1007 4.362677 AGTGAGGAAGGCATAAGAGGTTA 58.637 43.478 0.00 0.00 0.00 2.85
1001 1008 4.971924 AGTGAGGAAGGCATAAGAGGTTAT 59.028 41.667 0.00 0.00 0.00 1.89
1003 1010 4.103153 TGAGGAAGGCATAAGAGGTTATGG 59.897 45.833 7.14 0.00 44.06 2.74
1004 1011 4.307259 AGGAAGGCATAAGAGGTTATGGA 58.693 43.478 7.14 0.00 44.06 3.41
1005 1012 4.726825 AGGAAGGCATAAGAGGTTATGGAA 59.273 41.667 7.14 0.00 44.06 3.53
1006 1013 5.066593 GGAAGGCATAAGAGGTTATGGAAG 58.933 45.833 7.14 0.00 44.06 3.46
1007 1014 5.398012 GGAAGGCATAAGAGGTTATGGAAGT 60.398 44.000 7.14 0.00 44.06 3.01
1008 1015 5.297569 AGGCATAAGAGGTTATGGAAGTC 57.702 43.478 7.14 0.00 44.06 3.01
1009 1016 4.721776 AGGCATAAGAGGTTATGGAAGTCA 59.278 41.667 7.14 0.00 44.06 3.41
1010 1017 5.191722 AGGCATAAGAGGTTATGGAAGTCAA 59.808 40.000 7.14 0.00 44.06 3.18
1011 1018 6.064717 GGCATAAGAGGTTATGGAAGTCAAT 58.935 40.000 7.14 0.00 44.06 2.57
1012 1019 7.072454 AGGCATAAGAGGTTATGGAAGTCAATA 59.928 37.037 7.14 0.00 44.06 1.90
1013 1020 7.885399 GGCATAAGAGGTTATGGAAGTCAATAT 59.115 37.037 7.14 0.00 44.06 1.28
1014 1021 9.289782 GCATAAGAGGTTATGGAAGTCAATATT 57.710 33.333 7.14 0.00 44.06 1.28
1018 1025 7.437748 AGAGGTTATGGAAGTCAATATTCTCG 58.562 38.462 0.00 0.00 0.00 4.04
1019 1026 5.992217 AGGTTATGGAAGTCAATATTCTCGC 59.008 40.000 0.00 0.00 0.00 5.03
1020 1027 5.758296 GGTTATGGAAGTCAATATTCTCGCA 59.242 40.000 0.00 0.00 0.00 5.10
1021 1028 6.428159 GGTTATGGAAGTCAATATTCTCGCAT 59.572 38.462 0.00 0.00 0.00 4.73
1022 1029 7.041098 GGTTATGGAAGTCAATATTCTCGCATT 60.041 37.037 0.00 0.00 0.00 3.56
1023 1030 6.949352 ATGGAAGTCAATATTCTCGCATTT 57.051 33.333 0.00 0.00 0.00 2.32
1024 1031 9.554395 TTATGGAAGTCAATATTCTCGCATTTA 57.446 29.630 0.00 0.00 0.00 1.40
1025 1032 8.627208 ATGGAAGTCAATATTCTCGCATTTAT 57.373 30.769 0.00 0.00 0.00 1.40
1026 1033 8.450578 TGGAAGTCAATATTCTCGCATTTATT 57.549 30.769 0.00 0.00 0.00 1.40
1027 1034 8.344831 TGGAAGTCAATATTCTCGCATTTATTG 58.655 33.333 0.00 0.00 34.73 1.90
1046 1053 3.407424 TGCTACTGCACTGTTCATTCT 57.593 42.857 0.00 0.00 45.31 2.40
1047 1054 4.535526 TGCTACTGCACTGTTCATTCTA 57.464 40.909 0.00 0.00 45.31 2.10
1048 1055 4.498241 TGCTACTGCACTGTTCATTCTAG 58.502 43.478 0.00 0.00 45.31 2.43
1049 1056 4.021104 TGCTACTGCACTGTTCATTCTAGT 60.021 41.667 0.00 0.00 45.31 2.57
1050 1057 4.932200 GCTACTGCACTGTTCATTCTAGTT 59.068 41.667 0.00 0.00 39.41 2.24
1051 1058 5.062809 GCTACTGCACTGTTCATTCTAGTTC 59.937 44.000 0.00 0.00 39.41 3.01
1052 1059 4.319177 ACTGCACTGTTCATTCTAGTTCC 58.681 43.478 0.00 0.00 0.00 3.62
1053 1060 4.040952 ACTGCACTGTTCATTCTAGTTCCT 59.959 41.667 0.00 0.00 0.00 3.36
1054 1061 5.246203 ACTGCACTGTTCATTCTAGTTCCTA 59.754 40.000 0.00 0.00 0.00 2.94
1055 1062 5.479306 TGCACTGTTCATTCTAGTTCCTAC 58.521 41.667 0.00 0.00 0.00 3.18
1056 1063 5.246203 TGCACTGTTCATTCTAGTTCCTACT 59.754 40.000 0.00 0.00 38.44 2.57
1057 1064 6.166982 GCACTGTTCATTCTAGTTCCTACTT 58.833 40.000 0.00 0.00 35.78 2.24
1058 1065 6.311690 GCACTGTTCATTCTAGTTCCTACTTC 59.688 42.308 0.00 0.00 35.78 3.01
1059 1066 7.607250 CACTGTTCATTCTAGTTCCTACTTCT 58.393 38.462 0.00 0.00 35.78 2.85
1060 1067 8.091449 CACTGTTCATTCTAGTTCCTACTTCTT 58.909 37.037 0.00 0.00 35.78 2.52
1061 1068 8.652290 ACTGTTCATTCTAGTTCCTACTTCTTT 58.348 33.333 0.00 0.00 35.78 2.52
1062 1069 9.495572 CTGTTCATTCTAGTTCCTACTTCTTTT 57.504 33.333 0.00 0.00 35.78 2.27
1063 1070 9.847224 TGTTCATTCTAGTTCCTACTTCTTTTT 57.153 29.630 0.00 0.00 35.78 1.94
1098 1105 9.777297 ATTTATGTAAAAACAGTCAGCCAAATT 57.223 25.926 0.00 0.00 0.00 1.82
1102 1109 9.777297 ATGTAAAAACAGTCAGCCAAATTAATT 57.223 25.926 0.00 0.00 0.00 1.40
1108 1115 8.776376 AACAGTCAGCCAAATTAATTAATTGG 57.224 30.769 21.23 21.87 36.14 3.16
1109 1116 8.133024 ACAGTCAGCCAAATTAATTAATTGGA 57.867 30.769 26.65 16.88 36.14 3.53
1110 1117 8.592809 ACAGTCAGCCAAATTAATTAATTGGAA 58.407 29.630 26.65 16.16 36.14 3.53
1111 1118 9.603921 CAGTCAGCCAAATTAATTAATTGGAAT 57.396 29.630 26.65 17.91 36.14 3.01
1114 1121 9.612066 TCAGCCAAATTAATTAATTGGAATTCC 57.388 29.630 26.65 18.17 36.14 3.01
1115 1122 9.393512 CAGCCAAATTAATTAATTGGAATTCCA 57.606 29.630 23.63 23.63 45.94 3.53
1180 1187 9.539194 AAATCCAAGTCTTAAATGAAAGGATCT 57.461 29.630 0.00 0.00 32.53 2.75
1181 1188 7.928307 TCCAAGTCTTAAATGAAAGGATCTG 57.072 36.000 0.00 0.00 0.00 2.90
1182 1189 6.886459 TCCAAGTCTTAAATGAAAGGATCTGG 59.114 38.462 0.00 0.00 0.00 3.86
1183 1190 6.660949 CCAAGTCTTAAATGAAAGGATCTGGT 59.339 38.462 0.00 0.00 0.00 4.00
1184 1191 7.177392 CCAAGTCTTAAATGAAAGGATCTGGTT 59.823 37.037 0.00 0.00 0.00 3.67
1185 1192 7.693969 AGTCTTAAATGAAAGGATCTGGTTG 57.306 36.000 0.00 0.00 0.00 3.77
1186 1193 6.660949 AGTCTTAAATGAAAGGATCTGGTTGG 59.339 38.462 0.00 0.00 0.00 3.77
1187 1194 6.659242 GTCTTAAATGAAAGGATCTGGTTGGA 59.341 38.462 0.00 0.00 0.00 3.53
1188 1195 7.176690 GTCTTAAATGAAAGGATCTGGTTGGAA 59.823 37.037 0.00 0.00 0.00 3.53
1189 1196 7.895429 TCTTAAATGAAAGGATCTGGTTGGAAT 59.105 33.333 0.00 0.00 0.00 3.01
1190 1197 6.535963 AAATGAAAGGATCTGGTTGGAATC 57.464 37.500 0.00 0.00 0.00 2.52
1191 1198 4.934797 TGAAAGGATCTGGTTGGAATCT 57.065 40.909 0.00 0.00 0.00 2.40
1192 1199 4.592942 TGAAAGGATCTGGTTGGAATCTG 58.407 43.478 0.00 0.00 0.00 2.90
1193 1200 4.289410 TGAAAGGATCTGGTTGGAATCTGA 59.711 41.667 0.00 0.00 0.00 3.27
1194 1201 4.934797 AAGGATCTGGTTGGAATCTGAA 57.065 40.909 0.00 0.00 0.00 3.02
1195 1202 4.934797 AGGATCTGGTTGGAATCTGAAA 57.065 40.909 0.00 0.00 0.00 2.69
1196 1203 4.853007 AGGATCTGGTTGGAATCTGAAAG 58.147 43.478 0.00 0.00 0.00 2.62
1197 1204 4.290722 AGGATCTGGTTGGAATCTGAAAGT 59.709 41.667 0.00 0.00 33.76 2.66
1198 1205 4.397417 GGATCTGGTTGGAATCTGAAAGTG 59.603 45.833 0.00 0.00 33.76 3.16
1199 1206 4.437682 TCTGGTTGGAATCTGAAAGTGT 57.562 40.909 0.00 0.00 33.76 3.55
1200 1207 4.136796 TCTGGTTGGAATCTGAAAGTGTG 58.863 43.478 0.00 0.00 33.76 3.82
1201 1208 3.221771 TGGTTGGAATCTGAAAGTGTGG 58.778 45.455 0.00 0.00 33.76 4.17
1202 1209 3.222603 GGTTGGAATCTGAAAGTGTGGT 58.777 45.455 0.00 0.00 33.76 4.16
1203 1210 4.141367 TGGTTGGAATCTGAAAGTGTGGTA 60.141 41.667 0.00 0.00 33.76 3.25
1204 1211 4.215613 GGTTGGAATCTGAAAGTGTGGTAC 59.784 45.833 0.00 0.00 33.76 3.34
1205 1212 4.698201 TGGAATCTGAAAGTGTGGTACA 57.302 40.909 0.00 0.00 33.76 2.90
1206 1213 5.042463 TGGAATCTGAAAGTGTGGTACAA 57.958 39.130 0.00 0.00 35.38 2.41
1207 1214 5.441500 TGGAATCTGAAAGTGTGGTACAAA 58.558 37.500 0.00 0.00 35.38 2.83
1208 1215 5.530915 TGGAATCTGAAAGTGTGGTACAAAG 59.469 40.000 0.00 0.00 35.38 2.77
1209 1216 5.763204 GGAATCTGAAAGTGTGGTACAAAGA 59.237 40.000 0.00 0.00 35.38 2.52
1210 1217 6.262273 GGAATCTGAAAGTGTGGTACAAAGAA 59.738 38.462 0.00 0.00 35.38 2.52
1211 1218 6.619801 ATCTGAAAGTGTGGTACAAAGAAC 57.380 37.500 0.00 0.00 35.38 3.01
1212 1219 5.741011 TCTGAAAGTGTGGTACAAAGAACT 58.259 37.500 0.00 0.00 35.38 3.01
1213 1220 6.880484 TCTGAAAGTGTGGTACAAAGAACTA 58.120 36.000 0.00 0.00 35.38 2.24
1214 1221 6.759827 TCTGAAAGTGTGGTACAAAGAACTAC 59.240 38.462 0.00 0.00 35.38 2.73
1215 1222 6.408035 TGAAAGTGTGGTACAAAGAACTACA 58.592 36.000 0.00 0.00 44.16 2.74
1216 1223 7.051623 TGAAAGTGTGGTACAAAGAACTACAT 58.948 34.615 0.00 0.00 44.16 2.29
1217 1224 8.205512 TGAAAGTGTGGTACAAAGAACTACATA 58.794 33.333 0.00 0.00 44.16 2.29
1218 1225 9.216117 GAAAGTGTGGTACAAAGAACTACATAT 57.784 33.333 0.00 0.00 44.16 1.78
1220 1227 9.871238 AAGTGTGGTACAAAGAACTACATATAG 57.129 33.333 0.00 0.00 44.16 1.31
1221 1228 9.032624 AGTGTGGTACAAAGAACTACATATAGT 57.967 33.333 0.00 0.00 44.16 2.12
1249 1256 9.760077 TTTTCTACGACACTTTAGATTCTTTCT 57.240 29.630 0.00 0.00 38.57 2.52
1338 1345 1.102978 CATTAGGGGAACAAAGGGCG 58.897 55.000 0.00 0.00 0.00 6.13
1356 1363 1.268999 GCGTGTTTGAATGGCAGACAA 60.269 47.619 0.00 0.00 42.46 3.18
1366 1373 6.061022 TGAATGGCAGACAAAGTATCCTTA 57.939 37.500 0.00 0.00 0.00 2.69
1389 1396 5.033589 TCAAACTTGCCATGACCAAAAAT 57.966 34.783 0.00 0.00 0.00 1.82
1390 1397 6.166984 TCAAACTTGCCATGACCAAAAATA 57.833 33.333 0.00 0.00 0.00 1.40
1401 1409 6.145371 CCATGACCAAAAATAGGTTTGTTTCG 59.855 38.462 0.00 0.00 40.09 3.46
1419 1427 0.581053 CGTTGGTTGCCAATTGTTGC 59.419 50.000 4.43 2.10 45.80 4.17
1420 1428 0.943673 GTTGGTTGCCAATTGTTGCC 59.056 50.000 4.43 2.04 45.80 4.52
1454 1832 2.684881 AGATCTTGCGGCCAAGTATTTG 59.315 45.455 2.24 0.00 46.74 2.32
1485 1870 1.334869 CGATTGCTATGAGGTTTGGGC 59.665 52.381 0.00 0.00 0.00 5.36
1488 1873 0.034186 TGCTATGAGGTTTGGGCCTG 60.034 55.000 4.53 0.00 39.34 4.85
1495 1880 1.285078 GAGGTTTGGGCCTGGTTCTAT 59.715 52.381 4.53 0.00 39.34 1.98
1540 1925 0.035630 AGCAGAAGGCCACAGCTTAG 60.036 55.000 5.01 0.00 46.50 2.18
1549 1934 0.320771 CCACAGCTTAGAGCAACGGT 60.321 55.000 2.47 0.00 45.56 4.83
1579 1964 9.930693 TTAAGGAAGCTTAAGTGTTTTGAAAAA 57.069 25.926 0.00 0.00 0.00 1.94
1714 2234 4.142902 ACTCGTATGCAACAAACTATGTGC 60.143 41.667 0.00 0.00 42.99 4.57
1756 2276 5.341872 AATTGGCGAAATTGATGGAATGA 57.658 34.783 0.00 0.00 37.09 2.57
1757 2277 4.797800 TTGGCGAAATTGATGGAATGAA 57.202 36.364 0.00 0.00 0.00 2.57
1758 2278 4.374843 TGGCGAAATTGATGGAATGAAG 57.625 40.909 0.00 0.00 0.00 3.02
1759 2279 3.118542 GGCGAAATTGATGGAATGAAGC 58.881 45.455 0.00 0.00 0.00 3.86
1761 2281 4.365723 GCGAAATTGATGGAATGAAGCAT 58.634 39.130 0.00 0.00 0.00 3.79
1762 2282 4.208460 GCGAAATTGATGGAATGAAGCATG 59.792 41.667 0.00 0.00 0.00 4.06
1763 2283 4.208460 CGAAATTGATGGAATGAAGCATGC 59.792 41.667 10.51 10.51 0.00 4.06
1775 2545 3.577667 TGAAGCATGCTTATTTGTGTGC 58.422 40.909 32.02 16.65 36.26 4.57
1811 2581 5.805994 AGCGTGCTTAATCTAAGTACTTGTC 59.194 40.000 18.56 0.00 45.45 3.18
1902 2677 4.582240 AGAAATAGCAAAAGCTATGGAGGC 59.418 41.667 10.42 0.67 33.78 4.70
1934 2709 7.669427 ACTTTGTTATTGGCTGATTCATTTCA 58.331 30.769 0.00 0.00 0.00 2.69
1937 2712 7.407393 TGTTATTGGCTGATTCATTTCATGA 57.593 32.000 0.00 0.00 37.55 3.07
1955 2754 9.947433 ATTTCATGAAAACATATGTCCAACATT 57.053 25.926 23.91 0.00 35.64 2.71
1958 2757 7.813627 TCATGAAAACATATGTCCAACATTGTG 59.186 33.333 9.23 4.10 39.88 3.33
1959 2758 7.048629 TGAAAACATATGTCCAACATTGTGT 57.951 32.000 9.23 2.22 39.88 3.72
1960 2759 6.922407 TGAAAACATATGTCCAACATTGTGTG 59.078 34.615 9.23 0.00 39.88 3.82
1961 2760 6.647334 AAACATATGTCCAACATTGTGTGA 57.353 33.333 9.23 0.00 39.88 3.58
1962 2761 6.647334 AACATATGTCCAACATTGTGTGAA 57.353 33.333 9.23 0.00 39.88 3.18
1963 2762 6.647334 ACATATGTCCAACATTGTGTGAAA 57.353 33.333 1.41 0.00 39.88 2.69
1964 2763 6.446318 ACATATGTCCAACATTGTGTGAAAC 58.554 36.000 1.41 0.00 39.88 2.78
1965 2764 6.265196 ACATATGTCCAACATTGTGTGAAACT 59.735 34.615 1.41 0.00 39.88 2.66
1966 2765 4.368874 TGTCCAACATTGTGTGAAACTG 57.631 40.909 0.00 0.00 38.04 3.16
1967 2766 4.013050 TGTCCAACATTGTGTGAAACTGA 58.987 39.130 0.00 0.00 38.04 3.41
1968 2767 4.460731 TGTCCAACATTGTGTGAAACTGAA 59.539 37.500 0.00 0.00 38.04 3.02
1969 2768 5.036737 GTCCAACATTGTGTGAAACTGAAG 58.963 41.667 0.00 0.00 38.04 3.02
1970 2769 4.097741 TCCAACATTGTGTGAAACTGAAGG 59.902 41.667 0.00 0.00 38.04 3.46
1971 2770 4.097741 CCAACATTGTGTGAAACTGAAGGA 59.902 41.667 0.00 0.00 38.04 3.36
1972 2771 5.221303 CCAACATTGTGTGAAACTGAAGGAT 60.221 40.000 0.00 0.00 38.04 3.24
1973 2772 5.443185 ACATTGTGTGAAACTGAAGGATG 57.557 39.130 0.00 0.00 38.04 3.51
1974 2773 4.279169 ACATTGTGTGAAACTGAAGGATGG 59.721 41.667 0.00 0.00 38.04 3.51
1975 2774 2.862541 TGTGTGAAACTGAAGGATGGG 58.137 47.619 0.00 0.00 38.04 4.00
2004 2803 0.660488 TGTGCAACATCGTGTGGAAC 59.340 50.000 0.00 0.00 45.67 3.62
2042 2841 9.059260 TCACTTAACTAAACTAACCAATTGGAC 57.941 33.333 31.22 0.00 38.94 4.02
2043 2842 9.063615 CACTTAACTAAACTAACCAATTGGACT 57.936 33.333 31.22 18.60 38.94 3.85
2044 2843 9.063615 ACTTAACTAAACTAACCAATTGGACTG 57.936 33.333 31.22 19.72 38.94 3.51
2045 2844 8.983702 TTAACTAAACTAACCAATTGGACTGT 57.016 30.769 31.22 20.32 38.94 3.55
2046 2845 7.891498 AACTAAACTAACCAATTGGACTGTT 57.109 32.000 31.22 24.15 38.94 3.16
2047 2846 7.891498 ACTAAACTAACCAATTGGACTGTTT 57.109 32.000 31.22 29.96 37.61 2.83
2048 2847 7.712797 ACTAAACTAACCAATTGGACTGTTTG 58.287 34.615 31.47 26.27 36.48 2.93
2049 2848 6.783708 AAACTAACCAATTGGACTGTTTGA 57.216 33.333 31.22 0.00 38.94 2.69
2050 2849 6.976934 AACTAACCAATTGGACTGTTTGAT 57.023 33.333 31.22 7.60 38.94 2.57
2051 2850 6.331369 ACTAACCAATTGGACTGTTTGATG 57.669 37.500 31.22 10.88 38.94 3.07
2052 2851 3.665745 ACCAATTGGACTGTTTGATGC 57.334 42.857 31.22 0.00 38.94 3.91
2053 2852 2.964464 ACCAATTGGACTGTTTGATGCA 59.036 40.909 31.22 0.00 38.94 3.96
2054 2853 3.243839 ACCAATTGGACTGTTTGATGCAC 60.244 43.478 31.22 0.00 38.94 4.57
2055 2854 3.243805 CCAATTGGACTGTTTGATGCACA 60.244 43.478 20.50 0.00 37.39 4.57
2056 2855 4.370049 CAATTGGACTGTTTGATGCACAA 58.630 39.130 0.00 0.00 36.65 3.33
2057 2856 3.713858 TTGGACTGTTTGATGCACAAG 57.286 42.857 0.00 0.00 39.77 3.16
2058 2857 2.653726 TGGACTGTTTGATGCACAAGT 58.346 42.857 0.00 0.00 39.77 3.16
2059 2858 3.023119 TGGACTGTTTGATGCACAAGTT 58.977 40.909 0.00 0.00 39.77 2.66
2060 2859 3.181488 TGGACTGTTTGATGCACAAGTTG 60.181 43.478 0.00 0.00 39.77 3.16
2061 2860 3.066621 GGACTGTTTGATGCACAAGTTGA 59.933 43.478 10.54 0.00 39.77 3.18
2062 2861 4.032703 ACTGTTTGATGCACAAGTTGAC 57.967 40.909 10.54 1.67 39.77 3.18
2063 2862 3.443329 ACTGTTTGATGCACAAGTTGACA 59.557 39.130 10.54 7.82 39.77 3.58
2064 2863 4.098349 ACTGTTTGATGCACAAGTTGACAT 59.902 37.500 10.54 12.38 39.77 3.06
2065 2864 5.008619 TGTTTGATGCACAAGTTGACATT 57.991 34.783 10.54 0.00 39.77 2.71
2066 2865 5.417811 TGTTTGATGCACAAGTTGACATTT 58.582 33.333 10.54 0.00 39.77 2.32
2067 2866 6.567959 TGTTTGATGCACAAGTTGACATTTA 58.432 32.000 10.54 4.17 39.77 1.40
2068 2867 7.208777 TGTTTGATGCACAAGTTGACATTTAT 58.791 30.769 10.54 0.00 39.77 1.40
2069 2868 7.710044 TGTTTGATGCACAAGTTGACATTTATT 59.290 29.630 10.54 0.00 39.77 1.40
2070 2869 8.550376 GTTTGATGCACAAGTTGACATTTATTT 58.450 29.630 10.54 0.00 39.77 1.40
2071 2870 8.659925 TTGATGCACAAGTTGACATTTATTTT 57.340 26.923 10.54 0.00 34.20 1.82
2072 2871 9.755804 TTGATGCACAAGTTGACATTTATTTTA 57.244 25.926 10.54 0.00 34.20 1.52
2073 2872 9.409312 TGATGCACAAGTTGACATTTATTTTAG 57.591 29.630 10.54 0.00 0.00 1.85
2074 2873 9.410556 GATGCACAAGTTGACATTTATTTTAGT 57.589 29.630 10.54 0.00 0.00 2.24
2076 2875 9.672086 TGCACAAGTTGACATTTATTTTAGTAC 57.328 29.630 10.54 0.00 0.00 2.73
2077 2876 8.837059 GCACAAGTTGACATTTATTTTAGTACG 58.163 33.333 10.54 0.00 0.00 3.67
2082 2881 8.857216 AGTTGACATTTATTTTAGTACGAGTCG 58.143 33.333 11.85 11.85 0.00 4.18
2083 2882 8.642020 GTTGACATTTATTTTAGTACGAGTCGT 58.358 33.333 23.47 23.47 44.35 4.34
2084 2883 8.385789 TGACATTTATTTTAGTACGAGTCGTC 57.614 34.615 23.66 13.72 41.54 4.20
2085 2884 8.239314 TGACATTTATTTTAGTACGAGTCGTCT 58.761 33.333 23.66 19.82 41.54 4.18
2086 2885 8.976986 ACATTTATTTTAGTACGAGTCGTCTT 57.023 30.769 23.66 13.91 41.54 3.01
2089 2888 8.606727 TTTATTTTAGTACGAGTCGTCTTAGC 57.393 34.615 23.66 8.54 41.54 3.09
2090 2889 5.611796 TTTTAGTACGAGTCGTCTTAGCA 57.388 39.130 23.66 0.00 41.54 3.49
2091 2890 4.854361 TTAGTACGAGTCGTCTTAGCAG 57.146 45.455 23.66 0.00 41.54 4.24
2092 2891 1.397692 AGTACGAGTCGTCTTAGCAGC 59.602 52.381 23.66 3.71 41.54 5.25
2093 2892 1.129998 GTACGAGTCGTCTTAGCAGCA 59.870 52.381 23.66 0.00 41.54 4.41
2094 2893 0.109689 ACGAGTCGTCTTAGCAGCAC 60.110 55.000 13.56 0.00 33.69 4.40
2095 2894 0.109735 CGAGTCGTCTTAGCAGCACA 60.110 55.000 3.82 0.00 0.00 4.57
2096 2895 1.623359 GAGTCGTCTTAGCAGCACAG 58.377 55.000 0.00 0.00 0.00 3.66
2097 2896 0.244994 AGTCGTCTTAGCAGCACAGG 59.755 55.000 0.00 0.00 0.00 4.00
2098 2897 0.243907 GTCGTCTTAGCAGCACAGGA 59.756 55.000 0.00 0.00 0.00 3.86
2099 2898 1.134965 GTCGTCTTAGCAGCACAGGAT 60.135 52.381 0.00 0.00 0.00 3.24
2100 2899 1.550524 TCGTCTTAGCAGCACAGGATT 59.449 47.619 0.00 0.00 0.00 3.01
2101 2900 2.028112 TCGTCTTAGCAGCACAGGATTT 60.028 45.455 0.00 0.00 0.00 2.17
2102 2901 2.744202 CGTCTTAGCAGCACAGGATTTT 59.256 45.455 0.00 0.00 0.00 1.82
2103 2902 3.189287 CGTCTTAGCAGCACAGGATTTTT 59.811 43.478 0.00 0.00 0.00 1.94
2104 2903 4.670221 CGTCTTAGCAGCACAGGATTTTTC 60.670 45.833 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 8.093927 TGAAAAATTTTAAATGGAGGGCAGTAG 58.906 33.333 3.34 0.00 0.00 2.57
26 27 6.836242 TGAAAAATTTTAAATGGAGGGCAGT 58.164 32.000 3.34 0.00 0.00 4.40
44 45 6.176183 TGGCTGACAAAAGGAAAATGAAAAA 58.824 32.000 0.00 0.00 0.00 1.94
45 46 5.738909 TGGCTGACAAAAGGAAAATGAAAA 58.261 33.333 0.00 0.00 0.00 2.29
46 47 5.350504 TGGCTGACAAAAGGAAAATGAAA 57.649 34.783 0.00 0.00 0.00 2.69
47 48 5.549742 ATGGCTGACAAAAGGAAAATGAA 57.450 34.783 0.00 0.00 0.00 2.57
79 80 3.955650 TGTGAGGCAGAGTTAGGTAAC 57.044 47.619 0.00 0.00 36.46 2.50
80 81 3.451178 GGATGTGAGGCAGAGTTAGGTAA 59.549 47.826 0.00 0.00 0.00 2.85
82 83 1.834263 GGATGTGAGGCAGAGTTAGGT 59.166 52.381 0.00 0.00 0.00 3.08
83 84 1.139853 GGGATGTGAGGCAGAGTTAGG 59.860 57.143 0.00 0.00 0.00 2.69
85 86 1.204146 GGGGATGTGAGGCAGAGTTA 58.796 55.000 0.00 0.00 0.00 2.24
136 138 3.554324 GCCATGAATTTTACATGCAGCAG 59.446 43.478 0.00 0.00 42.31 4.24
190 195 5.986741 TCGCTTCTTGAGTTGTATGTAACAA 59.013 36.000 0.00 0.00 45.90 2.83
212 217 6.936374 ACAAAAATGAATGTTCTTTGCTTCG 58.064 32.000 6.10 0.00 31.60 3.79
235 240 4.929211 GGGCATACTTCCATTTCAAACAAC 59.071 41.667 0.00 0.00 0.00 3.32
257 262 1.686587 GTGACCCAAAAACAAGAGGGG 59.313 52.381 0.00 0.00 45.83 4.79
377 382 2.485814 GCAGCTCTTCTTTACACAAGGG 59.514 50.000 0.00 0.00 0.00 3.95
435 441 9.255029 AGTAACAATAGAAAATGGCTGGTTATT 57.745 29.630 0.00 0.00 0.00 1.40
440 446 7.156876 TCAAGTAACAATAGAAAATGGCTGG 57.843 36.000 0.00 0.00 0.00 4.85
568 574 3.069289 CAAATTTTGGAGGGCAGAAAGC 58.931 45.455 0.97 0.00 44.65 3.51
698 704 9.926158 TGAACATTCAACTTGCAAATTACATAT 57.074 25.926 0.00 0.00 33.55 1.78
732 738 4.632327 TGGGTTAGTGAACATGTGATGA 57.368 40.909 0.00 0.00 37.29 2.92
779 785 6.919662 CAGCTGTCAGTTGTCACAAAATATTT 59.080 34.615 5.25 0.00 0.00 1.40
780 786 6.441274 CAGCTGTCAGTTGTCACAAAATATT 58.559 36.000 5.25 0.00 0.00 1.28
855 861 0.319813 GGATGCAAAGCGCCACTTTT 60.320 50.000 2.29 0.00 46.73 2.27
964 971 8.097038 TGCCTTCCTCACTTGATATATAATGAC 58.903 37.037 0.00 0.00 0.00 3.06
971 978 7.038729 CCTCTTATGCCTTCCTCACTTGATATA 60.039 40.741 0.00 0.00 0.00 0.86
993 1000 7.437748 CGAGAATATTGACTTCCATAACCTCT 58.562 38.462 0.00 0.00 0.00 3.69
994 1001 6.146347 GCGAGAATATTGACTTCCATAACCTC 59.854 42.308 0.00 0.00 0.00 3.85
995 1002 5.992217 GCGAGAATATTGACTTCCATAACCT 59.008 40.000 0.00 0.00 0.00 3.50
996 1003 5.758296 TGCGAGAATATTGACTTCCATAACC 59.242 40.000 0.00 0.00 0.00 2.85
997 1004 6.844696 TGCGAGAATATTGACTTCCATAAC 57.155 37.500 0.00 0.00 0.00 1.89
998 1005 8.450578 AAATGCGAGAATATTGACTTCCATAA 57.549 30.769 0.00 0.00 0.00 1.90
1000 1007 6.949352 AAATGCGAGAATATTGACTTCCAT 57.051 33.333 0.00 0.00 0.00 3.41
1001 1008 8.344831 CAATAAATGCGAGAATATTGACTTCCA 58.655 33.333 0.00 0.00 37.75 3.53
1003 1010 8.208855 GCAATAAATGCGAGAATATTGACTTC 57.791 34.615 12.63 0.00 46.87 3.01
1027 1034 4.499183 ACTAGAATGAACAGTGCAGTAGC 58.501 43.478 0.00 0.00 42.57 3.58
1028 1035 5.578727 GGAACTAGAATGAACAGTGCAGTAG 59.421 44.000 0.00 0.00 0.00 2.57
1029 1036 5.246203 AGGAACTAGAATGAACAGTGCAGTA 59.754 40.000 0.00 0.00 36.02 2.74
1030 1037 4.040952 AGGAACTAGAATGAACAGTGCAGT 59.959 41.667 0.00 0.00 36.02 4.40
1031 1038 4.573900 AGGAACTAGAATGAACAGTGCAG 58.426 43.478 0.00 0.00 36.02 4.41
1032 1039 4.623932 AGGAACTAGAATGAACAGTGCA 57.376 40.909 0.00 0.00 36.02 4.57
1033 1040 5.725362 AGTAGGAACTAGAATGAACAGTGC 58.275 41.667 0.00 0.00 44.14 4.40
1034 1041 7.607250 AGAAGTAGGAACTAGAATGAACAGTG 58.393 38.462 0.00 0.00 44.14 3.66
1035 1042 7.784470 AGAAGTAGGAACTAGAATGAACAGT 57.216 36.000 0.00 0.00 44.14 3.55
1036 1043 9.495572 AAAAGAAGTAGGAACTAGAATGAACAG 57.504 33.333 0.00 0.00 44.14 3.16
1037 1044 9.847224 AAAAAGAAGTAGGAACTAGAATGAACA 57.153 29.630 0.00 0.00 44.14 3.18
1072 1079 9.777297 AATTTGGCTGACTGTTTTTACATAAAT 57.223 25.926 0.00 0.00 0.00 1.40
1076 1083 9.777297 AATTAATTTGGCTGACTGTTTTTACAT 57.223 25.926 0.00 0.00 0.00 2.29
1082 1089 9.218440 CCAATTAATTAATTTGGCTGACTGTTT 57.782 29.630 18.72 0.00 33.88 2.83
1083 1090 8.592809 TCCAATTAATTAATTTGGCTGACTGTT 58.407 29.630 18.72 0.00 33.88 3.16
1084 1091 8.133024 TCCAATTAATTAATTTGGCTGACTGT 57.867 30.769 18.72 0.00 33.88 3.55
1085 1092 9.603921 ATTCCAATTAATTAATTTGGCTGACTG 57.396 29.630 18.72 7.11 33.88 3.51
1088 1095 9.612066 GGAATTCCAATTAATTAATTTGGCTGA 57.388 29.630 20.04 12.86 33.88 4.26
1089 1096 9.393512 TGGAATTCCAATTAATTAATTTGGCTG 57.606 29.630 25.13 9.58 44.35 4.85
1154 1161 9.539194 AGATCCTTTCATTTAAGACTTGGATTT 57.461 29.630 0.00 0.00 32.66 2.17
1155 1162 8.964772 CAGATCCTTTCATTTAAGACTTGGATT 58.035 33.333 0.00 0.00 32.66 3.01
1156 1163 7.559170 CCAGATCCTTTCATTTAAGACTTGGAT 59.441 37.037 0.00 0.00 34.87 3.41
1157 1164 6.886459 CCAGATCCTTTCATTTAAGACTTGGA 59.114 38.462 0.00 0.00 0.00 3.53
1158 1165 6.660949 ACCAGATCCTTTCATTTAAGACTTGG 59.339 38.462 0.00 0.00 0.00 3.61
1159 1166 7.693969 ACCAGATCCTTTCATTTAAGACTTG 57.306 36.000 0.00 0.00 0.00 3.16
1160 1167 7.177392 CCAACCAGATCCTTTCATTTAAGACTT 59.823 37.037 0.00 0.00 0.00 3.01
1161 1168 6.660949 CCAACCAGATCCTTTCATTTAAGACT 59.339 38.462 0.00 0.00 0.00 3.24
1162 1169 6.659242 TCCAACCAGATCCTTTCATTTAAGAC 59.341 38.462 0.00 0.00 0.00 3.01
1163 1170 6.789268 TCCAACCAGATCCTTTCATTTAAGA 58.211 36.000 0.00 0.00 0.00 2.10
1164 1171 7.466746 TTCCAACCAGATCCTTTCATTTAAG 57.533 36.000 0.00 0.00 0.00 1.85
1165 1172 7.895429 AGATTCCAACCAGATCCTTTCATTTAA 59.105 33.333 0.00 0.00 0.00 1.52
1166 1173 7.340232 CAGATTCCAACCAGATCCTTTCATTTA 59.660 37.037 0.00 0.00 0.00 1.40
1167 1174 6.154021 CAGATTCCAACCAGATCCTTTCATTT 59.846 38.462 0.00 0.00 0.00 2.32
1168 1175 5.655532 CAGATTCCAACCAGATCCTTTCATT 59.344 40.000 0.00 0.00 0.00 2.57
1169 1176 5.044624 TCAGATTCCAACCAGATCCTTTCAT 60.045 40.000 0.00 0.00 0.00 2.57
1170 1177 4.289410 TCAGATTCCAACCAGATCCTTTCA 59.711 41.667 0.00 0.00 0.00 2.69
1171 1178 4.848357 TCAGATTCCAACCAGATCCTTTC 58.152 43.478 0.00 0.00 0.00 2.62
1172 1179 4.934797 TCAGATTCCAACCAGATCCTTT 57.065 40.909 0.00 0.00 0.00 3.11
1173 1180 4.934797 TTCAGATTCCAACCAGATCCTT 57.065 40.909 0.00 0.00 0.00 3.36
1174 1181 4.290722 ACTTTCAGATTCCAACCAGATCCT 59.709 41.667 0.00 0.00 0.00 3.24
1175 1182 4.397417 CACTTTCAGATTCCAACCAGATCC 59.603 45.833 0.00 0.00 0.00 3.36
1176 1183 5.006386 ACACTTTCAGATTCCAACCAGATC 58.994 41.667 0.00 0.00 0.00 2.75
1177 1184 4.763793 CACACTTTCAGATTCCAACCAGAT 59.236 41.667 0.00 0.00 0.00 2.90
1178 1185 4.136796 CACACTTTCAGATTCCAACCAGA 58.863 43.478 0.00 0.00 0.00 3.86
1179 1186 3.254166 CCACACTTTCAGATTCCAACCAG 59.746 47.826 0.00 0.00 0.00 4.00
1180 1187 3.221771 CCACACTTTCAGATTCCAACCA 58.778 45.455 0.00 0.00 0.00 3.67
1181 1188 3.222603 ACCACACTTTCAGATTCCAACC 58.777 45.455 0.00 0.00 0.00 3.77
1182 1189 4.819630 TGTACCACACTTTCAGATTCCAAC 59.180 41.667 0.00 0.00 0.00 3.77
1183 1190 5.042463 TGTACCACACTTTCAGATTCCAA 57.958 39.130 0.00 0.00 0.00 3.53
1184 1191 4.698201 TGTACCACACTTTCAGATTCCA 57.302 40.909 0.00 0.00 0.00 3.53
1185 1192 5.763204 TCTTTGTACCACACTTTCAGATTCC 59.237 40.000 0.00 0.00 0.00 3.01
1186 1193 6.861065 TCTTTGTACCACACTTTCAGATTC 57.139 37.500 0.00 0.00 0.00 2.52
1187 1194 6.828785 AGTTCTTTGTACCACACTTTCAGATT 59.171 34.615 0.00 0.00 0.00 2.40
1188 1195 6.357367 AGTTCTTTGTACCACACTTTCAGAT 58.643 36.000 0.00 0.00 0.00 2.90
1189 1196 5.741011 AGTTCTTTGTACCACACTTTCAGA 58.259 37.500 0.00 0.00 0.00 3.27
1190 1197 6.537301 TGTAGTTCTTTGTACCACACTTTCAG 59.463 38.462 0.00 0.00 0.00 3.02
1191 1198 6.408035 TGTAGTTCTTTGTACCACACTTTCA 58.592 36.000 0.00 0.00 0.00 2.69
1192 1199 6.913873 TGTAGTTCTTTGTACCACACTTTC 57.086 37.500 0.00 0.00 0.00 2.62
1194 1201 9.871238 CTATATGTAGTTCTTTGTACCACACTT 57.129 33.333 0.00 0.00 0.00 3.16
1195 1202 9.032624 ACTATATGTAGTTCTTTGTACCACACT 57.967 33.333 0.00 0.00 37.94 3.55
1196 1203 9.649167 AACTATATGTAGTTCTTTGTACCACAC 57.351 33.333 8.92 0.00 45.70 3.82
1223 1230 9.760077 AGAAAGAATCTAAAGTGTCGTAGAAAA 57.240 29.630 0.00 0.00 35.21 2.29
1261 1268 9.944376 ACATCTTTTAGCACTAGTAGATTCAAA 57.056 29.630 3.59 0.00 0.00 2.69
1338 1345 4.045636 ACTTTGTCTGCCATTCAAACAC 57.954 40.909 0.00 0.00 0.00 3.32
1366 1373 4.686191 TTTTGGTCATGGCAAGTTTGAT 57.314 36.364 0.00 0.00 0.00 2.57
1389 1396 2.099427 GGCAACCAACGAAACAAACCTA 59.901 45.455 0.00 0.00 0.00 3.08
1390 1397 1.134936 GGCAACCAACGAAACAAACCT 60.135 47.619 0.00 0.00 0.00 3.50
1419 1427 4.058817 GCAAGATCTATTTCACCCTACGG 58.941 47.826 0.00 0.00 0.00 4.02
1420 1428 3.736252 CGCAAGATCTATTTCACCCTACG 59.264 47.826 0.00 0.00 43.02 3.51
1454 1832 3.066621 TCATAGCAATCGCCAATTGTTCC 59.933 43.478 4.43 0.00 45.55 3.62
1517 1902 2.669569 TGTGGCCTTCTGCTTCGC 60.670 61.111 3.32 0.00 40.92 4.70
1518 1903 2.684843 GCTGTGGCCTTCTGCTTCG 61.685 63.158 3.32 0.00 40.92 3.79
1610 1995 9.330063 TGATGGCTATGTCTATTTGAACTTTAG 57.670 33.333 0.00 0.00 0.00 1.85
1612 1997 7.831193 AGTGATGGCTATGTCTATTTGAACTTT 59.169 33.333 0.00 0.00 0.00 2.66
1613 1998 7.341805 AGTGATGGCTATGTCTATTTGAACTT 58.658 34.615 0.00 0.00 0.00 2.66
1753 2273 4.178540 GCACACAAATAAGCATGCTTCAT 58.821 39.130 35.10 22.14 37.47 2.57
1754 2274 3.577667 GCACACAAATAAGCATGCTTCA 58.422 40.909 35.10 21.25 37.47 3.02
1755 2275 2.595536 CGCACACAAATAAGCATGCTTC 59.404 45.455 35.10 16.78 37.47 3.86
1756 2276 2.030007 ACGCACACAAATAAGCATGCTT 60.030 40.909 33.70 33.70 39.83 3.91
1757 2277 1.541147 ACGCACACAAATAAGCATGCT 59.459 42.857 16.30 16.30 0.00 3.79
1758 2278 1.981254 ACGCACACAAATAAGCATGC 58.019 45.000 10.51 10.51 0.00 4.06
1759 2279 3.543494 GCTAACGCACACAAATAAGCATG 59.457 43.478 0.00 0.00 35.78 4.06
1761 2281 2.811431 AGCTAACGCACACAAATAAGCA 59.189 40.909 0.00 0.00 39.10 3.91
1762 2282 3.471495 AGCTAACGCACACAAATAAGC 57.529 42.857 0.00 0.00 39.10 3.09
1763 2283 6.771076 TCATAAGCTAACGCACACAAATAAG 58.229 36.000 0.00 0.00 39.10 1.73
1775 2545 1.560923 AGCACGCTCATAAGCTAACG 58.439 50.000 0.00 0.00 46.91 3.18
1811 2581 9.333497 CAAATGTCACAACATATTAGTGTCAAG 57.667 33.333 0.00 0.00 45.48 3.02
1902 2677 6.258230 TCAGCCAATAACAAAGTTGAGATG 57.742 37.500 0.00 0.00 0.00 2.90
1934 2709 7.599621 CACACAATGTTGGACATATGTTTTCAT 59.400 33.333 10.30 9.71 37.97 2.57
1937 2712 7.048629 TCACACAATGTTGGACATATGTTTT 57.951 32.000 10.30 0.00 37.97 2.43
1955 2754 2.174639 ACCCATCCTTCAGTTTCACACA 59.825 45.455 0.00 0.00 0.00 3.72
1958 2757 5.300792 TGTTAAACCCATCCTTCAGTTTCAC 59.699 40.000 0.00 0.00 34.46 3.18
1959 2758 5.450453 TGTTAAACCCATCCTTCAGTTTCA 58.550 37.500 0.00 0.00 34.46 2.69
1960 2759 6.590234 ATGTTAAACCCATCCTTCAGTTTC 57.410 37.500 0.00 0.00 34.46 2.78
1961 2760 7.673926 ACATATGTTAAACCCATCCTTCAGTTT 59.326 33.333 1.41 0.00 36.47 2.66
1962 2761 7.122650 CACATATGTTAAACCCATCCTTCAGTT 59.877 37.037 5.37 0.00 0.00 3.16
1963 2762 6.603201 CACATATGTTAAACCCATCCTTCAGT 59.397 38.462 5.37 0.00 0.00 3.41
1964 2763 6.460123 GCACATATGTTAAACCCATCCTTCAG 60.460 42.308 5.37 0.00 0.00 3.02
1965 2764 5.359576 GCACATATGTTAAACCCATCCTTCA 59.640 40.000 5.37 0.00 0.00 3.02
1966 2765 5.359576 TGCACATATGTTAAACCCATCCTTC 59.640 40.000 5.37 0.00 0.00 3.46
1967 2766 5.268387 TGCACATATGTTAAACCCATCCTT 58.732 37.500 5.37 0.00 0.00 3.36
1968 2767 4.865905 TGCACATATGTTAAACCCATCCT 58.134 39.130 5.37 0.00 0.00 3.24
1969 2768 5.105554 TGTTGCACATATGTTAAACCCATCC 60.106 40.000 20.16 3.57 0.00 3.51
1970 2769 5.960113 TGTTGCACATATGTTAAACCCATC 58.040 37.500 20.16 7.31 0.00 3.51
1971 2770 5.991933 TGTTGCACATATGTTAAACCCAT 57.008 34.783 20.16 0.00 0.00 4.00
1972 2771 5.392487 CGATGTTGCACATATGTTAAACCCA 60.392 40.000 20.16 9.02 39.27 4.51
1973 2772 5.034152 CGATGTTGCACATATGTTAAACCC 58.966 41.667 20.16 13.93 39.27 4.11
1974 2773 5.511377 CACGATGTTGCACATATGTTAAACC 59.489 40.000 20.16 10.20 39.27 3.27
1975 2774 6.032355 CACACGATGTTGCACATATGTTAAAC 59.968 38.462 17.76 17.76 39.27 2.01
2004 2803 9.736023 AGTTTAGTTAAGTGAGCTTTTGAATTG 57.264 29.630 0.00 0.00 36.22 2.32
2042 2841 4.031418 TGTCAACTTGTGCATCAAACAG 57.969 40.909 0.00 0.00 35.48 3.16
2043 2842 4.652421 ATGTCAACTTGTGCATCAAACA 57.348 36.364 0.00 0.00 35.48 2.83
2044 2843 5.971895 AAATGTCAACTTGTGCATCAAAC 57.028 34.783 0.00 0.00 35.48 2.93
2045 2844 8.659925 AAATAAATGTCAACTTGTGCATCAAA 57.340 26.923 0.00 0.00 35.48 2.69
2046 2845 8.659925 AAAATAAATGTCAACTTGTGCATCAA 57.340 26.923 0.00 0.00 34.61 2.57
2047 2846 9.409312 CTAAAATAAATGTCAACTTGTGCATCA 57.591 29.630 0.00 0.00 0.00 3.07
2048 2847 9.410556 ACTAAAATAAATGTCAACTTGTGCATC 57.589 29.630 0.00 0.00 0.00 3.91
2050 2849 9.672086 GTACTAAAATAAATGTCAACTTGTGCA 57.328 29.630 0.00 0.00 0.00 4.57
2051 2850 8.837059 CGTACTAAAATAAATGTCAACTTGTGC 58.163 33.333 0.00 0.00 0.00 4.57
2056 2855 8.857216 CGACTCGTACTAAAATAAATGTCAACT 58.143 33.333 0.00 0.00 0.00 3.16
2057 2856 8.642020 ACGACTCGTACTAAAATAAATGTCAAC 58.358 33.333 1.16 0.00 38.73 3.18
2058 2857 8.746922 ACGACTCGTACTAAAATAAATGTCAA 57.253 30.769 1.16 0.00 38.73 3.18
2059 2858 8.239314 AGACGACTCGTACTAAAATAAATGTCA 58.761 33.333 3.53 0.00 41.37 3.58
2060 2859 8.612233 AGACGACTCGTACTAAAATAAATGTC 57.388 34.615 3.53 0.00 41.37 3.06
2061 2860 8.976986 AAGACGACTCGTACTAAAATAAATGT 57.023 30.769 3.53 0.00 41.37 2.71
2063 2862 9.230932 GCTAAGACGACTCGTACTAAAATAAAT 57.769 33.333 3.53 0.00 41.37 1.40
2064 2863 8.236586 TGCTAAGACGACTCGTACTAAAATAAA 58.763 33.333 3.53 0.00 41.37 1.40
2065 2864 7.751732 TGCTAAGACGACTCGTACTAAAATAA 58.248 34.615 3.53 0.00 41.37 1.40
2066 2865 7.307493 TGCTAAGACGACTCGTACTAAAATA 57.693 36.000 3.53 0.00 41.37 1.40
2067 2866 6.187125 TGCTAAGACGACTCGTACTAAAAT 57.813 37.500 3.53 0.00 41.37 1.82
2068 2867 5.611796 TGCTAAGACGACTCGTACTAAAA 57.388 39.130 3.53 0.00 41.37 1.52
2069 2868 4.436584 GCTGCTAAGACGACTCGTACTAAA 60.437 45.833 3.53 0.00 41.37 1.85
2070 2869 3.063180 GCTGCTAAGACGACTCGTACTAA 59.937 47.826 3.53 0.00 41.37 2.24
2071 2870 2.606725 GCTGCTAAGACGACTCGTACTA 59.393 50.000 3.53 0.00 41.37 1.82
2072 2871 1.397692 GCTGCTAAGACGACTCGTACT 59.602 52.381 3.53 1.15 41.37 2.73
2073 2872 1.129998 TGCTGCTAAGACGACTCGTAC 59.870 52.381 3.53 0.00 41.37 3.67
2074 2873 1.129998 GTGCTGCTAAGACGACTCGTA 59.870 52.381 3.53 0.00 41.37 3.43
2075 2874 0.109689 GTGCTGCTAAGACGACTCGT 60.110 55.000 3.08 3.08 45.10 4.18
2076 2875 0.109735 TGTGCTGCTAAGACGACTCG 60.110 55.000 0.00 0.00 0.00 4.18
2077 2876 1.623359 CTGTGCTGCTAAGACGACTC 58.377 55.000 0.00 0.00 0.00 3.36
2078 2877 0.244994 CCTGTGCTGCTAAGACGACT 59.755 55.000 0.00 0.00 0.00 4.18
2079 2878 0.243907 TCCTGTGCTGCTAAGACGAC 59.756 55.000 0.00 0.00 0.00 4.34
2080 2879 1.186200 ATCCTGTGCTGCTAAGACGA 58.814 50.000 0.00 0.00 0.00 4.20
2081 2880 2.015736 AATCCTGTGCTGCTAAGACG 57.984 50.000 0.00 0.00 0.00 4.18
2082 2881 4.727475 GAAAAATCCTGTGCTGCTAAGAC 58.273 43.478 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.