Multiple sequence alignment - TraesCS6D01G023300

Loading Multiple Alignment...

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 TraesCS6D01G023300 chr6D 100.000 2507 0 0 1 2507 8857830 8860336 0.000000e+00 4630.0
1 TraesCS6D01G023300 chr6D 98.389 2173 11 3 345 2507 8480464 8478306 0.000000e+00 3797.0
2 TraesCS6D01G023300 chr6D 86.492 1066 108 14 828 1885 34001547 34002584 0.000000e+00 1138.0
3 TraesCS6D01G023300 chr6D 82.469 1061 173 8 459 1508 8899614 8900672 0.000000e+00 917.0
4 TraesCS6D01G023300 chr6D 81.134 1076 190 6 448 1512 8894144 8895217 0.000000e+00 850.0
5 TraesCS6D01G023300 chr6D 86.044 781 66 27 1636 2406 8572071 8571324 0.000000e+00 798.0
6 TraesCS6D01G023300 chr6D 80.167 1079 194 12 448 1512 8967671 8968743 0.000000e+00 789.0
7 TraesCS6D01G023300 chr6D 94.681 470 17 8 1941 2403 34002925 34003393 0.000000e+00 723.0
8 TraesCS6D01G023300 chr6D 77.357 1082 226 11 448 1515 8552708 8551632 7.620000e-175 623.0
9 TraesCS6D01G023300 chr6D 92.464 345 18 6 3 342 254936286 254935945 1.040000e-133 486.0
10 TraesCS6D01G023300 chr6D 97.608 209 5 0 134 342 390007035 390006827 2.370000e-95 359.0
11 TraesCS6D01G023300 chr6D 96.651 209 7 0 134 342 465023462 465023254 5.130000e-92 348.0
12 TraesCS6D01G023300 chr6D 92.188 192 9 4 3 190 417545546 417545735 1.480000e-67 267.0
13 TraesCS6D01G023300 chr6D 91.795 195 9 6 1 190 390007227 390007035 5.320000e-67 265.0
14 TraesCS6D01G023300 chr6D 97.273 110 3 0 2398 2507 34003421 34003530 1.180000e-43 187.0
15 TraesCS6D01G023300 chr6D 88.462 78 7 1 2411 2486 8661387 8661310 2.660000e-15 93.5
16 TraesCS6D01G023300 chr1A 80.097 1447 241 25 475 1896 573206239 573207663 0.000000e+00 1033.0
17 TraesCS6D01G023300 chr1A 87.500 224 18 7 2057 2274 573207664 573207883 1.490000e-62 250.0
18 TraesCS6D01G023300 chr1B 79.953 1282 207 32 627 1892 664761899 664763146 0.000000e+00 898.0
19 TraesCS6D01G023300 chr1B 78.270 1376 264 25 448 1802 630644838 630646199 0.000000e+00 852.0
20 TraesCS6D01G023300 chr1B 87.387 222 23 5 2056 2274 664763150 664763369 1.490000e-62 250.0
21 TraesCS6D01G023300 chr1B 91.892 111 7 2 2398 2507 664763492 664763601 1.200000e-33 154.0
22 TraesCS6D01G023300 chr6B 81.086 1068 189 6 456 1512 15225632 15224567 0.000000e+00 841.0
23 TraesCS6D01G023300 chr6B 87.188 320 24 6 1558 1869 55723277 55722967 5.130000e-92 348.0
24 TraesCS6D01G023300 chr6B 93.194 191 7 4 6 190 20190428 20190238 2.460000e-70 276.0
25 TraesCS6D01G023300 chr6B 86.076 79 8 1 2411 2486 15780801 15780723 5.750000e-12 82.4
26 TraesCS6D01G023300 chr6A 79.642 1061 198 11 448 1493 30560478 30559421 0.000000e+00 747.0
27 TraesCS6D01G023300 chr6A 79.676 1048 197 10 476 1512 9350337 9351379 0.000000e+00 741.0
28 TraesCS6D01G023300 chr6A 77.768 1093 209 18 448 1512 9473206 9474292 2.100000e-180 641.0
29 TraesCS6D01G023300 chr6A 93.194 191 9 4 3 190 25548238 25548427 6.830000e-71 278.0
30 TraesCS6D01G023300 chr6A 76.408 284 47 16 2038 2309 7979548 7979823 4.350000e-28 135.0
31 TraesCS6D01G023300 chr6A 75.484 155 25 10 1657 1802 8448707 8448557 2.080000e-06 63.9
32 TraesCS6D01G023300 chr7D 79.480 1077 195 18 449 1509 161390740 161391806 0.000000e+00 741.0
33 TraesCS6D01G023300 chr7D 96.682 211 7 0 134 344 71219647 71219437 3.970000e-93 351.0
34 TraesCS6D01G023300 chr7B 79.480 1077 192 19 449 1509 123655663 123656726 0.000000e+00 737.0
35 TraesCS6D01G023300 chr2B 78.737 1077 214 8 448 1512 709426082 709425009 0.000000e+00 706.0
36 TraesCS6D01G023300 chr2B 77.214 1084 225 15 448 1517 711161501 711162576 4.580000e-172 614.0
37 TraesCS6D01G023300 chr2B 76.135 1123 217 34 455 1546 701484165 701485267 2.190000e-150 542.0
38 TraesCS6D01G023300 chr2B 76.115 1076 221 27 461 1515 54016558 54015498 4.750000e-147 531.0
39 TraesCS6D01G023300 chr2B 92.021 188 8 6 3 188 691247995 691248177 8.900000e-65 257.0
40 TraesCS6D01G023300 chr2B 91.509 106 9 0 1699 1804 748707607 748707712 2.010000e-31 147.0
41 TraesCS6D01G023300 chr4D 91.228 342 26 3 3 343 454441715 454441377 1.760000e-126 462.0
42 TraesCS6D01G023300 chr5D 96.279 215 8 0 134 348 59969896 59969682 1.100000e-93 353.0
43 TraesCS6D01G023300 chr5D 97.129 209 6 0 134 342 399910308 399910100 1.100000e-93 353.0
44 TraesCS6D01G023300 chr5D 96.651 209 7 0 134 342 539727509 539727301 5.130000e-92 348.0
45 TraesCS6D01G023300 chr1D 97.129 209 6 0 134 342 413307251 413307459 1.100000e-93 353.0
46 TraesCS6D01G023300 chr1D 89.744 234 20 3 1665 1896 477167078 477167309 1.890000e-76 296.0
47 TraesCS6D01G023300 chr1D 91.579 190 12 4 3 190 3718613 3718426 2.470000e-65 259.0
48 TraesCS6D01G023300 chr1D 91.892 111 7 2 2398 2507 477167652 477167761 1.200000e-33 154.0
49 TraesCS6D01G023300 chr5A 94.681 188 4 2 3 190 551445943 551446124 1.130000e-73 287.0
50 TraesCS6D01G023300 chr5B 73.516 219 36 14 1922 2121 668638083 668638298 2.080000e-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 TraesCS6D01G023300 chr6D 8857830 8860336 2506 False 4630.000000 4630 100.000000 1 2507 1 chr6D.!!$F1 2506
1 TraesCS6D01G023300 chr6D 8478306 8480464 2158 True 3797.000000 3797 98.389000 345 2507 1 chr6D.!!$R1 2162
2 TraesCS6D01G023300 chr6D 8899614 8900672 1058 False 917.000000 917 82.469000 459 1508 1 chr6D.!!$F3 1049
3 TraesCS6D01G023300 chr6D 8894144 8895217 1073 False 850.000000 850 81.134000 448 1512 1 chr6D.!!$F2 1064
4 TraesCS6D01G023300 chr6D 8571324 8572071 747 True 798.000000 798 86.044000 1636 2406 1 chr6D.!!$R3 770
5 TraesCS6D01G023300 chr6D 8967671 8968743 1072 False 789.000000 789 80.167000 448 1512 1 chr6D.!!$F4 1064
6 TraesCS6D01G023300 chr6D 34001547 34003530 1983 False 682.666667 1138 92.815333 828 2507 3 chr6D.!!$F6 1679
7 TraesCS6D01G023300 chr6D 8551632 8552708 1076 True 623.000000 623 77.357000 448 1515 1 chr6D.!!$R2 1067
8 TraesCS6D01G023300 chr1A 573206239 573207883 1644 False 641.500000 1033 83.798500 475 2274 2 chr1A.!!$F1 1799
9 TraesCS6D01G023300 chr1B 630644838 630646199 1361 False 852.000000 852 78.270000 448 1802 1 chr1B.!!$F1 1354
10 TraesCS6D01G023300 chr1B 664761899 664763601 1702 False 434.000000 898 86.410667 627 2507 3 chr1B.!!$F2 1880
11 TraesCS6D01G023300 chr6B 15224567 15225632 1065 True 841.000000 841 81.086000 456 1512 1 chr6B.!!$R1 1056
12 TraesCS6D01G023300 chr6A 30559421 30560478 1057 True 747.000000 747 79.642000 448 1493 1 chr6A.!!$R2 1045
13 TraesCS6D01G023300 chr6A 9350337 9351379 1042 False 741.000000 741 79.676000 476 1512 1 chr6A.!!$F2 1036
14 TraesCS6D01G023300 chr6A 9473206 9474292 1086 False 641.000000 641 77.768000 448 1512 1 chr6A.!!$F3 1064
15 TraesCS6D01G023300 chr7D 161390740 161391806 1066 False 741.000000 741 79.480000 449 1509 1 chr7D.!!$F1 1060
16 TraesCS6D01G023300 chr7B 123655663 123656726 1063 False 737.000000 737 79.480000 449 1509 1 chr7B.!!$F1 1060
17 TraesCS6D01G023300 chr2B 709425009 709426082 1073 True 706.000000 706 78.737000 448 1512 1 chr2B.!!$R2 1064
18 TraesCS6D01G023300 chr2B 711161501 711162576 1075 False 614.000000 614 77.214000 448 1517 1 chr2B.!!$F3 1069
19 TraesCS6D01G023300 chr2B 701484165 701485267 1102 False 542.000000 542 76.135000 455 1546 1 chr2B.!!$F2 1091
20 TraesCS6D01G023300 chr2B 54015498 54016558 1060 True 531.000000 531 76.115000 461 1515 1 chr2B.!!$R1 1054
21 TraesCS6D01G023300 chr1D 477167078 477167761 683 False 225.000000 296 90.818000 1665 2507 2 chr1D.!!$F2 842

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
270 271 0.025898 CAACGCAGATGTCGCATGAG 59.974 55.0 0.0 0.0 0.0 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1917 1979 0.178992 TTGCAGTGGAAACTGAGGGG 60.179 55.0 9.97 0.0 39.99 4.79 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
51 52 3.796443 CGTCGTCGCCGGAGAAGA 61.796 66.667 18.97 18.97 33.95 2.87
52 53 2.564975 GTCGTCGCCGGAGAAGAA 59.435 61.111 23.71 7.21 31.00 2.52
53 54 1.514443 GTCGTCGCCGGAGAAGAAG 60.514 63.158 23.71 9.70 31.00 2.85
54 55 1.673337 TCGTCGCCGGAGAAGAAGA 60.673 57.895 20.38 10.07 33.95 2.87
55 56 1.211969 CGTCGCCGGAGAAGAAGAA 59.788 57.895 15.65 0.00 0.00 2.52
56 57 1.071567 CGTCGCCGGAGAAGAAGAAC 61.072 60.000 15.65 0.00 0.00 3.01
57 58 0.038526 GTCGCCGGAGAAGAAGAACA 60.039 55.000 10.32 0.00 0.00 3.18
58 59 0.677288 TCGCCGGAGAAGAAGAACAA 59.323 50.000 5.05 0.00 0.00 2.83
59 60 0.790814 CGCCGGAGAAGAAGAACAAC 59.209 55.000 5.05 0.00 0.00 3.32
60 61 1.872237 CGCCGGAGAAGAAGAACAACA 60.872 52.381 5.05 0.00 0.00 3.33
61 62 2.218603 GCCGGAGAAGAAGAACAACAA 58.781 47.619 5.05 0.00 0.00 2.83
62 63 2.031944 GCCGGAGAAGAAGAACAACAAC 60.032 50.000 5.05 0.00 0.00 3.32
63 64 2.221055 CCGGAGAAGAAGAACAACAACG 59.779 50.000 0.00 0.00 0.00 4.10
64 65 2.221055 CGGAGAAGAAGAACAACAACGG 59.779 50.000 0.00 0.00 0.00 4.44
65 66 3.203716 GGAGAAGAAGAACAACAACGGT 58.796 45.455 0.00 0.00 0.00 4.83
66 67 3.247886 GGAGAAGAAGAACAACAACGGTC 59.752 47.826 0.00 0.00 0.00 4.79
67 68 2.864343 AGAAGAAGAACAACAACGGTCG 59.136 45.455 0.00 0.00 0.00 4.79
68 69 1.578583 AGAAGAACAACAACGGTCGG 58.421 50.000 0.00 0.00 0.00 4.79
69 70 0.584876 GAAGAACAACAACGGTCGGG 59.415 55.000 0.00 0.00 0.00 5.14
70 71 0.816421 AAGAACAACAACGGTCGGGG 60.816 55.000 0.00 0.00 0.00 5.73
71 72 1.227615 GAACAACAACGGTCGGGGA 60.228 57.895 0.00 0.00 0.00 4.81
72 73 1.226030 GAACAACAACGGTCGGGGAG 61.226 60.000 0.00 0.00 0.00 4.30
73 74 2.358247 CAACAACGGTCGGGGAGG 60.358 66.667 0.00 0.00 0.00 4.30
74 75 3.633116 AACAACGGTCGGGGAGGG 61.633 66.667 0.00 0.00 0.00 4.30
108 109 3.866582 GGAGGATGGGCTCGGGTG 61.867 72.222 0.00 0.00 0.00 4.61
109 110 4.554036 GAGGATGGGCTCGGGTGC 62.554 72.222 0.00 0.00 0.00 5.01
111 112 4.864334 GGATGGGCTCGGGTGCTG 62.864 72.222 0.00 0.00 0.00 4.41
129 130 3.374402 CACGGCTCGGTGTCCTCT 61.374 66.667 0.00 0.00 33.24 3.69
130 131 2.600769 ACGGCTCGGTGTCCTCTT 60.601 61.111 0.00 0.00 0.00 2.85
131 132 2.125912 CGGCTCGGTGTCCTCTTG 60.126 66.667 0.00 0.00 0.00 3.02
132 133 2.932234 CGGCTCGGTGTCCTCTTGT 61.932 63.158 0.00 0.00 0.00 3.16
133 134 1.592400 CGGCTCGGTGTCCTCTTGTA 61.592 60.000 0.00 0.00 0.00 2.41
134 135 0.108756 GGCTCGGTGTCCTCTTGTAC 60.109 60.000 0.00 0.00 0.00 2.90
135 136 0.108756 GCTCGGTGTCCTCTTGTACC 60.109 60.000 0.00 0.00 0.00 3.34
136 137 1.254026 CTCGGTGTCCTCTTGTACCA 58.746 55.000 0.00 0.00 32.75 3.25
137 138 1.616865 CTCGGTGTCCTCTTGTACCAA 59.383 52.381 0.00 0.00 32.75 3.67
138 139 2.233922 CTCGGTGTCCTCTTGTACCAAT 59.766 50.000 0.00 0.00 32.75 3.16
139 140 2.028476 TCGGTGTCCTCTTGTACCAATG 60.028 50.000 0.00 0.00 32.75 2.82
140 141 2.084546 GGTGTCCTCTTGTACCAATGC 58.915 52.381 0.00 0.00 33.42 3.56
141 142 2.290323 GGTGTCCTCTTGTACCAATGCT 60.290 50.000 0.00 0.00 33.42 3.79
142 143 2.744202 GTGTCCTCTTGTACCAATGCTG 59.256 50.000 0.00 0.00 0.00 4.41
143 144 2.637382 TGTCCTCTTGTACCAATGCTGA 59.363 45.455 0.00 0.00 0.00 4.26
144 145 3.003480 GTCCTCTTGTACCAATGCTGAC 58.997 50.000 0.00 0.00 0.00 3.51
145 146 2.027192 TCCTCTTGTACCAATGCTGACC 60.027 50.000 0.00 0.00 0.00 4.02
146 147 2.026822 CCTCTTGTACCAATGCTGACCT 60.027 50.000 0.00 0.00 0.00 3.85
147 148 3.005554 CTCTTGTACCAATGCTGACCTG 58.994 50.000 0.00 0.00 0.00 4.00
148 149 2.086869 CTTGTACCAATGCTGACCTGG 58.913 52.381 0.00 0.00 36.24 4.45
149 150 1.357137 TGTACCAATGCTGACCTGGA 58.643 50.000 0.00 0.00 34.16 3.86
150 151 1.915489 TGTACCAATGCTGACCTGGAT 59.085 47.619 0.00 0.00 34.16 3.41
151 152 3.111484 TGTACCAATGCTGACCTGGATA 58.889 45.455 0.00 0.00 34.16 2.59
152 153 3.521531 TGTACCAATGCTGACCTGGATAA 59.478 43.478 0.00 0.00 34.16 1.75
153 154 3.287867 ACCAATGCTGACCTGGATAAG 57.712 47.619 0.00 0.00 34.16 1.73
154 155 2.578021 ACCAATGCTGACCTGGATAAGT 59.422 45.455 0.00 0.00 34.16 2.24
155 156 3.010584 ACCAATGCTGACCTGGATAAGTT 59.989 43.478 0.00 0.00 34.16 2.66
156 157 4.227300 ACCAATGCTGACCTGGATAAGTTA 59.773 41.667 0.00 0.00 34.16 2.24
157 158 4.818546 CCAATGCTGACCTGGATAAGTTAG 59.181 45.833 0.00 0.00 31.38 2.34
158 159 5.431765 CAATGCTGACCTGGATAAGTTAGT 58.568 41.667 0.00 0.00 0.00 2.24
159 160 4.471904 TGCTGACCTGGATAAGTTAGTG 57.528 45.455 0.00 0.00 0.00 2.74
160 161 3.197766 TGCTGACCTGGATAAGTTAGTGG 59.802 47.826 0.00 0.00 0.00 4.00
161 162 3.432326 GCTGACCTGGATAAGTTAGTGGG 60.432 52.174 0.00 0.00 0.00 4.61
162 163 3.775316 CTGACCTGGATAAGTTAGTGGGT 59.225 47.826 0.00 0.00 0.00 4.51
163 164 3.773119 TGACCTGGATAAGTTAGTGGGTC 59.227 47.826 0.00 14.73 41.39 4.46
164 165 3.113043 ACCTGGATAAGTTAGTGGGTCC 58.887 50.000 0.00 0.00 0.00 4.46
165 166 2.438392 CCTGGATAAGTTAGTGGGTCCC 59.562 54.545 0.00 0.00 0.00 4.46
166 167 3.112263 CTGGATAAGTTAGTGGGTCCCA 58.888 50.000 6.47 6.47 0.00 4.37
167 168 3.716872 CTGGATAAGTTAGTGGGTCCCAT 59.283 47.826 15.49 5.99 35.28 4.00
168 169 3.458118 TGGATAAGTTAGTGGGTCCCATG 59.542 47.826 15.49 0.00 35.28 3.66
169 170 3.477530 GATAAGTTAGTGGGTCCCATGC 58.522 50.000 15.49 1.44 35.28 4.06
170 171 1.372501 AAGTTAGTGGGTCCCATGCT 58.627 50.000 15.49 10.19 35.28 3.79
171 172 0.620556 AGTTAGTGGGTCCCATGCTG 59.379 55.000 15.49 0.00 35.28 4.41
172 173 0.328258 GTTAGTGGGTCCCATGCTGT 59.672 55.000 15.49 0.00 35.28 4.40
173 174 0.327924 TTAGTGGGTCCCATGCTGTG 59.672 55.000 15.49 0.00 35.28 3.66
182 183 4.415150 CATGCTGTGGGTCCCGCT 62.415 66.667 22.20 0.00 34.70 5.52
183 184 4.101448 ATGCTGTGGGTCCCGCTC 62.101 66.667 22.20 13.95 34.70 5.03
188 189 4.394712 GTGGGTCCCGCTCACCTG 62.395 72.222 14.73 0.00 42.69 4.00
189 190 4.631740 TGGGTCCCGCTCACCTGA 62.632 66.667 2.65 0.00 33.96 3.86
190 191 3.083997 GGGTCCCGCTCACCTGAT 61.084 66.667 0.00 0.00 33.96 2.90
191 192 2.670148 GGGTCCCGCTCACCTGATT 61.670 63.158 0.00 0.00 33.96 2.57
192 193 1.153349 GGTCCCGCTCACCTGATTC 60.153 63.158 0.00 0.00 0.00 2.52
193 194 1.519455 GTCCCGCTCACCTGATTCG 60.519 63.158 0.00 0.00 0.00 3.34
194 195 1.680989 TCCCGCTCACCTGATTCGA 60.681 57.895 0.00 0.00 0.00 3.71
195 196 1.227089 CCCGCTCACCTGATTCGAG 60.227 63.158 0.00 0.00 0.00 4.04
196 197 1.513158 CCGCTCACCTGATTCGAGT 59.487 57.895 0.00 0.00 0.00 4.18
197 198 0.108615 CCGCTCACCTGATTCGAGTT 60.109 55.000 0.00 0.00 0.00 3.01
198 199 1.673033 CCGCTCACCTGATTCGAGTTT 60.673 52.381 0.00 0.00 0.00 2.66
199 200 2.069273 CGCTCACCTGATTCGAGTTTT 58.931 47.619 0.00 0.00 0.00 2.43
200 201 3.250744 CGCTCACCTGATTCGAGTTTTA 58.749 45.455 0.00 0.00 0.00 1.52
201 202 3.678072 CGCTCACCTGATTCGAGTTTTAA 59.322 43.478 0.00 0.00 0.00 1.52
202 203 4.151689 CGCTCACCTGATTCGAGTTTTAAA 59.848 41.667 0.00 0.00 0.00 1.52
203 204 5.383130 GCTCACCTGATTCGAGTTTTAAAC 58.617 41.667 0.00 0.00 0.00 2.01
204 205 5.049680 GCTCACCTGATTCGAGTTTTAAACA 60.050 40.000 10.60 0.00 0.00 2.83
205 206 6.348540 GCTCACCTGATTCGAGTTTTAAACAT 60.349 38.462 10.60 0.00 0.00 2.71
206 207 6.898041 TCACCTGATTCGAGTTTTAAACATG 58.102 36.000 10.60 2.11 0.00 3.21
207 208 6.485313 TCACCTGATTCGAGTTTTAAACATGT 59.515 34.615 10.60 0.00 0.00 3.21
208 209 6.578545 CACCTGATTCGAGTTTTAAACATGTG 59.421 38.462 10.60 0.00 0.00 3.21
209 210 6.262273 ACCTGATTCGAGTTTTAAACATGTGT 59.738 34.615 10.60 0.00 0.00 3.72
210 211 6.797033 CCTGATTCGAGTTTTAAACATGTGTC 59.203 38.462 10.60 3.68 0.00 3.67
211 212 7.307989 CCTGATTCGAGTTTTAAACATGTGTCT 60.308 37.037 10.60 0.00 0.00 3.41
212 213 7.925993 TGATTCGAGTTTTAAACATGTGTCTT 58.074 30.769 10.60 0.00 0.00 3.01
213 214 8.402472 TGATTCGAGTTTTAAACATGTGTCTTT 58.598 29.630 10.60 0.00 0.00 2.52
214 215 7.962934 TTCGAGTTTTAAACATGTGTCTTTG 57.037 32.000 10.60 0.00 0.00 2.77
215 216 6.491394 TCGAGTTTTAAACATGTGTCTTTGG 58.509 36.000 10.60 0.00 0.00 3.28
216 217 6.316640 TCGAGTTTTAAACATGTGTCTTTGGA 59.683 34.615 10.60 0.00 0.00 3.53
217 218 7.012894 TCGAGTTTTAAACATGTGTCTTTGGAT 59.987 33.333 10.60 0.00 0.00 3.41
218 219 7.647715 CGAGTTTTAAACATGTGTCTTTGGATT 59.352 33.333 10.60 0.00 0.00 3.01
219 220 9.959749 GAGTTTTAAACATGTGTCTTTGGATTA 57.040 29.630 10.60 0.00 0.00 1.75
220 221 9.965824 AGTTTTAAACATGTGTCTTTGGATTAG 57.034 29.630 10.60 0.00 0.00 1.73
221 222 9.191995 GTTTTAAACATGTGTCTTTGGATTAGG 57.808 33.333 0.00 0.00 0.00 2.69
222 223 5.391312 AAACATGTGTCTTTGGATTAGGC 57.609 39.130 0.00 0.00 0.00 3.93
223 224 4.032960 ACATGTGTCTTTGGATTAGGCA 57.967 40.909 0.00 0.00 0.00 4.75
224 225 4.012374 ACATGTGTCTTTGGATTAGGCAG 58.988 43.478 0.00 0.00 0.00 4.85
225 226 3.788227 TGTGTCTTTGGATTAGGCAGT 57.212 42.857 0.00 0.00 0.00 4.40
226 227 4.901197 TGTGTCTTTGGATTAGGCAGTA 57.099 40.909 0.00 0.00 0.00 2.74
227 228 4.832248 TGTGTCTTTGGATTAGGCAGTAG 58.168 43.478 0.00 0.00 0.00 2.57
228 229 4.286032 TGTGTCTTTGGATTAGGCAGTAGT 59.714 41.667 0.00 0.00 0.00 2.73
229 230 4.631813 GTGTCTTTGGATTAGGCAGTAGTG 59.368 45.833 0.00 0.00 0.00 2.74
230 231 4.286032 TGTCTTTGGATTAGGCAGTAGTGT 59.714 41.667 0.00 0.00 0.00 3.55
231 232 4.870991 GTCTTTGGATTAGGCAGTAGTGTC 59.129 45.833 0.00 0.00 0.00 3.67
232 233 3.520290 TTGGATTAGGCAGTAGTGTCG 57.480 47.619 0.00 0.00 31.53 4.35
233 234 1.136305 TGGATTAGGCAGTAGTGTCGC 59.864 52.381 0.00 0.00 31.53 5.19
234 235 1.136305 GGATTAGGCAGTAGTGTCGCA 59.864 52.381 0.00 0.00 31.53 5.10
235 236 2.224066 GGATTAGGCAGTAGTGTCGCAT 60.224 50.000 0.00 0.00 31.53 4.73
236 237 2.293677 TTAGGCAGTAGTGTCGCATG 57.706 50.000 0.00 0.00 31.53 4.06
237 238 0.459899 TAGGCAGTAGTGTCGCATGG 59.540 55.000 0.00 0.00 31.53 3.66
238 239 1.815421 GGCAGTAGTGTCGCATGGG 60.815 63.158 2.76 2.76 0.00 4.00
239 240 1.218047 GCAGTAGTGTCGCATGGGA 59.782 57.895 8.63 8.63 0.00 4.37
240 241 0.807667 GCAGTAGTGTCGCATGGGAG 60.808 60.000 13.49 0.58 0.00 4.30
241 242 0.807667 CAGTAGTGTCGCATGGGAGC 60.808 60.000 13.49 9.23 0.00 4.70
242 243 0.972983 AGTAGTGTCGCATGGGAGCT 60.973 55.000 13.49 15.71 0.00 4.09
243 244 0.744874 GTAGTGTCGCATGGGAGCTA 59.255 55.000 13.49 14.75 0.00 3.32
244 245 1.341531 GTAGTGTCGCATGGGAGCTAT 59.658 52.381 13.49 2.59 0.00 2.97
245 246 0.833287 AGTGTCGCATGGGAGCTATT 59.167 50.000 13.49 0.00 0.00 1.73
246 247 1.210478 AGTGTCGCATGGGAGCTATTT 59.790 47.619 13.49 0.00 0.00 1.40
247 248 2.017049 GTGTCGCATGGGAGCTATTTT 58.983 47.619 13.49 0.00 0.00 1.82
248 249 2.423538 GTGTCGCATGGGAGCTATTTTT 59.576 45.455 13.49 0.00 0.00 1.94
264 265 2.679355 TTTTTCCAACGCAGATGTCG 57.321 45.000 0.00 0.00 0.00 4.35
265 266 0.237235 TTTTCCAACGCAGATGTCGC 59.763 50.000 0.00 0.00 0.00 5.19
266 267 0.882484 TTTCCAACGCAGATGTCGCA 60.882 50.000 0.00 0.00 0.00 5.10
267 268 0.673333 TTCCAACGCAGATGTCGCAT 60.673 50.000 0.00 0.00 0.00 4.73
268 269 1.061411 CCAACGCAGATGTCGCATG 59.939 57.895 0.00 0.00 0.00 4.06
269 270 1.360931 CCAACGCAGATGTCGCATGA 61.361 55.000 0.00 0.00 0.00 3.07
270 271 0.025898 CAACGCAGATGTCGCATGAG 59.974 55.000 0.00 0.00 0.00 2.90
271 272 0.108662 AACGCAGATGTCGCATGAGA 60.109 50.000 0.00 0.00 0.00 3.27
272 273 0.527169 ACGCAGATGTCGCATGAGAG 60.527 55.000 0.00 0.00 0.00 3.20
273 274 1.819226 CGCAGATGTCGCATGAGAGC 61.819 60.000 0.00 0.00 0.00 4.09
274 275 0.530211 GCAGATGTCGCATGAGAGCT 60.530 55.000 0.00 0.00 33.94 4.09
275 276 1.269465 GCAGATGTCGCATGAGAGCTA 60.269 52.381 0.00 0.00 31.58 3.32
276 277 2.609984 GCAGATGTCGCATGAGAGCTAT 60.610 50.000 0.00 0.00 31.58 2.97
277 278 3.651206 CAGATGTCGCATGAGAGCTATT 58.349 45.455 0.00 0.00 31.58 1.73
278 279 4.802999 CAGATGTCGCATGAGAGCTATTA 58.197 43.478 0.00 0.00 31.58 0.98
279 280 4.620609 CAGATGTCGCATGAGAGCTATTAC 59.379 45.833 0.00 0.00 31.58 1.89
280 281 4.279420 AGATGTCGCATGAGAGCTATTACA 59.721 41.667 0.00 0.00 31.58 2.41
281 282 4.385358 TGTCGCATGAGAGCTATTACAA 57.615 40.909 0.00 0.00 0.00 2.41
282 283 4.112634 TGTCGCATGAGAGCTATTACAAC 58.887 43.478 0.00 0.00 0.00 3.32
283 284 3.491267 GTCGCATGAGAGCTATTACAACC 59.509 47.826 0.00 0.00 0.00 3.77
284 285 3.132111 TCGCATGAGAGCTATTACAACCA 59.868 43.478 0.00 0.00 0.00 3.67
285 286 3.871006 CGCATGAGAGCTATTACAACCAA 59.129 43.478 0.00 0.00 0.00 3.67
286 287 4.260375 CGCATGAGAGCTATTACAACCAAC 60.260 45.833 0.00 0.00 0.00 3.77
287 288 4.260375 GCATGAGAGCTATTACAACCAACG 60.260 45.833 0.00 0.00 0.00 4.10
288 289 4.794278 TGAGAGCTATTACAACCAACGA 57.206 40.909 0.00 0.00 0.00 3.85
289 290 4.491676 TGAGAGCTATTACAACCAACGAC 58.508 43.478 0.00 0.00 0.00 4.34
290 291 3.508762 AGAGCTATTACAACCAACGACG 58.491 45.455 0.00 0.00 0.00 5.12
291 292 3.057033 AGAGCTATTACAACCAACGACGT 60.057 43.478 0.00 0.00 0.00 4.34
292 293 3.656559 AGCTATTACAACCAACGACGTT 58.343 40.909 7.57 7.57 0.00 3.99
293 294 3.430895 AGCTATTACAACCAACGACGTTG 59.569 43.478 29.35 29.35 44.95 4.10
294 295 2.673976 ATTACAACCAACGACGTTGC 57.326 45.000 30.55 0.00 43.57 4.17
295 296 1.366679 TTACAACCAACGACGTTGCA 58.633 45.000 30.55 12.60 43.57 4.08
296 297 1.584175 TACAACCAACGACGTTGCAT 58.416 45.000 30.55 19.65 43.57 3.96
297 298 0.028770 ACAACCAACGACGTTGCATG 59.971 50.000 30.55 28.95 43.57 4.06
298 299 0.306228 CAACCAACGACGTTGCATGA 59.694 50.000 30.55 0.00 41.62 3.07
299 300 0.586319 AACCAACGACGTTGCATGAG 59.414 50.000 30.55 20.24 41.62 2.90
300 301 0.249699 ACCAACGACGTTGCATGAGA 60.250 50.000 30.55 0.00 41.62 3.27
301 302 0.439985 CCAACGACGTTGCATGAGAG 59.560 55.000 30.55 14.35 41.62 3.20
302 303 1.418373 CAACGACGTTGCATGAGAGA 58.582 50.000 26.09 0.00 36.73 3.10
303 304 1.125021 CAACGACGTTGCATGAGAGAC 59.875 52.381 26.09 0.00 36.73 3.36
304 305 0.313987 ACGACGTTGCATGAGAGACA 59.686 50.000 1.65 0.00 0.00 3.41
305 306 1.269569 ACGACGTTGCATGAGAGACAA 60.270 47.619 1.65 0.00 0.00 3.18
306 307 1.995484 CGACGTTGCATGAGAGACAAT 59.005 47.619 0.00 0.00 0.00 2.71
307 308 2.413112 CGACGTTGCATGAGAGACAATT 59.587 45.455 0.00 0.00 0.00 2.32
308 309 3.482598 CGACGTTGCATGAGAGACAATTC 60.483 47.826 0.00 0.00 0.00 2.17
309 310 3.402110 ACGTTGCATGAGAGACAATTCA 58.598 40.909 0.00 0.00 0.00 2.57
310 311 3.187227 ACGTTGCATGAGAGACAATTCAC 59.813 43.478 0.00 0.00 0.00 3.18
311 312 3.187022 CGTTGCATGAGAGACAATTCACA 59.813 43.478 0.00 0.00 0.00 3.58
312 313 4.470462 GTTGCATGAGAGACAATTCACAC 58.530 43.478 0.00 0.00 0.00 3.82
313 314 3.076621 TGCATGAGAGACAATTCACACC 58.923 45.455 0.00 0.00 0.00 4.16
314 315 3.076621 GCATGAGAGACAATTCACACCA 58.923 45.455 0.00 0.00 0.00 4.17
315 316 3.503363 GCATGAGAGACAATTCACACCAA 59.497 43.478 0.00 0.00 0.00 3.67
316 317 4.157289 GCATGAGAGACAATTCACACCAAT 59.843 41.667 0.00 0.00 0.00 3.16
317 318 5.637809 CATGAGAGACAATTCACACCAATG 58.362 41.667 0.00 0.00 0.00 2.82
318 319 4.971939 TGAGAGACAATTCACACCAATGA 58.028 39.130 0.00 0.00 0.00 2.57
319 320 4.756642 TGAGAGACAATTCACACCAATGAC 59.243 41.667 0.00 0.00 0.00 3.06
320 321 3.748048 AGAGACAATTCACACCAATGACG 59.252 43.478 0.00 0.00 0.00 4.35
321 322 3.476552 AGACAATTCACACCAATGACGT 58.523 40.909 0.00 0.00 0.00 4.34
322 323 3.498397 AGACAATTCACACCAATGACGTC 59.502 43.478 9.11 9.11 0.00 4.34
323 324 2.223144 ACAATTCACACCAATGACGTCG 59.777 45.455 11.62 0.00 0.00 5.12
324 325 0.796312 ATTCACACCAATGACGTCGC 59.204 50.000 11.62 0.00 0.00 5.19
325 326 0.530870 TTCACACCAATGACGTCGCA 60.531 50.000 11.62 0.00 0.00 5.10
326 327 0.320334 TCACACCAATGACGTCGCAT 60.320 50.000 11.62 0.00 0.00 4.73
327 328 0.179217 CACACCAATGACGTCGCATG 60.179 55.000 11.62 9.37 0.00 4.06
328 329 1.298157 ACACCAATGACGTCGCATGG 61.298 55.000 24.28 24.28 0.00 3.66
329 330 1.745115 ACCAATGACGTCGCATGGG 60.745 57.895 27.37 19.37 43.72 4.00
330 331 1.449423 CCAATGACGTCGCATGGGA 60.449 57.895 20.42 8.63 41.14 4.37
331 332 1.431488 CCAATGACGTCGCATGGGAG 61.431 60.000 20.42 9.79 41.14 4.30
332 333 1.815421 AATGACGTCGCATGGGAGC 60.815 57.895 13.49 7.41 0.00 4.70
333 334 2.244117 AATGACGTCGCATGGGAGCT 62.244 55.000 13.49 0.45 0.00 4.09
334 335 1.391933 ATGACGTCGCATGGGAGCTA 61.392 55.000 13.49 0.75 0.00 3.32
335 336 1.364171 GACGTCGCATGGGAGCTAT 59.636 57.895 13.49 0.00 0.00 2.97
336 337 0.249489 GACGTCGCATGGGAGCTATT 60.249 55.000 13.49 0.00 0.00 1.73
337 338 0.249489 ACGTCGCATGGGAGCTATTC 60.249 55.000 13.49 0.00 0.00 1.75
338 339 1.278172 CGTCGCATGGGAGCTATTCG 61.278 60.000 13.49 8.19 0.00 3.34
339 340 1.300931 TCGCATGGGAGCTATTCGC 60.301 57.895 8.63 0.00 39.11 4.70
340 341 2.320587 CGCATGGGAGCTATTCGCC 61.321 63.158 3.11 0.00 40.39 5.54
374 375 1.207089 TGGTGCTTCCCTATCGAACAG 59.793 52.381 0.00 0.00 34.77 3.16
381 382 0.999406 CCCTATCGAACAGCAACGTG 59.001 55.000 0.00 0.00 0.00 4.49
450 451 0.108662 TTCTCATGCATGTCGTCGCT 60.109 50.000 25.43 0.00 0.00 4.93
1917 1979 0.555769 TATCCTCAAATGCCCCCACC 59.444 55.000 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.038526 TGTTCTTCTTCTCCGGCGAC 60.039 55.000 9.30 0.00 0.00 5.19
39 40 0.677288 TTGTTCTTCTTCTCCGGCGA 59.323 50.000 9.30 0.00 0.00 5.54
40 41 0.790814 GTTGTTCTTCTTCTCCGGCG 59.209 55.000 0.00 0.00 0.00 6.46
41 42 1.878953 TGTTGTTCTTCTTCTCCGGC 58.121 50.000 0.00 0.00 0.00 6.13
42 43 2.221055 CGTTGTTGTTCTTCTTCTCCGG 59.779 50.000 0.00 0.00 0.00 5.14
43 44 2.221055 CCGTTGTTGTTCTTCTTCTCCG 59.779 50.000 0.00 0.00 0.00 4.63
44 45 3.203716 ACCGTTGTTGTTCTTCTTCTCC 58.796 45.455 0.00 0.00 0.00 3.71
45 46 3.060473 CGACCGTTGTTGTTCTTCTTCTC 60.060 47.826 0.00 0.00 0.00 2.87
46 47 2.864343 CGACCGTTGTTGTTCTTCTTCT 59.136 45.455 0.00 0.00 0.00 2.85
47 48 2.033151 CCGACCGTTGTTGTTCTTCTTC 60.033 50.000 0.00 0.00 0.00 2.87
48 49 1.937899 CCGACCGTTGTTGTTCTTCTT 59.062 47.619 0.00 0.00 0.00 2.52
49 50 1.578583 CCGACCGTTGTTGTTCTTCT 58.421 50.000 0.00 0.00 0.00 2.85
50 51 0.584876 CCCGACCGTTGTTGTTCTTC 59.415 55.000 0.00 0.00 0.00 2.87
51 52 0.816421 CCCCGACCGTTGTTGTTCTT 60.816 55.000 0.00 0.00 0.00 2.52
52 53 1.227734 CCCCGACCGTTGTTGTTCT 60.228 57.895 0.00 0.00 0.00 3.01
53 54 1.226030 CTCCCCGACCGTTGTTGTTC 61.226 60.000 0.00 0.00 0.00 3.18
54 55 1.227734 CTCCCCGACCGTTGTTGTT 60.228 57.895 0.00 0.00 0.00 2.83
55 56 2.424302 CTCCCCGACCGTTGTTGT 59.576 61.111 0.00 0.00 0.00 3.32
56 57 2.358247 CCTCCCCGACCGTTGTTG 60.358 66.667 0.00 0.00 0.00 3.33
57 58 3.633116 CCCTCCCCGACCGTTGTT 61.633 66.667 0.00 0.00 0.00 2.83
91 92 3.866582 CACCCGAGCCCATCCTCC 61.867 72.222 0.00 0.00 0.00 4.30
92 93 4.554036 GCACCCGAGCCCATCCTC 62.554 72.222 0.00 0.00 0.00 3.71
94 95 4.864334 CAGCACCCGAGCCCATCC 62.864 72.222 0.00 0.00 34.23 3.51
112 113 2.932234 AAGAGGACACCGAGCCGTG 61.932 63.158 0.00 0.00 39.75 4.94
113 114 2.600769 AAGAGGACACCGAGCCGT 60.601 61.111 0.00 0.00 0.00 5.68
114 115 1.592400 TACAAGAGGACACCGAGCCG 61.592 60.000 0.00 0.00 0.00 5.52
115 116 0.108756 GTACAAGAGGACACCGAGCC 60.109 60.000 0.00 0.00 0.00 4.70
116 117 0.108756 GGTACAAGAGGACACCGAGC 60.109 60.000 0.00 0.00 0.00 5.03
117 118 1.254026 TGGTACAAGAGGACACCGAG 58.746 55.000 0.00 0.00 33.55 4.63
118 119 3.443044 TGGTACAAGAGGACACCGA 57.557 52.632 0.00 0.00 33.55 4.69
130 131 1.357137 TCCAGGTCAGCATTGGTACA 58.643 50.000 0.00 0.00 33.65 2.90
131 132 2.717639 ATCCAGGTCAGCATTGGTAC 57.282 50.000 0.00 0.00 33.65 3.34
132 133 3.780294 ACTTATCCAGGTCAGCATTGGTA 59.220 43.478 0.00 0.00 33.65 3.25
133 134 2.578021 ACTTATCCAGGTCAGCATTGGT 59.422 45.455 0.00 0.00 33.65 3.67
134 135 3.287867 ACTTATCCAGGTCAGCATTGG 57.712 47.619 0.00 0.00 0.00 3.16
135 136 5.295292 CACTAACTTATCCAGGTCAGCATTG 59.705 44.000 0.00 0.00 0.00 2.82
136 137 5.431765 CACTAACTTATCCAGGTCAGCATT 58.568 41.667 0.00 0.00 0.00 3.56
137 138 4.141620 CCACTAACTTATCCAGGTCAGCAT 60.142 45.833 0.00 0.00 0.00 3.79
138 139 3.197766 CCACTAACTTATCCAGGTCAGCA 59.802 47.826 0.00 0.00 0.00 4.41
139 140 3.432326 CCCACTAACTTATCCAGGTCAGC 60.432 52.174 0.00 0.00 0.00 4.26
140 141 3.775316 ACCCACTAACTTATCCAGGTCAG 59.225 47.826 0.00 0.00 0.00 3.51
141 142 3.773119 GACCCACTAACTTATCCAGGTCA 59.227 47.826 0.00 0.00 41.73 4.02
142 143 3.134262 GGACCCACTAACTTATCCAGGTC 59.866 52.174 0.00 0.00 41.46 3.85
143 144 3.113043 GGACCCACTAACTTATCCAGGT 58.887 50.000 0.00 0.00 0.00 4.00
144 145 2.438392 GGGACCCACTAACTTATCCAGG 59.562 54.545 5.33 0.00 0.00 4.45
145 146 3.112263 TGGGACCCACTAACTTATCCAG 58.888 50.000 9.95 0.00 0.00 3.86
146 147 3.208570 TGGGACCCACTAACTTATCCA 57.791 47.619 9.95 0.00 0.00 3.41
147 148 3.747708 GCATGGGACCCACTAACTTATCC 60.748 52.174 17.78 0.00 35.80 2.59
148 149 3.136626 AGCATGGGACCCACTAACTTATC 59.863 47.826 17.78 0.00 35.80 1.75
149 150 3.117888 CAGCATGGGACCCACTAACTTAT 60.118 47.826 17.78 0.00 35.80 1.73
150 151 2.238646 CAGCATGGGACCCACTAACTTA 59.761 50.000 17.78 0.00 35.80 2.24
151 152 1.004745 CAGCATGGGACCCACTAACTT 59.995 52.381 17.78 0.00 35.80 2.66
152 153 0.620556 CAGCATGGGACCCACTAACT 59.379 55.000 17.78 8.02 35.80 2.24
153 154 0.328258 ACAGCATGGGACCCACTAAC 59.672 55.000 17.78 5.54 43.62 2.34
154 155 2.785743 ACAGCATGGGACCCACTAA 58.214 52.632 17.78 0.00 43.62 2.24
155 156 4.579354 ACAGCATGGGACCCACTA 57.421 55.556 17.78 0.00 43.62 2.74
165 166 4.415150 AGCGGGACCCACAGCATG 62.415 66.667 12.15 0.00 46.00 4.06
166 167 4.101448 GAGCGGGACCCACAGCAT 62.101 66.667 12.15 0.00 0.00 3.79
169 170 4.394712 GGTGAGCGGGACCCACAG 62.395 72.222 12.15 0.00 32.79 3.66
170 171 4.954118 AGGTGAGCGGGACCCACA 62.954 66.667 12.15 4.61 33.51 4.17
171 172 4.394712 CAGGTGAGCGGGACCCAC 62.395 72.222 12.15 0.00 33.51 4.61
172 173 3.924013 ATCAGGTGAGCGGGACCCA 62.924 63.158 12.15 0.00 33.51 4.51
173 174 2.595009 GAATCAGGTGAGCGGGACCC 62.595 65.000 0.00 0.00 33.51 4.46
174 175 1.153349 GAATCAGGTGAGCGGGACC 60.153 63.158 0.00 0.00 0.00 4.46
175 176 1.519455 CGAATCAGGTGAGCGGGAC 60.519 63.158 0.00 0.00 0.00 4.46
176 177 1.667154 CTCGAATCAGGTGAGCGGGA 61.667 60.000 0.00 0.00 30.82 5.14
177 178 1.227089 CTCGAATCAGGTGAGCGGG 60.227 63.158 5.52 0.00 0.00 6.13
178 179 0.108615 AACTCGAATCAGGTGAGCGG 60.109 55.000 5.52 0.98 32.98 5.52
179 180 1.714794 AAACTCGAATCAGGTGAGCG 58.285 50.000 0.00 0.08 32.98 5.03
180 181 5.049680 TGTTTAAAACTCGAATCAGGTGAGC 60.050 40.000 0.00 0.00 32.98 4.26
181 182 6.539649 TGTTTAAAACTCGAATCAGGTGAG 57.460 37.500 0.00 0.00 35.85 3.51
182 183 6.485313 ACATGTTTAAAACTCGAATCAGGTGA 59.515 34.615 0.00 0.00 0.00 4.02
183 184 6.578545 CACATGTTTAAAACTCGAATCAGGTG 59.421 38.462 0.00 0.00 33.44 4.00
184 185 6.262273 ACACATGTTTAAAACTCGAATCAGGT 59.738 34.615 0.00 0.00 0.00 4.00
185 186 6.668323 ACACATGTTTAAAACTCGAATCAGG 58.332 36.000 0.00 0.00 0.00 3.86
186 187 7.576236 AGACACATGTTTAAAACTCGAATCAG 58.424 34.615 0.00 0.00 0.00 2.90
187 188 7.490962 AGACACATGTTTAAAACTCGAATCA 57.509 32.000 0.00 0.00 0.00 2.57
188 189 8.682016 CAAAGACACATGTTTAAAACTCGAATC 58.318 33.333 0.00 0.00 0.00 2.52
189 190 7.647715 CCAAAGACACATGTTTAAAACTCGAAT 59.352 33.333 0.00 0.00 0.00 3.34
190 191 6.970043 CCAAAGACACATGTTTAAAACTCGAA 59.030 34.615 0.00 0.00 0.00 3.71
191 192 6.316640 TCCAAAGACACATGTTTAAAACTCGA 59.683 34.615 0.00 0.00 0.00 4.04
192 193 6.491394 TCCAAAGACACATGTTTAAAACTCG 58.509 36.000 0.00 0.00 0.00 4.18
193 194 8.871686 AATCCAAAGACACATGTTTAAAACTC 57.128 30.769 0.00 0.00 0.00 3.01
194 195 9.965824 CTAATCCAAAGACACATGTTTAAAACT 57.034 29.630 0.00 0.00 0.00 2.66
195 196 9.191995 CCTAATCCAAAGACACATGTTTAAAAC 57.808 33.333 0.00 0.00 0.00 2.43
196 197 7.870445 GCCTAATCCAAAGACACATGTTTAAAA 59.130 33.333 0.00 0.00 0.00 1.52
197 198 7.014711 TGCCTAATCCAAAGACACATGTTTAAA 59.985 33.333 0.00 0.00 0.00 1.52
198 199 6.491745 TGCCTAATCCAAAGACACATGTTTAA 59.508 34.615 0.00 0.00 0.00 1.52
199 200 6.007076 TGCCTAATCCAAAGACACATGTTTA 58.993 36.000 0.00 0.00 0.00 2.01
200 201 4.832266 TGCCTAATCCAAAGACACATGTTT 59.168 37.500 0.00 0.00 0.00 2.83
201 202 4.406456 TGCCTAATCCAAAGACACATGTT 58.594 39.130 0.00 0.00 0.00 2.71
202 203 4.012374 CTGCCTAATCCAAAGACACATGT 58.988 43.478 0.00 0.00 0.00 3.21
203 204 4.012374 ACTGCCTAATCCAAAGACACATG 58.988 43.478 0.00 0.00 0.00 3.21
204 205 4.307032 ACTGCCTAATCCAAAGACACAT 57.693 40.909 0.00 0.00 0.00 3.21
205 206 3.788227 ACTGCCTAATCCAAAGACACA 57.212 42.857 0.00 0.00 0.00 3.72
206 207 4.631813 CACTACTGCCTAATCCAAAGACAC 59.368 45.833 0.00 0.00 0.00 3.67
207 208 4.286032 ACACTACTGCCTAATCCAAAGACA 59.714 41.667 0.00 0.00 0.00 3.41
208 209 4.833390 ACACTACTGCCTAATCCAAAGAC 58.167 43.478 0.00 0.00 0.00 3.01
209 210 4.381612 CGACACTACTGCCTAATCCAAAGA 60.382 45.833 0.00 0.00 0.00 2.52
210 211 3.865745 CGACACTACTGCCTAATCCAAAG 59.134 47.826 0.00 0.00 0.00 2.77
211 212 3.857052 CGACACTACTGCCTAATCCAAA 58.143 45.455 0.00 0.00 0.00 3.28
212 213 2.418197 GCGACACTACTGCCTAATCCAA 60.418 50.000 0.00 0.00 0.00 3.53
213 214 1.136305 GCGACACTACTGCCTAATCCA 59.864 52.381 0.00 0.00 0.00 3.41
214 215 1.136305 TGCGACACTACTGCCTAATCC 59.864 52.381 0.00 0.00 0.00 3.01
215 216 2.579207 TGCGACACTACTGCCTAATC 57.421 50.000 0.00 0.00 0.00 1.75
216 217 2.483714 CCATGCGACACTACTGCCTAAT 60.484 50.000 0.00 0.00 0.00 1.73
217 218 1.134818 CCATGCGACACTACTGCCTAA 60.135 52.381 0.00 0.00 0.00 2.69
218 219 0.459899 CCATGCGACACTACTGCCTA 59.540 55.000 0.00 0.00 0.00 3.93
219 220 1.219124 CCATGCGACACTACTGCCT 59.781 57.895 0.00 0.00 0.00 4.75
220 221 1.815421 CCCATGCGACACTACTGCC 60.815 63.158 0.00 0.00 0.00 4.85
221 222 0.807667 CTCCCATGCGACACTACTGC 60.808 60.000 0.00 0.00 0.00 4.40
222 223 0.807667 GCTCCCATGCGACACTACTG 60.808 60.000 0.00 0.00 0.00 2.74
223 224 0.972983 AGCTCCCATGCGACACTACT 60.973 55.000 0.00 0.00 38.13 2.57
224 225 0.744874 TAGCTCCCATGCGACACTAC 59.255 55.000 0.00 0.00 38.13 2.73
225 226 1.704641 ATAGCTCCCATGCGACACTA 58.295 50.000 0.00 0.00 38.13 2.74
226 227 0.833287 AATAGCTCCCATGCGACACT 59.167 50.000 0.00 0.00 38.13 3.55
227 228 1.668419 AAATAGCTCCCATGCGACAC 58.332 50.000 0.00 0.00 38.13 3.67
228 229 2.418368 AAAATAGCTCCCATGCGACA 57.582 45.000 0.00 0.00 38.13 4.35
245 246 1.334599 GCGACATCTGCGTTGGAAAAA 60.335 47.619 0.00 0.00 0.00 1.94
246 247 0.237235 GCGACATCTGCGTTGGAAAA 59.763 50.000 0.00 0.00 0.00 2.29
247 248 0.882484 TGCGACATCTGCGTTGGAAA 60.882 50.000 0.00 0.00 34.24 3.13
248 249 0.673333 ATGCGACATCTGCGTTGGAA 60.673 50.000 0.00 0.00 34.24 3.53
249 250 1.079197 ATGCGACATCTGCGTTGGA 60.079 52.632 0.00 0.00 34.24 3.53
250 251 1.061411 CATGCGACATCTGCGTTGG 59.939 57.895 0.00 0.00 34.24 3.77
251 252 0.025898 CTCATGCGACATCTGCGTTG 59.974 55.000 0.00 0.00 34.24 4.10
252 253 0.108662 TCTCATGCGACATCTGCGTT 60.109 50.000 0.00 0.00 34.24 4.84
253 254 0.527169 CTCTCATGCGACATCTGCGT 60.527 55.000 0.00 0.00 34.24 5.24
254 255 1.819226 GCTCTCATGCGACATCTGCG 61.819 60.000 0.00 0.00 34.24 5.18
255 256 0.530211 AGCTCTCATGCGACATCTGC 60.530 55.000 0.00 0.00 38.13 4.26
256 257 2.789491 TAGCTCTCATGCGACATCTG 57.211 50.000 0.00 0.00 38.13 2.90
257 258 4.279420 TGTAATAGCTCTCATGCGACATCT 59.721 41.667 0.00 0.00 38.13 2.90
258 259 4.550422 TGTAATAGCTCTCATGCGACATC 58.450 43.478 0.00 0.00 38.13 3.06
259 260 4.590850 TGTAATAGCTCTCATGCGACAT 57.409 40.909 0.00 0.00 38.13 3.06
260 261 4.112634 GTTGTAATAGCTCTCATGCGACA 58.887 43.478 0.00 0.00 38.13 4.35
261 262 3.491267 GGTTGTAATAGCTCTCATGCGAC 59.509 47.826 0.00 0.00 38.13 5.19
262 263 3.132111 TGGTTGTAATAGCTCTCATGCGA 59.868 43.478 0.00 0.00 38.13 5.10
263 264 3.457234 TGGTTGTAATAGCTCTCATGCG 58.543 45.455 0.00 0.00 38.13 4.73
264 265 4.260375 CGTTGGTTGTAATAGCTCTCATGC 60.260 45.833 0.00 0.00 0.00 4.06
265 266 5.005779 GTCGTTGGTTGTAATAGCTCTCATG 59.994 44.000 0.00 0.00 0.00 3.07
266 267 5.109903 GTCGTTGGTTGTAATAGCTCTCAT 58.890 41.667 0.00 0.00 0.00 2.90
267 268 4.491676 GTCGTTGGTTGTAATAGCTCTCA 58.508 43.478 0.00 0.00 0.00 3.27
268 269 3.546670 CGTCGTTGGTTGTAATAGCTCTC 59.453 47.826 0.00 0.00 0.00 3.20
269 270 3.057033 ACGTCGTTGGTTGTAATAGCTCT 60.057 43.478 0.00 0.00 0.00 4.09
270 271 3.248266 ACGTCGTTGGTTGTAATAGCTC 58.752 45.455 0.00 0.00 0.00 4.09
271 272 3.308438 ACGTCGTTGGTTGTAATAGCT 57.692 42.857 0.00 0.00 0.00 3.32
272 273 3.728600 CAACGTCGTTGGTTGTAATAGC 58.271 45.455 26.79 0.00 39.56 2.97
273 274 3.184783 TGCAACGTCGTTGGTTGTAATAG 59.815 43.478 32.72 9.77 45.01 1.73
274 275 3.129109 TGCAACGTCGTTGGTTGTAATA 58.871 40.909 32.72 0.94 45.01 0.98
275 276 1.941294 TGCAACGTCGTTGGTTGTAAT 59.059 42.857 32.72 0.00 45.01 1.89
276 277 1.366679 TGCAACGTCGTTGGTTGTAA 58.633 45.000 32.72 4.60 45.01 2.41
277 278 1.261885 CATGCAACGTCGTTGGTTGTA 59.738 47.619 32.72 13.23 45.01 2.41
278 279 0.028770 CATGCAACGTCGTTGGTTGT 59.971 50.000 32.72 0.00 45.01 3.32
279 280 0.306228 TCATGCAACGTCGTTGGTTG 59.694 50.000 32.72 14.31 45.76 3.77
280 281 0.586319 CTCATGCAACGTCGTTGGTT 59.414 50.000 32.72 0.52 42.99 3.67
281 282 0.249699 TCTCATGCAACGTCGTTGGT 60.250 50.000 32.72 0.91 42.99 3.67
282 283 0.439985 CTCTCATGCAACGTCGTTGG 59.560 55.000 32.72 19.78 42.99 3.77
283 284 1.125021 GTCTCTCATGCAACGTCGTTG 59.875 52.381 29.35 29.35 45.24 4.10
284 285 1.269569 TGTCTCTCATGCAACGTCGTT 60.270 47.619 4.40 4.40 0.00 3.85
285 286 0.313987 TGTCTCTCATGCAACGTCGT 59.686 50.000 0.00 0.00 0.00 4.34
286 287 1.418373 TTGTCTCTCATGCAACGTCG 58.582 50.000 0.00 0.00 0.00 5.12
287 288 3.433274 TGAATTGTCTCTCATGCAACGTC 59.567 43.478 0.00 0.00 0.00 4.34
288 289 3.187227 GTGAATTGTCTCTCATGCAACGT 59.813 43.478 0.00 0.00 0.00 3.99
289 290 3.187022 TGTGAATTGTCTCTCATGCAACG 59.813 43.478 0.00 0.00 0.00 4.10
290 291 4.470462 GTGTGAATTGTCTCTCATGCAAC 58.530 43.478 0.00 0.00 0.00 4.17
291 292 3.503363 GGTGTGAATTGTCTCTCATGCAA 59.497 43.478 0.00 0.00 0.00 4.08
292 293 3.076621 GGTGTGAATTGTCTCTCATGCA 58.923 45.455 0.00 0.00 0.00 3.96
293 294 3.076621 TGGTGTGAATTGTCTCTCATGC 58.923 45.455 0.00 0.00 0.00 4.06
294 295 5.413523 TCATTGGTGTGAATTGTCTCTCATG 59.586 40.000 0.00 0.00 0.00 3.07
295 296 5.413833 GTCATTGGTGTGAATTGTCTCTCAT 59.586 40.000 0.00 0.00 0.00 2.90
296 297 4.756642 GTCATTGGTGTGAATTGTCTCTCA 59.243 41.667 0.00 0.00 0.00 3.27
297 298 4.143030 CGTCATTGGTGTGAATTGTCTCTC 60.143 45.833 0.00 0.00 0.00 3.20
298 299 3.748048 CGTCATTGGTGTGAATTGTCTCT 59.252 43.478 0.00 0.00 0.00 3.10
299 300 3.498397 ACGTCATTGGTGTGAATTGTCTC 59.502 43.478 0.00 0.00 0.00 3.36
300 301 3.476552 ACGTCATTGGTGTGAATTGTCT 58.523 40.909 0.00 0.00 0.00 3.41
301 302 3.664276 CGACGTCATTGGTGTGAATTGTC 60.664 47.826 17.16 0.00 0.00 3.18
302 303 2.223144 CGACGTCATTGGTGTGAATTGT 59.777 45.455 17.16 0.00 0.00 2.71
303 304 2.838275 CGACGTCATTGGTGTGAATTG 58.162 47.619 17.16 0.00 0.00 2.32
304 305 1.196808 GCGACGTCATTGGTGTGAATT 59.803 47.619 17.16 0.00 0.00 2.17
305 306 0.796312 GCGACGTCATTGGTGTGAAT 59.204 50.000 17.16 0.00 0.00 2.57
306 307 0.530870 TGCGACGTCATTGGTGTGAA 60.531 50.000 17.16 0.00 0.00 3.18
307 308 0.320334 ATGCGACGTCATTGGTGTGA 60.320 50.000 17.16 0.00 0.00 3.58
308 309 0.179217 CATGCGACGTCATTGGTGTG 60.179 55.000 17.16 0.00 0.00 3.82
309 310 1.298157 CCATGCGACGTCATTGGTGT 61.298 55.000 17.16 0.00 0.00 4.16
310 311 1.425031 CCATGCGACGTCATTGGTG 59.575 57.895 17.16 6.42 0.00 4.17
311 312 1.745115 CCCATGCGACGTCATTGGT 60.745 57.895 17.16 0.00 0.00 3.67
312 313 1.431488 CTCCCATGCGACGTCATTGG 61.431 60.000 17.16 17.22 32.26 3.16
313 314 2.009108 CTCCCATGCGACGTCATTG 58.991 57.895 17.16 9.20 0.00 2.82
314 315 1.815421 GCTCCCATGCGACGTCATT 60.815 57.895 17.16 0.00 0.00 2.57
315 316 1.391933 TAGCTCCCATGCGACGTCAT 61.392 55.000 17.16 0.00 38.13 3.06
316 317 1.391933 ATAGCTCCCATGCGACGTCA 61.392 55.000 17.16 0.00 38.13 4.35
317 318 0.249489 AATAGCTCCCATGCGACGTC 60.249 55.000 5.18 5.18 38.13 4.34
318 319 0.249489 GAATAGCTCCCATGCGACGT 60.249 55.000 0.00 0.00 38.13 4.34
319 320 1.278172 CGAATAGCTCCCATGCGACG 61.278 60.000 0.00 0.00 38.13 5.12
320 321 1.560860 GCGAATAGCTCCCATGCGAC 61.561 60.000 0.00 0.00 44.04 5.19
321 322 1.300931 GCGAATAGCTCCCATGCGA 60.301 57.895 0.00 0.00 44.04 5.10
322 323 3.248029 GCGAATAGCTCCCATGCG 58.752 61.111 0.00 0.00 44.04 4.73
324 325 1.669115 CGGGCGAATAGCTCCCATG 60.669 63.158 8.10 0.00 45.70 3.66
325 326 2.140792 ACGGGCGAATAGCTCCCAT 61.141 57.895 8.10 0.00 45.70 4.00
326 327 2.762459 ACGGGCGAATAGCTCCCA 60.762 61.111 8.10 0.00 45.70 4.37
327 328 2.280186 CACGGGCGAATAGCTCCC 60.280 66.667 0.00 0.00 45.70 4.30
328 329 1.152383 GAACACGGGCGAATAGCTCC 61.152 60.000 0.00 0.00 45.70 4.70
332 333 3.700961 CCGAACACGGGCGAATAG 58.299 61.111 0.00 0.00 42.66 1.73
340 341 4.619227 ACCACAGCCCGAACACGG 62.619 66.667 0.00 0.00 45.51 4.94
341 342 3.345808 CACCACAGCCCGAACACG 61.346 66.667 0.00 0.00 0.00 4.49
342 343 3.660111 GCACCACAGCCCGAACAC 61.660 66.667 0.00 0.00 0.00 3.32
343 344 3.414136 AAGCACCACAGCCCGAACA 62.414 57.895 0.00 0.00 34.23 3.18
374 375 0.657840 GATGATACCCTGCACGTTGC 59.342 55.000 3.44 3.44 45.29 4.17
381 382 8.526667 TTCAGTATAGATAGATGATACCCTGC 57.473 38.462 0.00 0.00 0.00 4.85
1917 1979 0.178992 TTGCAGTGGAAACTGAGGGG 60.179 55.000 9.97 0.00 39.99 4.79


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

AutoCloner maintained by Alex Coulton.