Multiple sequence alignment - TraesCS6D01G291200

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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 TraesCS6D01G291200 chr6D 100.000 2484 0 0 1 2484 401339696 401337213 0.000000e+00 4588
1 TraesCS6D01G291200 chr6D 90.146 274 22 5 3 275 338773323 338773054 3.930000e-93 351
2 TraesCS6D01G291200 chr6D 81.619 457 35 17 2033 2484 55133993 55134405 1.420000e-87 333
3 TraesCS6D01G291200 chr7B 94.221 2215 91 14 285 2484 319265402 319267594 0.000000e+00 3347
4 TraesCS6D01G291200 chr7B 96.122 1212 41 4 1003 2211 491904693 491903485 0.000000e+00 1973
5 TraesCS6D01G291200 chr7B 93.496 369 15 1 567 926 491905062 491904694 7.820000e-150 540
6 TraesCS6D01G291200 chr7B 81.441 458 32 21 2033 2484 416769105 416769515 2.380000e-85 326
7 TraesCS6D01G291200 chr4B 94.213 1918 95 8 304 2212 587428368 587430278 0.000000e+00 2913
8 TraesCS6D01G291200 chr5B 88.053 2034 192 29 284 2280 40031950 40033969 0.000000e+00 2362
9 TraesCS6D01G291200 chr2A 95.435 1183 46 2 284 1458 645909676 645910858 0.000000e+00 1879
10 TraesCS6D01G291200 chr2A 94.855 758 37 1 1455 2212 645911143 645911898 0.000000e+00 1182
11 TraesCS6D01G291200 chr2A 82.822 163 24 2 943 1103 385648339 385648499 2.580000e-30 143
12 TraesCS6D01G291200 chr3B 87.281 456 40 12 2033 2479 370538512 370538066 2.850000e-139 505
13 TraesCS6D01G291200 chr3B 87.037 378 34 14 2113 2483 334651086 334650717 1.780000e-111 412
14 TraesCS6D01G291200 chr3B 85.827 381 46 8 2110 2483 334642290 334641911 4.980000e-107 398
15 TraesCS6D01G291200 chr3B 83.981 206 24 7 1841 2044 68222861 68223059 3.260000e-44 189
16 TraesCS6D01G291200 chr3B 83.732 209 25 7 1841 2047 68223701 68223500 3.260000e-44 189
17 TraesCS6D01G291200 chr4A 85.777 457 47 12 2033 2483 113485086 113484642 3.740000e-128 468
18 TraesCS6D01G291200 chr4A 84.599 461 31 18 2033 2484 283595734 283595305 2.950000e-114 422
19 TraesCS6D01G291200 chr4A 83.034 501 41 19 1252 1736 439044626 439044154 4.940000e-112 414
20 TraesCS6D01G291200 chr4A 84.112 214 22 9 1416 1621 20904075 20903866 1.950000e-46 196
21 TraesCS6D01G291200 chr1B 85.495 455 34 15 2033 2483 143838419 143837993 1.750000e-121 446
22 TraesCS6D01G291200 chr1B 84.783 184 19 7 1862 2044 379801418 379801593 2.540000e-40 176
23 TraesCS6D01G291200 chr2D 90.559 286 20 4 3 287 439556805 439556526 3.020000e-99 372
24 TraesCS6D01G291200 chr2D 87.413 286 31 4 3 287 77528927 77529208 8.570000e-85 324
25 TraesCS6D01G291200 chr2D 86.268 284 31 5 8 287 456947371 456947092 4.010000e-78 302
26 TraesCS6D01G291200 chr5D 89.716 282 23 3 8 287 385243980 385244257 3.040000e-94 355
27 TraesCS6D01G291200 chr1D 88.112 286 29 2 3 287 69132701 69132420 3.960000e-88 335
28 TraesCS6D01G291200 chr7D 87.586 290 29 4 1 287 464555832 464555547 1.840000e-86 329
29 TraesCS6D01G291200 chr3D 87.762 286 30 2 3 287 74382399 74382680 1.840000e-86 329
30 TraesCS6D01G291200 chrUn 87.943 282 29 2 3 283 318882012 318882289 6.620000e-86 327
31 TraesCS6D01G291200 chr3A 85.047 214 20 9 1416 1621 163064983 163064774 9.000000e-50 207
32 TraesCS6D01G291200 chr3A 85.135 148 19 3 1841 1985 416633119 416633266 5.540000e-32 148
33 TraesCS6D01G291200 chr7A 96.721 61 2 0 1139 1199 291028381 291028321 4.370000e-18 102
34 TraesCS6D01G291200 chr1A 90.909 77 4 2 377 451 518183750 518183825 1.570000e-17 100


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 TraesCS6D01G291200 chr6D 401337213 401339696 2483 True 4588.0 4588 100.000 1 2484 1 chr6D.!!$R2 2483
1 TraesCS6D01G291200 chr7B 319265402 319267594 2192 False 3347.0 3347 94.221 285 2484 1 chr7B.!!$F1 2199
2 TraesCS6D01G291200 chr7B 491903485 491905062 1577 True 1256.5 1973 94.809 567 2211 2 chr7B.!!$R1 1644
3 TraesCS6D01G291200 chr4B 587428368 587430278 1910 False 2913.0 2913 94.213 304 2212 1 chr4B.!!$F1 1908
4 TraesCS6D01G291200 chr5B 40031950 40033969 2019 False 2362.0 2362 88.053 284 2280 1 chr5B.!!$F1 1996
5 TraesCS6D01G291200 chr2A 645909676 645911898 2222 False 1530.5 1879 95.145 284 2212 2 chr2A.!!$F2 1928

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
136 137 0.11714 TAGCCCCAGATGATCCGGAT 59.883 55.0 19.21 19.21 0.0 4.18 F
137 138 0.11714 AGCCCCAGATGATCCGGATA 59.883 55.0 19.15 6.50 0.0 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1098 1132 0.962356 CAAGGGAATCTTGGCGCTGT 60.962 55.000 7.64 0.0 46.81 4.40 R
1511 1839 1.425066 TGCTTGACCTTTCCTCCACAT 59.575 47.619 0.00 0.0 0.00 3.21 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
20 21 4.864334 GGCAGGGGCGAGTGGATG 62.864 72.222 0.00 0.00 42.47 3.51
21 22 4.864334 GCAGGGGCGAGTGGATGG 62.864 72.222 0.00 0.00 0.00 3.51
22 23 4.181010 CAGGGGCGAGTGGATGGG 62.181 72.222 0.00 0.00 0.00 4.00
25 26 4.176752 GGGCGAGTGGATGGGGTC 62.177 72.222 0.00 0.00 0.00 4.46
26 27 4.530857 GGCGAGTGGATGGGGTCG 62.531 72.222 0.00 0.00 35.51 4.79
27 28 3.771160 GCGAGTGGATGGGGTCGT 61.771 66.667 0.00 0.00 34.87 4.34
28 29 2.978824 CGAGTGGATGGGGTCGTT 59.021 61.111 0.00 0.00 0.00 3.85
29 30 1.447838 CGAGTGGATGGGGTCGTTG 60.448 63.158 0.00 0.00 0.00 4.10
30 31 1.078426 GAGTGGATGGGGTCGTTGG 60.078 63.158 0.00 0.00 0.00 3.77
31 32 2.045340 GTGGATGGGGTCGTTGGG 60.045 66.667 0.00 0.00 0.00 4.12
32 33 3.334891 TGGATGGGGTCGTTGGGG 61.335 66.667 0.00 0.00 0.00 4.96
33 34 4.123545 GGATGGGGTCGTTGGGGG 62.124 72.222 0.00 0.00 0.00 5.40
34 35 4.815108 GATGGGGTCGTTGGGGGC 62.815 72.222 0.00 0.00 0.00 5.80
40 41 4.011517 GTCGTTGGGGGCGGAGAA 62.012 66.667 0.00 0.00 0.00 2.87
41 42 4.011517 TCGTTGGGGGCGGAGAAC 62.012 66.667 0.00 0.00 0.00 3.01
42 43 4.323477 CGTTGGGGGCGGAGAACA 62.323 66.667 0.00 0.00 0.00 3.18
43 44 2.359975 GTTGGGGGCGGAGAACAG 60.360 66.667 0.00 0.00 0.00 3.16
44 45 2.528127 TTGGGGGCGGAGAACAGA 60.528 61.111 0.00 0.00 0.00 3.41
45 46 2.592993 TTGGGGGCGGAGAACAGAG 61.593 63.158 0.00 0.00 0.00 3.35
46 47 3.787001 GGGGGCGGAGAACAGAGG 61.787 72.222 0.00 0.00 0.00 3.69
47 48 2.683933 GGGGCGGAGAACAGAGGA 60.684 66.667 0.00 0.00 0.00 3.71
48 49 2.291043 GGGGCGGAGAACAGAGGAA 61.291 63.158 0.00 0.00 0.00 3.36
49 50 1.219393 GGGCGGAGAACAGAGGAAG 59.781 63.158 0.00 0.00 0.00 3.46
50 51 1.258445 GGGCGGAGAACAGAGGAAGA 61.258 60.000 0.00 0.00 0.00 2.87
51 52 0.608640 GGCGGAGAACAGAGGAAGAA 59.391 55.000 0.00 0.00 0.00 2.52
52 53 1.673329 GGCGGAGAACAGAGGAAGAAC 60.673 57.143 0.00 0.00 0.00 3.01
53 54 1.673329 GCGGAGAACAGAGGAAGAACC 60.673 57.143 0.00 0.00 39.35 3.62
54 55 1.066787 CGGAGAACAGAGGAAGAACCC 60.067 57.143 0.00 0.00 40.05 4.11
55 56 2.261729 GGAGAACAGAGGAAGAACCCT 58.738 52.381 0.00 0.00 40.05 4.34
64 65 2.777913 AGGAAGAACCCTCTATTCCCC 58.222 52.381 0.00 0.00 40.05 4.81
65 66 2.047296 AGGAAGAACCCTCTATTCCCCA 59.953 50.000 0.00 0.00 40.05 4.96
66 67 3.056832 GGAAGAACCCTCTATTCCCCAT 58.943 50.000 0.00 0.00 0.00 4.00
67 68 3.181439 GGAAGAACCCTCTATTCCCCATG 60.181 52.174 0.00 0.00 0.00 3.66
68 69 2.422746 AGAACCCTCTATTCCCCATGG 58.577 52.381 4.14 4.14 0.00 3.66
69 70 0.853530 AACCCTCTATTCCCCATGGC 59.146 55.000 6.09 0.00 0.00 4.40
70 71 1.068352 ACCCTCTATTCCCCATGGCC 61.068 60.000 6.09 0.00 0.00 5.36
71 72 0.773700 CCCTCTATTCCCCATGGCCT 60.774 60.000 6.09 0.00 0.00 5.19
72 73 0.403271 CCTCTATTCCCCATGGCCTG 59.597 60.000 6.09 0.00 0.00 4.85
73 74 1.438469 CTCTATTCCCCATGGCCTGA 58.562 55.000 6.09 0.00 0.00 3.86
74 75 1.991070 CTCTATTCCCCATGGCCTGAT 59.009 52.381 6.09 0.00 0.00 2.90
75 76 1.706866 TCTATTCCCCATGGCCTGATG 59.293 52.381 6.09 0.00 0.00 3.07
76 77 1.426598 CTATTCCCCATGGCCTGATGT 59.573 52.381 6.09 0.00 0.00 3.06
77 78 0.638292 ATTCCCCATGGCCTGATGTT 59.362 50.000 6.09 0.00 0.00 2.71
78 79 0.413037 TTCCCCATGGCCTGATGTTT 59.587 50.000 6.09 0.00 0.00 2.83
79 80 0.413037 TCCCCATGGCCTGATGTTTT 59.587 50.000 6.09 0.00 0.00 2.43
80 81 1.643286 TCCCCATGGCCTGATGTTTTA 59.357 47.619 6.09 0.00 0.00 1.52
81 82 1.756538 CCCCATGGCCTGATGTTTTAC 59.243 52.381 6.09 0.00 0.00 2.01
82 83 2.624029 CCCCATGGCCTGATGTTTTACT 60.624 50.000 6.09 0.00 0.00 2.24
83 84 2.428171 CCCATGGCCTGATGTTTTACTG 59.572 50.000 6.09 0.00 0.00 2.74
84 85 2.159198 CCATGGCCTGATGTTTTACTGC 60.159 50.000 3.32 0.00 0.00 4.40
85 86 2.584835 TGGCCTGATGTTTTACTGCT 57.415 45.000 3.32 0.00 0.00 4.24
86 87 2.875296 TGGCCTGATGTTTTACTGCTT 58.125 42.857 3.32 0.00 0.00 3.91
87 88 4.027674 TGGCCTGATGTTTTACTGCTTA 57.972 40.909 3.32 0.00 0.00 3.09
88 89 4.009675 TGGCCTGATGTTTTACTGCTTAG 58.990 43.478 3.32 0.00 0.00 2.18
89 90 3.378427 GGCCTGATGTTTTACTGCTTAGG 59.622 47.826 0.00 0.00 0.00 2.69
90 91 3.378427 GCCTGATGTTTTACTGCTTAGGG 59.622 47.826 0.00 0.00 0.00 3.53
91 92 3.378427 CCTGATGTTTTACTGCTTAGGGC 59.622 47.826 0.00 0.00 42.22 5.19
92 93 3.006940 TGATGTTTTACTGCTTAGGGCG 58.993 45.455 0.00 0.00 45.43 6.13
93 94 2.843401 TGTTTTACTGCTTAGGGCGA 57.157 45.000 0.00 0.00 45.43 5.54
94 95 2.695359 TGTTTTACTGCTTAGGGCGAG 58.305 47.619 0.00 0.00 45.43 5.03
95 96 2.007608 GTTTTACTGCTTAGGGCGAGG 58.992 52.381 0.00 0.00 45.43 4.63
96 97 1.563924 TTTACTGCTTAGGGCGAGGA 58.436 50.000 0.00 0.00 45.43 3.71
97 98 0.822164 TTACTGCTTAGGGCGAGGAC 59.178 55.000 0.00 0.00 45.43 3.85
98 99 1.041447 TACTGCTTAGGGCGAGGACC 61.041 60.000 0.00 0.00 45.43 4.46
108 109 3.849951 CGAGGACCCACCCGGATG 61.850 72.222 0.73 0.00 40.05 3.51
109 110 2.687566 GAGGACCCACCCGGATGT 60.688 66.667 0.73 0.00 40.05 3.06
110 111 2.687566 AGGACCCACCCGGATGTC 60.688 66.667 0.73 3.37 40.05 3.06
111 112 3.793888 GGACCCACCCGGATGTCC 61.794 72.222 0.73 9.51 36.73 4.02
133 134 1.290324 CGTAGCCCCAGATGATCCG 59.710 63.158 0.00 0.00 0.00 4.18
134 135 1.674057 GTAGCCCCAGATGATCCGG 59.326 63.158 0.00 0.00 0.00 5.14
135 136 0.832135 GTAGCCCCAGATGATCCGGA 60.832 60.000 6.61 6.61 0.00 5.14
136 137 0.117140 TAGCCCCAGATGATCCGGAT 59.883 55.000 19.21 19.21 0.00 4.18
137 138 0.117140 AGCCCCAGATGATCCGGATA 59.883 55.000 19.15 6.50 0.00 2.59
138 139 0.539051 GCCCCAGATGATCCGGATAG 59.461 60.000 19.15 5.18 0.00 2.08
139 140 1.198713 CCCCAGATGATCCGGATAGG 58.801 60.000 19.15 13.81 42.97 2.57
140 141 1.553417 CCCCAGATGATCCGGATAGGT 60.553 57.143 19.15 6.14 41.99 3.08
141 142 2.260822 CCCAGATGATCCGGATAGGTT 58.739 52.381 19.15 1.94 41.99 3.50
142 143 2.234908 CCCAGATGATCCGGATAGGTTC 59.765 54.545 19.15 11.66 41.99 3.62
143 144 2.094494 CCAGATGATCCGGATAGGTTCG 60.094 54.545 19.15 4.61 40.76 3.95
144 145 2.094494 CAGATGATCCGGATAGGTTCGG 60.094 54.545 19.15 8.79 46.89 4.30
150 151 3.888093 CGGATAGGTTCGGATGACC 57.112 57.895 0.00 0.00 37.44 4.02
160 161 4.542075 GGATGACCGGAAAGGAGC 57.458 61.111 9.46 0.00 45.00 4.70
161 162 1.153147 GGATGACCGGAAAGGAGCC 60.153 63.158 9.46 0.00 45.00 4.70
162 163 1.153147 GATGACCGGAAAGGAGCCC 60.153 63.158 9.46 0.00 45.00 5.19
163 164 2.925162 GATGACCGGAAAGGAGCCCG 62.925 65.000 9.46 0.00 45.00 6.13
167 168 2.203070 CGGAAAGGAGCCCGGATG 60.203 66.667 0.73 0.00 41.89 3.51
168 169 2.998949 GGAAAGGAGCCCGGATGT 59.001 61.111 0.73 0.00 0.00 3.06
169 170 1.153147 GGAAAGGAGCCCGGATGTC 60.153 63.158 0.73 0.00 0.00 3.06
170 171 1.153147 GAAAGGAGCCCGGATGTCC 60.153 63.158 0.73 5.71 0.00 4.02
171 172 1.910580 GAAAGGAGCCCGGATGTCCA 61.911 60.000 16.35 0.00 35.14 4.02
172 173 1.915078 AAAGGAGCCCGGATGTCCAG 61.915 60.000 16.35 0.00 35.14 3.86
173 174 3.866582 GGAGCCCGGATGTCCAGG 61.867 72.222 0.73 0.00 36.63 4.45
174 175 3.083997 GAGCCCGGATGTCCAGGT 61.084 66.667 0.73 0.00 35.94 4.00
175 176 1.760875 GAGCCCGGATGTCCAGGTA 60.761 63.158 0.73 0.00 35.94 3.08
176 177 1.074471 AGCCCGGATGTCCAGGTAT 60.074 57.895 0.73 0.00 35.94 2.73
177 178 0.190069 AGCCCGGATGTCCAGGTATA 59.810 55.000 0.73 0.00 35.94 1.47
178 179 0.320697 GCCCGGATGTCCAGGTATAC 59.679 60.000 0.73 0.00 35.94 1.47
179 180 0.601558 CCCGGATGTCCAGGTATACG 59.398 60.000 0.73 4.61 35.14 3.06
180 181 0.601558 CCGGATGTCCAGGTATACGG 59.398 60.000 13.51 13.51 43.67 4.02
181 182 0.601558 CGGATGTCCAGGTATACGGG 59.398 60.000 5.98 5.98 35.14 5.28
182 183 1.713297 GGATGTCCAGGTATACGGGT 58.287 55.000 10.87 0.00 35.71 5.28
183 184 2.815215 CGGATGTCCAGGTATACGGGTA 60.815 54.545 10.87 4.16 35.71 3.69
184 185 2.560105 GGATGTCCAGGTATACGGGTAC 59.440 54.545 10.87 8.86 35.71 3.34
185 186 2.824689 TGTCCAGGTATACGGGTACA 57.175 50.000 10.87 10.68 35.71 2.90
186 187 2.658285 TGTCCAGGTATACGGGTACAG 58.342 52.381 10.87 0.00 35.71 2.74
187 188 1.959282 GTCCAGGTATACGGGTACAGG 59.041 57.143 10.87 0.00 35.71 4.00
188 189 1.133388 TCCAGGTATACGGGTACAGGG 60.133 57.143 10.87 0.00 35.71 4.45
189 190 1.133388 CCAGGTATACGGGTACAGGGA 60.133 57.143 0.00 0.00 0.00 4.20
190 191 2.236766 CAGGTATACGGGTACAGGGAG 58.763 57.143 0.00 0.00 0.00 4.30
191 192 1.855599 AGGTATACGGGTACAGGGAGT 59.144 52.381 0.00 0.00 0.00 3.85
192 193 1.959282 GGTATACGGGTACAGGGAGTG 59.041 57.143 0.00 0.00 0.00 3.51
193 194 1.959282 GTATACGGGTACAGGGAGTGG 59.041 57.143 0.00 0.00 0.00 4.00
194 195 0.632835 ATACGGGTACAGGGAGTGGA 59.367 55.000 0.00 0.00 0.00 4.02
195 196 0.409092 TACGGGTACAGGGAGTGGAA 59.591 55.000 0.00 0.00 0.00 3.53
196 197 1.190178 ACGGGTACAGGGAGTGGAAC 61.190 60.000 0.00 0.00 0.00 3.62
207 208 3.369921 GTGGAACTACCCGGACGT 58.630 61.111 0.73 0.00 38.00 4.34
208 209 1.213799 GTGGAACTACCCGGACGTC 59.786 63.158 7.13 7.13 38.00 4.34
209 210 1.978617 TGGAACTACCCGGACGTCC 60.979 63.158 25.28 25.28 38.00 4.79
220 221 2.973420 GGACGTCCGGATGAACATC 58.027 57.895 30.28 16.22 37.11 3.06
231 232 2.738846 GGATGAACATCCGAATGATCCG 59.261 50.000 16.46 0.00 46.84 4.18
232 233 4.415828 GGATGAACATCCGAATGATCCGG 61.416 52.174 16.46 0.00 46.84 5.14
233 234 0.868406 GAACATCCGAATGATCCGGC 59.132 55.000 0.00 0.00 46.10 6.13
234 235 0.535102 AACATCCGAATGATCCGGCC 60.535 55.000 0.00 0.00 46.10 6.13
235 236 1.071299 CATCCGAATGATCCGGCCA 59.929 57.895 2.24 0.00 46.10 5.36
236 237 0.952497 CATCCGAATGATCCGGCCAG 60.952 60.000 2.24 0.00 46.10 4.85
237 238 2.738213 ATCCGAATGATCCGGCCAGC 62.738 60.000 2.24 0.00 46.10 4.85
238 239 2.974698 CGAATGATCCGGCCAGCC 60.975 66.667 2.24 0.00 0.00 4.85
239 240 2.192979 GAATGATCCGGCCAGCCA 59.807 61.111 9.78 0.00 35.37 4.75
240 241 1.895707 GAATGATCCGGCCAGCCAG 60.896 63.158 9.78 0.00 35.37 4.85
241 242 2.329539 GAATGATCCGGCCAGCCAGA 62.330 60.000 9.78 2.80 35.37 3.86
242 243 2.335092 AATGATCCGGCCAGCCAGAG 62.335 60.000 9.78 0.00 35.37 3.35
243 244 3.474570 GATCCGGCCAGCCAGAGT 61.475 66.667 9.78 0.00 35.37 3.24
244 245 3.746949 GATCCGGCCAGCCAGAGTG 62.747 68.421 9.78 0.00 35.37 3.51
259 260 4.288670 CAGAGTGCTGGCTGATATTTTG 57.711 45.455 0.00 0.00 38.51 2.44
260 261 3.943381 CAGAGTGCTGGCTGATATTTTGA 59.057 43.478 0.00 0.00 38.51 2.69
261 262 4.397103 CAGAGTGCTGGCTGATATTTTGAA 59.603 41.667 0.00 0.00 38.51 2.69
262 263 4.397417 AGAGTGCTGGCTGATATTTTGAAC 59.603 41.667 0.00 0.00 0.00 3.18
263 264 4.338879 AGTGCTGGCTGATATTTTGAACT 58.661 39.130 0.00 0.00 0.00 3.01
264 265 4.157289 AGTGCTGGCTGATATTTTGAACTG 59.843 41.667 0.00 0.00 0.00 3.16
265 266 3.444742 TGCTGGCTGATATTTTGAACTGG 59.555 43.478 0.00 0.00 0.00 4.00
266 267 3.445096 GCTGGCTGATATTTTGAACTGGT 59.555 43.478 0.00 0.00 0.00 4.00
267 268 4.676196 GCTGGCTGATATTTTGAACTGGTG 60.676 45.833 0.00 0.00 0.00 4.17
268 269 4.661222 TGGCTGATATTTTGAACTGGTGA 58.339 39.130 0.00 0.00 0.00 4.02
269 270 5.263599 TGGCTGATATTTTGAACTGGTGAT 58.736 37.500 0.00 0.00 0.00 3.06
270 271 5.125900 TGGCTGATATTTTGAACTGGTGATG 59.874 40.000 0.00 0.00 0.00 3.07
271 272 5.357878 GGCTGATATTTTGAACTGGTGATGA 59.642 40.000 0.00 0.00 0.00 2.92
272 273 6.040166 GGCTGATATTTTGAACTGGTGATGAT 59.960 38.462 0.00 0.00 0.00 2.45
273 274 6.916387 GCTGATATTTTGAACTGGTGATGATG 59.084 38.462 0.00 0.00 0.00 3.07
274 275 7.415989 GCTGATATTTTGAACTGGTGATGATGT 60.416 37.037 0.00 0.00 0.00 3.06
275 276 7.764331 TGATATTTTGAACTGGTGATGATGTG 58.236 34.615 0.00 0.00 0.00 3.21
276 277 7.611079 TGATATTTTGAACTGGTGATGATGTGA 59.389 33.333 0.00 0.00 0.00 3.58
277 278 6.845758 ATTTTGAACTGGTGATGATGTGAT 57.154 33.333 0.00 0.00 0.00 3.06
278 279 5.632244 TTTGAACTGGTGATGATGTGATG 57.368 39.130 0.00 0.00 0.00 3.07
279 280 4.556592 TGAACTGGTGATGATGTGATGA 57.443 40.909 0.00 0.00 0.00 2.92
280 281 5.106876 TGAACTGGTGATGATGTGATGAT 57.893 39.130 0.00 0.00 0.00 2.45
281 282 4.879545 TGAACTGGTGATGATGTGATGATG 59.120 41.667 0.00 0.00 0.00 3.07
282 283 4.498894 ACTGGTGATGATGTGATGATGT 57.501 40.909 0.00 0.00 0.00 3.06
546 571 2.508439 TTCGTCCGAAGCATCCGC 60.508 61.111 0.00 0.00 38.99 5.54
1028 1062 4.082523 GCTGCCGCCACTCCACTA 62.083 66.667 0.00 0.00 0.00 2.74
1369 1405 3.387962 TGGATCAGCCATACTTCCTCTT 58.612 45.455 0.00 0.00 43.33 2.85
1625 1953 6.479095 TTTGTGCCTCAAACAAAAGAAAAG 57.521 33.333 0.00 0.00 42.83 2.27
1629 1957 6.708054 TGTGCCTCAAACAAAAGAAAAGAAAA 59.292 30.769 0.00 0.00 0.00 2.29
1704 2032 2.844362 CCGATGCCCAGCTCCCTA 60.844 66.667 0.00 0.00 0.00 3.53
1705 2033 2.219875 CCGATGCCCAGCTCCCTAT 61.220 63.158 0.00 0.00 0.00 2.57
1717 2045 2.152297 CTCCCTATCGCAGCGATGCT 62.152 60.000 35.42 16.97 46.43 3.79
1799 2127 2.115266 CCCTTGCCAACTTCCGGT 59.885 61.111 0.00 0.00 0.00 5.28
1806 2134 2.030562 CAACTTCCGGTGCGAGGT 59.969 61.111 0.00 0.00 0.00 3.85
1826 2154 2.960688 GCCTCCGCTTCCTCCTTGT 61.961 63.158 0.00 0.00 0.00 3.16
2047 2379 0.324738 AGGAGGTCGAGCTTCCATGA 60.325 55.000 24.97 0.00 45.00 3.07
2399 2735 5.683743 CCACAAACACTACACAAATTTACCG 59.316 40.000 0.00 0.00 0.00 4.02
2405 2741 8.623310 AACACTACACAAATTTACCGAAAAAG 57.377 30.769 0.00 0.00 0.00 2.27
2426 2762 8.780616 AAAAGAAAATCAAAATTTCCCCCATT 57.219 26.923 0.00 0.00 37.47 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.864334 CATCCACTCGCCCCTGCC 62.864 72.222 0.00 0.00 0.00 4.85
4 5 4.864334 CCATCCACTCGCCCCTGC 62.864 72.222 0.00 0.00 0.00 4.85
5 6 4.181010 CCCATCCACTCGCCCCTG 62.181 72.222 0.00 0.00 0.00 4.45
8 9 4.176752 GACCCCATCCACTCGCCC 62.177 72.222 0.00 0.00 0.00 6.13
9 10 4.530857 CGACCCCATCCACTCGCC 62.531 72.222 0.00 0.00 0.00 5.54
10 11 3.310860 AACGACCCCATCCACTCGC 62.311 63.158 0.00 0.00 0.00 5.03
11 12 1.447838 CAACGACCCCATCCACTCG 60.448 63.158 0.00 0.00 0.00 4.18
12 13 1.078426 CCAACGACCCCATCCACTC 60.078 63.158 0.00 0.00 0.00 3.51
13 14 2.602676 CCCAACGACCCCATCCACT 61.603 63.158 0.00 0.00 0.00 4.00
14 15 2.045340 CCCAACGACCCCATCCAC 60.045 66.667 0.00 0.00 0.00 4.02
15 16 3.334891 CCCCAACGACCCCATCCA 61.335 66.667 0.00 0.00 0.00 3.41
16 17 4.123545 CCCCCAACGACCCCATCC 62.124 72.222 0.00 0.00 0.00 3.51
17 18 4.815108 GCCCCCAACGACCCCATC 62.815 72.222 0.00 0.00 0.00 3.51
23 24 4.011517 TTCTCCGCCCCCAACGAC 62.012 66.667 0.00 0.00 0.00 4.34
24 25 4.011517 GTTCTCCGCCCCCAACGA 62.012 66.667 0.00 0.00 0.00 3.85
25 26 4.323477 TGTTCTCCGCCCCCAACG 62.323 66.667 0.00 0.00 0.00 4.10
26 27 2.359975 CTGTTCTCCGCCCCCAAC 60.360 66.667 0.00 0.00 0.00 3.77
27 28 2.528127 TCTGTTCTCCGCCCCCAA 60.528 61.111 0.00 0.00 0.00 4.12
28 29 3.003173 CTCTGTTCTCCGCCCCCA 61.003 66.667 0.00 0.00 0.00 4.96
29 30 3.787001 CCTCTGTTCTCCGCCCCC 61.787 72.222 0.00 0.00 0.00 5.40
30 31 2.245438 CTTCCTCTGTTCTCCGCCCC 62.245 65.000 0.00 0.00 0.00 5.80
31 32 1.219393 CTTCCTCTGTTCTCCGCCC 59.781 63.158 0.00 0.00 0.00 6.13
32 33 0.608640 TTCTTCCTCTGTTCTCCGCC 59.391 55.000 0.00 0.00 0.00 6.13
33 34 1.673329 GGTTCTTCCTCTGTTCTCCGC 60.673 57.143 0.00 0.00 0.00 5.54
34 35 1.066787 GGGTTCTTCCTCTGTTCTCCG 60.067 57.143 0.00 0.00 36.25 4.63
35 36 2.261729 AGGGTTCTTCCTCTGTTCTCC 58.738 52.381 0.00 0.00 36.25 3.71
44 45 2.047296 TGGGGAATAGAGGGTTCTTCCT 59.953 50.000 0.00 0.00 40.43 3.36
45 46 2.488836 TGGGGAATAGAGGGTTCTTCC 58.511 52.381 0.00 0.00 34.79 3.46
46 47 3.181439 CCATGGGGAATAGAGGGTTCTTC 60.181 52.174 2.85 0.00 35.59 2.87
47 48 2.785857 CCATGGGGAATAGAGGGTTCTT 59.214 50.000 2.85 0.00 35.59 2.52
48 49 2.422746 CCATGGGGAATAGAGGGTTCT 58.577 52.381 2.85 0.00 35.59 3.01
49 50 1.202940 GCCATGGGGAATAGAGGGTTC 60.203 57.143 15.13 0.00 35.59 3.62
50 51 0.853530 GCCATGGGGAATAGAGGGTT 59.146 55.000 15.13 0.00 35.59 4.11
51 52 1.068352 GGCCATGGGGAATAGAGGGT 61.068 60.000 15.13 0.00 35.59 4.34
52 53 0.773700 AGGCCATGGGGAATAGAGGG 60.774 60.000 15.13 0.00 35.59 4.30
53 54 0.403271 CAGGCCATGGGGAATAGAGG 59.597 60.000 15.13 0.00 35.59 3.69
54 55 1.438469 TCAGGCCATGGGGAATAGAG 58.562 55.000 15.13 0.00 35.59 2.43
55 56 1.706866 CATCAGGCCATGGGGAATAGA 59.293 52.381 15.13 0.00 35.59 1.98
56 57 1.426598 ACATCAGGCCATGGGGAATAG 59.573 52.381 15.13 0.00 35.59 1.73
57 58 1.533187 ACATCAGGCCATGGGGAATA 58.467 50.000 15.13 0.00 35.59 1.75
58 59 0.638292 AACATCAGGCCATGGGGAAT 59.362 50.000 15.13 0.00 35.59 3.01
59 60 0.413037 AAACATCAGGCCATGGGGAA 59.587 50.000 15.13 0.00 35.59 3.97
60 61 0.413037 AAAACATCAGGCCATGGGGA 59.587 50.000 15.13 0.00 35.59 4.81
61 62 1.756538 GTAAAACATCAGGCCATGGGG 59.243 52.381 15.13 0.00 37.18 4.96
62 63 2.428171 CAGTAAAACATCAGGCCATGGG 59.572 50.000 15.13 0.00 0.00 4.00
63 64 2.159198 GCAGTAAAACATCAGGCCATGG 60.159 50.000 7.63 7.63 0.00 3.66
64 65 2.756760 AGCAGTAAAACATCAGGCCATG 59.243 45.455 5.01 2.95 0.00 3.66
65 66 3.091633 AGCAGTAAAACATCAGGCCAT 57.908 42.857 5.01 0.00 0.00 4.40
66 67 2.584835 AGCAGTAAAACATCAGGCCA 57.415 45.000 5.01 0.00 0.00 5.36
67 68 3.378427 CCTAAGCAGTAAAACATCAGGCC 59.622 47.826 0.00 0.00 0.00 5.19
68 69 3.378427 CCCTAAGCAGTAAAACATCAGGC 59.622 47.826 0.00 0.00 0.00 4.85
69 70 3.378427 GCCCTAAGCAGTAAAACATCAGG 59.622 47.826 0.00 0.00 42.97 3.86
70 71 3.063997 CGCCCTAAGCAGTAAAACATCAG 59.936 47.826 0.00 0.00 44.04 2.90
71 72 3.006940 CGCCCTAAGCAGTAAAACATCA 58.993 45.455 0.00 0.00 44.04 3.07
72 73 3.267483 TCGCCCTAAGCAGTAAAACATC 58.733 45.455 0.00 0.00 44.04 3.06
73 74 3.270877 CTCGCCCTAAGCAGTAAAACAT 58.729 45.455 0.00 0.00 44.04 2.71
74 75 2.614481 CCTCGCCCTAAGCAGTAAAACA 60.614 50.000 0.00 0.00 44.04 2.83
75 76 2.007608 CCTCGCCCTAAGCAGTAAAAC 58.992 52.381 0.00 0.00 44.04 2.43
76 77 1.903860 TCCTCGCCCTAAGCAGTAAAA 59.096 47.619 0.00 0.00 44.04 1.52
77 78 1.206371 GTCCTCGCCCTAAGCAGTAAA 59.794 52.381 0.00 0.00 44.04 2.01
78 79 0.822164 GTCCTCGCCCTAAGCAGTAA 59.178 55.000 0.00 0.00 44.04 2.24
79 80 1.041447 GGTCCTCGCCCTAAGCAGTA 61.041 60.000 0.00 0.00 44.04 2.74
80 81 2.359967 GGTCCTCGCCCTAAGCAGT 61.360 63.158 0.00 0.00 44.04 4.40
81 82 2.501610 GGTCCTCGCCCTAAGCAG 59.498 66.667 0.00 0.00 44.04 4.24
82 83 3.081409 GGGTCCTCGCCCTAAGCA 61.081 66.667 0.00 0.00 45.22 3.91
91 92 3.849951 CATCCGGGTGGGTCCTCG 61.850 72.222 6.88 0.00 37.00 4.63
92 93 2.687566 ACATCCGGGTGGGTCCTC 60.688 66.667 21.19 0.00 37.00 3.71
93 94 2.687566 GACATCCGGGTGGGTCCT 60.688 66.667 21.19 0.00 37.00 3.85
94 95 3.793888 GGACATCCGGGTGGGTCC 61.794 72.222 21.19 14.35 38.78 4.46
104 105 4.603946 GGCTACGCCCGGACATCC 62.604 72.222 0.73 0.00 44.06 3.51
114 115 1.004440 GGATCATCTGGGGCTACGC 60.004 63.158 0.00 0.00 0.00 4.42
115 116 1.290324 CGGATCATCTGGGGCTACG 59.710 63.158 0.00 0.00 0.00 3.51
116 117 0.832135 TCCGGATCATCTGGGGCTAC 60.832 60.000 13.01 0.00 43.23 3.58
117 118 0.117140 ATCCGGATCATCTGGGGCTA 59.883 55.000 12.38 0.00 43.23 3.93
118 119 0.117140 TATCCGGATCATCTGGGGCT 59.883 55.000 23.08 0.00 43.23 5.19
119 120 0.539051 CTATCCGGATCATCTGGGGC 59.461 60.000 23.08 0.00 43.23 5.80
120 121 1.198713 CCTATCCGGATCATCTGGGG 58.801 60.000 23.08 8.97 43.23 4.96
121 122 1.944177 ACCTATCCGGATCATCTGGG 58.056 55.000 23.08 11.86 43.23 4.45
122 123 2.094494 CGAACCTATCCGGATCATCTGG 60.094 54.545 23.08 17.63 44.41 3.86
123 124 3.223423 CGAACCTATCCGGATCATCTG 57.777 52.381 23.08 8.55 34.40 2.90
131 132 0.317479 GGTCATCCGAACCTATCCGG 59.683 60.000 0.00 0.00 46.57 5.14
132 133 3.888093 GGTCATCCGAACCTATCCG 57.112 57.895 0.00 0.00 33.78 4.18
143 144 1.153147 GGCTCCTTTCCGGTCATCC 60.153 63.158 0.00 0.00 0.00 3.51
144 145 1.153147 GGGCTCCTTTCCGGTCATC 60.153 63.158 0.00 0.00 0.00 2.92
145 146 2.998949 GGGCTCCTTTCCGGTCAT 59.001 61.111 0.00 0.00 0.00 3.06
146 147 3.702048 CGGGCTCCTTTCCGGTCA 61.702 66.667 0.00 0.00 42.32 4.02
150 151 2.203070 CATCCGGGCTCCTTTCCG 60.203 66.667 0.00 0.00 45.29 4.30
151 152 1.153147 GACATCCGGGCTCCTTTCC 60.153 63.158 0.00 0.00 0.00 3.13
152 153 1.153147 GGACATCCGGGCTCCTTTC 60.153 63.158 0.00 0.00 0.00 2.62
153 154 1.915078 CTGGACATCCGGGCTCCTTT 61.915 60.000 0.00 0.00 38.76 3.11
154 155 2.285368 TGGACATCCGGGCTCCTT 60.285 61.111 0.00 0.00 39.43 3.36
155 156 2.765807 CTGGACATCCGGGCTCCT 60.766 66.667 0.00 0.00 38.76 3.69
161 162 0.601558 CCGTATACCTGGACATCCGG 59.398 60.000 0.00 0.00 42.13 5.14
162 163 0.601558 CCCGTATACCTGGACATCCG 59.398 60.000 0.00 0.00 39.43 4.18
163 164 1.713297 ACCCGTATACCTGGACATCC 58.287 55.000 11.96 0.00 0.00 3.51
164 165 3.225104 TGTACCCGTATACCTGGACATC 58.775 50.000 11.96 2.26 0.00 3.06
165 166 3.228453 CTGTACCCGTATACCTGGACAT 58.772 50.000 11.96 0.00 0.00 3.06
166 167 2.658285 CTGTACCCGTATACCTGGACA 58.342 52.381 11.96 8.23 0.00 4.02
167 168 1.959282 CCTGTACCCGTATACCTGGAC 59.041 57.143 11.96 4.31 0.00 4.02
168 169 1.133388 CCCTGTACCCGTATACCTGGA 60.133 57.143 11.96 0.00 0.00 3.86
169 170 1.133388 TCCCTGTACCCGTATACCTGG 60.133 57.143 0.00 0.89 0.00 4.45
170 171 2.236766 CTCCCTGTACCCGTATACCTG 58.763 57.143 0.00 0.00 0.00 4.00
171 172 1.855599 ACTCCCTGTACCCGTATACCT 59.144 52.381 0.00 0.00 0.00 3.08
172 173 1.959282 CACTCCCTGTACCCGTATACC 59.041 57.143 0.00 0.00 0.00 2.73
173 174 1.959282 CCACTCCCTGTACCCGTATAC 59.041 57.143 0.00 0.00 0.00 1.47
174 175 1.852309 TCCACTCCCTGTACCCGTATA 59.148 52.381 0.00 0.00 0.00 1.47
175 176 0.632835 TCCACTCCCTGTACCCGTAT 59.367 55.000 0.00 0.00 0.00 3.06
176 177 0.409092 TTCCACTCCCTGTACCCGTA 59.591 55.000 0.00 0.00 0.00 4.02
177 178 1.156803 TTCCACTCCCTGTACCCGT 59.843 57.895 0.00 0.00 0.00 5.28
178 179 0.903454 AGTTCCACTCCCTGTACCCG 60.903 60.000 0.00 0.00 0.00 5.28
179 180 1.829849 GTAGTTCCACTCCCTGTACCC 59.170 57.143 0.00 0.00 0.00 3.69
180 181 1.829849 GGTAGTTCCACTCCCTGTACC 59.170 57.143 0.00 0.00 35.97 3.34
181 182 1.829849 GGGTAGTTCCACTCCCTGTAC 59.170 57.143 0.00 0.00 34.66 2.90
182 183 1.617804 CGGGTAGTTCCACTCCCTGTA 60.618 57.143 0.00 0.00 35.05 2.74
183 184 0.903454 CGGGTAGTTCCACTCCCTGT 60.903 60.000 0.00 0.00 35.05 4.00
184 185 1.614241 CCGGGTAGTTCCACTCCCTG 61.614 65.000 0.00 0.15 35.05 4.45
185 186 1.305887 CCGGGTAGTTCCACTCCCT 60.306 63.158 0.00 0.00 35.05 4.20
186 187 1.305549 TCCGGGTAGTTCCACTCCC 60.306 63.158 0.00 0.00 38.11 4.30
187 188 1.895966 GTCCGGGTAGTTCCACTCC 59.104 63.158 0.00 0.00 38.11 3.85
188 189 1.246737 ACGTCCGGGTAGTTCCACTC 61.247 60.000 0.00 0.00 38.11 3.51
189 190 1.228675 ACGTCCGGGTAGTTCCACT 60.229 57.895 0.00 0.00 38.11 4.00
190 191 1.213799 GACGTCCGGGTAGTTCCAC 59.786 63.158 3.51 0.00 38.11 4.02
191 192 1.978617 GGACGTCCGGGTAGTTCCA 60.979 63.158 20.85 0.00 38.11 3.53
192 193 2.888111 GGACGTCCGGGTAGTTCC 59.112 66.667 20.85 0.00 0.00 3.62
202 203 0.529992 GGATGTTCATCCGGACGTCC 60.530 60.000 25.28 25.28 0.00 4.79
203 204 2.973420 GGATGTTCATCCGGACGTC 58.027 57.895 6.12 7.13 0.00 4.34
210 211 2.738846 CGGATCATTCGGATGTTCATCC 59.261 50.000 18.69 18.69 36.00 3.51
221 222 2.974698 GGCTGGCCGGATCATTCG 60.975 66.667 18.31 0.00 0.00 3.34
222 223 1.895707 CTGGCTGGCCGGATCATTC 60.896 63.158 18.31 0.00 45.10 2.67
223 224 2.194056 CTGGCTGGCCGGATCATT 59.806 61.111 18.31 0.00 45.10 2.57
224 225 2.769621 TCTGGCTGGCCGGATCAT 60.770 61.111 18.31 0.00 45.79 2.45
238 239 3.943381 TCAAAATATCAGCCAGCACTCTG 59.057 43.478 0.00 0.00 40.02 3.35
239 240 4.226427 TCAAAATATCAGCCAGCACTCT 57.774 40.909 0.00 0.00 0.00 3.24
240 241 4.397417 AGTTCAAAATATCAGCCAGCACTC 59.603 41.667 0.00 0.00 0.00 3.51
241 242 4.157289 CAGTTCAAAATATCAGCCAGCACT 59.843 41.667 0.00 0.00 0.00 4.40
242 243 4.418392 CAGTTCAAAATATCAGCCAGCAC 58.582 43.478 0.00 0.00 0.00 4.40
243 244 3.444742 CCAGTTCAAAATATCAGCCAGCA 59.555 43.478 0.00 0.00 0.00 4.41
244 245 3.445096 ACCAGTTCAAAATATCAGCCAGC 59.555 43.478 0.00 0.00 0.00 4.85
245 246 4.701651 TCACCAGTTCAAAATATCAGCCAG 59.298 41.667 0.00 0.00 0.00 4.85
246 247 4.661222 TCACCAGTTCAAAATATCAGCCA 58.339 39.130 0.00 0.00 0.00 4.75
247 248 5.357878 TCATCACCAGTTCAAAATATCAGCC 59.642 40.000 0.00 0.00 0.00 4.85
248 249 6.441093 TCATCACCAGTTCAAAATATCAGC 57.559 37.500 0.00 0.00 0.00 4.26
249 250 7.913821 CACATCATCACCAGTTCAAAATATCAG 59.086 37.037 0.00 0.00 0.00 2.90
250 251 7.611079 TCACATCATCACCAGTTCAAAATATCA 59.389 33.333 0.00 0.00 0.00 2.15
251 252 7.988737 TCACATCATCACCAGTTCAAAATATC 58.011 34.615 0.00 0.00 0.00 1.63
252 253 7.943079 TCACATCATCACCAGTTCAAAATAT 57.057 32.000 0.00 0.00 0.00 1.28
253 254 7.611079 TCATCACATCATCACCAGTTCAAAATA 59.389 33.333 0.00 0.00 0.00 1.40
254 255 6.434965 TCATCACATCATCACCAGTTCAAAAT 59.565 34.615 0.00 0.00 0.00 1.82
255 256 5.769162 TCATCACATCATCACCAGTTCAAAA 59.231 36.000 0.00 0.00 0.00 2.44
256 257 5.315348 TCATCACATCATCACCAGTTCAAA 58.685 37.500 0.00 0.00 0.00 2.69
257 258 4.909001 TCATCACATCATCACCAGTTCAA 58.091 39.130 0.00 0.00 0.00 2.69
258 259 4.556592 TCATCACATCATCACCAGTTCA 57.443 40.909 0.00 0.00 0.00 3.18
259 260 4.880120 ACATCATCACATCATCACCAGTTC 59.120 41.667 0.00 0.00 0.00 3.01
260 261 4.851843 ACATCATCACATCATCACCAGTT 58.148 39.130 0.00 0.00 0.00 3.16
261 262 4.498894 ACATCATCACATCATCACCAGT 57.501 40.909 0.00 0.00 0.00 4.00
262 263 5.830000 AAACATCATCACATCATCACCAG 57.170 39.130 0.00 0.00 0.00 4.00
263 264 7.885009 AATAAACATCATCACATCATCACCA 57.115 32.000 0.00 0.00 0.00 4.17
264 265 7.650504 CCAAATAAACATCATCACATCATCACC 59.349 37.037 0.00 0.00 0.00 4.02
265 266 8.407832 TCCAAATAAACATCATCACATCATCAC 58.592 33.333 0.00 0.00 0.00 3.06
266 267 8.522542 TCCAAATAAACATCATCACATCATCA 57.477 30.769 0.00 0.00 0.00 3.07
267 268 9.622004 GATCCAAATAAACATCATCACATCATC 57.378 33.333 0.00 0.00 0.00 2.92
268 269 9.138596 TGATCCAAATAAACATCATCACATCAT 57.861 29.630 0.00 0.00 0.00 2.45
269 270 8.407832 GTGATCCAAATAAACATCATCACATCA 58.592 33.333 0.00 0.00 38.89 3.07
270 271 8.407832 TGTGATCCAAATAAACATCATCACATC 58.592 33.333 7.57 0.00 42.19 3.06
271 272 8.296211 TGTGATCCAAATAAACATCATCACAT 57.704 30.769 7.57 0.00 42.19 3.21
272 273 7.629008 GCTGTGATCCAAATAAACATCATCACA 60.629 37.037 10.52 10.52 43.88 3.58
273 274 6.694411 GCTGTGATCCAAATAAACATCATCAC 59.306 38.462 0.00 0.00 39.31 3.06
274 275 6.377712 TGCTGTGATCCAAATAAACATCATCA 59.622 34.615 0.00 0.00 0.00 3.07
275 276 6.798482 TGCTGTGATCCAAATAAACATCATC 58.202 36.000 0.00 0.00 0.00 2.92
276 277 6.682113 GCTGCTGTGATCCAAATAAACATCAT 60.682 38.462 0.00 0.00 0.00 2.45
277 278 5.393352 GCTGCTGTGATCCAAATAAACATCA 60.393 40.000 0.00 0.00 0.00 3.07
278 279 5.039333 GCTGCTGTGATCCAAATAAACATC 58.961 41.667 0.00 0.00 0.00 3.06
279 280 4.142093 GGCTGCTGTGATCCAAATAAACAT 60.142 41.667 0.00 0.00 0.00 2.71
280 281 3.193267 GGCTGCTGTGATCCAAATAAACA 59.807 43.478 0.00 0.00 0.00 2.83
281 282 3.445096 AGGCTGCTGTGATCCAAATAAAC 59.555 43.478 0.00 0.00 0.00 2.01
282 283 3.700538 AGGCTGCTGTGATCCAAATAAA 58.299 40.909 0.00 0.00 0.00 1.40
546 571 4.530857 GGGTGGATCTGGACGCGG 62.531 72.222 12.47 0.00 0.00 6.46
750 784 1.591703 CGTTGGAGAGCAGCAGGTA 59.408 57.895 0.00 0.00 0.00 3.08
751 785 2.345244 CGTTGGAGAGCAGCAGGT 59.655 61.111 0.00 0.00 0.00 4.00
901 935 1.906824 GTCTGGTGGTCAGGGACGA 60.907 63.158 0.00 0.00 43.53 4.20
1098 1132 0.962356 CAAGGGAATCTTGGCGCTGT 60.962 55.000 7.64 0.00 46.81 4.40
1511 1839 1.425066 TGCTTGACCTTTCCTCCACAT 59.575 47.619 0.00 0.00 0.00 3.21
1806 2134 4.761058 AGGAGGAAGCGGAGGCGA 62.761 66.667 0.00 0.00 46.35 5.54
2074 2406 2.096496 GGAGAGGAACGCATGTGATTTG 59.904 50.000 14.43 0.00 0.00 2.32
2287 2621 8.792633 CAGGAGTTGATTATGTTAGTTTTTCCA 58.207 33.333 0.00 0.00 0.00 3.53
2359 2695 6.020201 GTGTTTGTGGTAAACTTTTCAATCGG 60.020 38.462 0.00 0.00 0.00 4.18
2361 2697 9.016623 GTAGTGTTTGTGGTAAACTTTTCAATC 57.983 33.333 0.00 0.00 0.00 2.67
2399 2735 8.231692 TGGGGGAAATTTTGATTTTCTTTTTC 57.768 30.769 0.00 0.00 34.29 2.29


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

AutoCloner maintained by Alex Coulton.