Multiple sequence alignment - TraesCS1B01G048600

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 TraesCS1B01G048600 chr1B 100.000 2318 0 0 1 2318 28488917 28486600 0.000000e+00 4281.0
1 TraesCS1B01G048600 chr1B 93.208 265 17 1 1 265 656578056 656578319 2.790000e-104 388.0
2 TraesCS1B01G048600 chr1A 92.541 1582 76 18 369 1930 20940519 20938960 0.000000e+00 2230.0
3 TraesCS1B01G048600 chr1A 83.725 510 51 21 1750 2253 20941594 20941111 9.770000e-124 453.0
4 TraesCS1B01G048600 chr1A 97.297 37 1 0 2261 2297 20941119 20941083 1.920000e-06 63.9
5 TraesCS1B01G048600 chr5B 88.221 399 35 6 1931 2318 641810151 641810548 1.250000e-127 466.0
6 TraesCS1B01G048600 chr5B 94.208 259 15 0 1 259 368716158 368716416 1.670000e-106 396.0
7 TraesCS1B01G048600 chr7B 96.124 258 10 0 1 258 105478427 105478684 2.750000e-114 422.0
8 TraesCS1B01G048600 chr6B 95.736 258 11 0 1 258 130549290 130549547 1.280000e-112 416.0
9 TraesCS1B01G048600 chr6B 93.436 259 17 0 1 259 664628101 664627843 3.610000e-103 385.0
10 TraesCS1B01G048600 chr1D 91.973 299 13 4 802 1092 19038631 19038336 2.140000e-110 409.0
11 TraesCS1B01G048600 chr1D 91.698 265 18 2 1668 1930 19038311 19038049 4.710000e-97 364.0
12 TraesCS1B01G048600 chr1D 92.276 246 13 4 2073 2318 19035136 19034897 6.130000e-91 344.0
13 TraesCS1B01G048600 chr1D 81.746 378 41 3 259 630 19039544 19039189 8.100000e-75 291.0
14 TraesCS1B01G048600 chr1D 90.541 148 11 1 1931 2075 19038022 19037875 2.350000e-45 193.0
15 TraesCS1B01G048600 chr2B 94.574 258 14 0 1 258 379779897 379779640 1.290000e-107 399.0
16 TraesCS1B01G048600 chr2B 93.798 258 16 0 1 258 799407914 799407657 2.790000e-104 388.0
17 TraesCS1B01G048600 chr4B 94.186 258 15 0 1 258 593220803 593221060 6.000000e-106 394.0
18 TraesCS1B01G048600 chr4B 93.725 255 16 0 1 255 166784977 166785231 1.300000e-102 383.0


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 TraesCS1B01G048600 chr1B 28486600 28488917 2317 True 4281.000000 4281 100.000000 1 2318 1 chr1B.!!$R1 2317
1 TraesCS1B01G048600 chr1A 20938960 20941594 2634 True 915.633333 2230 91.187667 369 2297 3 chr1A.!!$R1 1928
2 TraesCS1B01G048600 chr1D 19034897 19039544 4647 True 320.200000 409 89.646800 259 2318 5 chr1D.!!$R1 2059

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
427 1135 0.111639 TTTCCGCAACCCTAGCCTTT 59.888 50.0 0.0 0.0 0.0 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1631 2868 0.17902 CTGTGGCTTCCAAGGTGTCA 60.179 55.0 0.0 0.0 34.18 3.58 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
17 18 4.028490 TGCCAACCTACCGCCAGG 62.028 66.667 0.00 0.00 45.13 4.45
21 22 1.376812 CAACCTACCGCCAGGGAAC 60.377 63.158 5.62 0.00 43.47 3.62
22 23 1.538135 AACCTACCGCCAGGGAACT 60.538 57.895 5.62 0.00 43.47 3.01
23 24 1.551019 AACCTACCGCCAGGGAACTC 61.551 60.000 5.62 0.00 43.47 3.01
24 25 2.494918 CTACCGCCAGGGAACTCG 59.505 66.667 0.00 0.00 43.47 4.18
33 34 3.073101 GGGAACTCGGCGGTAGGT 61.073 66.667 7.21 0.00 0.00 3.08
34 35 2.653087 GGGAACTCGGCGGTAGGTT 61.653 63.158 7.21 7.58 0.00 3.50
35 36 1.294459 GGAACTCGGCGGTAGGTTT 59.706 57.895 7.21 0.00 0.00 3.27
37 38 0.320160 GAACTCGGCGGTAGGTTTGT 60.320 55.000 7.21 0.00 0.00 2.83
38 39 0.601841 AACTCGGCGGTAGGTTTGTG 60.602 55.000 7.21 0.00 0.00 3.33
39 40 1.005394 CTCGGCGGTAGGTTTGTGT 60.005 57.895 7.21 0.00 0.00 3.72
40 41 1.289109 CTCGGCGGTAGGTTTGTGTG 61.289 60.000 7.21 0.00 0.00 3.82
43 44 2.622962 GCGGTAGGTTTGTGTGGGC 61.623 63.158 0.00 0.00 0.00 5.36
44 45 1.072505 CGGTAGGTTTGTGTGGGCT 59.927 57.895 0.00 0.00 0.00 5.19
47 48 1.612462 GGTAGGTTTGTGTGGGCTACC 60.612 57.143 0.00 0.00 37.24 3.18
48 49 0.322322 TAGGTTTGTGTGGGCTACCG 59.678 55.000 0.00 0.00 40.75 4.02
67 68 1.740296 CCGTGGTCTTTGGCGGTAG 60.740 63.158 0.00 0.00 39.41 3.18
68 69 1.740296 CGTGGTCTTTGGCGGTAGG 60.740 63.158 0.00 0.00 0.00 3.18
69 70 1.373812 GTGGTCTTTGGCGGTAGGT 59.626 57.895 0.00 0.00 0.00 3.08
71 72 0.609662 TGGTCTTTGGCGGTAGGTAC 59.390 55.000 0.00 0.00 0.00 3.34
72 73 0.459063 GGTCTTTGGCGGTAGGTACG 60.459 60.000 0.00 0.00 0.00 3.67
73 74 0.244721 GTCTTTGGCGGTAGGTACGT 59.755 55.000 0.00 0.00 0.00 3.57
74 75 0.527565 TCTTTGGCGGTAGGTACGTC 59.472 55.000 0.00 0.00 36.31 4.34
75 76 0.244450 CTTTGGCGGTAGGTACGTCA 59.756 55.000 0.00 0.00 44.97 4.35
77 78 1.876497 TTGGCGGTAGGTACGTCACC 61.876 60.000 0.00 0.00 46.42 4.02
86 87 3.495124 GTACGTCACCAGCCGTTAA 57.505 52.632 0.00 0.00 38.43 2.01
87 88 1.063031 GTACGTCACCAGCCGTTAAC 58.937 55.000 0.00 0.00 38.43 2.01
88 89 0.387112 TACGTCACCAGCCGTTAACG 60.387 55.000 20.99 20.99 38.43 3.18
99 100 1.711500 CGTTAACGGATTGACGGCC 59.289 57.895 20.24 0.00 42.42 6.13
123 124 1.735559 GCACACCTACCGTCGGAAC 60.736 63.158 20.51 0.00 0.00 3.62
124 125 1.080298 CACACCTACCGTCGGAACC 60.080 63.158 20.51 0.00 0.00 3.62
126 127 1.214589 CACCTACCGTCGGAACCTG 59.785 63.158 20.51 3.87 0.00 4.00
127 128 1.228675 ACCTACCGTCGGAACCTGT 60.229 57.895 20.51 4.62 0.00 4.00
128 129 1.214589 CCTACCGTCGGAACCTGTG 59.785 63.158 20.51 0.00 0.00 3.66
130 131 2.830704 CTACCGTCGGAACCTGTGGC 62.831 65.000 20.51 0.00 0.00 5.01
133 134 4.309950 GTCGGAACCTGTGGCGGT 62.310 66.667 0.00 0.00 39.48 5.68
134 135 2.601067 TCGGAACCTGTGGCGGTA 60.601 61.111 0.00 0.00 35.89 4.02
135 136 2.125673 CGGAACCTGTGGCGGTAG 60.126 66.667 0.00 0.00 35.89 3.18
136 137 2.267961 GGAACCTGTGGCGGTAGG 59.732 66.667 0.00 0.00 35.89 3.18
140 141 2.144738 ACCTGTGGCGGTAGGTTGT 61.145 57.895 1.79 0.00 44.72 3.32
141 142 1.671054 CCTGTGGCGGTAGGTTGTG 60.671 63.158 0.00 0.00 0.00 3.33
142 143 2.281208 TGTGGCGGTAGGTTGTGC 60.281 61.111 0.00 0.00 0.00 4.57
143 144 2.281208 GTGGCGGTAGGTTGTGCA 60.281 61.111 0.00 0.00 0.00 4.57
144 145 1.894756 GTGGCGGTAGGTTGTGCAA 60.895 57.895 0.00 0.00 0.00 4.08
145 146 1.894756 TGGCGGTAGGTTGTGCAAC 60.895 57.895 6.52 6.52 40.45 4.17
154 155 2.281900 TTGTGCAACCCTACCGCC 60.282 61.111 0.00 0.00 34.36 6.13
156 157 2.746277 GTGCAACCCTACCGCCTG 60.746 66.667 0.00 0.00 0.00 4.85
157 158 2.925706 TGCAACCCTACCGCCTGA 60.926 61.111 0.00 0.00 0.00 3.86
158 159 2.125106 GCAACCCTACCGCCTGAG 60.125 66.667 0.00 0.00 0.00 3.35
161 162 1.538135 AACCCTACCGCCTGAGGTT 60.538 57.895 0.00 0.00 43.00 3.50
164 165 0.676782 CCCTACCGCCTGAGGTTTTG 60.677 60.000 0.00 0.00 43.00 2.44
165 166 0.676782 CCTACCGCCTGAGGTTTTGG 60.677 60.000 0.00 0.00 43.00 3.28
166 167 1.302993 TACCGCCTGAGGTTTTGGC 60.303 57.895 0.00 0.00 43.00 4.52
170 171 1.302993 GCCTGAGGTTTTGGCGGTA 60.303 57.895 0.00 0.00 37.11 4.02
171 172 1.305930 GCCTGAGGTTTTGGCGGTAG 61.306 60.000 0.00 0.00 37.11 3.18
176 177 1.338655 GAGGTTTTGGCGGTAGCAAAA 59.661 47.619 0.00 0.00 44.01 2.44
177 178 1.339929 AGGTTTTGGCGGTAGCAAAAG 59.660 47.619 0.00 0.00 45.99 2.27
178 179 1.604438 GGTTTTGGCGGTAGCAAAAGG 60.604 52.381 0.00 0.00 45.99 3.11
180 181 0.468400 TTTGGCGGTAGCAAAAGGGT 60.468 50.000 0.00 0.00 41.08 4.34
182 183 4.390048 GCGGTAGCAAAAGGGTCA 57.610 55.556 0.00 0.00 44.35 4.02
184 185 0.321298 GCGGTAGCAAAAGGGTCAGA 60.321 55.000 0.00 0.00 44.35 3.27
185 186 1.679032 GCGGTAGCAAAAGGGTCAGAT 60.679 52.381 0.00 0.00 44.35 2.90
186 187 2.711542 CGGTAGCAAAAGGGTCAGATT 58.288 47.619 0.00 0.00 0.00 2.40
188 189 3.127030 CGGTAGCAAAAGGGTCAGATTTC 59.873 47.826 0.00 0.00 0.00 2.17
190 191 4.522789 GGTAGCAAAAGGGTCAGATTTCAA 59.477 41.667 0.00 0.00 0.00 2.69
191 192 5.010617 GGTAGCAAAAGGGTCAGATTTCAAA 59.989 40.000 0.00 0.00 0.00 2.69
192 193 5.612725 AGCAAAAGGGTCAGATTTCAAAA 57.387 34.783 0.00 0.00 0.00 2.44
193 194 6.178607 AGCAAAAGGGTCAGATTTCAAAAT 57.821 33.333 0.00 0.00 0.00 1.82
194 195 5.993441 AGCAAAAGGGTCAGATTTCAAAATG 59.007 36.000 0.00 0.00 0.00 2.32
195 196 5.759763 GCAAAAGGGTCAGATTTCAAAATGT 59.240 36.000 0.00 0.00 0.00 2.71
196 197 6.260714 GCAAAAGGGTCAGATTTCAAAATGTT 59.739 34.615 0.00 0.00 0.00 2.71
198 199 8.676401 CAAAAGGGTCAGATTTCAAAATGTTTT 58.324 29.630 0.00 0.00 0.00 2.43
200 201 7.123355 AGGGTCAGATTTCAAAATGTTTTCA 57.877 32.000 0.00 0.00 0.00 2.69
201 202 7.212274 AGGGTCAGATTTCAAAATGTTTTCAG 58.788 34.615 0.00 0.00 0.00 3.02
203 204 7.169813 GGGTCAGATTTCAAAATGTTTTCAGAC 59.830 37.037 0.00 0.00 0.00 3.51
206 207 7.922278 TCAGATTTCAAAATGTTTTCAGACTGG 59.078 33.333 1.81 0.00 0.00 4.00
208 209 4.935352 TCAAAATGTTTTCAGACTGGGG 57.065 40.909 1.81 0.00 0.00 4.96
210 211 4.340950 TCAAAATGTTTTCAGACTGGGGTC 59.659 41.667 1.81 0.00 42.41 4.46
211 212 3.593442 AATGTTTTCAGACTGGGGTCA 57.407 42.857 1.81 0.00 44.36 4.02
212 213 3.593442 ATGTTTTCAGACTGGGGTCAA 57.407 42.857 1.81 0.00 44.36 3.18
213 214 3.374042 TGTTTTCAGACTGGGGTCAAA 57.626 42.857 1.81 0.00 44.36 2.69
214 215 3.909732 TGTTTTCAGACTGGGGTCAAAT 58.090 40.909 1.81 0.00 44.36 2.32
215 216 3.888930 TGTTTTCAGACTGGGGTCAAATC 59.111 43.478 1.81 0.00 44.36 2.17
216 217 4.145052 GTTTTCAGACTGGGGTCAAATCT 58.855 43.478 1.81 0.00 44.36 2.40
217 218 3.703001 TTCAGACTGGGGTCAAATCTC 57.297 47.619 1.81 0.00 44.36 2.75
218 219 1.550524 TCAGACTGGGGTCAAATCTCG 59.449 52.381 1.81 0.00 44.36 4.04
219 220 1.550524 CAGACTGGGGTCAAATCTCGA 59.449 52.381 0.00 0.00 44.36 4.04
220 221 2.169352 CAGACTGGGGTCAAATCTCGAT 59.831 50.000 0.00 0.00 44.36 3.59
221 222 2.840651 AGACTGGGGTCAAATCTCGATT 59.159 45.455 0.00 0.00 44.36 3.34
222 223 3.264450 AGACTGGGGTCAAATCTCGATTT 59.736 43.478 0.00 0.00 44.36 2.17
223 224 4.010349 GACTGGGGTCAAATCTCGATTTT 58.990 43.478 2.28 0.00 38.84 1.82
224 225 3.758554 ACTGGGGTCAAATCTCGATTTTG 59.241 43.478 12.44 12.44 38.84 2.44
225 226 3.758554 CTGGGGTCAAATCTCGATTTTGT 59.241 43.478 16.19 0.00 38.84 2.83
226 227 4.148838 TGGGGTCAAATCTCGATTTTGTT 58.851 39.130 16.19 0.00 38.84 2.83
227 228 4.586841 TGGGGTCAAATCTCGATTTTGTTT 59.413 37.500 16.19 0.00 38.84 2.83
228 229 5.161358 GGGGTCAAATCTCGATTTTGTTTC 58.839 41.667 16.19 10.40 38.84 2.78
229 230 5.278758 GGGGTCAAATCTCGATTTTGTTTCA 60.279 40.000 16.19 0.66 38.84 2.69
230 231 5.629435 GGGTCAAATCTCGATTTTGTTTCAC 59.371 40.000 16.19 9.72 38.84 3.18
232 233 6.695278 GGTCAAATCTCGATTTTGTTTCACAA 59.305 34.615 16.19 0.00 38.84 3.33
244 245 6.546972 TTTGTTTCACAAAAGGGACAAAAC 57.453 33.333 0.00 0.00 44.23 2.43
245 246 5.215252 TGTTTCACAAAAGGGACAAAACA 57.785 34.783 0.00 0.00 33.98 2.83
247 248 5.641209 TGTTTCACAAAAGGGACAAAACATG 59.359 36.000 0.00 0.00 32.10 3.21
248 249 5.667539 TTCACAAAAGGGACAAAACATGA 57.332 34.783 0.00 0.00 0.00 3.07
249 250 5.667539 TCACAAAAGGGACAAAACATGAA 57.332 34.783 0.00 0.00 0.00 2.57
250 251 6.042638 TCACAAAAGGGACAAAACATGAAA 57.957 33.333 0.00 0.00 0.00 2.69
253 254 7.609532 TCACAAAAGGGACAAAACATGAAATTT 59.390 29.630 0.00 0.00 0.00 1.82
256 257 6.375945 AAGGGACAAAACATGAAATTTTGC 57.624 33.333 15.97 10.66 46.43 3.68
257 258 4.821260 AGGGACAAAACATGAAATTTTGCC 59.179 37.500 15.97 16.24 46.43 4.52
272 273 2.823924 TTGCCTAACAACGTCTAGCA 57.176 45.000 0.00 0.00 31.73 3.49
275 276 2.232696 TGCCTAACAACGTCTAGCATGA 59.767 45.455 0.00 0.00 0.00 3.07
284 285 2.094258 ACGTCTAGCATGAACAATTGCG 59.906 45.455 5.05 0.00 43.61 4.85
289 290 0.648441 GCATGAACAATTGCGCCATG 59.352 50.000 21.34 21.34 38.04 3.66
294 295 1.921887 GAACAATTGCGCCATGTCATG 59.078 47.619 4.18 5.79 0.00 3.07
299 300 2.281140 TTGCGCCATGTCATGATTTG 57.719 45.000 14.67 0.00 0.00 2.32
332 333 1.398451 GCCACAGTCGTCATCAAAACG 60.398 52.381 0.00 0.00 41.39 3.60
344 345 1.950828 TCAAAACGACCAAAGCCGTA 58.049 45.000 0.00 0.00 38.13 4.02
345 346 1.868498 TCAAAACGACCAAAGCCGTAG 59.132 47.619 0.00 0.00 38.13 3.51
346 347 1.600485 CAAAACGACCAAAGCCGTAGT 59.400 47.619 0.00 0.00 38.13 2.73
347 348 1.223187 AAACGACCAAAGCCGTAGTG 58.777 50.000 0.00 0.00 38.13 2.74
379 1087 9.747898 TTAAAAGATTAGCCTTGGAATTAGTGA 57.252 29.630 0.00 0.00 0.00 3.41
427 1135 0.111639 TTTCCGCAACCCTAGCCTTT 59.888 50.000 0.00 0.00 0.00 3.11
431 1139 2.773087 TCCGCAACCCTAGCCTTTAATA 59.227 45.455 0.00 0.00 0.00 0.98
442 1150 7.228706 ACCCTAGCCTTTAATATCGATGTTTTG 59.771 37.037 12.87 4.08 0.00 2.44
458 1166 3.181477 TGTTTTGTGCAATTCACTCCCTG 60.181 43.478 0.00 0.00 45.81 4.45
491 1202 5.977129 CCACGAAGAAACAAGTAAATGCTTT 59.023 36.000 0.00 0.00 0.00 3.51
522 1233 7.339212 TCATGTTTGATTTAGTTATGTCCCTGG 59.661 37.037 0.00 0.00 0.00 4.45
526 1237 8.364894 GTTTGATTTAGTTATGTCCCTGGTTTT 58.635 33.333 0.00 0.00 0.00 2.43
540 1251 3.488489 CTGGTTTTTGCTTCGTATTCGG 58.512 45.455 0.00 0.00 37.69 4.30
647 1358 6.150318 GCGAATCGGATAGATACTCTTTTGA 58.850 40.000 4.35 0.00 38.98 2.69
676 1387 8.766000 TCAGTTTTCTTATTAAGTGTATCGCA 57.234 30.769 3.45 0.00 0.00 5.10
694 1405 2.280628 GCATTTAGGACTTGGACTCCG 58.719 52.381 0.00 0.00 32.45 4.63
695 1406 2.093658 GCATTTAGGACTTGGACTCCGA 60.094 50.000 0.00 0.00 32.45 4.55
696 1407 3.522553 CATTTAGGACTTGGACTCCGAC 58.477 50.000 0.00 0.00 32.45 4.79
697 1408 2.297698 TTAGGACTTGGACTCCGACA 57.702 50.000 0.00 0.00 32.45 4.35
698 1409 2.297698 TAGGACTTGGACTCCGACAA 57.702 50.000 0.00 0.00 32.45 3.18
699 1410 1.420430 AGGACTTGGACTCCGACAAA 58.580 50.000 0.00 0.00 32.45 2.83
774 1485 2.671396 GCCCCTGTATAAATATGCGTCG 59.329 50.000 0.00 0.00 0.00 5.12
806 1517 3.316868 TGGTTTCTCACCCGAACAATTTC 59.683 43.478 0.00 0.00 46.68 2.17
831 2057 0.458669 GTGCAGATCCCAATGGCAAG 59.541 55.000 0.00 0.00 36.08 4.01
955 2181 1.471684 GCAGATCCAGCACCAAAGAAG 59.528 52.381 3.07 0.00 0.00 2.85
956 2182 2.877300 GCAGATCCAGCACCAAAGAAGA 60.877 50.000 3.07 0.00 0.00 2.87
957 2183 3.415212 CAGATCCAGCACCAAAGAAGAA 58.585 45.455 0.00 0.00 0.00 2.52
1022 2255 2.670251 TTACAAGCCGTTGCCCCG 60.670 61.111 0.00 0.00 37.14 5.73
1112 2347 2.100631 CCAACACGGATGAGGTCGC 61.101 63.158 0.00 0.00 36.56 5.19
1172 2407 2.618709 ACTACAGGCAACAGCTGAAAAC 59.381 45.455 23.35 7.91 41.41 2.43
1240 2477 1.752683 AGACGAAGACTACGCTCCAT 58.247 50.000 0.00 0.00 0.00 3.41
1301 2538 3.074412 TGAAAAATCGCCAAGGAGAGAC 58.926 45.455 0.00 0.00 0.00 3.36
1320 2557 7.233757 GGAGAGACTAGGAGGCTGAATTAAATA 59.766 40.741 0.00 0.00 30.20 1.40
1372 2609 0.107993 TCATGCTTCCAGCTCTTCGG 60.108 55.000 0.00 0.00 42.97 4.30
1373 2610 1.094073 CATGCTTCCAGCTCTTCGGG 61.094 60.000 0.00 0.00 42.97 5.14
1438 2675 9.078990 AGTTATGTCTTCCGTATGATCATCTAA 57.921 33.333 12.53 1.97 0.00 2.10
1455 2692 2.945008 TCTAAGCGCCATGAAGGATTTG 59.055 45.455 2.29 0.00 41.22 2.32
1456 2693 0.819582 AAGCGCCATGAAGGATTTGG 59.180 50.000 2.29 0.00 41.22 3.28
1479 2716 6.040247 GGTTTTGTCTTGTTTTCTTACTGGG 58.960 40.000 0.00 0.00 0.00 4.45
1489 2726 6.235664 TGTTTTCTTACTGGGTTATGAGTCC 58.764 40.000 0.00 0.00 0.00 3.85
1497 2734 1.064017 GGGTTATGAGTCCCATGCCAA 60.064 52.381 0.00 0.00 42.95 4.52
1505 2742 0.609662 GTCCCATGCCAATTGTGCTT 59.390 50.000 16.52 9.81 0.00 3.91
1512 2749 5.417811 CCATGCCAATTGTGCTTTATACAA 58.582 37.500 16.52 0.00 41.72 2.41
1514 2751 6.539464 CCATGCCAATTGTGCTTTATACAAAT 59.461 34.615 16.52 0.76 40.95 2.32
1543 2780 3.320673 TTTGTTCCTTGCGGTTTTGTT 57.679 38.095 0.00 0.00 0.00 2.83
1586 2823 0.541063 TAGAGCCTGACAACACCGGA 60.541 55.000 9.46 0.00 0.00 5.14
1600 2837 4.270245 ACACCGGAATTGCAAATTCAAT 57.730 36.364 9.46 0.00 38.23 2.57
1604 2841 5.811613 CACCGGAATTGCAAATTCAATATGT 59.188 36.000 9.46 0.53 35.77 2.29
1683 2924 8.465201 TGTGTGCTATGCAAATCATATAACAAA 58.535 29.630 0.00 0.00 41.47 2.83
1690 2931 6.695429 TGCAAATCATATAACAAAGTTGGCA 58.305 32.000 0.00 0.00 0.00 4.92
1692 2933 7.823310 TGCAAATCATATAACAAAGTTGGCATT 59.177 29.630 0.00 0.00 0.00 3.56
1795 3038 1.827969 CACCAAGGAGAGACGAGGAAT 59.172 52.381 0.00 0.00 0.00 3.01
1800 3043 5.112686 CCAAGGAGAGACGAGGAATTTTAG 58.887 45.833 0.00 0.00 0.00 1.85
1891 3136 7.608153 TGATATAAAGTCGTGGTTCTTTCAGA 58.392 34.615 0.00 0.00 35.79 3.27
1900 3145 4.692625 CGTGGTTCTTTCAGATCATCAGTT 59.307 41.667 0.00 0.00 0.00 3.16
1920 3165 7.676004 TCAGTTGTGTCTTTCCTATGAACATA 58.324 34.615 0.00 0.00 0.00 2.29
1969 3240 6.699575 GACTTATGTCCCATGCTAATTGTT 57.300 37.500 0.00 0.00 37.24 2.83
2022 3296 6.239289 CCTTGTGGATTATGGTTTTGTTCACT 60.239 38.462 0.00 0.00 34.57 3.41
2023 3297 6.723298 TGTGGATTATGGTTTTGTTCACTT 57.277 33.333 0.00 0.00 0.00 3.16
2043 3317 9.681692 TTCACTTTATTCTTTGATTGTCATGTG 57.318 29.630 0.00 0.00 0.00 3.21
2056 3330 6.316140 TGATTGTCATGTGTCATAAGTAAGCC 59.684 38.462 0.00 0.00 0.00 4.35
2063 3337 6.308015 TGTGTCATAAGTAAGCCCAGTAAT 57.692 37.500 0.00 0.00 0.00 1.89
2071 3345 9.694137 CATAAGTAAGCCCAGTAATACTAGAAC 57.306 37.037 0.00 0.00 0.00 3.01
2096 6111 9.140874 ACTAGAACATCATTATGTGATCTCTGA 57.859 33.333 0.00 0.00 45.79 3.27
2112 6127 3.851976 TCTCTGAAAATCCCAAGATCCCA 59.148 43.478 0.00 0.00 0.00 4.37
2115 6130 4.044571 TCTGAAAATCCCAAGATCCCAGTT 59.955 41.667 0.00 0.00 30.97 3.16
2122 6137 5.373812 TCCCAAGATCCCAGTTTTCTATC 57.626 43.478 0.00 0.00 0.00 2.08
2123 6138 4.166144 TCCCAAGATCCCAGTTTTCTATCC 59.834 45.833 0.00 0.00 0.00 2.59
2137 6152 7.756722 CAGTTTTCTATCCAAAGCAAATACCAG 59.243 37.037 0.00 0.00 0.00 4.00
2144 6159 5.332743 TCCAAAGCAAATACCAGGAAGATT 58.667 37.500 0.00 0.00 0.00 2.40
2201 6216 7.526142 TCTATAGTGCTATTAGACTTGTGGG 57.474 40.000 0.00 0.00 0.00 4.61
2214 6229 1.880027 CTTGTGGGAGTTGTAAGCACC 59.120 52.381 0.00 0.00 0.00 5.01
2218 6233 3.270877 GTGGGAGTTGTAAGCACCATAG 58.729 50.000 0.00 0.00 0.00 2.23
2292 6307 6.428159 CACCTATGGATTTAGTGTATTCCTGC 59.572 42.308 0.00 0.00 0.00 4.85
2307 6322 4.853468 TTCCTGCTCATATGTTTACCCA 57.147 40.909 1.90 0.00 0.00 4.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.028490 CCTGGCGGTAGGTTGGCA 62.028 66.667 0.00 0.00 39.03 4.92
1 2 4.796495 CCCTGGCGGTAGGTTGGC 62.796 72.222 0.00 0.00 36.02 4.52
2 3 2.598787 TTCCCTGGCGGTAGGTTGG 61.599 63.158 0.00 0.00 36.02 3.77
4 5 1.538135 AGTTCCCTGGCGGTAGGTT 60.538 57.895 0.00 0.00 36.02 3.50
5 6 1.988406 GAGTTCCCTGGCGGTAGGT 60.988 63.158 0.00 0.00 36.02 3.08
8 9 3.072468 CCGAGTTCCCTGGCGGTA 61.072 66.667 0.00 0.00 38.99 4.02
13 14 3.072468 TACCGCCGAGTTCCCTGG 61.072 66.667 0.00 0.00 0.00 4.45
14 15 2.494918 CTACCGCCGAGTTCCCTG 59.505 66.667 0.00 0.00 0.00 4.45
15 16 2.758737 CCTACCGCCGAGTTCCCT 60.759 66.667 0.00 0.00 0.00 4.20
16 17 2.176314 AAACCTACCGCCGAGTTCCC 62.176 60.000 0.00 0.00 0.00 3.97
17 18 1.017701 CAAACCTACCGCCGAGTTCC 61.018 60.000 0.00 0.00 0.00 3.62
21 22 1.005394 ACACAAACCTACCGCCGAG 60.005 57.895 0.00 0.00 0.00 4.63
22 23 1.301087 CACACAAACCTACCGCCGA 60.301 57.895 0.00 0.00 0.00 5.54
23 24 2.322081 CCACACAAACCTACCGCCG 61.322 63.158 0.00 0.00 0.00 6.46
24 25 1.969589 CCCACACAAACCTACCGCC 60.970 63.158 0.00 0.00 0.00 6.13
25 26 2.622962 GCCCACACAAACCTACCGC 61.623 63.158 0.00 0.00 0.00 5.68
26 27 0.322322 TAGCCCACACAAACCTACCG 59.678 55.000 0.00 0.00 0.00 4.02
27 28 1.612462 GGTAGCCCACACAAACCTACC 60.612 57.143 0.00 0.00 40.66 3.18
28 29 1.817357 GGTAGCCCACACAAACCTAC 58.183 55.000 0.00 0.00 0.00 3.18
29 30 0.322322 CGGTAGCCCACACAAACCTA 59.678 55.000 0.00 0.00 0.00 3.08
50 51 1.740296 CCTACCGCCAAAGACCACG 60.740 63.158 0.00 0.00 0.00 4.94
51 52 0.609662 TACCTACCGCCAAAGACCAC 59.390 55.000 0.00 0.00 0.00 4.16
53 54 0.459063 CGTACCTACCGCCAAAGACC 60.459 60.000 0.00 0.00 0.00 3.85
54 55 0.244721 ACGTACCTACCGCCAAAGAC 59.755 55.000 0.00 0.00 0.00 3.01
55 56 0.527565 GACGTACCTACCGCCAAAGA 59.472 55.000 0.00 0.00 0.00 2.52
56 57 0.244450 TGACGTACCTACCGCCAAAG 59.756 55.000 0.00 0.00 0.00 2.77
58 59 1.586028 GTGACGTACCTACCGCCAA 59.414 57.895 0.00 0.00 0.00 4.52
59 60 2.342650 GGTGACGTACCTACCGCCA 61.343 63.158 0.00 0.00 46.51 5.69
60 61 2.491621 GGTGACGTACCTACCGCC 59.508 66.667 0.00 0.00 46.51 6.13
81 82 1.711500 GGCCGTCAATCCGTTAACG 59.289 57.895 20.99 20.99 39.44 3.18
82 83 1.711500 CGGCCGTCAATCCGTTAAC 59.289 57.895 19.50 0.00 40.72 2.01
98 99 2.264794 GGTAGGTGTGCCTGACGG 59.735 66.667 0.00 0.00 46.47 4.79
99 100 2.126071 CGGTAGGTGTGCCTGACG 60.126 66.667 0.00 0.00 46.47 4.35
100 101 1.080025 GACGGTAGGTGTGCCTGAC 60.080 63.158 0.00 0.00 46.47 3.51
101 102 2.632544 CGACGGTAGGTGTGCCTGA 61.633 63.158 0.00 0.00 46.47 3.86
102 103 2.126071 CGACGGTAGGTGTGCCTG 60.126 66.667 0.00 0.00 46.47 4.85
104 105 2.934570 TTCCGACGGTAGGTGTGCC 61.935 63.158 14.79 0.00 0.00 5.01
105 106 1.735559 GTTCCGACGGTAGGTGTGC 60.736 63.158 14.79 0.00 0.00 4.57
106 107 1.080298 GGTTCCGACGGTAGGTGTG 60.080 63.158 14.79 0.00 0.00 3.82
108 109 1.214589 CAGGTTCCGACGGTAGGTG 59.785 63.158 14.79 4.32 0.00 4.00
109 110 1.228675 ACAGGTTCCGACGGTAGGT 60.229 57.895 14.79 3.84 0.00 3.08
110 111 1.214589 CACAGGTTCCGACGGTAGG 59.785 63.158 14.79 0.20 0.00 3.18
111 112 1.214589 CCACAGGTTCCGACGGTAG 59.785 63.158 14.79 3.22 0.00 3.18
117 118 2.601067 TACCGCCACAGGTTCCGA 60.601 61.111 0.00 0.00 43.00 4.55
119 120 2.267961 CCTACCGCCACAGGTTCC 59.732 66.667 0.00 0.00 43.00 3.62
120 121 3.066198 ACCTACCGCCACAGGTTC 58.934 61.111 0.00 0.00 42.68 3.62
123 124 1.671054 CACAACCTACCGCCACAGG 60.671 63.158 0.00 0.00 37.97 4.00
124 125 2.325082 GCACAACCTACCGCCACAG 61.325 63.158 0.00 0.00 0.00 3.66
126 127 1.894756 TTGCACAACCTACCGCCAC 60.895 57.895 0.00 0.00 0.00 5.01
127 128 1.894756 GTTGCACAACCTACCGCCA 60.895 57.895 1.97 0.00 35.36 5.69
128 129 2.951458 GTTGCACAACCTACCGCC 59.049 61.111 1.97 0.00 35.36 6.13
136 137 2.622962 GGCGGTAGGGTTGCACAAC 61.623 63.158 4.92 4.92 40.45 3.32
137 138 2.281900 GGCGGTAGGGTTGCACAA 60.282 61.111 0.00 0.00 0.00 3.33
138 139 3.246112 AGGCGGTAGGGTTGCACA 61.246 61.111 0.00 0.00 0.00 4.57
140 141 2.925706 TCAGGCGGTAGGGTTGCA 60.926 61.111 0.00 0.00 0.00 4.08
141 142 2.125106 CTCAGGCGGTAGGGTTGC 60.125 66.667 0.00 0.00 0.00 4.17
142 143 1.838073 AACCTCAGGCGGTAGGGTTG 61.838 60.000 0.00 0.00 38.62 3.77
143 144 1.131928 AAACCTCAGGCGGTAGGGTT 61.132 55.000 0.00 4.40 37.99 4.11
144 145 1.131928 AAAACCTCAGGCGGTAGGGT 61.132 55.000 0.00 0.00 35.89 4.34
145 146 0.676782 CAAAACCTCAGGCGGTAGGG 60.677 60.000 0.00 1.33 35.89 3.53
146 147 0.676782 CCAAAACCTCAGGCGGTAGG 60.677 60.000 0.00 1.87 35.89 3.18
148 149 1.302993 GCCAAAACCTCAGGCGGTA 60.303 57.895 0.00 0.00 38.86 4.02
149 150 2.597510 GCCAAAACCTCAGGCGGT 60.598 61.111 0.00 0.00 38.86 5.68
152 153 1.302993 TACCGCCAAAACCTCAGGC 60.303 57.895 0.00 0.00 44.89 4.85
154 155 0.605319 TGCTACCGCCAAAACCTCAG 60.605 55.000 0.00 0.00 34.43 3.35
156 157 0.955905 TTTGCTACCGCCAAAACCTC 59.044 50.000 0.00 0.00 34.43 3.85
157 158 1.339929 CTTTTGCTACCGCCAAAACCT 59.660 47.619 0.00 0.00 31.38 3.50
158 159 1.604438 CCTTTTGCTACCGCCAAAACC 60.604 52.381 0.00 0.00 31.38 3.27
160 161 0.676736 CCCTTTTGCTACCGCCAAAA 59.323 50.000 0.00 0.00 31.38 2.44
161 162 0.468400 ACCCTTTTGCTACCGCCAAA 60.468 50.000 0.00 0.00 34.43 3.28
164 165 1.302993 TGACCCTTTTGCTACCGCC 60.303 57.895 0.00 0.00 34.43 6.13
165 166 0.321298 TCTGACCCTTTTGCTACCGC 60.321 55.000 0.00 0.00 0.00 5.68
166 167 2.403252 ATCTGACCCTTTTGCTACCG 57.597 50.000 0.00 0.00 0.00 4.02
167 168 4.079253 TGAAATCTGACCCTTTTGCTACC 58.921 43.478 0.00 0.00 0.00 3.18
168 169 5.705609 TTGAAATCTGACCCTTTTGCTAC 57.294 39.130 0.00 0.00 0.00 3.58
170 171 5.612725 TTTTGAAATCTGACCCTTTTGCT 57.387 34.783 0.00 0.00 0.00 3.91
171 172 5.759763 ACATTTTGAAATCTGACCCTTTTGC 59.240 36.000 0.00 0.00 0.00 3.68
173 174 8.806429 AAAACATTTTGAAATCTGACCCTTTT 57.194 26.923 0.00 0.00 0.00 2.27
175 176 7.563906 TGAAAACATTTTGAAATCTGACCCTT 58.436 30.769 0.00 0.00 0.00 3.95
176 177 7.069826 TCTGAAAACATTTTGAAATCTGACCCT 59.930 33.333 0.00 0.00 0.00 4.34
177 178 7.169813 GTCTGAAAACATTTTGAAATCTGACCC 59.830 37.037 0.00 0.00 0.00 4.46
178 179 7.922811 AGTCTGAAAACATTTTGAAATCTGACC 59.077 33.333 9.07 0.00 0.00 4.02
180 181 7.922278 CCAGTCTGAAAACATTTTGAAATCTGA 59.078 33.333 0.00 0.00 0.00 3.27
182 183 7.212274 CCCAGTCTGAAAACATTTTGAAATCT 58.788 34.615 0.00 0.00 0.00 2.40
184 185 6.126796 ACCCCAGTCTGAAAACATTTTGAAAT 60.127 34.615 0.00 0.00 0.00 2.17
185 186 5.188751 ACCCCAGTCTGAAAACATTTTGAAA 59.811 36.000 0.00 0.00 0.00 2.69
186 187 4.714308 ACCCCAGTCTGAAAACATTTTGAA 59.286 37.500 0.00 0.00 0.00 2.69
188 189 4.099266 TGACCCCAGTCTGAAAACATTTTG 59.901 41.667 0.00 0.00 43.91 2.44
190 191 3.909732 TGACCCCAGTCTGAAAACATTT 58.090 40.909 0.00 0.00 43.91 2.32
191 192 3.593442 TGACCCCAGTCTGAAAACATT 57.407 42.857 0.00 0.00 43.91 2.71
192 193 3.593442 TTGACCCCAGTCTGAAAACAT 57.407 42.857 0.00 0.00 43.91 2.71
193 194 3.374042 TTTGACCCCAGTCTGAAAACA 57.626 42.857 0.00 0.00 43.91 2.83
194 195 4.145052 AGATTTGACCCCAGTCTGAAAAC 58.855 43.478 0.00 0.00 43.91 2.43
195 196 4.398319 GAGATTTGACCCCAGTCTGAAAA 58.602 43.478 0.00 0.00 43.91 2.29
196 197 3.557054 CGAGATTTGACCCCAGTCTGAAA 60.557 47.826 0.00 0.00 43.91 2.69
198 199 1.550524 CGAGATTTGACCCCAGTCTGA 59.449 52.381 0.00 0.00 43.91 3.27
200 201 1.938585 TCGAGATTTGACCCCAGTCT 58.061 50.000 0.00 0.00 43.91 3.24
201 202 2.990066 ATCGAGATTTGACCCCAGTC 57.010 50.000 0.00 0.00 43.83 3.51
203 204 3.758554 ACAAAATCGAGATTTGACCCCAG 59.241 43.478 24.89 5.31 40.57 4.45
206 207 5.629435 GTGAAACAAAATCGAGATTTGACCC 59.371 40.000 24.89 15.68 40.57 4.46
224 225 5.872070 TCATGTTTTGTCCCTTTTGTGAAAC 59.128 36.000 0.00 0.00 37.35 2.78
225 226 6.042638 TCATGTTTTGTCCCTTTTGTGAAA 57.957 33.333 0.00 0.00 0.00 2.69
226 227 5.667539 TCATGTTTTGTCCCTTTTGTGAA 57.332 34.783 0.00 0.00 0.00 3.18
227 228 5.667539 TTCATGTTTTGTCCCTTTTGTGA 57.332 34.783 0.00 0.00 0.00 3.58
228 229 6.923928 ATTTCATGTTTTGTCCCTTTTGTG 57.076 33.333 0.00 0.00 0.00 3.33
229 230 7.936496 AAATTTCATGTTTTGTCCCTTTTGT 57.064 28.000 0.00 0.00 0.00 2.83
230 231 7.220491 GCAAAATTTCATGTTTTGTCCCTTTTG 59.780 33.333 16.75 10.79 44.40 2.44
232 233 6.183360 GGCAAAATTTCATGTTTTGTCCCTTT 60.183 34.615 16.75 0.00 42.38 3.11
234 235 4.821260 GGCAAAATTTCATGTTTTGTCCCT 59.179 37.500 16.75 0.00 42.38 4.20
236 237 7.011857 TGTTAGGCAAAATTTCATGTTTTGTCC 59.988 33.333 16.56 16.65 46.77 4.02
237 238 7.914465 TGTTAGGCAAAATTTCATGTTTTGTC 58.086 30.769 13.77 13.77 46.24 3.18
238 239 7.856145 TGTTAGGCAAAATTTCATGTTTTGT 57.144 28.000 16.75 5.59 44.40 2.83
240 241 7.065204 ACGTTGTTAGGCAAAATTTCATGTTTT 59.935 29.630 0.00 0.00 39.03 2.43
241 242 6.536941 ACGTTGTTAGGCAAAATTTCATGTTT 59.463 30.769 0.00 0.00 39.03 2.83
242 243 6.045955 ACGTTGTTAGGCAAAATTTCATGTT 58.954 32.000 0.00 0.00 39.03 2.71
243 244 5.596845 ACGTTGTTAGGCAAAATTTCATGT 58.403 33.333 0.00 0.00 39.03 3.21
244 245 5.920273 AGACGTTGTTAGGCAAAATTTCATG 59.080 36.000 0.00 0.00 39.03 3.07
245 246 6.084326 AGACGTTGTTAGGCAAAATTTCAT 57.916 33.333 0.00 0.00 39.03 2.57
247 248 5.567915 GCTAGACGTTGTTAGGCAAAATTTC 59.432 40.000 0.00 0.00 39.03 2.17
248 249 5.009210 TGCTAGACGTTGTTAGGCAAAATTT 59.991 36.000 0.00 0.00 39.03 1.82
249 250 4.517453 TGCTAGACGTTGTTAGGCAAAATT 59.483 37.500 0.00 0.00 39.03 1.82
250 251 4.069304 TGCTAGACGTTGTTAGGCAAAAT 58.931 39.130 0.00 0.00 39.03 1.82
253 254 2.823924 TGCTAGACGTTGTTAGGCAA 57.176 45.000 0.00 0.00 34.16 4.52
255 256 2.888594 TCATGCTAGACGTTGTTAGGC 58.111 47.619 0.00 0.00 0.00 3.93
256 257 4.242475 TGTTCATGCTAGACGTTGTTAGG 58.758 43.478 0.00 0.00 0.00 2.69
257 258 5.839262 TTGTTCATGCTAGACGTTGTTAG 57.161 39.130 0.00 0.00 0.00 2.34
272 273 1.545136 TGACATGGCGCAATTGTTCAT 59.455 42.857 10.83 5.98 0.00 2.57
275 276 1.545136 TCATGACATGGCGCAATTGTT 59.455 42.857 15.37 0.00 0.00 2.83
284 285 0.249155 CCCGCAAATCATGACATGGC 60.249 55.000 15.37 9.56 0.00 4.40
289 290 2.785425 GGGCCCCGCAAATCATGAC 61.785 63.158 12.23 0.00 0.00 3.06
294 295 4.759205 AGGTGGGCCCCGCAAATC 62.759 66.667 22.27 0.00 35.42 2.17
332 333 3.703286 AAAAACACTACGGCTTTGGTC 57.297 42.857 0.00 0.00 0.00 4.02
353 360 9.747898 TCACTAATTCCAAGGCTAATCTTTTAA 57.252 29.630 0.00 0.00 0.00 1.52
354 361 9.920946 ATCACTAATTCCAAGGCTAATCTTTTA 57.079 29.630 0.00 0.00 0.00 1.52
359 366 7.922811 CCAAAATCACTAATTCCAAGGCTAATC 59.077 37.037 0.00 0.00 0.00 1.75
361 368 6.154363 CCCAAAATCACTAATTCCAAGGCTAA 59.846 38.462 0.00 0.00 0.00 3.09
368 375 7.841282 TTTGTACCCAAAATCACTAATTCCA 57.159 32.000 0.00 0.00 37.62 3.53
423 1131 8.633075 ATTGCACAAAACATCGATATTAAAGG 57.367 30.769 0.00 0.00 0.00 3.11
427 1135 8.613613 GTGAATTGCACAAAACATCGATATTA 57.386 30.769 0.00 0.00 46.91 0.98
458 1166 1.002792 GTTTCTTCGTGGGCAACTGAC 60.003 52.381 0.00 0.00 0.00 3.51
522 1233 3.547649 ACCCGAATACGAAGCAAAAAC 57.452 42.857 0.00 0.00 42.66 2.43
526 1237 2.298411 GGTACCCGAATACGAAGCAA 57.702 50.000 0.00 0.00 42.66 3.91
651 1362 8.766000 TGCGATACACTTAATAAGAAAACTGA 57.234 30.769 7.06 0.00 0.00 3.41
652 1363 9.988350 AATGCGATACACTTAATAAGAAAACTG 57.012 29.630 7.06 0.00 0.00 3.16
658 1369 9.472361 GTCCTAAATGCGATACACTTAATAAGA 57.528 33.333 7.06 0.00 0.00 2.10
659 1370 9.477484 AGTCCTAAATGCGATACACTTAATAAG 57.523 33.333 0.00 0.00 0.00 1.73
660 1371 9.826574 AAGTCCTAAATGCGATACACTTAATAA 57.173 29.630 0.00 0.00 0.00 1.40
661 1372 9.256477 CAAGTCCTAAATGCGATACACTTAATA 57.744 33.333 0.00 0.00 0.00 0.98
662 1373 7.226720 CCAAGTCCTAAATGCGATACACTTAAT 59.773 37.037 0.00 0.00 0.00 1.40
663 1374 6.537301 CCAAGTCCTAAATGCGATACACTTAA 59.463 38.462 0.00 0.00 0.00 1.85
664 1375 6.046593 CCAAGTCCTAAATGCGATACACTTA 58.953 40.000 0.00 0.00 0.00 2.24
665 1376 4.876107 CCAAGTCCTAAATGCGATACACTT 59.124 41.667 0.00 0.00 0.00 3.16
666 1377 4.161565 TCCAAGTCCTAAATGCGATACACT 59.838 41.667 0.00 0.00 0.00 3.55
667 1378 4.270325 GTCCAAGTCCTAAATGCGATACAC 59.730 45.833 0.00 0.00 0.00 2.90
668 1379 4.161565 AGTCCAAGTCCTAAATGCGATACA 59.838 41.667 0.00 0.00 0.00 2.29
669 1380 4.694339 AGTCCAAGTCCTAAATGCGATAC 58.306 43.478 0.00 0.00 0.00 2.24
675 1386 3.056107 TGTCGGAGTCCAAGTCCTAAATG 60.056 47.826 10.49 0.00 35.52 2.32
676 1387 3.170717 TGTCGGAGTCCAAGTCCTAAAT 58.829 45.455 10.49 0.00 35.52 1.40
694 1405 2.062519 GCTCGACTCCTTGTCTTTGTC 58.937 52.381 0.00 0.00 43.25 3.18
695 1406 1.412710 TGCTCGACTCCTTGTCTTTGT 59.587 47.619 0.00 0.00 43.25 2.83
696 1407 2.064762 CTGCTCGACTCCTTGTCTTTG 58.935 52.381 0.00 0.00 43.25 2.77
697 1408 1.964223 TCTGCTCGACTCCTTGTCTTT 59.036 47.619 0.00 0.00 43.25 2.52
698 1409 1.271102 GTCTGCTCGACTCCTTGTCTT 59.729 52.381 0.31 0.00 43.25 3.01
699 1410 0.885196 GTCTGCTCGACTCCTTGTCT 59.115 55.000 0.31 0.00 43.25 3.41
774 1485 1.448717 GAGAAACCAGGCGCCTCTC 60.449 63.158 30.29 25.41 0.00 3.20
806 1517 0.463295 ATTGGGATCTGCACTGCGAG 60.463 55.000 0.00 0.00 0.00 5.03
831 2057 3.314553 TCGACGGAACTTGAAGATGAAC 58.685 45.455 0.00 0.00 0.00 3.18
914 2140 4.521062 GCTGCCTGCCGACTCGAT 62.521 66.667 0.00 0.00 35.15 3.59
955 2181 4.214332 ACACGCAGGATCTTCTTTTTCTTC 59.786 41.667 0.00 0.00 0.00 2.87
956 2182 4.023707 CACACGCAGGATCTTCTTTTTCTT 60.024 41.667 0.00 0.00 0.00 2.52
957 2183 3.499918 CACACGCAGGATCTTCTTTTTCT 59.500 43.478 0.00 0.00 0.00 2.52
1022 2255 1.617947 ATCTGGCCACTCCGTCCTTC 61.618 60.000 0.00 0.00 37.80 3.46
1089 2324 1.622607 CCTCATCCGTGTTGGCCCTA 61.623 60.000 0.00 0.00 37.80 3.53
1112 2347 1.811266 CTCCGTTGCATGTCCTCCG 60.811 63.158 0.00 0.00 0.00 4.63
1172 2407 1.202533 CGTAGGTGACTATGCCCTTGG 60.203 57.143 0.00 0.00 46.56 3.61
1240 2477 4.402528 CCGACCCGGTGGATGCAA 62.403 66.667 0.00 0.00 42.73 4.08
1326 2563 9.473007 TGATATAGCTAGATAGAGTTGCTTGAT 57.527 33.333 0.00 0.00 35.47 2.57
1388 2625 5.477291 TGAACCAGGTTCACAAACAAAGTAA 59.523 36.000 28.47 3.64 45.88 2.24
1438 2675 0.323725 ACCAAATCCTTCATGGCGCT 60.324 50.000 7.64 0.00 37.77 5.92
1455 2692 6.040247 CCCAGTAAGAAAACAAGACAAAACC 58.960 40.000 0.00 0.00 0.00 3.27
1456 2693 6.627243 ACCCAGTAAGAAAACAAGACAAAAC 58.373 36.000 0.00 0.00 0.00 2.43
1479 2716 3.701040 ACAATTGGCATGGGACTCATAAC 59.299 43.478 10.83 0.00 34.12 1.89
1489 2726 5.008619 TGTATAAAGCACAATTGGCATGG 57.991 39.130 17.54 1.56 0.00 3.66
1530 2767 5.040635 ACAGTAAATGAACAAAACCGCAAG 58.959 37.500 0.00 0.00 0.00 4.01
1534 2771 8.504005 AGAGAATACAGTAAATGAACAAAACCG 58.496 33.333 0.00 0.00 0.00 4.44
1631 2868 0.179020 CTGTGGCTTCCAAGGTGTCA 60.179 55.000 0.00 0.00 34.18 3.58
1683 2924 4.470334 AACACAAGAAACAATGCCAACT 57.530 36.364 0.00 0.00 0.00 3.16
1891 3136 6.950842 TCATAGGAAAGACACAACTGATGAT 58.049 36.000 0.00 0.00 0.00 2.45
1900 3145 7.715249 GCCTTATATGTTCATAGGAAAGACACA 59.285 37.037 0.00 0.00 34.13 3.72
2040 3314 5.748670 TTACTGGGCTTACTTATGACACA 57.251 39.130 0.00 0.00 0.00 3.72
2043 3317 9.075678 TCTAGTATTACTGGGCTTACTTATGAC 57.924 37.037 6.60 0.00 0.00 3.06
2096 6111 5.406163 AGAAAACTGGGATCTTGGGATTTT 58.594 37.500 0.00 0.00 31.46 1.82
2100 6115 4.166144 GGATAGAAAACTGGGATCTTGGGA 59.834 45.833 0.00 0.00 0.00 4.37
2112 6127 7.093771 CCTGGTATTTGCTTTGGATAGAAAACT 60.094 37.037 0.00 0.00 0.00 2.66
2115 6130 6.489603 TCCTGGTATTTGCTTTGGATAGAAA 58.510 36.000 0.00 0.00 0.00 2.52
2122 6137 5.665916 AATCTTCCTGGTATTTGCTTTGG 57.334 39.130 0.00 0.00 0.00 3.28
2123 6138 7.967890 AAAAATCTTCCTGGTATTTGCTTTG 57.032 32.000 0.00 0.00 0.00 2.77
2144 6159 9.500785 AATGAAACCACAAGAAAGAAAGAAAAA 57.499 25.926 0.00 0.00 0.00 1.94
2149 6164 7.260603 ACTGAATGAAACCACAAGAAAGAAAG 58.739 34.615 0.00 0.00 0.00 2.62
2150 6165 7.169158 ACTGAATGAAACCACAAGAAAGAAA 57.831 32.000 0.00 0.00 0.00 2.52
2151 6166 6.773976 ACTGAATGAAACCACAAGAAAGAA 57.226 33.333 0.00 0.00 0.00 2.52
2152 6167 6.773976 AACTGAATGAAACCACAAGAAAGA 57.226 33.333 0.00 0.00 0.00 2.52
2153 6168 8.571336 AGATAACTGAATGAAACCACAAGAAAG 58.429 33.333 0.00 0.00 0.00 2.62
2201 6216 4.253685 TCTTGCTATGGTGCTTACAACTC 58.746 43.478 0.00 0.00 33.30 3.01
2214 6229 7.329962 TGATTTTGCAATCTTGTTCTTGCTATG 59.670 33.333 0.00 0.00 46.16 2.23
2218 6233 5.910637 TGATTTTGCAATCTTGTTCTTGC 57.089 34.783 0.00 0.51 46.19 4.01
2270 6285 7.445121 TGAGCAGGAATACACTAAATCCATAG 58.555 38.462 0.00 0.00 34.30 2.23
2292 6307 7.572523 ATCAACATGTGGGTAAACATATGAG 57.427 36.000 10.38 3.07 40.95 2.90


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

AutoCloner maintained by Alex Coulton.