Multiple sequence alignment - TraesCS2D01G006000
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 | TraesCS2D01G006000 | chr2D | 100.000 | 3521 | 0 | 0 | 1 | 3521 | 2949595 | 2946075 | 0.000000e+00 | 6503.0 |
1 | TraesCS2D01G006000 | chr2D | 95.082 | 122 | 5 | 1 | 196 | 316 | 7396590 | 7396469 | 1.290000e-44 | 191.0 |
2 | TraesCS2D01G006000 | chr2D | 95.041 | 121 | 6 | 0 | 196 | 316 | 138294511 | 138294391 | 1.290000e-44 | 191.0 |
3 | TraesCS2D01G006000 | chr2B | 93.465 | 2173 | 100 | 26 | 315 | 2478 | 7836882 | 7839021 | 0.000000e+00 | 3188.0 |
4 | TraesCS2D01G006000 | chr2B | 90.314 | 1941 | 158 | 21 | 557 | 2481 | 8071874 | 8069948 | 0.000000e+00 | 2516.0 |
5 | TraesCS2D01G006000 | chr2B | 90.309 | 1940 | 159 | 20 | 557 | 2481 | 8227628 | 8225703 | 0.000000e+00 | 2514.0 |
6 | TraesCS2D01G006000 | chr2B | 89.892 | 1949 | 156 | 25 | 549 | 2482 | 7902663 | 7900741 | 0.000000e+00 | 2470.0 |
7 | TraesCS2D01G006000 | chr2B | 92.701 | 1466 | 70 | 23 | 315 | 1774 | 7761659 | 7763093 | 0.000000e+00 | 2080.0 |
8 | TraesCS2D01G006000 | chr2B | 94.910 | 668 | 31 | 3 | 1814 | 2478 | 7763090 | 7763757 | 0.000000e+00 | 1042.0 |
9 | TraesCS2D01G006000 | chr2B | 90.114 | 263 | 25 | 1 | 2478 | 2740 | 7849985 | 7850246 | 1.210000e-89 | 340.0 |
10 | TraesCS2D01G006000 | chr2B | 88.848 | 269 | 28 | 2 | 2472 | 2740 | 7845803 | 7846069 | 2.620000e-86 | 329.0 |
11 | TraesCS2D01G006000 | chr2B | 82.152 | 381 | 50 | 8 | 3155 | 3518 | 303847 | 304226 | 9.490000e-81 | 311.0 |
12 | TraesCS2D01G006000 | chr2B | 93.564 | 202 | 12 | 1 | 1 | 201 | 7761459 | 7761660 | 2.050000e-77 | 300.0 |
13 | TraesCS2D01G006000 | chr2B | 85.448 | 268 | 39 | 0 | 3254 | 3521 | 7847303 | 7847570 | 2.680000e-71 | 279.0 |
14 | TraesCS2D01G006000 | chr2B | 91.089 | 202 | 17 | 1 | 1 | 201 | 7836682 | 7836883 | 4.480000e-69 | 272.0 |
15 | TraesCS2D01G006000 | chr2B | 95.868 | 121 | 4 | 1 | 200 | 320 | 766070366 | 766070247 | 9.970000e-46 | 195.0 |
16 | TraesCS2D01G006000 | chr2A | 95.820 | 1938 | 65 | 5 | 549 | 2480 | 2725773 | 2727700 | 0.000000e+00 | 3116.0 |
17 | TraesCS2D01G006000 | chr2A | 90.503 | 1074 | 67 | 14 | 2472 | 3521 | 2729681 | 2730743 | 0.000000e+00 | 1386.0 |
18 | TraesCS2D01G006000 | chr2A | 83.073 | 384 | 47 | 8 | 3155 | 3521 | 1778224 | 1777842 | 2.030000e-87 | 333.0 |
19 | TraesCS2D01G006000 | chr2A | 82.199 | 382 | 50 | 8 | 3155 | 3519 | 1783783 | 1784163 | 2.640000e-81 | 313.0 |
20 | TraesCS2D01G006000 | chr2A | 94.554 | 202 | 10 | 1 | 1 | 201 | 2725039 | 2725240 | 9.490000e-81 | 311.0 |
21 | TraesCS2D01G006000 | chr2A | 95.536 | 112 | 5 | 0 | 315 | 426 | 2725239 | 2725350 | 2.790000e-41 | 180.0 |
22 | TraesCS2D01G006000 | chr3D | 79.658 | 1519 | 236 | 39 | 963 | 2461 | 606940935 | 606942400 | 0.000000e+00 | 1026.0 |
23 | TraesCS2D01G006000 | chr3D | 82.857 | 70 | 11 | 1 | 2602 | 2670 | 523751762 | 523751831 | 1.060000e-05 | 62.1 |
24 | TraesCS2D01G006000 | chr5D | 78.331 | 1246 | 227 | 25 | 1122 | 2350 | 371862258 | 371863477 | 0.000000e+00 | 765.0 |
25 | TraesCS2D01G006000 | chr5A | 77.769 | 1246 | 234 | 26 | 1122 | 2350 | 475294991 | 475296210 | 0.000000e+00 | 726.0 |
26 | TraesCS2D01G006000 | chr7A | 82.609 | 552 | 76 | 7 | 2988 | 3521 | 65165213 | 65164664 | 1.480000e-128 | 470.0 |
27 | TraesCS2D01G006000 | chr7A | 75.000 | 516 | 123 | 5 | 1185 | 1696 | 517581845 | 517581332 | 2.110000e-57 | 233.0 |
28 | TraesCS2D01G006000 | chr7A | 95.161 | 124 | 4 | 2 | 200 | 323 | 632588268 | 632588147 | 9.970000e-46 | 195.0 |
29 | TraesCS2D01G006000 | chr7D | 81.346 | 520 | 73 | 7 | 3026 | 3521 | 61236979 | 61236460 | 5.470000e-108 | 401.0 |
30 | TraesCS2D01G006000 | chr7D | 75.086 | 582 | 123 | 19 | 1117 | 1687 | 477855753 | 477856323 | 5.830000e-63 | 252.0 |
31 | TraesCS2D01G006000 | chr4D | 82.984 | 382 | 49 | 9 | 3133 | 3498 | 494878707 | 494878326 | 7.290000e-87 | 331.0 |
32 | TraesCS2D01G006000 | chr4B | 82.768 | 383 | 48 | 10 | 3133 | 3498 | 634459304 | 634459685 | 3.390000e-85 | 326.0 |
33 | TraesCS2D01G006000 | chr3B | 97.436 | 117 | 3 | 0 | 200 | 316 | 564169701 | 564169817 | 2.140000e-47 | 200.0 |
34 | TraesCS2D01G006000 | chr4A | 95.833 | 120 | 5 | 0 | 200 | 319 | 732350163 | 732350282 | 9.970000e-46 | 195.0 |
35 | TraesCS2D01G006000 | chr6D | 94.400 | 125 | 7 | 0 | 192 | 316 | 305136403 | 305136527 | 3.590000e-45 | 193.0 |
36 | TraesCS2D01G006000 | chr3A | 95.798 | 119 | 5 | 0 | 198 | 316 | 671258201 | 671258083 | 3.590000e-45 | 193.0 |
37 | TraesCS2D01G006000 | chr1D | 95.000 | 120 | 6 | 0 | 200 | 319 | 344598781 | 344598662 | 4.640000e-44 | 189.0 |
38 | TraesCS2D01G006000 | chr1D | 86.792 | 53 | 7 | 0 | 2618 | 2670 | 351041634 | 351041686 | 3.800000e-05 | 60.2 |
39 | TraesCS2D01G006000 | chr6B | 85.714 | 70 | 9 | 1 | 2602 | 2670 | 320192151 | 320192220 | 4.880000e-09 | 73.1 |
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 | TraesCS2D01G006000 | chr2D | 2946075 | 2949595 | 3520 | True | 6503.000000 | 6503 | 100.000000 | 1 | 3521 | 1 | chr2D.!!$R1 | 3520 |
1 | TraesCS2D01G006000 | chr2B | 8069948 | 8071874 | 1926 | True | 2516.000000 | 2516 | 90.314000 | 557 | 2481 | 1 | chr2B.!!$R2 | 1924 |
2 | TraesCS2D01G006000 | chr2B | 8225703 | 8227628 | 1925 | True | 2514.000000 | 2514 | 90.309000 | 557 | 2481 | 1 | chr2B.!!$R3 | 1924 |
3 | TraesCS2D01G006000 | chr2B | 7900741 | 7902663 | 1922 | True | 2470.000000 | 2470 | 89.892000 | 549 | 2482 | 1 | chr2B.!!$R1 | 1933 |
4 | TraesCS2D01G006000 | chr2B | 7836682 | 7839021 | 2339 | False | 1730.000000 | 3188 | 92.277000 | 1 | 2478 | 2 | chr2B.!!$F3 | 2477 |
5 | TraesCS2D01G006000 | chr2B | 7761459 | 7763757 | 2298 | False | 1140.666667 | 2080 | 93.725000 | 1 | 2478 | 3 | chr2B.!!$F2 | 2477 |
6 | TraesCS2D01G006000 | chr2B | 7845803 | 7850246 | 4443 | False | 316.000000 | 340 | 88.136667 | 2472 | 3521 | 3 | chr2B.!!$F4 | 1049 |
7 | TraesCS2D01G006000 | chr2A | 2725039 | 2730743 | 5704 | False | 1248.250000 | 3116 | 94.103250 | 1 | 3521 | 4 | chr2A.!!$F2 | 3520 |
8 | TraesCS2D01G006000 | chr3D | 606940935 | 606942400 | 1465 | False | 1026.000000 | 1026 | 79.658000 | 963 | 2461 | 1 | chr3D.!!$F2 | 1498 |
9 | TraesCS2D01G006000 | chr5D | 371862258 | 371863477 | 1219 | False | 765.000000 | 765 | 78.331000 | 1122 | 2350 | 1 | chr5D.!!$F1 | 1228 |
10 | TraesCS2D01G006000 | chr5A | 475294991 | 475296210 | 1219 | False | 726.000000 | 726 | 77.769000 | 1122 | 2350 | 1 | chr5A.!!$F1 | 1228 |
11 | TraesCS2D01G006000 | chr7A | 65164664 | 65165213 | 549 | True | 470.000000 | 470 | 82.609000 | 2988 | 3521 | 1 | chr7A.!!$R1 | 533 |
12 | TraesCS2D01G006000 | chr7A | 517581332 | 517581845 | 513 | True | 233.000000 | 233 | 75.000000 | 1185 | 1696 | 1 | chr7A.!!$R2 | 511 |
13 | TraesCS2D01G006000 | chr7D | 61236460 | 61236979 | 519 | True | 401.000000 | 401 | 81.346000 | 3026 | 3521 | 1 | chr7D.!!$R1 | 495 |
14 | TraesCS2D01G006000 | chr7D | 477855753 | 477856323 | 570 | False | 252.000000 | 252 | 75.086000 | 1117 | 1687 | 1 | chr7D.!!$F1 | 570 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
312 | 314 | 0.032813 | AGTATTTCCGGACGGAGGGA | 60.033 | 55.0 | 13.64 | 4.95 | 46.06 | 4.20 | F |
314 | 316 | 0.032813 | TATTTCCGGACGGAGGGAGT | 60.033 | 55.0 | 13.64 | 0.00 | 46.06 | 3.85 | F |
503 | 835 | 0.179004 | TGCCATAAAATCCGCCGGAT | 60.179 | 50.0 | 14.09 | 14.09 | 45.46 | 4.18 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1696 | 2039 | 0.038159 | CTGTTGGACACCGAGACCTC | 60.038 | 60.000 | 0.0 | 0.0 | 32.90 | 3.85 | R |
2502 | 4871 | 7.582435 | TCTCTTCTACTTCAATGTAAAAGCG | 57.418 | 36.000 | 0.0 | 0.0 | 0.00 | 4.68 | R |
2571 | 4940 | 1.276138 | CCCTCCAAAAGTCAAATGGGC | 59.724 | 52.381 | 0.0 | 0.0 | 34.89 | 5.36 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
88 | 89 | 6.970043 | TGCGCATTAAACTAAATACCAATGAC | 59.030 | 34.615 | 5.66 | 0.00 | 0.00 | 3.06 |
97 | 98 | 8.579850 | AACTAAATACCAATGACATGATGTGT | 57.420 | 30.769 | 1.23 | 0.00 | 45.83 | 3.72 |
103 | 104 | 2.391616 | ATGACATGATGTGTGTCGCT | 57.608 | 45.000 | 1.23 | 0.00 | 46.89 | 4.93 |
107 | 109 | 1.001293 | ACATGATGTGTGTCGCTCTGT | 59.999 | 47.619 | 0.00 | 0.00 | 40.28 | 3.41 |
138 | 140 | 4.083484 | GGTTGTTAGCGCAGTTCAAATACT | 60.083 | 41.667 | 11.47 | 0.00 | 0.00 | 2.12 |
202 | 204 | 9.520515 | AAAATTTGGTGTGACATCTTATCTACT | 57.479 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
203 | 205 | 8.723942 | AATTTGGTGTGACATCTTATCTACTC | 57.276 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
204 | 206 | 5.854010 | TGGTGTGACATCTTATCTACTCC | 57.146 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
205 | 207 | 4.649674 | TGGTGTGACATCTTATCTACTCCC | 59.350 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
206 | 208 | 4.896482 | GGTGTGACATCTTATCTACTCCCT | 59.104 | 45.833 | 0.00 | 0.00 | 0.00 | 4.20 |
207 | 209 | 5.364157 | GGTGTGACATCTTATCTACTCCCTT | 59.636 | 44.000 | 0.00 | 0.00 | 0.00 | 3.95 |
208 | 210 | 6.461788 | GGTGTGACATCTTATCTACTCCCTTC | 60.462 | 46.154 | 0.00 | 0.00 | 0.00 | 3.46 |
209 | 211 | 5.299531 | TGTGACATCTTATCTACTCCCTTCG | 59.700 | 44.000 | 0.00 | 0.00 | 0.00 | 3.79 |
210 | 212 | 5.299782 | GTGACATCTTATCTACTCCCTTCGT | 59.700 | 44.000 | 0.00 | 0.00 | 0.00 | 3.85 |
211 | 213 | 5.531659 | TGACATCTTATCTACTCCCTTCGTC | 59.468 | 44.000 | 0.00 | 0.00 | 0.00 | 4.20 |
212 | 214 | 4.828387 | ACATCTTATCTACTCCCTTCGTCC | 59.172 | 45.833 | 0.00 | 0.00 | 0.00 | 4.79 |
213 | 215 | 3.830121 | TCTTATCTACTCCCTTCGTCCC | 58.170 | 50.000 | 0.00 | 0.00 | 0.00 | 4.46 |
214 | 216 | 2.267174 | TATCTACTCCCTTCGTCCCG | 57.733 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
215 | 217 | 0.549950 | ATCTACTCCCTTCGTCCCGA | 59.450 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
216 | 218 | 0.329261 | TCTACTCCCTTCGTCCCGAA | 59.671 | 55.000 | 0.00 | 0.00 | 43.75 | 4.30 |
217 | 219 | 1.180029 | CTACTCCCTTCGTCCCGAAA | 58.820 | 55.000 | 0.47 | 0.00 | 45.23 | 3.46 |
218 | 220 | 1.755380 | CTACTCCCTTCGTCCCGAAAT | 59.245 | 52.381 | 0.47 | 0.00 | 45.23 | 2.17 |
219 | 221 | 1.856629 | ACTCCCTTCGTCCCGAAATA | 58.143 | 50.000 | 0.47 | 0.00 | 45.23 | 1.40 |
220 | 222 | 1.479730 | ACTCCCTTCGTCCCGAAATAC | 59.520 | 52.381 | 0.47 | 0.00 | 45.23 | 1.89 |
221 | 223 | 1.755380 | CTCCCTTCGTCCCGAAATACT | 59.245 | 52.381 | 0.47 | 0.00 | 45.23 | 2.12 |
222 | 224 | 2.167900 | CTCCCTTCGTCCCGAAATACTT | 59.832 | 50.000 | 0.47 | 0.00 | 45.23 | 2.24 |
223 | 225 | 2.093869 | TCCCTTCGTCCCGAAATACTTG | 60.094 | 50.000 | 0.47 | 0.00 | 45.23 | 3.16 |
224 | 226 | 2.354403 | CCCTTCGTCCCGAAATACTTGT | 60.354 | 50.000 | 0.47 | 0.00 | 45.23 | 3.16 |
225 | 227 | 2.671396 | CCTTCGTCCCGAAATACTTGTG | 59.329 | 50.000 | 0.47 | 0.00 | 45.23 | 3.33 |
226 | 228 | 2.373540 | TCGTCCCGAAATACTTGTGG | 57.626 | 50.000 | 0.00 | 0.00 | 31.06 | 4.17 |
227 | 229 | 1.066716 | TCGTCCCGAAATACTTGTGGG | 60.067 | 52.381 | 0.00 | 0.00 | 41.43 | 4.61 |
228 | 230 | 1.066716 | CGTCCCGAAATACTTGTGGGA | 60.067 | 52.381 | 0.00 | 0.00 | 46.47 | 4.37 |
230 | 232 | 2.542550 | TCCCGAAATACTTGTGGGAGA | 58.457 | 47.619 | 0.00 | 0.00 | 43.85 | 3.71 |
231 | 233 | 2.907696 | TCCCGAAATACTTGTGGGAGAA | 59.092 | 45.455 | 0.00 | 0.00 | 43.85 | 2.87 |
232 | 234 | 3.328343 | TCCCGAAATACTTGTGGGAGAAA | 59.672 | 43.478 | 0.00 | 0.00 | 43.85 | 2.52 |
233 | 235 | 4.018779 | TCCCGAAATACTTGTGGGAGAAAT | 60.019 | 41.667 | 0.00 | 0.00 | 43.85 | 2.17 |
234 | 236 | 4.096382 | CCCGAAATACTTGTGGGAGAAATG | 59.904 | 45.833 | 0.00 | 0.00 | 42.77 | 2.32 |
235 | 237 | 4.096382 | CCGAAATACTTGTGGGAGAAATGG | 59.904 | 45.833 | 0.00 | 0.00 | 0.00 | 3.16 |
236 | 238 | 4.941263 | CGAAATACTTGTGGGAGAAATGGA | 59.059 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
237 | 239 | 5.590259 | CGAAATACTTGTGGGAGAAATGGAT | 59.410 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
238 | 240 | 6.765989 | CGAAATACTTGTGGGAGAAATGGATA | 59.234 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
239 | 241 | 7.282224 | CGAAATACTTGTGGGAGAAATGGATAA | 59.718 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
240 | 242 | 8.893563 | AAATACTTGTGGGAGAAATGGATAAA | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
241 | 243 | 8.893563 | AATACTTGTGGGAGAAATGGATAAAA | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.52 |
242 | 244 | 9.492730 | AATACTTGTGGGAGAAATGGATAAAAT | 57.507 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
243 | 245 | 7.174107 | ACTTGTGGGAGAAATGGATAAAATG | 57.826 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
244 | 246 | 6.155049 | ACTTGTGGGAGAAATGGATAAAATGG | 59.845 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
245 | 247 | 4.961730 | TGTGGGAGAAATGGATAAAATGGG | 59.038 | 41.667 | 0.00 | 0.00 | 0.00 | 4.00 |
246 | 248 | 5.208121 | GTGGGAGAAATGGATAAAATGGGA | 58.792 | 41.667 | 0.00 | 0.00 | 0.00 | 4.37 |
247 | 249 | 5.840693 | GTGGGAGAAATGGATAAAATGGGAT | 59.159 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
248 | 250 | 5.840149 | TGGGAGAAATGGATAAAATGGGATG | 59.160 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
249 | 251 | 5.840693 | GGGAGAAATGGATAAAATGGGATGT | 59.159 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
250 | 252 | 7.010160 | GGGAGAAATGGATAAAATGGGATGTA | 58.990 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
251 | 253 | 7.675619 | GGGAGAAATGGATAAAATGGGATGTAT | 59.324 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
252 | 254 | 8.743714 | GGAGAAATGGATAAAATGGGATGTATC | 58.256 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
253 | 255 | 9.525826 | GAGAAATGGATAAAATGGGATGTATCT | 57.474 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
286 | 288 | 9.838339 | AAAATACGTCTAGATTCATCCATTTCT | 57.162 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
287 | 289 | 9.482627 | AAATACGTCTAGATTCATCCATTTCTC | 57.517 | 33.333 | 0.00 | 0.00 | 0.00 | 2.87 |
288 | 290 | 5.848406 | ACGTCTAGATTCATCCATTTCTCC | 58.152 | 41.667 | 0.00 | 0.00 | 0.00 | 3.71 |
289 | 291 | 4.920340 | CGTCTAGATTCATCCATTTCTCCG | 59.080 | 45.833 | 0.00 | 0.00 | 0.00 | 4.63 |
290 | 292 | 5.278512 | CGTCTAGATTCATCCATTTCTCCGA | 60.279 | 44.000 | 0.00 | 0.00 | 0.00 | 4.55 |
291 | 293 | 5.923684 | GTCTAGATTCATCCATTTCTCCGAC | 59.076 | 44.000 | 0.00 | 0.00 | 0.00 | 4.79 |
292 | 294 | 4.760530 | AGATTCATCCATTTCTCCGACA | 57.239 | 40.909 | 0.00 | 0.00 | 0.00 | 4.35 |
293 | 295 | 5.102953 | AGATTCATCCATTTCTCCGACAA | 57.897 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
294 | 296 | 5.121811 | AGATTCATCCATTTCTCCGACAAG | 58.878 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
295 | 297 | 3.981071 | TCATCCATTTCTCCGACAAGT | 57.019 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
296 | 298 | 5.414789 | TTCATCCATTTCTCCGACAAGTA | 57.585 | 39.130 | 0.00 | 0.00 | 0.00 | 2.24 |
297 | 299 | 5.614324 | TCATCCATTTCTCCGACAAGTAT | 57.386 | 39.130 | 0.00 | 0.00 | 0.00 | 2.12 |
298 | 300 | 5.989477 | TCATCCATTTCTCCGACAAGTATT | 58.011 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
299 | 301 | 6.414732 | TCATCCATTTCTCCGACAAGTATTT | 58.585 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
300 | 302 | 6.538742 | TCATCCATTTCTCCGACAAGTATTTC | 59.461 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
301 | 303 | 5.183228 | TCCATTTCTCCGACAAGTATTTCC | 58.817 | 41.667 | 0.00 | 0.00 | 0.00 | 3.13 |
302 | 304 | 4.034048 | CCATTTCTCCGACAAGTATTTCCG | 59.966 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
303 | 305 | 2.953466 | TCTCCGACAAGTATTTCCGG | 57.047 | 50.000 | 0.00 | 0.00 | 41.36 | 5.14 |
304 | 306 | 2.449464 | TCTCCGACAAGTATTTCCGGA | 58.551 | 47.619 | 0.00 | 0.00 | 45.74 | 5.14 |
305 | 307 | 2.165030 | TCTCCGACAAGTATTTCCGGAC | 59.835 | 50.000 | 1.83 | 0.00 | 43.47 | 4.79 |
306 | 308 | 1.135315 | TCCGACAAGTATTTCCGGACG | 60.135 | 52.381 | 1.83 | 0.00 | 43.47 | 4.79 |
307 | 309 | 1.274596 | CGACAAGTATTTCCGGACGG | 58.725 | 55.000 | 1.83 | 3.96 | 0.00 | 4.79 |
308 | 310 | 1.135315 | CGACAAGTATTTCCGGACGGA | 60.135 | 52.381 | 1.83 | 9.76 | 43.52 | 4.69 |
309 | 311 | 2.537401 | GACAAGTATTTCCGGACGGAG | 58.463 | 52.381 | 13.64 | 3.15 | 46.06 | 4.63 |
310 | 312 | 1.206371 | ACAAGTATTTCCGGACGGAGG | 59.794 | 52.381 | 13.64 | 0.00 | 46.06 | 4.30 |
311 | 313 | 0.828677 | AAGTATTTCCGGACGGAGGG | 59.171 | 55.000 | 13.64 | 0.00 | 46.06 | 4.30 |
312 | 314 | 0.032813 | AGTATTTCCGGACGGAGGGA | 60.033 | 55.000 | 13.64 | 4.95 | 46.06 | 4.20 |
313 | 315 | 0.388294 | GTATTTCCGGACGGAGGGAG | 59.612 | 60.000 | 13.64 | 0.00 | 46.06 | 4.30 |
314 | 316 | 0.032813 | TATTTCCGGACGGAGGGAGT | 60.033 | 55.000 | 13.64 | 0.00 | 46.06 | 3.85 |
315 | 317 | 0.032813 | ATTTCCGGACGGAGGGAGTA | 60.033 | 55.000 | 13.64 | 0.00 | 46.06 | 2.59 |
327 | 329 | 6.150034 | ACGGAGGGAGTAGTATATACCAAT | 57.850 | 41.667 | 9.32 | 0.00 | 0.00 | 3.16 |
363 | 365 | 4.828072 | AGAGGTAGAACCAAACCATCTC | 57.172 | 45.455 | 0.00 | 0.00 | 41.95 | 2.75 |
366 | 368 | 2.027469 | GGTAGAACCAAACCATCTCGGT | 60.027 | 50.000 | 0.00 | 0.00 | 44.65 | 4.69 |
426 | 428 | 6.035542 | CCAATGTTGAACACCAAACACTTTAC | 59.964 | 38.462 | 0.00 | 0.00 | 36.36 | 2.01 |
443 | 775 | 7.209471 | CACTTTACAGTGCTAAAATTACCCA | 57.791 | 36.000 | 0.00 | 0.00 | 44.16 | 4.51 |
478 | 810 | 9.316730 | ACTTGTTATAAACACGTTTAGACTCAA | 57.683 | 29.630 | 8.25 | 9.72 | 40.47 | 3.02 |
503 | 835 | 0.179004 | TGCCATAAAATCCGCCGGAT | 60.179 | 50.000 | 14.09 | 14.09 | 45.46 | 4.18 |
505 | 837 | 1.467342 | GCCATAAAATCCGCCGGATAC | 59.533 | 52.381 | 20.72 | 0.00 | 42.27 | 2.24 |
507 | 839 | 3.000727 | CCATAAAATCCGCCGGATACTC | 58.999 | 50.000 | 20.72 | 0.00 | 42.27 | 2.59 |
508 | 840 | 3.556213 | CCATAAAATCCGCCGGATACTCA | 60.556 | 47.826 | 20.72 | 5.59 | 42.27 | 3.41 |
509 | 841 | 2.702592 | AAAATCCGCCGGATACTCAA | 57.297 | 45.000 | 20.72 | 0.00 | 42.27 | 3.02 |
532 | 864 | 9.013229 | TCAATATCCTACCAATTATCAACATGC | 57.987 | 33.333 | 0.00 | 0.00 | 0.00 | 4.06 |
533 | 865 | 8.795513 | CAATATCCTACCAATTATCAACATGCA | 58.204 | 33.333 | 0.00 | 0.00 | 0.00 | 3.96 |
534 | 866 | 8.938801 | ATATCCTACCAATTATCAACATGCAA | 57.061 | 30.769 | 0.00 | 0.00 | 0.00 | 4.08 |
535 | 867 | 7.844493 | ATCCTACCAATTATCAACATGCAAT | 57.156 | 32.000 | 0.00 | 0.00 | 0.00 | 3.56 |
536 | 868 | 7.658525 | TCCTACCAATTATCAACATGCAATT | 57.341 | 32.000 | 0.00 | 0.00 | 0.00 | 2.32 |
537 | 869 | 8.076910 | TCCTACCAATTATCAACATGCAATTT | 57.923 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
538 | 870 | 8.538701 | TCCTACCAATTATCAACATGCAATTTT | 58.461 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
539 | 871 | 9.165035 | CCTACCAATTATCAACATGCAATTTTT | 57.835 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
797 | 1130 | 9.023962 | TGCCATCCCATACATTTTCTTAATATC | 57.976 | 33.333 | 0.00 | 0.00 | 0.00 | 1.63 |
929 | 1264 | 2.293955 | GGGAGGAGTAGTAGCAACGATC | 59.706 | 54.545 | 0.00 | 0.00 | 0.00 | 3.69 |
988 | 1325 | 4.134563 | GCTCACCTTAACCTTCTTGTTCA | 58.865 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
1292 | 1635 | 3.777910 | GTACCGGTCCGTGGGCAT | 61.778 | 66.667 | 12.40 | 0.00 | 0.00 | 4.40 |
1361 | 1704 | 2.333938 | CAACCAGACGTCGACGGT | 59.666 | 61.111 | 37.89 | 24.54 | 44.95 | 4.83 |
1410 | 1753 | 4.442052 | GGCGAGCTCTATTATGCCATATCA | 60.442 | 45.833 | 19.47 | 0.00 | 42.03 | 2.15 |
1955 | 2310 | 2.092753 | AGTCCATGGCCTACATCAACAG | 60.093 | 50.000 | 6.96 | 0.00 | 37.84 | 3.16 |
2146 | 2513 | 1.361668 | CGGGAAGATGAGCAACGTGG | 61.362 | 60.000 | 0.00 | 0.00 | 0.00 | 4.94 |
2474 | 2855 | 1.270550 | CCTGCCAAAACGAGCATCTTT | 59.729 | 47.619 | 0.00 | 0.00 | 38.56 | 2.52 |
2523 | 4892 | 6.673316 | GCTCCGCTTTTACATTGAAGTAGAAG | 60.673 | 42.308 | 0.00 | 0.00 | 38.51 | 2.85 |
2527 | 4896 | 7.278868 | CCGCTTTTACATTGAAGTAGAAGAGAT | 59.721 | 37.037 | 8.13 | 0.00 | 37.84 | 2.75 |
2537 | 4906 | 8.516811 | TTGAAGTAGAAGAGATGTTTTACGAC | 57.483 | 34.615 | 0.00 | 0.00 | 0.00 | 4.34 |
2551 | 4920 | 5.508573 | TGTTTTACGACACACAATCAAAACG | 59.491 | 36.000 | 0.00 | 0.00 | 37.26 | 3.60 |
2576 | 4945 | 1.994885 | ATTTCCCGACCGATGCCCAT | 61.995 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2578 | 4947 | 2.124320 | CCCGACCGATGCCCATTT | 60.124 | 61.111 | 0.00 | 0.00 | 0.00 | 2.32 |
2624 | 4993 | 5.604565 | TCACATGATTGTTGCGAGAGATAT | 58.395 | 37.500 | 0.00 | 0.00 | 32.34 | 1.63 |
2670 | 5039 | 8.097038 | TGAACTACACTTGCTTCTTGATAGATT | 58.903 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
2676 | 5045 | 7.392673 | ACACTTGCTTCTTGATAGATTGATTGT | 59.607 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
2686 | 5055 | 6.594744 | TGATAGATTGATTGTGCCACATAGT | 58.405 | 36.000 | 0.00 | 0.00 | 0.00 | 2.12 |
2698 | 5067 | 3.054434 | TGCCACATAGTCATAGTTGCCTT | 60.054 | 43.478 | 0.00 | 0.00 | 0.00 | 4.35 |
2740 | 5109 | 5.240013 | ACAGCTCTCCTTCATCTTTTTCT | 57.760 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
2743 | 5112 | 5.704515 | CAGCTCTCCTTCATCTTTTTCTTCA | 59.295 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
2744 | 5113 | 6.374894 | CAGCTCTCCTTCATCTTTTTCTTCAT | 59.625 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
2747 | 5116 | 7.309073 | GCTCTCCTTCATCTTTTTCTTCATGTT | 60.309 | 37.037 | 0.00 | 0.00 | 0.00 | 2.71 |
2778 | 5262 | 7.094634 | GCACTCCATATAATACAACAGGGAATG | 60.095 | 40.741 | 0.00 | 0.00 | 0.00 | 2.67 |
2790 | 5274 | 6.165577 | ACAACAGGGAATGCAATATGAAAAC | 58.834 | 36.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2828 | 5553 | 2.315176 | CCCACATGTCAAACCTTGGAA | 58.685 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
2831 | 5556 | 3.573538 | CCACATGTCAAACCTTGGAATCA | 59.426 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2832 | 5557 | 4.321452 | CCACATGTCAAACCTTGGAATCAG | 60.321 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
2846 | 5571 | 0.602638 | AATCAGTTCCGCTTGCGACA | 60.603 | 50.000 | 16.99 | 0.00 | 0.00 | 4.35 |
2920 | 5645 | 2.281761 | CCGGTTTCTGCTGTGCCT | 60.282 | 61.111 | 0.00 | 0.00 | 0.00 | 4.75 |
2966 | 5691 | 1.205893 | CACCTCCTTCTTCCTTCTCCG | 59.794 | 57.143 | 0.00 | 0.00 | 0.00 | 4.63 |
3000 | 5730 | 9.072294 | CGACTAATCCCAAAAATACAAATTCAC | 57.928 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
3032 | 6163 | 6.616947 | ACAAATAGCTGCTGCGTTTTATTAA | 58.383 | 32.000 | 13.43 | 0.00 | 45.42 | 1.40 |
3033 | 6164 | 7.257722 | ACAAATAGCTGCTGCGTTTTATTAAT | 58.742 | 30.769 | 13.43 | 0.00 | 45.42 | 1.40 |
3034 | 6165 | 8.402472 | ACAAATAGCTGCTGCGTTTTATTAATA | 58.598 | 29.630 | 13.43 | 0.00 | 45.42 | 0.98 |
3039 | 6170 | 7.576236 | AGCTGCTGCGTTTTATTAATATACAG | 58.424 | 34.615 | 10.14 | 2.13 | 45.42 | 2.74 |
3044 | 6177 | 8.629986 | GCTGCGTTTTATTAATATACAGCATTG | 58.370 | 33.333 | 19.82 | 13.52 | 45.50 | 2.82 |
3062 | 6195 | 0.660488 | TGCACCGTTTGTAAGCACAG | 59.340 | 50.000 | 0.00 | 0.00 | 35.67 | 3.66 |
3135 | 6280 | 5.104562 | TGTACGTGTCTGCTATATGCTAC | 57.895 | 43.478 | 0.00 | 0.00 | 43.37 | 3.58 |
3152 | 6297 | 2.791613 | TACCTAGCCCTGCACGTCCA | 62.792 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3300 | 6461 | 3.706373 | GCCACTTCCCTGCCGAGA | 61.706 | 66.667 | 0.00 | 0.00 | 0.00 | 4.04 |
3313 | 6474 | 1.381872 | CCGAGACAGGTCCTGGGAT | 60.382 | 63.158 | 23.06 | 8.09 | 35.51 | 3.85 |
3315 | 6476 | 0.396417 | CGAGACAGGTCCTGGGATCT | 60.396 | 60.000 | 23.06 | 15.99 | 35.71 | 2.75 |
3329 | 6490 | 0.651031 | GGATCTGCGTTAAAGGCGAC | 59.349 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
7 | 8 | 2.877097 | TACTACGTACTGTGTGGGGA | 57.123 | 50.000 | 0.00 | 0.00 | 0.00 | 4.81 |
83 | 84 | 2.674852 | GAGCGACACACATCATGTCATT | 59.325 | 45.455 | 6.01 | 0.00 | 45.64 | 2.57 |
88 | 89 | 1.657594 | GACAGAGCGACACACATCATG | 59.342 | 52.381 | 0.00 | 0.00 | 0.00 | 3.07 |
97 | 98 | 0.888619 | CCCTACTTGACAGAGCGACA | 59.111 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
103 | 104 | 3.305813 | CGCTAACAACCCTACTTGACAGA | 60.306 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
107 | 109 | 1.345089 | TGCGCTAACAACCCTACTTGA | 59.655 | 47.619 | 9.73 | 0.00 | 0.00 | 3.02 |
209 | 211 | 2.235402 | TCTCCCACAAGTATTTCGGGAC | 59.765 | 50.000 | 0.00 | 0.00 | 41.08 | 4.46 |
210 | 212 | 2.542550 | TCTCCCACAAGTATTTCGGGA | 58.457 | 47.619 | 4.98 | 4.98 | 43.77 | 5.14 |
211 | 213 | 3.343941 | TTCTCCCACAAGTATTTCGGG | 57.656 | 47.619 | 0.00 | 0.00 | 38.34 | 5.14 |
212 | 214 | 4.096382 | CCATTTCTCCCACAAGTATTTCGG | 59.904 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
213 | 215 | 4.941263 | TCCATTTCTCCCACAAGTATTTCG | 59.059 | 41.667 | 0.00 | 0.00 | 0.00 | 3.46 |
214 | 216 | 8.519799 | TTATCCATTTCTCCCACAAGTATTTC | 57.480 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
215 | 217 | 8.893563 | TTTATCCATTTCTCCCACAAGTATTT | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
216 | 218 | 8.893563 | TTTTATCCATTTCTCCCACAAGTATT | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
217 | 219 | 8.917088 | CATTTTATCCATTTCTCCCACAAGTAT | 58.083 | 33.333 | 0.00 | 0.00 | 0.00 | 2.12 |
218 | 220 | 7.341769 | CCATTTTATCCATTTCTCCCACAAGTA | 59.658 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
219 | 221 | 6.155049 | CCATTTTATCCATTTCTCCCACAAGT | 59.845 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
220 | 222 | 6.407299 | CCCATTTTATCCATTTCTCCCACAAG | 60.407 | 42.308 | 0.00 | 0.00 | 0.00 | 3.16 |
221 | 223 | 5.424895 | CCCATTTTATCCATTTCTCCCACAA | 59.575 | 40.000 | 0.00 | 0.00 | 0.00 | 3.33 |
222 | 224 | 4.961730 | CCCATTTTATCCATTTCTCCCACA | 59.038 | 41.667 | 0.00 | 0.00 | 0.00 | 4.17 |
223 | 225 | 5.208121 | TCCCATTTTATCCATTTCTCCCAC | 58.792 | 41.667 | 0.00 | 0.00 | 0.00 | 4.61 |
224 | 226 | 5.480058 | TCCCATTTTATCCATTTCTCCCA | 57.520 | 39.130 | 0.00 | 0.00 | 0.00 | 4.37 |
225 | 227 | 5.840693 | ACATCCCATTTTATCCATTTCTCCC | 59.159 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
226 | 228 | 6.983906 | ACATCCCATTTTATCCATTTCTCC | 57.016 | 37.500 | 0.00 | 0.00 | 0.00 | 3.71 |
227 | 229 | 9.525826 | AGATACATCCCATTTTATCCATTTCTC | 57.474 | 33.333 | 0.00 | 0.00 | 0.00 | 2.87 |
260 | 262 | 9.838339 | AGAAATGGATGAATCTAGACGTATTTT | 57.162 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
261 | 263 | 9.482627 | GAGAAATGGATGAATCTAGACGTATTT | 57.517 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
262 | 264 | 8.091449 | GGAGAAATGGATGAATCTAGACGTATT | 58.909 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
263 | 265 | 7.575909 | CGGAGAAATGGATGAATCTAGACGTAT | 60.576 | 40.741 | 0.00 | 0.00 | 0.00 | 3.06 |
264 | 266 | 6.294010 | CGGAGAAATGGATGAATCTAGACGTA | 60.294 | 42.308 | 0.00 | 0.00 | 0.00 | 3.57 |
265 | 267 | 5.508153 | CGGAGAAATGGATGAATCTAGACGT | 60.508 | 44.000 | 0.00 | 0.00 | 0.00 | 4.34 |
266 | 268 | 4.920340 | CGGAGAAATGGATGAATCTAGACG | 59.080 | 45.833 | 0.00 | 0.00 | 0.00 | 4.18 |
267 | 269 | 5.923684 | GTCGGAGAAATGGATGAATCTAGAC | 59.076 | 44.000 | 0.00 | 0.00 | 39.69 | 2.59 |
268 | 270 | 5.598417 | TGTCGGAGAAATGGATGAATCTAGA | 59.402 | 40.000 | 0.00 | 0.00 | 39.69 | 2.43 |
269 | 271 | 5.847304 | TGTCGGAGAAATGGATGAATCTAG | 58.153 | 41.667 | 0.00 | 0.00 | 39.69 | 2.43 |
270 | 272 | 5.869649 | TGTCGGAGAAATGGATGAATCTA | 57.130 | 39.130 | 0.00 | 0.00 | 39.69 | 1.98 |
271 | 273 | 4.760530 | TGTCGGAGAAATGGATGAATCT | 57.239 | 40.909 | 0.00 | 0.00 | 39.69 | 2.40 |
272 | 274 | 4.878397 | ACTTGTCGGAGAAATGGATGAATC | 59.122 | 41.667 | 0.00 | 0.00 | 39.69 | 2.52 |
273 | 275 | 4.848357 | ACTTGTCGGAGAAATGGATGAAT | 58.152 | 39.130 | 0.00 | 0.00 | 39.69 | 2.57 |
274 | 276 | 4.286297 | ACTTGTCGGAGAAATGGATGAA | 57.714 | 40.909 | 0.00 | 0.00 | 39.69 | 2.57 |
275 | 277 | 3.981071 | ACTTGTCGGAGAAATGGATGA | 57.019 | 42.857 | 0.00 | 0.00 | 39.69 | 2.92 |
276 | 278 | 6.238484 | GGAAATACTTGTCGGAGAAATGGATG | 60.238 | 42.308 | 0.00 | 0.00 | 39.69 | 3.51 |
277 | 279 | 5.823045 | GGAAATACTTGTCGGAGAAATGGAT | 59.177 | 40.000 | 0.00 | 0.00 | 39.69 | 3.41 |
278 | 280 | 5.183228 | GGAAATACTTGTCGGAGAAATGGA | 58.817 | 41.667 | 0.00 | 0.00 | 39.69 | 3.41 |
279 | 281 | 4.034048 | CGGAAATACTTGTCGGAGAAATGG | 59.966 | 45.833 | 0.00 | 0.00 | 39.69 | 3.16 |
280 | 282 | 4.034048 | CCGGAAATACTTGTCGGAGAAATG | 59.966 | 45.833 | 0.00 | 0.00 | 42.94 | 2.32 |
281 | 283 | 4.081309 | TCCGGAAATACTTGTCGGAGAAAT | 60.081 | 41.667 | 0.00 | 0.00 | 43.84 | 2.17 |
282 | 284 | 3.258872 | TCCGGAAATACTTGTCGGAGAAA | 59.741 | 43.478 | 0.00 | 0.00 | 43.84 | 2.52 |
283 | 285 | 2.827322 | TCCGGAAATACTTGTCGGAGAA | 59.173 | 45.455 | 0.00 | 0.00 | 43.84 | 2.87 |
284 | 286 | 2.449464 | TCCGGAAATACTTGTCGGAGA | 58.551 | 47.619 | 0.00 | 0.00 | 43.84 | 3.71 |
285 | 287 | 2.953466 | TCCGGAAATACTTGTCGGAG | 57.047 | 50.000 | 0.00 | 0.00 | 43.84 | 4.63 |
286 | 288 | 1.135315 | CGTCCGGAAATACTTGTCGGA | 60.135 | 52.381 | 5.23 | 0.00 | 46.06 | 4.55 |
287 | 289 | 1.274596 | CGTCCGGAAATACTTGTCGG | 58.725 | 55.000 | 5.23 | 0.00 | 41.80 | 4.79 |
288 | 290 | 1.135315 | TCCGTCCGGAAATACTTGTCG | 60.135 | 52.381 | 5.23 | 1.25 | 42.05 | 4.35 |
289 | 291 | 2.537401 | CTCCGTCCGGAAATACTTGTC | 58.463 | 52.381 | 5.23 | 0.00 | 44.66 | 3.18 |
290 | 292 | 1.206371 | CCTCCGTCCGGAAATACTTGT | 59.794 | 52.381 | 5.23 | 0.00 | 44.66 | 3.16 |
291 | 293 | 1.472728 | CCCTCCGTCCGGAAATACTTG | 60.473 | 57.143 | 5.23 | 0.00 | 44.66 | 3.16 |
292 | 294 | 0.828677 | CCCTCCGTCCGGAAATACTT | 59.171 | 55.000 | 5.23 | 0.00 | 44.66 | 2.24 |
293 | 295 | 0.032813 | TCCCTCCGTCCGGAAATACT | 60.033 | 55.000 | 5.23 | 0.00 | 44.66 | 2.12 |
294 | 296 | 0.388294 | CTCCCTCCGTCCGGAAATAC | 59.612 | 60.000 | 5.23 | 0.00 | 44.66 | 1.89 |
295 | 297 | 0.032813 | ACTCCCTCCGTCCGGAAATA | 60.033 | 55.000 | 5.23 | 0.00 | 44.66 | 1.40 |
296 | 298 | 0.032813 | TACTCCCTCCGTCCGGAAAT | 60.033 | 55.000 | 5.23 | 0.00 | 44.66 | 2.17 |
297 | 299 | 0.682209 | CTACTCCCTCCGTCCGGAAA | 60.682 | 60.000 | 5.23 | 0.00 | 44.66 | 3.13 |
298 | 300 | 1.077212 | CTACTCCCTCCGTCCGGAA | 60.077 | 63.158 | 5.23 | 0.00 | 44.66 | 4.30 |
299 | 301 | 0.982852 | TACTACTCCCTCCGTCCGGA | 60.983 | 60.000 | 0.00 | 0.00 | 42.90 | 5.14 |
300 | 302 | 0.110104 | ATACTACTCCCTCCGTCCGG | 59.890 | 60.000 | 0.00 | 0.00 | 0.00 | 5.14 |
301 | 303 | 2.847327 | TATACTACTCCCTCCGTCCG | 57.153 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
302 | 304 | 4.018960 | TGGTATATACTACTCCCTCCGTCC | 60.019 | 50.000 | 12.54 | 0.00 | 0.00 | 4.79 |
303 | 305 | 5.171339 | TGGTATATACTACTCCCTCCGTC | 57.829 | 47.826 | 12.54 | 0.00 | 0.00 | 4.79 |
304 | 306 | 5.589367 | TTGGTATATACTACTCCCTCCGT | 57.411 | 43.478 | 12.54 | 0.00 | 0.00 | 4.69 |
305 | 307 | 9.857656 | TTATATTGGTATATACTACTCCCTCCG | 57.142 | 37.037 | 12.54 | 0.00 | 30.68 | 4.63 |
327 | 329 | 8.931568 | GGTTCTACCTCTATGGGTCTTTTTATA | 58.068 | 37.037 | 0.00 | 0.00 | 40.48 | 0.98 |
363 | 365 | 1.393539 | GACCACGTGATTTGATGACCG | 59.606 | 52.381 | 19.30 | 0.00 | 0.00 | 4.79 |
366 | 368 | 4.801330 | ACTAGACCACGTGATTTGATGA | 57.199 | 40.909 | 19.30 | 0.00 | 0.00 | 2.92 |
426 | 428 | 5.163754 | GCAGTAGTGGGTAATTTTAGCACTG | 60.164 | 44.000 | 0.00 | 10.79 | 35.92 | 3.66 |
443 | 775 | 5.407387 | CGTGTTTATAACAAGTGGCAGTAGT | 59.593 | 40.000 | 0.00 | 0.00 | 44.16 | 2.73 |
478 | 810 | 2.297033 | GGCGGATTTTATGGCATGACAT | 59.703 | 45.455 | 20.10 | 20.10 | 34.90 | 3.06 |
507 | 839 | 8.795513 | TGCATGTTGATAATTGGTAGGATATTG | 58.204 | 33.333 | 0.00 | 0.00 | 0.00 | 1.90 |
508 | 840 | 8.938801 | TGCATGTTGATAATTGGTAGGATATT | 57.061 | 30.769 | 0.00 | 0.00 | 0.00 | 1.28 |
509 | 841 | 8.938801 | TTGCATGTTGATAATTGGTAGGATAT | 57.061 | 30.769 | 0.00 | 0.00 | 0.00 | 1.63 |
537 | 869 | 8.359875 | TGCATGTAGATAATTTCCCTCAAAAA | 57.640 | 30.769 | 0.00 | 0.00 | 0.00 | 1.94 |
538 | 870 | 7.953005 | TGCATGTAGATAATTTCCCTCAAAA | 57.047 | 32.000 | 0.00 | 0.00 | 0.00 | 2.44 |
539 | 871 | 7.953005 | TTGCATGTAGATAATTTCCCTCAAA | 57.047 | 32.000 | 0.00 | 0.00 | 0.00 | 2.69 |
540 | 872 | 8.537728 | AATTGCATGTAGATAATTTCCCTCAA | 57.462 | 30.769 | 0.00 | 0.00 | 0.00 | 3.02 |
541 | 873 | 9.639563 | TTAATTGCATGTAGATAATTTCCCTCA | 57.360 | 29.630 | 0.00 | 0.00 | 0.00 | 3.86 |
555 | 887 | 8.029782 | AGTAGGTAGGACATTAATTGCATGTA | 57.970 | 34.615 | 5.35 | 0.00 | 34.89 | 2.29 |
660 | 992 | 7.222872 | AGATATCTTAGATTTGGTGCCAAGAG | 58.777 | 38.462 | 0.00 | 0.46 | 37.24 | 2.85 |
702 | 1034 | 7.839680 | AAACAATCCTCAGTTAATGTCCTTT | 57.160 | 32.000 | 0.00 | 0.00 | 0.00 | 3.11 |
1410 | 1753 | 0.954452 | CAAGAAGGTTGCTCGCCTTT | 59.046 | 50.000 | 8.09 | 0.00 | 45.51 | 3.11 |
1521 | 1864 | 2.221055 | GGCATCAATGACGTTATCGACC | 59.779 | 50.000 | 0.00 | 0.00 | 40.62 | 4.79 |
1635 | 1978 | 2.661537 | CACTTCAGCACGACGCCA | 60.662 | 61.111 | 0.00 | 0.00 | 44.04 | 5.69 |
1696 | 2039 | 0.038159 | CTGTTGGACACCGAGACCTC | 60.038 | 60.000 | 0.00 | 0.00 | 32.90 | 3.85 |
2502 | 4871 | 7.582435 | TCTCTTCTACTTCAATGTAAAAGCG | 57.418 | 36.000 | 0.00 | 0.00 | 0.00 | 4.68 |
2523 | 4892 | 6.223138 | TGATTGTGTGTCGTAAAACATCTC | 57.777 | 37.500 | 0.00 | 0.00 | 0.00 | 2.75 |
2527 | 4896 | 5.508573 | CGTTTTGATTGTGTGTCGTAAAACA | 59.491 | 36.000 | 0.00 | 0.00 | 36.73 | 2.83 |
2533 | 4902 | 2.286833 | CCTCGTTTTGATTGTGTGTCGT | 59.713 | 45.455 | 0.00 | 0.00 | 0.00 | 4.34 |
2537 | 4906 | 6.074356 | GGAAATTTCCTCGTTTTGATTGTGTG | 60.074 | 38.462 | 26.94 | 0.00 | 44.11 | 3.82 |
2551 | 4920 | 1.940613 | CATCGGTCGGGAAATTTCCTC | 59.059 | 52.381 | 31.23 | 21.56 | 46.72 | 3.71 |
2571 | 4940 | 1.276138 | CCCTCCAAAAGTCAAATGGGC | 59.724 | 52.381 | 0.00 | 0.00 | 34.89 | 5.36 |
2576 | 4945 | 9.131791 | GAAATATATAGCCCTCCAAAAGTCAAA | 57.868 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
2578 | 4947 | 7.719633 | GTGAAATATATAGCCCTCCAAAAGTCA | 59.280 | 37.037 | 0.00 | 0.00 | 0.00 | 3.41 |
2670 | 5039 | 5.357742 | ACTATGACTATGTGGCACAATCA | 57.642 | 39.130 | 25.95 | 25.55 | 44.16 | 2.57 |
2676 | 5045 | 2.917933 | GGCAACTATGACTATGTGGCA | 58.082 | 47.619 | 0.00 | 0.00 | 38.56 | 4.92 |
2707 | 5076 | 2.968574 | AGGAGAGCTGTTGAGACTTGAA | 59.031 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
2719 | 5088 | 5.704515 | TGAAGAAAAAGATGAAGGAGAGCTG | 59.295 | 40.000 | 0.00 | 0.00 | 0.00 | 4.24 |
2720 | 5089 | 5.874093 | TGAAGAAAAAGATGAAGGAGAGCT | 58.126 | 37.500 | 0.00 | 0.00 | 0.00 | 4.09 |
2744 | 5113 | 9.489084 | GTTGTATTATATGGAGTGCAGATAACA | 57.511 | 33.333 | 13.09 | 6.75 | 0.00 | 2.41 |
2747 | 5116 | 8.314021 | CCTGTTGTATTATATGGAGTGCAGATA | 58.686 | 37.037 | 0.00 | 0.00 | 0.00 | 1.98 |
2778 | 5262 | 0.104120 | GGGGCGGGTTTTCATATTGC | 59.896 | 55.000 | 0.00 | 0.00 | 0.00 | 3.56 |
2806 | 5531 | 1.703411 | CAAGGTTTGACATGTGGGGT | 58.297 | 50.000 | 1.15 | 0.00 | 0.00 | 4.95 |
2828 | 5553 | 1.005037 | TGTCGCAAGCGGAACTGAT | 60.005 | 52.632 | 14.98 | 0.00 | 40.25 | 2.90 |
2831 | 5556 | 3.044305 | GCTGTCGCAAGCGGAACT | 61.044 | 61.111 | 14.98 | 0.00 | 40.25 | 3.01 |
2846 | 5571 | 2.582436 | CGACCCATAACCCACGCT | 59.418 | 61.111 | 0.00 | 0.00 | 0.00 | 5.07 |
2920 | 5645 | 0.842030 | AGCACCAAGGTGGAGATGGA | 60.842 | 55.000 | 20.02 | 0.00 | 45.49 | 3.41 |
2966 | 5691 | 9.665264 | GTATTTTTGGGATTAGTCGATTTCATC | 57.335 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
3000 | 5730 | 3.485877 | GCAGCAGCTATTTGTAAGTTCCG | 60.486 | 47.826 | 0.00 | 0.00 | 37.91 | 4.30 |
3032 | 6163 | 3.694072 | ACAAACGGTGCAATGCTGTATAT | 59.306 | 39.130 | 6.82 | 0.00 | 0.00 | 0.86 |
3033 | 6164 | 3.078097 | ACAAACGGTGCAATGCTGTATA | 58.922 | 40.909 | 6.82 | 0.00 | 0.00 | 1.47 |
3034 | 6165 | 1.885887 | ACAAACGGTGCAATGCTGTAT | 59.114 | 42.857 | 6.82 | 0.00 | 0.00 | 2.29 |
3039 | 6170 | 1.059942 | GCTTACAAACGGTGCAATGC | 58.940 | 50.000 | 0.00 | 0.00 | 0.00 | 3.56 |
3044 | 6177 | 0.941542 | TCTGTGCTTACAAACGGTGC | 59.058 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |
3062 | 6195 | 0.179179 | GAGCTTGCGAAAGTGGCATC | 60.179 | 55.000 | 4.74 | 0.00 | 40.62 | 3.91 |
3135 | 6280 | 2.735772 | ATGGACGTGCAGGGCTAGG | 61.736 | 63.158 | 16.77 | 0.00 | 0.00 | 3.02 |
3152 | 6297 | 2.169352 | CCATGAAGAGGAGGAACGTCAT | 59.831 | 50.000 | 0.00 | 0.00 | 36.15 | 3.06 |
3292 | 6453 | 2.575993 | CAGGACCTGTCTCGGCAG | 59.424 | 66.667 | 13.84 | 0.00 | 36.31 | 4.85 |
3300 | 6461 | 2.362369 | CGCAGATCCCAGGACCTGT | 61.362 | 63.158 | 20.24 | 1.36 | 38.04 | 4.00 |
3313 | 6474 | 0.318869 | TTCGTCGCCTTTAACGCAGA | 60.319 | 50.000 | 0.00 | 0.00 | 38.72 | 4.26 |
3315 | 6476 | 0.598158 | AGTTCGTCGCCTTTAACGCA | 60.598 | 50.000 | 0.00 | 0.00 | 38.72 | 5.24 |
3329 | 6490 | 0.982673 | CGAGCCGTCTTACAAGTTCG | 59.017 | 55.000 | 0.00 | 0.00 | 0.00 | 3.95 |
3413 | 6574 | 2.111878 | GGAGGATGGATGGCGTGG | 59.888 | 66.667 | 0.00 | 0.00 | 0.00 | 4.94 |
![](/static/images/cyverse_long.png)
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.