Multiple sequence alignment - TraesCS5D01G189000
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 | TraesCS5D01G189000 | chr5D | 100.000 | 4547 | 0 | 0 | 1 | 4547 | 291508065 | 291503519 | 0.000000e+00 | 8397.0 |
1 | TraesCS5D01G189000 | chr5A | 95.839 | 3437 | 96 | 19 | 844 | 4252 | 383889595 | 383886178 | 0.000000e+00 | 5511.0 |
2 | TraesCS5D01G189000 | chr5A | 80.341 | 646 | 73 | 23 | 18 | 635 | 383892692 | 383892073 | 1.500000e-119 | 440.0 |
3 | TraesCS5D01G189000 | chr5A | 95.294 | 255 | 8 | 4 | 4289 | 4541 | 383886176 | 383885924 | 7.090000e-108 | 401.0 |
4 | TraesCS5D01G189000 | chr5A | 81.657 | 169 | 29 | 2 | 405 | 572 | 16733141 | 16732974 | 6.130000e-29 | 139.0 |
5 | TraesCS5D01G189000 | chr5B | 96.754 | 2095 | 50 | 6 | 2466 | 4544 | 332296576 | 332294484 | 0.000000e+00 | 3476.0 |
6 | TraesCS5D01G189000 | chr5B | 98.453 | 1551 | 24 | 0 | 932 | 2482 | 332299569 | 332298019 | 0.000000e+00 | 2732.0 |
7 | TraesCS5D01G189000 | chr5B | 82.569 | 218 | 31 | 6 | 32 | 244 | 105698774 | 105698989 | 7.770000e-43 | 185.0 |
8 | TraesCS5D01G189000 | chr5B | 85.926 | 135 | 14 | 4 | 32 | 162 | 103467605 | 103467738 | 6.130000e-29 | 139.0 |
9 | TraesCS5D01G189000 | chr3D | 91.398 | 186 | 12 | 4 | 639 | 822 | 79558715 | 79558532 | 7.550000e-63 | 252.0 |
10 | TraesCS5D01G189000 | chr3D | 95.031 | 161 | 6 | 2 | 655 | 813 | 339257332 | 339257172 | 7.550000e-63 | 252.0 |
11 | TraesCS5D01G189000 | chr3D | 80.751 | 213 | 40 | 1 | 360 | 572 | 355892708 | 355892919 | 1.010000e-36 | 165.0 |
12 | TraesCS5D01G189000 | chr6A | 93.452 | 168 | 9 | 2 | 653 | 818 | 287304061 | 287304228 | 9.770000e-62 | 248.0 |
13 | TraesCS5D01G189000 | chr6A | 91.011 | 178 | 12 | 4 | 644 | 819 | 130354829 | 130355004 | 2.110000e-58 | 237.0 |
14 | TraesCS5D01G189000 | chr6A | 81.421 | 183 | 29 | 5 | 393 | 572 | 469108942 | 469109122 | 1.320000e-30 | 145.0 |
15 | TraesCS5D01G189000 | chr7D | 92.941 | 170 | 10 | 2 | 653 | 820 | 69592662 | 69592831 | 3.510000e-61 | 246.0 |
16 | TraesCS5D01G189000 | chr7D | 93.413 | 167 | 9 | 2 | 653 | 817 | 153983845 | 153984011 | 3.510000e-61 | 246.0 |
17 | TraesCS5D01G189000 | chr7D | 81.609 | 87 | 13 | 3 | 31 | 114 | 395998593 | 395998679 | 8.160000e-08 | 69.4 |
18 | TraesCS5D01G189000 | chr6D | 92.899 | 169 | 10 | 2 | 653 | 819 | 392896977 | 392897145 | 1.260000e-60 | 244.0 |
19 | TraesCS5D01G189000 | chr6D | 80.087 | 231 | 39 | 5 | 347 | 576 | 455754809 | 455755033 | 1.010000e-36 | 165.0 |
20 | TraesCS5D01G189000 | chr6D | 88.235 | 51 | 5 | 1 | 32 | 82 | 292309184 | 292309233 | 4.910000e-05 | 60.2 |
21 | TraesCS5D01G189000 | chr3A | 92.442 | 172 | 10 | 3 | 653 | 822 | 611185303 | 611185133 | 4.540000e-60 | 243.0 |
22 | TraesCS5D01G189000 | chr3A | 78.750 | 240 | 45 | 5 | 404 | 639 | 633846847 | 633846610 | 6.090000e-34 | 156.0 |
23 | TraesCS5D01G189000 | chr1D | 91.525 | 177 | 11 | 4 | 653 | 826 | 178466468 | 178466293 | 1.630000e-59 | 241.0 |
24 | TraesCS5D01G189000 | chr6B | 79.654 | 231 | 40 | 4 | 347 | 576 | 693053551 | 693053775 | 4.710000e-35 | 159.0 |
25 | TraesCS5D01G189000 | chr6B | 100.000 | 29 | 0 | 0 | 112 | 140 | 24436310 | 24436338 | 2.000000e-03 | 54.7 |
26 | TraesCS5D01G189000 | chr1A | 84.615 | 156 | 22 | 1 | 415 | 570 | 459443272 | 459443425 | 2.190000e-33 | 154.0 |
27 | TraesCS5D01G189000 | chr4A | 82.635 | 167 | 28 | 1 | 409 | 574 | 108868583 | 108868417 | 3.670000e-31 | 147.0 |
28 | TraesCS5D01G189000 | chr4D | 79.894 | 189 | 36 | 2 | 414 | 601 | 416822354 | 416822167 | 2.210000e-28 | 137.0 |
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 | TraesCS5D01G189000 | chr5D | 291503519 | 291508065 | 4546 | True | 8397.000000 | 8397 | 100.000000 | 1 | 4547 | 1 | chr5D.!!$R1 | 4546 |
1 | TraesCS5D01G189000 | chr5A | 383885924 | 383892692 | 6768 | True | 2117.333333 | 5511 | 90.491333 | 18 | 4541 | 3 | chr5A.!!$R2 | 4523 |
2 | TraesCS5D01G189000 | chr5B | 332294484 | 332299569 | 5085 | True | 3104.000000 | 3476 | 97.603500 | 932 | 4544 | 2 | chr5B.!!$R1 | 3612 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
663 | 692 | 0.033306 | ACTACTCCCTCCCTCCGTTC | 60.033 | 60.000 | 0.0 | 0.0 | 0.00 | 3.95 | F |
1737 | 4047 | 0.392998 | GGATGTTCGACATGGCACCT | 60.393 | 55.000 | 0.0 | 0.0 | 39.27 | 4.00 | F |
2111 | 4421 | 1.275856 | GCTGTTCATCAAAATGGGGCA | 59.724 | 47.619 | 0.0 | 0.0 | 33.42 | 5.36 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2370 | 4680 | 0.597377 | GTGCTTCCTTGCCAAAACCG | 60.597 | 55.000 | 0.0 | 0.0 | 0.00 | 4.44 | R |
2814 | 6594 | 0.032815 | TCGCTGTCACACCGAAATCA | 59.967 | 50.000 | 0.0 | 0.0 | 0.00 | 2.57 | R |
4062 | 7847 | 1.067821 | GTTCATCCTGTAGAGGGCTCG | 59.932 | 57.143 | 6.0 | 0.0 | 40.25 | 5.03 | 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 |
---|---|---|---|---|---|---|---|---|---|
54 | 55 | 3.864160 | GCATAGCTCAGATGGCTAGGTTC | 60.864 | 52.174 | 12.94 | 0.29 | 44.05 | 3.62 |
67 | 68 | 2.552743 | GCTAGGTTCCTTGTGGTGAAAC | 59.447 | 50.000 | 0.00 | 0.00 | 34.23 | 2.78 |
114 | 116 | 5.063880 | AGTTGACACAGGTGGTCTATTTTC | 58.936 | 41.667 | 4.24 | 0.00 | 36.26 | 2.29 |
136 | 138 | 4.881850 | TCCTGGATTTATTCGAGGCTTTTC | 59.118 | 41.667 | 0.00 | 0.00 | 46.92 | 2.29 |
139 | 141 | 3.548214 | GGATTTATTCGAGGCTTTTCGGC | 60.548 | 47.826 | 0.00 | 0.00 | 40.83 | 5.54 |
147 | 149 | 1.192534 | GAGGCTTTTCGGCGATATTCG | 59.807 | 52.381 | 11.76 | 0.00 | 44.22 | 3.34 |
151 | 153 | 2.029970 | GCTTTTCGGCGATATTCGTTCA | 59.970 | 45.455 | 11.76 | 0.00 | 42.81 | 3.18 |
152 | 154 | 3.484557 | GCTTTTCGGCGATATTCGTTCAA | 60.485 | 43.478 | 11.76 | 0.00 | 42.81 | 2.69 |
176 | 178 | 2.125269 | GGCGTGCCCGTCAACTAT | 60.125 | 61.111 | 0.00 | 0.00 | 38.92 | 2.12 |
184 | 186 | 3.370061 | GTGCCCGTCAACTATAAAGTGTC | 59.630 | 47.826 | 0.00 | 0.00 | 35.62 | 3.67 |
187 | 189 | 3.617263 | CCCGTCAACTATAAAGTGTCTGC | 59.383 | 47.826 | 0.00 | 0.00 | 35.62 | 4.26 |
190 | 192 | 4.243270 | GTCAACTATAAAGTGTCTGCGGT | 58.757 | 43.478 | 0.00 | 0.00 | 35.62 | 5.68 |
196 | 198 | 6.098017 | ACTATAAAGTGTCTGCGGTAACTTC | 58.902 | 40.000 | 13.56 | 0.00 | 33.57 | 3.01 |
197 | 199 | 1.779569 | AAGTGTCTGCGGTAACTTCG | 58.220 | 50.000 | 9.05 | 0.00 | 0.00 | 3.79 |
202 | 204 | 2.288579 | TGTCTGCGGTAACTTCGTCAAT | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
208 | 210 | 4.989797 | TGCGGTAACTTCGTCAATCTTAAA | 59.010 | 37.500 | 0.00 | 0.00 | 0.00 | 1.52 |
228 | 230 | 7.494298 | TCTTAAAATTTGTTGGCTCAACCTTTC | 59.506 | 33.333 | 13.35 | 0.00 | 42.96 | 2.62 |
229 | 231 | 2.861462 | TTTGTTGGCTCAACCTTTCG | 57.139 | 45.000 | 13.35 | 0.00 | 42.96 | 3.46 |
243 | 245 | 2.158900 | ACCTTTCGGATGTGCTCATAGG | 60.159 | 50.000 | 11.31 | 11.31 | 34.06 | 2.57 |
258 | 260 | 3.775316 | CTCATAGGGACAGGGTGTAAGTT | 59.225 | 47.826 | 0.00 | 0.00 | 0.00 | 2.66 |
264 | 266 | 2.294074 | GACAGGGTGTAAGTTTGTGCA | 58.706 | 47.619 | 0.00 | 0.00 | 0.00 | 4.57 |
268 | 270 | 3.569701 | CAGGGTGTAAGTTTGTGCATTCT | 59.430 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
271 | 273 | 6.010219 | AGGGTGTAAGTTTGTGCATTCTTAT | 58.990 | 36.000 | 0.00 | 0.00 | 0.00 | 1.73 |
278 | 280 | 6.199937 | AGTTTGTGCATTCTTATGGATGAC | 57.800 | 37.500 | 1.03 | 0.00 | 34.44 | 3.06 |
281 | 283 | 7.776969 | AGTTTGTGCATTCTTATGGATGACTAT | 59.223 | 33.333 | 1.03 | 0.00 | 34.44 | 2.12 |
287 | 289 | 6.150641 | GCATTCTTATGGATGACTATGCATGT | 59.849 | 38.462 | 10.16 | 5.42 | 43.98 | 3.21 |
288 | 290 | 7.335171 | GCATTCTTATGGATGACTATGCATGTA | 59.665 | 37.037 | 10.16 | 0.00 | 43.98 | 2.29 |
289 | 291 | 8.880750 | CATTCTTATGGATGACTATGCATGTAG | 58.119 | 37.037 | 10.16 | 1.59 | 43.98 | 2.74 |
290 | 292 | 7.544804 | TCTTATGGATGACTATGCATGTAGT | 57.455 | 36.000 | 10.16 | 5.51 | 43.98 | 2.73 |
291 | 293 | 8.650143 | TCTTATGGATGACTATGCATGTAGTA | 57.350 | 34.615 | 10.16 | 0.00 | 43.98 | 1.82 |
292 | 294 | 8.523658 | TCTTATGGATGACTATGCATGTAGTAC | 58.476 | 37.037 | 10.16 | 1.38 | 43.98 | 2.73 |
294 | 296 | 9.528489 | TTATGGATGACTATGCATGTAGTACTA | 57.472 | 33.333 | 10.16 | 0.00 | 43.98 | 1.82 |
295 | 297 | 8.601047 | ATGGATGACTATGCATGTAGTACTAT | 57.399 | 34.615 | 10.16 | 1.79 | 42.83 | 2.12 |
296 | 298 | 7.830739 | TGGATGACTATGCATGTAGTACTATG | 58.169 | 38.462 | 10.16 | 3.52 | 35.14 | 2.23 |
297 | 299 | 7.451566 | TGGATGACTATGCATGTAGTACTATGT | 59.548 | 37.037 | 10.16 | 0.00 | 35.14 | 2.29 |
298 | 300 | 8.307483 | GGATGACTATGCATGTAGTACTATGTT | 58.693 | 37.037 | 10.16 | 0.00 | 35.14 | 2.71 |
299 | 301 | 9.698309 | GATGACTATGCATGTAGTACTATGTTT | 57.302 | 33.333 | 10.16 | 0.00 | 35.14 | 2.83 |
300 | 302 | 9.698309 | ATGACTATGCATGTAGTACTATGTTTC | 57.302 | 33.333 | 10.16 | 0.00 | 35.14 | 2.78 |
391 | 414 | 4.892934 | TGGTTAAGTTCTTTGTGCTGGAAT | 59.107 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
394 | 417 | 4.843220 | AAGTTCTTTGTGCTGGAATCAG | 57.157 | 40.909 | 0.00 | 0.00 | 43.64 | 2.90 |
410 | 433 | 7.615582 | TGGAATCAGCTCATTACAGTTTAAG | 57.384 | 36.000 | 0.00 | 0.00 | 0.00 | 1.85 |
413 | 436 | 8.178313 | GGAATCAGCTCATTACAGTTTAAGTTC | 58.822 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
416 | 439 | 8.988064 | TCAGCTCATTACAGTTTAAGTTCTAG | 57.012 | 34.615 | 0.00 | 0.00 | 0.00 | 2.43 |
418 | 441 | 8.865001 | CAGCTCATTACAGTTTAAGTTCTAGAC | 58.135 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
432 | 455 | 6.333057 | AGTTCTAGACTTGGCATTGGTGCT | 62.333 | 45.833 | 0.00 | 0.00 | 42.95 | 4.40 |
443 | 466 | 2.950433 | CATTGGTGCTCGCATTTTTCT | 58.050 | 42.857 | 0.00 | 0.00 | 0.00 | 2.52 |
454 | 477 | 7.894753 | GTGCTCGCATTTTTCTGAATTTATTTC | 59.105 | 33.333 | 0.00 | 0.00 | 34.72 | 2.17 |
469 | 492 | 9.921637 | TGAATTTATTTCAGCCTTTTTAACGAT | 57.078 | 25.926 | 0.00 | 0.00 | 39.44 | 3.73 |
471 | 494 | 9.705290 | AATTTATTTCAGCCTTTTTAACGATGT | 57.295 | 25.926 | 0.00 | 0.00 | 0.00 | 3.06 |
472 | 495 | 8.736751 | TTTATTTCAGCCTTTTTAACGATGTC | 57.263 | 30.769 | 0.00 | 0.00 | 0.00 | 3.06 |
473 | 496 | 4.759516 | TTCAGCCTTTTTAACGATGTCC | 57.240 | 40.909 | 0.00 | 0.00 | 0.00 | 4.02 |
474 | 497 | 2.739913 | TCAGCCTTTTTAACGATGTCCG | 59.260 | 45.455 | 0.00 | 0.00 | 45.44 | 4.79 |
506 | 530 | 2.693591 | GGAGACATCCCGTTGACTATGA | 59.306 | 50.000 | 0.00 | 0.00 | 40.03 | 2.15 |
509 | 533 | 4.023980 | AGACATCCCGTTGACTATGAAGA | 58.976 | 43.478 | 0.00 | 0.00 | 0.00 | 2.87 |
510 | 534 | 4.113354 | GACATCCCGTTGACTATGAAGAC | 58.887 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
512 | 536 | 2.165167 | TCCCGTTGACTATGAAGACGT | 58.835 | 47.619 | 0.00 | 0.00 | 32.26 | 4.34 |
515 | 539 | 3.172050 | CCGTTGACTATGAAGACGTCTG | 58.828 | 50.000 | 20.85 | 8.66 | 32.26 | 3.51 |
519 | 543 | 4.421033 | TGACTATGAAGACGTCTGTGAC | 57.579 | 45.455 | 20.85 | 11.55 | 0.00 | 3.67 |
536 | 560 | 8.055609 | GTCTGTGACGACTTCATTAATATCAG | 57.944 | 38.462 | 0.00 | 0.00 | 36.32 | 2.90 |
537 | 561 | 7.168302 | GTCTGTGACGACTTCATTAATATCAGG | 59.832 | 40.741 | 0.00 | 0.00 | 36.32 | 3.86 |
540 | 564 | 7.653311 | TGTGACGACTTCATTAATATCAGGATG | 59.347 | 37.037 | 0.00 | 0.00 | 36.32 | 3.51 |
559 | 583 | 1.827344 | TGATGTGTCGGCTCAATCTCT | 59.173 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
561 | 585 | 0.171231 | TGTGTCGGCTCAATCTCTCG | 59.829 | 55.000 | 0.00 | 0.00 | 0.00 | 4.04 |
562 | 586 | 0.452184 | GTGTCGGCTCAATCTCTCGA | 59.548 | 55.000 | 0.00 | 0.00 | 0.00 | 4.04 |
565 | 589 | 1.402259 | GTCGGCTCAATCTCTCGAAGA | 59.598 | 52.381 | 0.00 | 0.00 | 38.72 | 2.87 |
568 | 592 | 2.134346 | GGCTCAATCTCTCGAAGATGC | 58.866 | 52.381 | 9.79 | 9.09 | 44.26 | 3.91 |
572 | 596 | 4.039151 | TCAATCTCTCGAAGATGCTCAC | 57.961 | 45.455 | 9.79 | 0.00 | 44.26 | 3.51 |
574 | 598 | 4.082026 | TCAATCTCTCGAAGATGCTCACAA | 60.082 | 41.667 | 9.79 | 0.00 | 44.26 | 3.33 |
580 | 604 | 4.159321 | TCTCGAAGATGCTCACAAGAGAAT | 59.841 | 41.667 | 0.00 | 0.00 | 43.15 | 2.40 |
584 | 608 | 6.478016 | TCGAAGATGCTCACAAGAGAATTATG | 59.522 | 38.462 | 0.00 | 0.00 | 40.40 | 1.90 |
585 | 609 | 6.257411 | CGAAGATGCTCACAAGAGAATTATGT | 59.743 | 38.462 | 0.00 | 0.00 | 40.40 | 2.29 |
586 | 610 | 6.922247 | AGATGCTCACAAGAGAATTATGTG | 57.078 | 37.500 | 0.00 | 0.00 | 40.40 | 3.21 |
587 | 611 | 4.952262 | TGCTCACAAGAGAATTATGTGC | 57.048 | 40.909 | 0.45 | 0.00 | 44.98 | 4.57 |
590 | 614 | 6.114767 | TGCTCACAAGAGAATTATGTGCATA | 58.885 | 36.000 | 0.00 | 0.00 | 44.98 | 3.14 |
635 | 664 | 6.647895 | TGTATATGCTTGTGTATCAGCATCTG | 59.352 | 38.462 | 9.84 | 0.00 | 45.40 | 2.90 |
637 | 666 | 4.838955 | ATGCTTGTGTATCAGCATCTGCG | 61.839 | 47.826 | 0.71 | 0.00 | 43.54 | 5.18 |
651 | 680 | 4.972201 | GCATCTGCGTACTATACTACTCC | 58.028 | 47.826 | 0.00 | 0.00 | 0.00 | 3.85 |
652 | 681 | 4.142643 | GCATCTGCGTACTATACTACTCCC | 60.143 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
654 | 683 | 4.892433 | TCTGCGTACTATACTACTCCCTC | 58.108 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
655 | 684 | 4.002316 | CTGCGTACTATACTACTCCCTCC | 58.998 | 52.174 | 0.00 | 0.00 | 0.00 | 4.30 |
656 | 685 | 3.244700 | TGCGTACTATACTACTCCCTCCC | 60.245 | 52.174 | 0.00 | 0.00 | 0.00 | 4.30 |
657 | 686 | 3.008923 | GCGTACTATACTACTCCCTCCCT | 59.991 | 52.174 | 0.00 | 0.00 | 0.00 | 4.20 |
658 | 687 | 4.831107 | CGTACTATACTACTCCCTCCCTC | 58.169 | 52.174 | 0.00 | 0.00 | 0.00 | 4.30 |
659 | 688 | 4.323409 | CGTACTATACTACTCCCTCCCTCC | 60.323 | 54.167 | 0.00 | 0.00 | 0.00 | 4.30 |
661 | 690 | 1.532038 | ATACTACTCCCTCCCTCCGT | 58.468 | 55.000 | 0.00 | 0.00 | 0.00 | 4.69 |
662 | 691 | 1.302907 | TACTACTCCCTCCCTCCGTT | 58.697 | 55.000 | 0.00 | 0.00 | 0.00 | 4.44 |
663 | 692 | 0.033306 | ACTACTCCCTCCCTCCGTTC | 60.033 | 60.000 | 0.00 | 0.00 | 0.00 | 3.95 |
664 | 693 | 0.756070 | CTACTCCCTCCCTCCGTTCC | 60.756 | 65.000 | 0.00 | 0.00 | 0.00 | 3.62 |
665 | 694 | 1.219824 | TACTCCCTCCCTCCGTTCCT | 61.220 | 60.000 | 0.00 | 0.00 | 0.00 | 3.36 |
666 | 695 | 1.219824 | ACTCCCTCCCTCCGTTCCTA | 61.220 | 60.000 | 0.00 | 0.00 | 0.00 | 2.94 |
668 | 697 | 0.414629 | TCCCTCCCTCCGTTCCTAAA | 59.585 | 55.000 | 0.00 | 0.00 | 0.00 | 1.85 |
669 | 698 | 1.009183 | TCCCTCCCTCCGTTCCTAAAT | 59.991 | 52.381 | 0.00 | 0.00 | 0.00 | 1.40 |
671 | 700 | 3.116473 | TCCCTCCCTCCGTTCCTAAATAT | 60.116 | 47.826 | 0.00 | 0.00 | 0.00 | 1.28 |
672 | 701 | 3.651423 | CCCTCCCTCCGTTCCTAAATATT | 59.349 | 47.826 | 0.00 | 0.00 | 0.00 | 1.28 |
673 | 702 | 4.104261 | CCCTCCCTCCGTTCCTAAATATTT | 59.896 | 45.833 | 5.89 | 5.89 | 0.00 | 1.40 |
675 | 704 | 5.397559 | CCTCCCTCCGTTCCTAAATATTTGT | 60.398 | 44.000 | 11.05 | 0.00 | 0.00 | 2.83 |
676 | 705 | 5.677567 | TCCCTCCGTTCCTAAATATTTGTC | 58.322 | 41.667 | 11.05 | 0.00 | 0.00 | 3.18 |
678 | 707 | 6.069847 | TCCCTCCGTTCCTAAATATTTGTCTT | 60.070 | 38.462 | 11.05 | 0.00 | 0.00 | 3.01 |
679 | 708 | 6.602009 | CCCTCCGTTCCTAAATATTTGTCTTT | 59.398 | 38.462 | 11.05 | 0.00 | 0.00 | 2.52 |
681 | 710 | 7.553044 | CCTCCGTTCCTAAATATTTGTCTTTCT | 59.447 | 37.037 | 11.05 | 0.00 | 0.00 | 2.52 |
682 | 711 | 9.595823 | CTCCGTTCCTAAATATTTGTCTTTCTA | 57.404 | 33.333 | 11.05 | 0.00 | 0.00 | 2.10 |
683 | 712 | 9.595823 | TCCGTTCCTAAATATTTGTCTTTCTAG | 57.404 | 33.333 | 11.05 | 0.00 | 0.00 | 2.43 |
717 | 746 | 9.609346 | AATAAGTAACTACATACGGAGCAAAAT | 57.391 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
719 | 748 | 6.636705 | AGTAACTACATACGGAGCAAAATGA | 58.363 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
720 | 749 | 6.757010 | AGTAACTACATACGGAGCAAAATGAG | 59.243 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
722 | 751 | 4.870426 | ACTACATACGGAGCAAAATGAGTG | 59.130 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
723 | 752 | 3.937814 | ACATACGGAGCAAAATGAGTGA | 58.062 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
726 | 755 | 5.065218 | ACATACGGAGCAAAATGAGTGAATC | 59.935 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
727 | 756 | 3.679389 | ACGGAGCAAAATGAGTGAATCT | 58.321 | 40.909 | 0.00 | 0.00 | 0.00 | 2.40 |
728 | 757 | 4.832248 | ACGGAGCAAAATGAGTGAATCTA | 58.168 | 39.130 | 0.00 | 0.00 | 0.00 | 1.98 |
729 | 758 | 4.631813 | ACGGAGCAAAATGAGTGAATCTAC | 59.368 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
731 | 760 | 4.494855 | GGAGCAAAATGAGTGAATCTACGC | 60.495 | 45.833 | 0.00 | 0.00 | 0.00 | 4.42 |
732 | 761 | 4.256920 | AGCAAAATGAGTGAATCTACGCT | 58.743 | 39.130 | 0.00 | 0.00 | 0.00 | 5.07 |
734 | 763 | 4.331168 | GCAAAATGAGTGAATCTACGCTCT | 59.669 | 41.667 | 0.00 | 0.00 | 44.58 | 4.09 |
735 | 764 | 5.520288 | GCAAAATGAGTGAATCTACGCTCTA | 59.480 | 40.000 | 0.00 | 0.00 | 44.58 | 2.43 |
737 | 766 | 7.413000 | GCAAAATGAGTGAATCTACGCTCTAAA | 60.413 | 37.037 | 0.00 | 0.00 | 44.58 | 1.85 |
738 | 767 | 8.443160 | CAAAATGAGTGAATCTACGCTCTAAAA | 58.557 | 33.333 | 0.00 | 0.00 | 44.58 | 1.52 |
740 | 769 | 9.817809 | AAATGAGTGAATCTACGCTCTAAAATA | 57.182 | 29.630 | 0.00 | 0.00 | 44.58 | 1.40 |
741 | 770 | 9.988815 | AATGAGTGAATCTACGCTCTAAAATAT | 57.011 | 29.630 | 0.00 | 0.00 | 44.58 | 1.28 |
742 | 771 | 8.803201 | TGAGTGAATCTACGCTCTAAAATATG | 57.197 | 34.615 | 0.00 | 0.00 | 44.58 | 1.78 |
743 | 772 | 8.414003 | TGAGTGAATCTACGCTCTAAAATATGT | 58.586 | 33.333 | 0.00 | 0.00 | 44.58 | 2.29 |
744 | 773 | 8.804688 | AGTGAATCTACGCTCTAAAATATGTC | 57.195 | 34.615 | 0.00 | 0.00 | 0.00 | 3.06 |
745 | 774 | 8.634444 | AGTGAATCTACGCTCTAAAATATGTCT | 58.366 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
746 | 775 | 9.894783 | GTGAATCTACGCTCTAAAATATGTCTA | 57.105 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
763 | 792 | 5.868043 | TGTCTATATACATCCGTACGTGG | 57.132 | 43.478 | 15.21 | 5.54 | 0.00 | 4.94 |
764 | 793 | 5.308014 | TGTCTATATACATCCGTACGTGGT | 58.692 | 41.667 | 15.21 | 11.27 | 0.00 | 4.16 |
766 | 795 | 6.934083 | TGTCTATATACATCCGTACGTGGTAA | 59.066 | 38.462 | 15.21 | 5.39 | 0.00 | 2.85 |
767 | 796 | 7.607607 | TGTCTATATACATCCGTACGTGGTAAT | 59.392 | 37.037 | 15.21 | 10.95 | 0.00 | 1.89 |
768 | 797 | 8.119226 | GTCTATATACATCCGTACGTGGTAATC | 58.881 | 40.741 | 15.21 | 0.37 | 0.00 | 1.75 |
769 | 798 | 2.877043 | ACATCCGTACGTGGTAATCC | 57.123 | 50.000 | 15.21 | 0.00 | 0.00 | 3.01 |
770 | 799 | 2.101783 | ACATCCGTACGTGGTAATCCA | 58.898 | 47.619 | 15.21 | 0.00 | 42.05 | 3.41 |
772 | 801 | 3.133362 | ACATCCGTACGTGGTAATCCATT | 59.867 | 43.478 | 15.21 | 0.00 | 46.20 | 3.16 |
773 | 802 | 3.891422 | TCCGTACGTGGTAATCCATTT | 57.109 | 42.857 | 15.21 | 0.00 | 46.20 | 2.32 |
777 | 818 | 4.392445 | CCGTACGTGGTAATCCATTTGAAA | 59.608 | 41.667 | 15.21 | 0.00 | 46.20 | 2.69 |
781 | 822 | 6.834168 | ACGTGGTAATCCATTTGAAATCTT | 57.166 | 33.333 | 0.00 | 0.00 | 46.20 | 2.40 |
784 | 825 | 8.798402 | ACGTGGTAATCCATTTGAAATCTTAAA | 58.202 | 29.630 | 0.00 | 0.00 | 46.20 | 1.52 |
785 | 826 | 9.632807 | CGTGGTAATCCATTTGAAATCTTAAAA | 57.367 | 29.630 | 0.00 | 0.00 | 46.20 | 1.52 |
827 | 3016 | 9.193806 | ACGAAGATAGTACTATGTAAAAAGGGA | 57.806 | 33.333 | 20.13 | 0.00 | 0.00 | 4.20 |
834 | 3023 | 8.879427 | AGTACTATGTAAAAAGGGATTTGCTT | 57.121 | 30.769 | 0.00 | 0.00 | 0.00 | 3.91 |
835 | 3024 | 9.969001 | AGTACTATGTAAAAAGGGATTTGCTTA | 57.031 | 29.630 | 0.00 | 0.00 | 0.00 | 3.09 |
836 | 3025 | 9.999009 | GTACTATGTAAAAAGGGATTTGCTTAC | 57.001 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
837 | 3026 | 8.063200 | ACTATGTAAAAAGGGATTTGCTTACC | 57.937 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
838 | 3027 | 5.731957 | TGTAAAAAGGGATTTGCTTACCC | 57.268 | 39.130 | 0.00 | 0.00 | 43.55 | 3.69 |
868 | 3166 | 5.984695 | AAGGGATTTGCTAGAGTTTTTCC | 57.015 | 39.130 | 0.00 | 0.00 | 0.00 | 3.13 |
869 | 3167 | 4.998051 | AGGGATTTGCTAGAGTTTTTCCA | 58.002 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
870 | 3168 | 5.583932 | AGGGATTTGCTAGAGTTTTTCCAT | 58.416 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
871 | 3169 | 6.019108 | AGGGATTTGCTAGAGTTTTTCCATT | 58.981 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
872 | 3170 | 6.498303 | AGGGATTTGCTAGAGTTTTTCCATTT | 59.502 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
873 | 3171 | 6.813649 | GGGATTTGCTAGAGTTTTTCCATTTC | 59.186 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
874 | 3172 | 6.528072 | GGATTTGCTAGAGTTTTTCCATTTCG | 59.472 | 38.462 | 0.00 | 0.00 | 0.00 | 3.46 |
875 | 3173 | 6.627395 | TTTGCTAGAGTTTTTCCATTTCGA | 57.373 | 33.333 | 0.00 | 0.00 | 0.00 | 3.71 |
876 | 3174 | 5.607119 | TGCTAGAGTTTTTCCATTTCGAC | 57.393 | 39.130 | 0.00 | 0.00 | 0.00 | 4.20 |
879 | 3177 | 6.128282 | TGCTAGAGTTTTTCCATTTCGACATC | 60.128 | 38.462 | 0.00 | 0.00 | 0.00 | 3.06 |
892 | 3190 | 2.298610 | TCGACATCGAATCTGCTAGGT | 58.701 | 47.619 | 0.51 | 0.00 | 46.30 | 3.08 |
897 | 3195 | 3.201290 | CATCGAATCTGCTAGGTTTGCT | 58.799 | 45.455 | 0.00 | 0.00 | 0.00 | 3.91 |
916 | 3214 | 2.232208 | GCTGTAAGGAGGCTGCATTTTT | 59.768 | 45.455 | 9.23 | 0.00 | 0.00 | 1.94 |
944 | 3250 | 5.201713 | TGAAAGATATAGAAGGGTCTGCG | 57.798 | 43.478 | 0.00 | 0.00 | 35.12 | 5.18 |
1020 | 3330 | 2.187946 | CTCCCTTCGCGCCATCTT | 59.812 | 61.111 | 0.00 | 0.00 | 0.00 | 2.40 |
1254 | 3564 | 3.137459 | CTCCCTGTCGCGCTCTCT | 61.137 | 66.667 | 5.56 | 0.00 | 0.00 | 3.10 |
1377 | 3687 | 0.693049 | AAATGCCGGTGAAGGACTCT | 59.307 | 50.000 | 1.90 | 0.00 | 0.00 | 3.24 |
1434 | 3744 | 1.998315 | CATGGACTTGTCTCTCTTGCG | 59.002 | 52.381 | 0.61 | 0.00 | 0.00 | 4.85 |
1595 | 3905 | 2.724520 | CCTTGATGGCTGGGTATGC | 58.275 | 57.895 | 0.00 | 0.00 | 0.00 | 3.14 |
1737 | 4047 | 0.392998 | GGATGTTCGACATGGCACCT | 60.393 | 55.000 | 0.00 | 0.00 | 39.27 | 4.00 |
2111 | 4421 | 1.275856 | GCTGTTCATCAAAATGGGGCA | 59.724 | 47.619 | 0.00 | 0.00 | 33.42 | 5.36 |
2370 | 4680 | 2.782615 | GCCGGTTATGCACGTCAC | 59.217 | 61.111 | 1.90 | 0.00 | 0.00 | 3.67 |
2813 | 6593 | 6.993786 | TTCATACTTTTATTCGATGCACCA | 57.006 | 33.333 | 0.00 | 0.00 | 0.00 | 4.17 |
2814 | 6594 | 7.566760 | TTCATACTTTTATTCGATGCACCAT | 57.433 | 32.000 | 0.00 | 0.00 | 0.00 | 3.55 |
3528 | 7308 | 5.303971 | CACTTCAGAGATGGTTCTTGTTCT | 58.696 | 41.667 | 0.00 | 0.00 | 30.30 | 3.01 |
3669 | 7449 | 0.473694 | TGATGACTGGGTGTCTGGGT | 60.474 | 55.000 | 0.00 | 0.00 | 45.54 | 4.51 |
3847 | 7628 | 6.823182 | TGATCAACAGTAATATGTGGACAAGG | 59.177 | 38.462 | 0.00 | 0.00 | 35.96 | 3.61 |
4062 | 7847 | 7.460751 | AACTACGTTCTCACTACTTTGTTTC | 57.539 | 36.000 | 0.00 | 0.00 | 0.00 | 2.78 |
4171 | 7956 | 3.519107 | TCAGTCAGAATAACCATGGCAGA | 59.481 | 43.478 | 13.04 | 0.00 | 0.00 | 4.26 |
4195 | 7980 | 7.844779 | AGAAGAAGGGTATGTTCCATAGTCTTA | 59.155 | 37.037 | 0.00 | 0.00 | 0.00 | 2.10 |
4197 | 7982 | 6.901300 | AGAAGGGTATGTTCCATAGTCTTACA | 59.099 | 38.462 | 0.00 | 0.00 | 0.00 | 2.41 |
4199 | 7984 | 7.691993 | AGGGTATGTTCCATAGTCTTACATT | 57.308 | 36.000 | 0.00 | 0.00 | 32.23 | 2.71 |
4254 | 8039 | 7.068348 | AGCTGCAAGAAATATGATCTGAAATGT | 59.932 | 33.333 | 1.02 | 0.00 | 34.07 | 2.71 |
4333 | 8119 | 0.180406 | AGTTGTGTTCTCAAGGCGGT | 59.820 | 50.000 | 0.00 | 0.00 | 0.00 | 5.68 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
67 | 68 | 2.622436 | GACTTGAACTCGGAGGATTGG | 58.378 | 52.381 | 10.23 | 0.00 | 0.00 | 3.16 |
71 | 72 | 2.011122 | AAGGACTTGAACTCGGAGGA | 57.989 | 50.000 | 10.23 | 0.00 | 0.00 | 3.71 |
74 | 75 | 3.893200 | TCAACTAAGGACTTGAACTCGGA | 59.107 | 43.478 | 0.00 | 0.00 | 0.00 | 4.55 |
76 | 77 | 4.444720 | GTGTCAACTAAGGACTTGAACTCG | 59.555 | 45.833 | 0.00 | 0.00 | 36.26 | 4.18 |
114 | 116 | 4.260784 | CGAAAAGCCTCGAATAAATCCAGG | 60.261 | 45.833 | 0.00 | 0.00 | 41.44 | 4.45 |
130 | 132 | 2.029970 | TGAACGAATATCGCCGAAAAGC | 59.970 | 45.455 | 0.00 | 0.00 | 45.12 | 3.51 |
136 | 138 | 0.228742 | CCGTTGAACGAATATCGCCG | 59.771 | 55.000 | 20.47 | 0.00 | 46.05 | 6.46 |
139 | 141 | 3.121126 | GCCATACCGTTGAACGAATATCG | 60.121 | 47.826 | 20.47 | 10.13 | 46.05 | 2.92 |
147 | 149 | 1.133869 | GCACGCCATACCGTTGAAC | 59.866 | 57.895 | 0.00 | 0.00 | 39.83 | 3.18 |
176 | 178 | 3.243501 | ACGAAGTTACCGCAGACACTTTA | 60.244 | 43.478 | 0.00 | 0.00 | 37.78 | 1.85 |
196 | 198 | 6.640499 | TGAGCCAACAAATTTTAAGATTGACG | 59.360 | 34.615 | 0.00 | 0.00 | 0.00 | 4.35 |
197 | 199 | 7.945033 | TGAGCCAACAAATTTTAAGATTGAC | 57.055 | 32.000 | 0.00 | 0.00 | 0.00 | 3.18 |
202 | 204 | 6.478512 | AGGTTGAGCCAACAAATTTTAAGA | 57.521 | 33.333 | 16.55 | 0.00 | 45.11 | 2.10 |
208 | 210 | 3.716601 | CGAAAGGTTGAGCCAACAAATT | 58.283 | 40.909 | 16.55 | 9.68 | 45.11 | 1.82 |
228 | 230 | 0.752658 | TGTCCCTATGAGCACATCCG | 59.247 | 55.000 | 0.00 | 0.00 | 37.87 | 4.18 |
229 | 231 | 1.071385 | CCTGTCCCTATGAGCACATCC | 59.929 | 57.143 | 0.00 | 0.00 | 37.87 | 3.51 |
243 | 245 | 1.607148 | GCACAAACTTACACCCTGTCC | 59.393 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
258 | 260 | 6.016860 | GCATAGTCATCCATAAGAATGCACAA | 60.017 | 38.462 | 0.00 | 0.00 | 38.61 | 3.33 |
264 | 266 | 8.600668 | ACTACATGCATAGTCATCCATAAGAAT | 58.399 | 33.333 | 0.00 | 0.00 | 28.86 | 2.40 |
268 | 270 | 8.422577 | AGTACTACATGCATAGTCATCCATAA | 57.577 | 34.615 | 5.38 | 0.00 | 36.74 | 1.90 |
271 | 273 | 7.451566 | ACATAGTACTACATGCATAGTCATCCA | 59.548 | 37.037 | 4.31 | 0.00 | 36.74 | 3.41 |
361 | 384 | 6.998673 | AGCACAAAGAACTTAACCATCTAAGT | 59.001 | 34.615 | 0.00 | 0.00 | 42.63 | 2.24 |
391 | 414 | 8.803235 | TCTAGAACTTAAACTGTAATGAGCTGA | 58.197 | 33.333 | 0.00 | 0.00 | 0.00 | 4.26 |
394 | 417 | 8.989653 | AGTCTAGAACTTAAACTGTAATGAGC | 57.010 | 34.615 | 0.00 | 0.00 | 33.03 | 4.26 |
399 | 422 | 7.502696 | TGCCAAGTCTAGAACTTAAACTGTAA | 58.497 | 34.615 | 0.00 | 0.00 | 46.69 | 2.41 |
402 | 425 | 7.301054 | CAATGCCAAGTCTAGAACTTAAACTG | 58.699 | 38.462 | 0.00 | 0.00 | 46.69 | 3.16 |
403 | 426 | 6.431234 | CCAATGCCAAGTCTAGAACTTAAACT | 59.569 | 38.462 | 0.00 | 0.00 | 46.69 | 2.66 |
407 | 430 | 5.245531 | CACCAATGCCAAGTCTAGAACTTA | 58.754 | 41.667 | 0.00 | 0.00 | 46.69 | 2.24 |
410 | 433 | 2.162408 | GCACCAATGCCAAGTCTAGAAC | 59.838 | 50.000 | 0.00 | 0.00 | 46.97 | 3.01 |
443 | 466 | 9.921637 | ATCGTTAAAAAGGCTGAAATAAATTCA | 57.078 | 25.926 | 0.00 | 0.00 | 45.71 | 2.57 |
454 | 477 | 3.117434 | CGGACATCGTTAAAAAGGCTG | 57.883 | 47.619 | 0.00 | 0.00 | 0.00 | 4.85 |
466 | 489 | 1.468224 | CCTCTCACTGAACGGACATCG | 60.468 | 57.143 | 0.00 | 0.00 | 45.88 | 3.84 |
467 | 490 | 1.819288 | TCCTCTCACTGAACGGACATC | 59.181 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
468 | 491 | 1.821753 | CTCCTCTCACTGAACGGACAT | 59.178 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
469 | 492 | 1.202891 | TCTCCTCTCACTGAACGGACA | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
470 | 493 | 1.200484 | GTCTCCTCTCACTGAACGGAC | 59.800 | 57.143 | 0.00 | 0.00 | 0.00 | 4.79 |
471 | 494 | 1.202891 | TGTCTCCTCTCACTGAACGGA | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 4.69 |
472 | 495 | 1.248486 | TGTCTCCTCTCACTGAACGG | 58.752 | 55.000 | 0.00 | 0.00 | 0.00 | 4.44 |
473 | 496 | 2.159310 | GGATGTCTCCTCTCACTGAACG | 60.159 | 54.545 | 0.00 | 0.00 | 38.65 | 3.95 |
474 | 497 | 2.167487 | GGGATGTCTCCTCTCACTGAAC | 59.833 | 54.545 | 0.00 | 0.00 | 41.74 | 3.18 |
479 | 502 | 1.134965 | CAACGGGATGTCTCCTCTCAC | 60.135 | 57.143 | 0.00 | 0.00 | 41.74 | 3.51 |
482 | 505 | 1.187087 | GTCAACGGGATGTCTCCTCT | 58.813 | 55.000 | 0.00 | 0.00 | 41.74 | 3.69 |
483 | 506 | 1.187087 | AGTCAACGGGATGTCTCCTC | 58.813 | 55.000 | 0.00 | 0.00 | 41.74 | 3.71 |
512 | 536 | 7.068226 | TCCTGATATTAATGAAGTCGTCACAGA | 59.932 | 37.037 | 0.00 | 0.00 | 39.72 | 3.41 |
515 | 539 | 7.867909 | TCATCCTGATATTAATGAAGTCGTCAC | 59.132 | 37.037 | 0.00 | 0.00 | 39.72 | 3.67 |
519 | 543 | 8.654215 | CACATCATCCTGATATTAATGAAGTCG | 58.346 | 37.037 | 0.00 | 0.00 | 34.28 | 4.18 |
526 | 550 | 5.877012 | GCCGACACATCATCCTGATATTAAT | 59.123 | 40.000 | 0.00 | 0.00 | 34.28 | 1.40 |
532 | 556 | 1.069823 | GAGCCGACACATCATCCTGAT | 59.930 | 52.381 | 0.00 | 0.00 | 37.65 | 2.90 |
536 | 560 | 1.869767 | GATTGAGCCGACACATCATCC | 59.130 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
537 | 561 | 2.799412 | GAGATTGAGCCGACACATCATC | 59.201 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
540 | 564 | 2.468831 | GAGAGATTGAGCCGACACATC | 58.531 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
559 | 583 | 3.942130 | TTCTCTTGTGAGCATCTTCGA | 57.058 | 42.857 | 0.00 | 0.00 | 40.03 | 3.71 |
561 | 585 | 7.408123 | CACATAATTCTCTTGTGAGCATCTTC | 58.592 | 38.462 | 0.00 | 0.00 | 42.59 | 2.87 |
562 | 586 | 6.183360 | GCACATAATTCTCTTGTGAGCATCTT | 60.183 | 38.462 | 6.47 | 0.00 | 42.59 | 2.40 |
565 | 589 | 4.945543 | TGCACATAATTCTCTTGTGAGCAT | 59.054 | 37.500 | 6.47 | 0.00 | 42.59 | 3.79 |
568 | 592 | 8.068380 | CACATATGCACATAATTCTCTTGTGAG | 58.932 | 37.037 | 1.58 | 0.00 | 42.59 | 3.51 |
601 | 625 | 6.381481 | ACACAAGCATATACATTCACCATG | 57.619 | 37.500 | 0.00 | 0.00 | 39.07 | 3.66 |
618 | 647 | 2.274437 | ACGCAGATGCTGATACACAAG | 58.726 | 47.619 | 2.95 | 0.00 | 39.32 | 3.16 |
619 | 648 | 2.385013 | ACGCAGATGCTGATACACAA | 57.615 | 45.000 | 2.95 | 0.00 | 39.32 | 3.33 |
620 | 649 | 2.427095 | AGTACGCAGATGCTGATACACA | 59.573 | 45.455 | 2.95 | 0.00 | 39.32 | 3.72 |
621 | 650 | 3.085443 | AGTACGCAGATGCTGATACAC | 57.915 | 47.619 | 2.95 | 0.00 | 39.32 | 2.90 |
635 | 664 | 3.008923 | AGGGAGGGAGTAGTATAGTACGC | 59.991 | 52.174 | 11.79 | 11.79 | 0.00 | 4.42 |
637 | 666 | 4.323409 | CGGAGGGAGGGAGTAGTATAGTAC | 60.323 | 54.167 | 9.38 | 9.38 | 0.00 | 2.73 |
640 | 669 | 2.643801 | ACGGAGGGAGGGAGTAGTATAG | 59.356 | 54.545 | 0.00 | 0.00 | 0.00 | 1.31 |
641 | 670 | 2.711174 | ACGGAGGGAGGGAGTAGTATA | 58.289 | 52.381 | 0.00 | 0.00 | 0.00 | 1.47 |
642 | 671 | 1.532038 | ACGGAGGGAGGGAGTAGTAT | 58.468 | 55.000 | 0.00 | 0.00 | 0.00 | 2.12 |
643 | 672 | 1.213926 | GAACGGAGGGAGGGAGTAGTA | 59.786 | 57.143 | 0.00 | 0.00 | 0.00 | 1.82 |
644 | 673 | 0.033306 | GAACGGAGGGAGGGAGTAGT | 60.033 | 60.000 | 0.00 | 0.00 | 0.00 | 2.73 |
645 | 674 | 0.756070 | GGAACGGAGGGAGGGAGTAG | 60.756 | 65.000 | 0.00 | 0.00 | 0.00 | 2.57 |
646 | 675 | 1.219824 | AGGAACGGAGGGAGGGAGTA | 61.220 | 60.000 | 0.00 | 0.00 | 0.00 | 2.59 |
647 | 676 | 1.219824 | TAGGAACGGAGGGAGGGAGT | 61.220 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
648 | 677 | 0.032416 | TTAGGAACGGAGGGAGGGAG | 60.032 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
649 | 678 | 0.414629 | TTTAGGAACGGAGGGAGGGA | 59.585 | 55.000 | 0.00 | 0.00 | 0.00 | 4.20 |
650 | 679 | 1.508256 | ATTTAGGAACGGAGGGAGGG | 58.492 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
651 | 680 | 4.976540 | AATATTTAGGAACGGAGGGAGG | 57.023 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
652 | 681 | 5.681639 | ACAAATATTTAGGAACGGAGGGAG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
654 | 683 | 5.681639 | AGACAAATATTTAGGAACGGAGGG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
655 | 684 | 7.553044 | AGAAAGACAAATATTTAGGAACGGAGG | 59.447 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
656 | 685 | 8.494016 | AGAAAGACAAATATTTAGGAACGGAG | 57.506 | 34.615 | 0.00 | 0.00 | 0.00 | 4.63 |
657 | 686 | 9.595823 | CTAGAAAGACAAATATTTAGGAACGGA | 57.404 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
658 | 687 | 9.595823 | TCTAGAAAGACAAATATTTAGGAACGG | 57.404 | 33.333 | 0.00 | 0.00 | 0.00 | 4.44 |
691 | 720 | 9.609346 | ATTTTGCTCCGTATGTAGTTACTTATT | 57.391 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
692 | 721 | 9.042008 | CATTTTGCTCCGTATGTAGTTACTTAT | 57.958 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
693 | 722 | 8.252417 | TCATTTTGCTCCGTATGTAGTTACTTA | 58.748 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
694 | 723 | 7.101054 | TCATTTTGCTCCGTATGTAGTTACTT | 58.899 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
695 | 724 | 6.636705 | TCATTTTGCTCCGTATGTAGTTACT | 58.363 | 36.000 | 0.00 | 0.00 | 0.00 | 2.24 |
696 | 725 | 6.534079 | ACTCATTTTGCTCCGTATGTAGTTAC | 59.466 | 38.462 | 0.00 | 0.00 | 0.00 | 2.50 |
698 | 727 | 5.351465 | CACTCATTTTGCTCCGTATGTAGTT | 59.649 | 40.000 | 0.00 | 0.00 | 0.00 | 2.24 |
699 | 728 | 4.870426 | CACTCATTTTGCTCCGTATGTAGT | 59.130 | 41.667 | 0.00 | 0.00 | 0.00 | 2.73 |
700 | 729 | 5.109210 | TCACTCATTTTGCTCCGTATGTAG | 58.891 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
702 | 731 | 3.937814 | TCACTCATTTTGCTCCGTATGT | 58.062 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
704 | 733 | 5.431765 | AGATTCACTCATTTTGCTCCGTAT | 58.568 | 37.500 | 0.00 | 0.00 | 0.00 | 3.06 |
705 | 734 | 4.832248 | AGATTCACTCATTTTGCTCCGTA | 58.168 | 39.130 | 0.00 | 0.00 | 0.00 | 4.02 |
706 | 735 | 3.679389 | AGATTCACTCATTTTGCTCCGT | 58.321 | 40.909 | 0.00 | 0.00 | 0.00 | 4.69 |
708 | 737 | 4.494855 | GCGTAGATTCACTCATTTTGCTCC | 60.495 | 45.833 | 0.00 | 0.00 | 0.00 | 4.70 |
709 | 738 | 4.331168 | AGCGTAGATTCACTCATTTTGCTC | 59.669 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
711 | 740 | 4.331168 | AGAGCGTAGATTCACTCATTTTGC | 59.669 | 41.667 | 0.00 | 0.00 | 0.00 | 3.68 |
712 | 741 | 7.525688 | TTAGAGCGTAGATTCACTCATTTTG | 57.474 | 36.000 | 0.00 | 0.00 | 0.00 | 2.44 |
713 | 742 | 8.547967 | TTTTAGAGCGTAGATTCACTCATTTT | 57.452 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
714 | 743 | 8.723942 | ATTTTAGAGCGTAGATTCACTCATTT | 57.276 | 30.769 | 0.00 | 0.00 | 0.00 | 2.32 |
715 | 744 | 9.988815 | ATATTTTAGAGCGTAGATTCACTCATT | 57.011 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
716 | 745 | 9.416794 | CATATTTTAGAGCGTAGATTCACTCAT | 57.583 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
717 | 746 | 8.414003 | ACATATTTTAGAGCGTAGATTCACTCA | 58.586 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
719 | 748 | 8.634444 | AGACATATTTTAGAGCGTAGATTCACT | 58.366 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
720 | 749 | 8.804688 | AGACATATTTTAGAGCGTAGATTCAC | 57.195 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
737 | 766 | 8.618677 | CCACGTACGGATGTATATAGACATATT | 58.381 | 37.037 | 21.06 | 3.62 | 40.18 | 1.28 |
738 | 767 | 7.772292 | ACCACGTACGGATGTATATAGACATAT | 59.228 | 37.037 | 21.06 | 5.08 | 40.18 | 1.78 |
740 | 769 | 5.942236 | ACCACGTACGGATGTATATAGACAT | 59.058 | 40.000 | 21.06 | 12.70 | 42.82 | 3.06 |
741 | 770 | 5.308014 | ACCACGTACGGATGTATATAGACA | 58.692 | 41.667 | 21.06 | 2.07 | 32.11 | 3.41 |
742 | 771 | 5.869753 | ACCACGTACGGATGTATATAGAC | 57.130 | 43.478 | 21.06 | 0.00 | 32.11 | 2.59 |
743 | 772 | 7.280876 | GGATTACCACGTACGGATGTATATAGA | 59.719 | 40.741 | 21.06 | 3.08 | 35.97 | 1.98 |
744 | 773 | 7.066163 | TGGATTACCACGTACGGATGTATATAG | 59.934 | 40.741 | 21.06 | 0.00 | 41.77 | 1.31 |
745 | 774 | 6.883756 | TGGATTACCACGTACGGATGTATATA | 59.116 | 38.462 | 21.06 | 3.74 | 41.77 | 0.86 |
746 | 775 | 5.711506 | TGGATTACCACGTACGGATGTATAT | 59.288 | 40.000 | 21.06 | 12.24 | 41.77 | 0.86 |
749 | 778 | 3.286353 | TGGATTACCACGTACGGATGTA | 58.714 | 45.455 | 21.06 | 14.02 | 41.77 | 2.29 |
751 | 780 | 2.875087 | TGGATTACCACGTACGGATG | 57.125 | 50.000 | 21.06 | 9.60 | 41.77 | 3.51 |
808 | 849 | 9.969001 | AAGCAAATCCCTTTTTACATAGTACTA | 57.031 | 29.630 | 4.77 | 4.77 | 0.00 | 1.82 |
809 | 850 | 8.879427 | AAGCAAATCCCTTTTTACATAGTACT | 57.121 | 30.769 | 0.00 | 0.00 | 0.00 | 2.73 |
810 | 851 | 9.999009 | GTAAGCAAATCCCTTTTTACATAGTAC | 57.001 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
849 | 3147 | 6.528072 | CGAAATGGAAAAACTCTAGCAAATCC | 59.472 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
855 | 3153 | 5.607119 | TGTCGAAATGGAAAAACTCTAGC | 57.393 | 39.130 | 0.00 | 0.00 | 0.00 | 3.42 |
873 | 3171 | 2.783828 | ACCTAGCAGATTCGATGTCG | 57.216 | 50.000 | 0.00 | 0.00 | 41.45 | 4.35 |
874 | 3172 | 3.001736 | GCAAACCTAGCAGATTCGATGTC | 59.998 | 47.826 | 0.00 | 0.00 | 0.00 | 3.06 |
875 | 3173 | 2.939103 | GCAAACCTAGCAGATTCGATGT | 59.061 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
876 | 3174 | 3.002042 | CAGCAAACCTAGCAGATTCGATG | 59.998 | 47.826 | 0.00 | 0.00 | 0.00 | 3.84 |
879 | 3177 | 2.350522 | ACAGCAAACCTAGCAGATTCG | 58.649 | 47.619 | 0.00 | 0.00 | 0.00 | 3.34 |
892 | 3190 | 0.110295 | TGCAGCCTCCTTACAGCAAA | 59.890 | 50.000 | 0.00 | 0.00 | 0.00 | 3.68 |
930 | 3228 | 0.108138 | GCACACGCAGACCCTTCTAT | 60.108 | 55.000 | 0.00 | 0.00 | 38.36 | 1.98 |
944 | 3250 | 1.951181 | TTTAGCATCGCGTCGCACAC | 61.951 | 55.000 | 18.75 | 3.18 | 0.00 | 3.82 |
958 | 3264 | 1.771291 | GTGTTGTGCGTTTCGTTTAGC | 59.229 | 47.619 | 0.00 | 0.00 | 0.00 | 3.09 |
1254 | 3564 | 1.001631 | TGGGATGGAGCGGAAGAGA | 59.998 | 57.895 | 0.00 | 0.00 | 0.00 | 3.10 |
1377 | 3687 | 5.072040 | AGATCATGACGTTGTATGTCACA | 57.928 | 39.130 | 0.00 | 0.00 | 45.78 | 3.58 |
1434 | 3744 | 1.588861 | GCAAGATCGAAGTACTTCCGC | 59.411 | 52.381 | 26.12 | 16.57 | 36.27 | 5.54 |
1518 | 3828 | 1.986882 | ACAACTCCCTTGCTTCTTGG | 58.013 | 50.000 | 0.00 | 0.00 | 32.41 | 3.61 |
1595 | 3905 | 2.819595 | CCATCCGACCCAACTGCG | 60.820 | 66.667 | 0.00 | 0.00 | 0.00 | 5.18 |
2111 | 4421 | 1.768684 | ATTCACCCACTCACCGCACT | 61.769 | 55.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2370 | 4680 | 0.597377 | GTGCTTCCTTGCCAAAACCG | 60.597 | 55.000 | 0.00 | 0.00 | 0.00 | 4.44 |
2497 | 6266 | 4.402155 | CAGCACTAATTCCCCATAAAGCAA | 59.598 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
2685 | 6455 | 6.426328 | AGAAGAGCACAAGTATGAGTTCTTTG | 59.574 | 38.462 | 6.76 | 0.00 | 43.74 | 2.77 |
2688 | 6458 | 5.736951 | AGAAGAGCACAAGTATGAGTTCT | 57.263 | 39.130 | 0.00 | 0.00 | 38.86 | 3.01 |
2813 | 6593 | 1.078709 | CGCTGTCACACCGAAATCAT | 58.921 | 50.000 | 0.00 | 0.00 | 0.00 | 2.45 |
2814 | 6594 | 0.032815 | TCGCTGTCACACCGAAATCA | 59.967 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3528 | 7308 | 3.738982 | CAGTCACCAGTAATCACCACAA | 58.261 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
3847 | 7628 | 3.374058 | ACCGACACATGCATAGCTAAAAC | 59.626 | 43.478 | 0.00 | 0.00 | 0.00 | 2.43 |
4062 | 7847 | 1.067821 | GTTCATCCTGTAGAGGGCTCG | 59.932 | 57.143 | 6.00 | 0.00 | 40.25 | 5.03 |
4195 | 7980 | 4.765273 | TGCGTCAACTATCCATGTAATGT | 58.235 | 39.130 | 0.00 | 0.00 | 44.81 | 2.71 |
4197 | 7982 | 5.277974 | GCAATGCGTCAACTATCCATGTAAT | 60.278 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
4199 | 7984 | 3.559655 | GCAATGCGTCAACTATCCATGTA | 59.440 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
4333 | 8119 | 0.961019 | GCATGAACTGAAGGCAACCA | 59.039 | 50.000 | 0.00 | 0.00 | 37.17 | 3.67 |
4489 | 8275 | 2.159382 | AGGTAAACATCTTGCAACCCG | 58.841 | 47.619 | 0.00 | 0.00 | 0.00 | 5.28 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.