|
|
| mm8_knownGene_NM_133435 range=chr4:148312488-148329942 5'pad=0 3' |
TGCGTTTCCT |
AGGAAAACTG |
CGGAAAACAG |
| |
73 |
82 |
500 |
509 |
780 |
789 |
| Dissimilarity |
14.15% |
10.24% |
11.19% |
| RE equally |
0.10071 |
0.09651 |
0.14267 |
| RE query |
0.09136 |
0.06105 |
0.11485 |
Consensus sequence and matrix:
|
|
| 2 |
1 |
2 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
| 0 |
0 |
1 |
0 |
0 |
0 |
0 |
3 |
3 |
0 |
| 0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 0 |
1 |
0 |
2 |
3 |
3 |
3 |
0 |
0 |
1 |
|
|
|
Random Expectation (RE) gives the number of expected occurrences of the match
in a random sequence of the same length as the query sequence according to the dissimilarity index.
Two models are considered:
(1) Equiprobability for the 4 nucleotides (RE equally),
(2) Estimate the nucleotide probability as the nucleotide frequencies in the query sequence (RE query).