Structure #115264
Summary
| Genome/Assembly | hg17 |
| Chromosome/Contig | chr20 |
| Strand | - |
| Position | 1,222,249 - 1,222,337 |
| Number of sequences | 4 |
| Organisms | human, mouse, rat, dog |
| Mean pairwise identity | 84.93 |
| Columns | 89 |
| Mean single MFE | -42.7 |
| Consensus MFE | -28.33 |
| Combinations/base pair | 30 / 26 = 1.15 |
| SCI | 0.66 |
| z-score | -3.47 |
| RNA class probability | 0.981953 |
This structure is part of cluster 61099
Alignment
RNAz output
########################### RNAz 0.1.1 #############################
Sequences: 4
Slice: 1 to 89
Columns: 89
Strand: +
{’?Y
Mean pairwise identity: 84.93
Mean single sequence MFE: -42.70
Consensus MFE: -28.33
Energy contribution: -29.45
Covariance contribution: 1.12
Mean z-score: -3.47
Structure conservation index: 0.66
SVM decision value: 1.90
SVM RNA-class probability: 0.981953
Prediction: RNA
######################################################################
>hg17.chr20/1222337-1222249
GAAGACGCAUUUCCCCUGCUGGGAUGGGACCUUGCAGGCAGGGUCCCUCAUGGGAGGGCAGAAGCCACCCAGGCCCAAAGGGAGCCAC
.............((((..((((..(((((((((....)))))))))...((((..(((....))).))))..)))).))))...... ( -41.50)
>mm5.chr2/30019277-30019365
GAAGUGGCAUUUCCCCUGCUGGGAUGGGACCUCACAGGCAGGGUCCCUCUUGGGAAGGCAGAAGCCACCCAGUCCCAUAGGGUGCCUC
.....((((....(((((.(((((((((((((........)))))))...((((..(((....))).))))))))))))))))))).. ( -43.50)
>rn3.chr3/29130215-29130303
GAAGUGGUAUUUCCCCUGCUGGGAUGGGACCUCACAGGCAGGGUCCCUCUUGGGAAGGCAGAAGCCACCCAGGCCCACAGGGUACCUC
.....((((....(((((.((((..(((((((........))))))).((((((..(((....))).))))))))))))))))))).. ( -43.10)
>canFam1.chr24/28100962-28101050
GAAGUGGCAUUCCCCUACUGGGACAGGACCUUGCAGGUGGCUGUCCCUAAGGGGAGGACAGAAGCCACCCAGGCUCAAAGGGAGCCAC
...(((((.(((((((...(((((((.(((.....)))..)))))))..))))))).......)))))...(((((.....))))).. ( -42.70)
>consensus
GAAGUGGCAUUUCCCCUGCUGGGAUGGGACCUCACAGGCAG_GGUCCCUCAUGGGAAGGCAGAAGCCACCCAGGCCCAAAGGGAGCCAC
.....((((....(((((.((((..((((((.(.......).))))))....(((..(((....))).)))...))))))))))))).. (-28.33 = -29.45 + 1.12)
Consensus structure
Secondary structure graph
Montain plot
Dotplot
