Locus 3335

Sequence ID 2R_DroMel_CAF1
Location 11,340,546 – 11,340,665
Length 119
Max. P 0.671006
window5458

overview

Window 8

Location 11,340,546 – 11,340,665
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.68
Mean single sequence MFE -43.62
Consensus MFE -37.30
Energy contribution -37.93
Covariance contribution 0.63
Combinations/Pair 1.02
Mean z-score -1.85
Structure conservation index 0.86
SVM decision value 0.29
SVM RNA-class probability 0.671006
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11340546 119 + 20766785
CCUCAGAGGCUGUCAGUCAUAGUCAUGCCAGGGCAUUCCAAUCUGGCCAUGAUCAGGAGUCUUCUUGUA-CCGAUACCCCGGUAUAUGCCCUGCUGGCUGUGCAUUCCUCGCCGUCAGUU
.....(((((....(((((((((((.((.((((((((((.(((.......)))..))))).....((((-(((......))))))).))))))))))))))).)))....))).)).... ( -41.10)
>DroSec_CAF1 128382 119 + 1
CCUGAGAUGCUGUCAGUCAUAGUCAUGCCAGGGCAUUCCAAUCUGGCCAUGAUCAGGAGGCUUCUUGUG-CCGAUACCCCGGCAUAUGCCCUGCUGGCUGUGCAUUCCUUGCCGUCAGUU
((((((((.......)))....((((((((((.........))))).)))))))))).(((....((((-(((......))))))).)))..((((((.(.(((.....)))))))))). ( -43.10)
>DroSim_CAF1 134123 118 + 1
CCUGAGAGGCUGUCAGUCAUAGUCAUGCCAGGGCAUUCCAAUCUGGCCAUGAUCAGGAGGCUUCUUGUG-CCGAU-CCCCGGCAUAUGCCCUGCUGGCUGUGCAUUCCUUGCCGUCAGUU
.((((..(((....(((((((((((.((.((((((((((.(((.......)))..))))......((((-(((..-...))))))))))))))))))))))).)))....))).)))).. ( -47.00)
>DroYak_CAF1 131444 120 + 1
CCAGAGAGGCUGUCAGUCAUAGUCAUGCCAGGGCAUUCCAAUCUGGCCAUGAUCAGGAGGCUUCUUGUGGCCGAUACCCCGGCAAAUGCCCUGCUGGCUGUGCAUUCCUCGCCGUCAGUU
...((..(((....(((((((((((.((.((((((((((.(((.(((((..(..((....))..)..)))))))).....))..)))))))))))))))))).)))....))).)).... ( -43.30)
>consensus
CCUGAGAGGCUGUCAGUCAUAGUCAUGCCAGGGCAUUCCAAUCUGGCCAUGAUCAGGAGGCUUCUUGUG_CCGAUACCCCGGCAUAUGCCCUGCUGGCUGUGCAUUCCUCGCCGUCAGUU
.((((..(((....(((((((((((.((.((((((((((.(((.......)))..))))......((((.(((......))))))))))))))))))))))).)))....))).)))).. (-37.30 = -37.93 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:03 2006