Locus 7910

Sequence ID X_DroMel_CAF1
Location 19,702,175 – 19,702,273
Length 98
Max. P 0.889773
window12981

overview

Window 1

Location 19,702,175 – 19,702,273
Length 98
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 78.54
Mean single sequence MFE -25.42
Consensus MFE -9.38
Energy contribution -9.82
Covariance contribution 0.44
Combinations/Pair 1.17
Mean z-score -2.29
Structure conservation index 0.37
SVM decision value 0.96
SVM RNA-class probability 0.889773
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19702175 98 + 22224390
UUACAAGGAACCGAACUGAAA---UGUACCACGGAGCAGAAAGGAUGGGGGGGGGG------GGGGCAAACGAAAGUGAAUGUGUAGGAGGCAGGCCCUUGUUUCUU
..........(((..((....---(((.(....).)))...))..)))(((..(.(------(((((..((....)).....(((.....))).)))))).)..))) ( -25.90)
>DroSec_CAF1 8633 87 + 1
UUAUAAGGAACCGAACUGA-A---UGUACCACGGAGCAGAAAG----------GGG------AGCACAAACGAAAGUGAAUGUGUAGGAGGCAGGUCCUUGUUUCCU
..........((...(((.-.---((.....))...)))...)----------)..------.(((((.((....))...)))))(((((((((....))))))))) ( -22.80)
>DroSim_CAF1 8486 87 + 1
UUAGAAGGAACCGAACUGA-A---UGUACCAAGGAGCAGAAAG----------GGG------AGCACAAACGAAAGUGAAUGUGUAGGAGGCAGGUCCUUGUUUCCU
..........((...((..-.---(((.(....).)))...))----------.))------.(((((.((....))...)))))(((((((((....))))))))) ( -22.50)
>DroEre_CAF1 9181 82 + 1
UUAGAAGAAACCCCACUGC-A---UGUAU-ACAGAGCAGAAAG----------GGG------GGCACAAACAAAAGUGAACGUG---GAGGCA-CCCCUCGUUUCUU
....(((((((....((((-.---((...-.))..))))...(----------(((------((..(...((...(....).))---...)..-))))))))))))) ( -24.90)
>DroYak_CAF1 5933 92 + 1
UUAGAAGGAACCCAACUGA-AUACUGUAU-ACAAAGCAGAAAG----------GGGGGAAGGGGCACAAACGAAAGUGAACGUG---GAGACAGCCCCUUGUUUCUU
....(((((((((..((..-...((((..-.....))))..))----------..)))(((((((....((....)).....((---....))))))))).)))))) ( -31.00)
>consensus
UUAGAAGGAACCGAACUGA_A___UGUACCACGGAGCAGAAAG__________GGG______GGCACAAACGAAAGUGAAUGUGUAGGAGGCAGGCCCUUGUUUCUU
......(((((....(((..................)))..............(((.......(((((.((....))...)))))..........)))..))))).. ( -9.38 =  -9.82 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:37 2006