Locus 9796

Sequence ID 3R_DroMel_CAF1
Location 26,028,497 – 26,028,595
Length 98
Max. P 0.547442
window15641

overview

Window 1

Location 26,028,497 – 26,028,595
Length 98
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 81.14
Mean single sequence MFE -30.30
Consensus MFE -20.44
Energy contribution -21.28
Covariance contribution 0.84
Combinations/Pair 1.08
Mean z-score -1.60
Structure conservation index 0.67
SVM decision value 0.03
SVM RNA-class probability 0.547442
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26028497 98 + 27905053
UUCAGUCUGUGAUCACU---UGUUUGGAACCUACUUUUGGUGUGGUUCGGGAUUCUGGGUUACUCAGUCCGCGGCGAUAUACUUCGGUACUACGGAUUGUG
........((((((...---.((((.((((((((.....))).))))).))))....)))))).(((((((..(.....(((....))))..))))))).. ( -30.80)
>DroSec_CAF1 22111 77 + 1
UUCAGUCUGUGAUCACU---UGUUUGGAACCUACUUUUGGUGUGGUUCGGGACUUCGGGUUACUCAGUCCGC---------------------GGAUUGUG
..((((((((.......---......((((((((.....))).))))).(((((..((....)).)))))))---------------------)))))).. ( -24.50)
>DroSim_CAF1 23308 97 + 1
UUCAGUCUGUGAUCACU---UGUUUGGAACCUACUUUUGGUGUGGUUCGGGACUUCGGGUUACUCAGUCCGCGGCGAUA-ACUUCGUUACUACGGAUUGUG
........((((((...---.((((.((((((((.....))).))))).))))....)))))).(((((((.(((((..-...)))))....))))))).. ( -31.80)
>DroEre_CAF1 22858 97 + 1
UACAGUCUGUGAUCACG---UUUUUGGAACCUACGUUUGGUGUGGUUCGGGAUUCCGGGUAACUGAGUCCGCGGCGAUA-ACUUUGGUGGCACGGAUCGUG
(((.(((((((.(((((---((.(((((((((((.....))).))))).((((((.((....))))))))....))).)-))....))))))))))).))) ( -31.60)
>DroYak_CAF1 22152 100 + 1
UACAGUCUGUGAUCACUUUGCUUUUGGAACCUACUUUUCGUGUGGUUCGGGAUUCUGGGCAACUGAGUCCGCGGCGAUA-ACUUUGGUGGUACGGAUCCUG
..((((((((.(((((((((((....((((((((.....))).))))).((((((.((....))))))))..)))))..-.....)))))))))))..))) ( -32.81)
>consensus
UUCAGUCUGUGAUCACU___UGUUUGGAACCUACUUUUGGUGUGGUUCGGGAUUCCGGGUUACUCAGUCCGCGGCGAUA_ACUUCGGUACUACGGAUUGUG
..(((((((((...............((((((((.....))).))))).(((((..((....)).)))))....................))))))))).. (-20.44 = -21.28 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:19 2006