Locus 3463

Sequence ID X_DroMel_CAF1
Location 9,285,076 – 9,285,183
Length 107
Max. P 0.547871
window5668

overview

Window 8

Location 9,285,076 – 9,285,183
Length 107
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 87.71
Mean single sequence MFE -29.12
Consensus MFE -22.04
Energy contribution -22.44
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.53
Structure conservation index 0.76
SVM decision value 0.03
SVM RNA-class probability 0.547871
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9285076 107 + 22224390
UCGCGCAGAAGUGCGAAAGGGAGAAUCGCUGGUAAUAGAAAGAGAG--GG-GAAAGGGUGCACUAAAUUGUGUUCGAUUGCACUGUCGAACAGGAUUUUCGUUCGAUUCG
((((((....))))))......(((((.(((....))).....(((--.(-((((((.....))...((.((((((((......)))))))).))))))).)))))))). ( -31.30)
>DroSec_CAF1 67260 107 + 1
CCGCGCAGAAGUGCGAAAGGGAGAAUCGUUAGUAAUAGAAAGAGAG--GG-GUAUGGGUGCACUAAAUUGUGUUCGAUUACACUGUCGAACAGGAUUUUCGUUCGAUUCG
.(((((....))))).......(((((.(((....)))........--..-....(..((....(((((.((((((((......)))))))).))))).))..)))))). ( -29.20)
>DroSim_CAF1 64829 107 + 1
CCGCGCAGAAGUGCGAAAGGGAGAAUCGUUAGUAAUAGAAAGAGAG--GG-GUAUGGGUGCACUAAAUUGUGUUCGAUUACACUGUCGAACAGGAUUUUCGUUCGAUUUG
.(((((....))))).......(((((.(((....)))........--..-....(..((....(((((.((((((((......)))))))).))))).))..)))))). ( -26.70)
>DroEre_CAF1 73776 107 + 1
CCGCGCAGAAGUGCGAAAGAGAGAAUCGUUGGUAAUAGGAAACGAA--GU-GGAAGGGCGCACUAAAUUGUGUUCGAUUACACUGUCGAACAGGAUUUUCGGUCGAUUUA
.(((((....))))).......((((((((((.....(....)..(--((-(........))))(((((.((((((((......)))))))).))))))))).)))))). ( -31.00)
>DroYak_CAF1 66104 110 + 1
CCGCGCAGAAGUGCAAAAGGGAGAAUCGUUAGUAAAAGAAAAAAAAUAGUGGGAAUGGAGCACUAACUUGUGUUCGAUUACACUGGCGAGCAGGAUUUUCAGUCGAAUUG
..((((....))))......(((((((...................(((((..(((.((((((......)))))).))).)))))(....)..))))))).......... ( -27.40)
>consensus
CCGCGCAGAAGUGCGAAAGGGAGAAUCGUUAGUAAUAGAAAGAGAG__GG_GGAAGGGUGCACUAAAUUGUGUUCGAUUACACUGUCGAACAGGAUUUUCGUUCGAUUUG
.(((((....))))).......((((((............................((....))(((((.((((((((......)))))))).))))).....)))))). (-22.04 = -22.44 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:01 2006