Locus 3860

Sequence ID X_DroMel_CAF1
Location 10,291,166 – 10,291,261
Length 95
Max. P 0.553953
window6351

overview

Window 1

Location 10,291,166 – 10,291,261
Length 95
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -32.62
Consensus MFE -18.88
Energy contribution -17.88
Covariance contribution -1.00
Combinations/Pair 1.29
Mean z-score -1.93
Structure conservation index 0.58
SVM decision value 0.04
SVM RNA-class probability 0.553953
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10291166 95 - 22224390
AAUUUGUUUGUGCAGUCG-----------CCGCCAAAGG-GGG-AACUCGUGGAAAAAAGCUGCAAAAUUGCAGGUGGU-UCGCAGAUCUGCCUUGGCAAGGUAACUAG
.............(((..-----------(((((((.((-.((-(.((.(((((....(.(((((....))))).)..)-)))))).))).)))))))..))..))).. ( -32.80)
>DroSec_CAF1 31822 96 - 1
AAUUUGUUUCUGCAGUCG-----------CCGCCGAAGGGGGG-AACUCGUGGAAAAAAGCUGCAAAAUUGCAGGUGGU-UCGCAGAUCUGCCUCGGCAUGGUAACUAG
.............(((..-----------(((((((..((.((-(.((.(((((....(.(((((....))))).)..)-)))))).))).)))))))..))..))).. ( -33.00)
>DroEre_CAF1 18544 93 - 1
AAUUUCUUUGUGCAGUUG-----------CCGCCGAGGG-GGG-AAAUCGUGGGAA-AAACUGCAAAAUUGCAGGCGC--UUGCAGAGCUGCUUUGGCAAGAUAACUGG
............((((((-----------(.(((((((.-((.-...(((..((..-...(((((....)))))...)--)..).)).)).)))))))..).)))))). ( -28.80)
>DroYak_CAF1 19322 108 - 1
AAUUUCUUUGUGCAAUCGCCUCGCCACCGCCGCCGAAGG-GGGCAACUUGUGGAAAAAAACUGCAAAAUUGCAGGUGGUUUUGCACAACUGCCUUGGCACGAUAACUAG
.......((((((((..(((.(.((((.(((.((....)-)))).....)))).......(((((....)))))).))).)))))))).(((....))).......... ( -35.90)
>consensus
AAUUUCUUUGUGCAGUCG___________CCGCCGAAGG_GGG_AACUCGUGGAAAAAAACUGCAAAAUUGCAGGUGGU_UCGCAGAUCUGCCUUGGCAAGAUAACUAG
...............................(((((.((.((..................(((((....)))))(((....)))....)).)))))))........... (-18.88 = -17.88 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:30 2006