Locus 4060

Sequence ID 3R_DroMel_CAF1
Location 11,063,855 – 11,063,950
Length 95
Max. P 0.613491
window6508

overview

Window 8

Location 11,063,855 – 11,063,950
Length 95
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 79.02
Mean single sequence MFE -24.15
Consensus MFE -15.19
Energy contribution -15.05
Covariance contribution -0.14
Combinations/Pair 1.37
Mean z-score -1.46
Structure conservation index 0.63
SVM decision value 0.16
SVM RNA-class probability 0.613491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11063855 95 + 27905053
GCCAUAAUUUCACUGGCGUGUGUUUUGCGGAAUUCACUCUUCGUUGAAUAGCACAGAAAAUAGGGAAACCU--UGAUUUGUGAGAUGUGAGUGUAAC
..........((((.((((.(((((.(((((........))))).))))).((((((....(((....)))--...))))))..)))).)))).... ( -26.20)
>DroSec_CAF1 7511 95 + 1
GCCAUAAUUUCACUAGCAUGGGUUUUGCGAAAUUCACUCUUCGUUGAAUAGCACAGAAAAUAGGGAAACCU--UGAUUUGUGAGAUGUGAGUGUAAC
..........((((.((((..((((.(((((........))))).))))..((((((....(((....)))--...))))))..)))).)))).... ( -24.10)
>DroSim_CAF1 7510 95 + 1
GCCAUAAUUUCACUAGCAUGGGUUUUGCGAAAUUCACUCUUCGUUGAAUAGCACAGAAAAUAGGGAAACCU--UGAUUUGUGAGAUGUGAGUGUAAC
..........((((.((((..((((.(((((........))))).))))..((((((....(((....)))--...))))))..)))).)))).... ( -24.10)
>DroEre_CAF1 7529 97 + 1
GCCAUAAUUUCACUAGCAUGUGCUUUGCGAAAGUCGCUCUUUGUUGGAUAACACAGAAAAUAGGGAAACCUGAUGAAGAGUGAGAUGUUAACCUAAC
......((((((((..(((.......(((.....)))(((.((((....)))).)))...((((....)))))))...))))))))........... ( -23.60)
>DroYak_CAF1 7541 97 + 1
GCCAUGAUUUCACUAGCAUGGGCUUUGCGAAAUUCACUCUUCGUUGGGUAACACAAAAAAUAGGGAAACCUUAUAAAGAGUGAGAUGUAAAUCCAAC
((..((....))...)).((((.((((((...(((((((((..(((.......))).....(((....)))....))))))))).)))))))))).. ( -23.50)
>DroPer_CAF1 8024 94 + 1
GCCAUGAUUCUGCUGCUUUGGGCUUUUCGAAAAGCCUCCUUCGAUUCAUAGCACAGAAAAUAGGGGAACCUAAAGAAGAGCGUUAAAGGAUUCC---
(((....(((((.((((.((((((((....))))))((....))..)).)))))))))..((((....)))).....).)).............--- ( -23.40)
>consensus
GCCAUAAUUUCACUAGCAUGGGCUUUGCGAAAUUCACUCUUCGUUGAAUAGCACAGAAAAUAGGGAAACCU__UGAAGAGUGAGAUGUGAGUCUAAC
......(((((((........((((.(((((........))))).))))............(((....)))........)))))))........... (-15.19 = -15.05 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:10 2006