Locus 818

Sequence ID 2R_DroMel_CAF1
Location 3,858,881 – 3,858,973
Length 92
Max. P 0.657954
window1430

overview

Window 0

Location 3,858,881 – 3,858,973
Length 92
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 72.47
Mean single sequence MFE -27.32
Consensus MFE -14.53
Energy contribution -14.34
Covariance contribution -0.19
Combinations/Pair 1.22
Mean z-score -1.80
Structure conservation index 0.53
SVM decision value 0.26
SVM RNA-class probability 0.657954
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3858881 92 + 20766785
GCCCCAGCGGGUUGGCAGCGUAGAAUGCCAAUGGAAUGAGUGGCAGGUUAGGGGGAGUUCGGCCAGAUGUCAUUUGAUAU-----------UUUAGGGGUAAA
(((((.....(((((((........))))))).....(((((((((((..((.....))..)))...)))))))).....-----------....)))))... ( -28.90)
>DroSec_CAF1 114669 92 + 1
GCCCUAUCGGGUUGGCAACGUAGAUUGCCAAUGGAAUGAGUGGCAGGUGAGGGGGAGUUUGGCCAGAUGUCAUUUGAUAU-----------UUUAGGGGUAAA
(((((.....((((((((......)))))))).....(((((((((((.(((.....))).)))...)))))))).....-----------....)))))... ( -26.90)
>DroEre_CAF1 115764 76 + 1
GCCCCAGCGGCCUGGCAACGUAGAAU----------------GCUGGUGAGGGGGAGUUCAGCCAGAUGUCAUUGGAUAU-----------UUGAGGGGUAAA
(((((...((((..(((........)----------------))..)((((......)))))))(((((((....)))))-----------))..)))))... ( -24.90)
>DroYak_CAF1 112849 92 + 1
GCCCCAGCGGCAUGGCGACAUAGAAU-----------GGGUUGCUGGAAGGGGGGAGUUCAGCCAGAUGCCAUUUGAUAUUUGAAGGGUAUUUGAGGGGUAGA
(((((...((((((....)))....(-----------(..((.((.......)).))..)))))(((((((.((..(...)..)).)))))))..)))))... ( -28.60)
>consensus
GCCCCAGCGGCUUGGCAACGUAGAAU___________GAGUGGCAGGUGAGGGGGAGUUCAGCCAGAUGUCAUUUGAUAU___________UUGAGGGGUAAA
(((((......((((((((.....................................)))..)))))(((((....)))))...............)))))... (-14.53 = -14.34 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:10 2006