Locus 3405

Sequence ID 2R_DroMel_CAF1
Location 11,534,203 – 11,534,312
Length 109
Max. P 0.899445
window5560

overview

Window 0

Location 11,534,203 – 11,534,312
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 80.91
Mean single sequence MFE -33.36
Consensus MFE -20.07
Energy contribution -22.35
Covariance contribution 2.28
Combinations/Pair 1.09
Mean z-score -2.27
Structure conservation index 0.60
SVM decision value 1.01
SVM RNA-class probability 0.899445
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11534203 109 + 20766785
UGCGGUGCAAGGAAAUUGGGCGACCACCUUGACCAGACCCCAUCCACCUGGGCACUACGCCCGCCAUCCGCCCCAUUUGAACUCUUUGGAUGGGGUCAAAAGCCAAUAG
.(((((.(((((....(((....))))))))))).(((((((((((...((((.....))))((.....))...............)))))))))))....))...... ( -46.00)
>DroSec_CAF1 4210 101 + 1
UGCGGUGCAAGGAAAUUGGGCGACCACCUUGACCAGACCCCAUCCCCCUGGUCACUCCACC--------AACCCCUUUGAACUCAUUGGAUGGGGUCAAAAGCCAAUAG
.(((((.(((((....(((....))))))))))).((((((((((...((((......)))--------).......((....))..))))))))))....))...... ( -38.70)
>DroSim_CAF1 4682 101 + 1
UGCGGUGCAAGGAAAUUGGGCGACCACCUUGACCAGAACCCUUCCCCCUGGUCACUCCGCC--------ACCCCCUUUGAACUCUUUGGAUGGGGUCAAAAGCCAAUAG
.((((((.((((....(((....)))))))((((((...........))))))....))))--------(((((.((..(.....)..)).))))).....))...... ( -31.70)
>DroEre_CAF1 4634 87 + 1
GACGGUGCAAGGAAAUUGGUC--------UGGUCAAACCCCAUACCCAA-GGCAC---GCC---------C-CCCUUUGAACUCUUUGGAUGGGGUCAAAAGCCAAUAG
..............(((((.(--------(......(((((((..((((-((...---.(.---------.-......)....)))))))))))))....))))))).. ( -20.80)
>DroYak_CAF1 4265 96 + 1
GGCAGUGCAAGGAAAUUGGUCGACCACCUUGACCAGACCCCAUCCCCAA-ACCAC---GCC---------CCCCCUUUGAACACUUUGGUUGGGGUCAAAAGCCAAUAG
(((.(..(((((....(((....))))))))..).(((((((...((((-(....---...---------..............))))).)))))))....)))..... ( -29.60)
>consensus
UGCGGUGCAAGGAAAUUGGGCGACCACCUUGACCAGACCCCAUCCCCCUGGGCACU_CGCC_________CCCCCUUUGAACUCUUUGGAUGGGGUCAAAAGCCAAUAG
.(((((.(((((....(((....))))))))))).((((((((((..........................................))))))))))....))...... (-20.07 = -22.35 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:42 2006