Locus 1121

Sequence ID 2L_DroMel_CAF1
Location 3,043,387 – 3,043,502
Length 115
Max. P 0.677709
window1825

overview

Window 5

Location 3,043,387 – 3,043,502
Length 115
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 78.40
Mean single sequence MFE -46.68
Consensus MFE -24.10
Energy contribution -22.38
Covariance contribution -1.72
Combinations/Pair 1.36
Mean z-score -1.93
Structure conservation index 0.52
SVM decision value 0.30
SVM RNA-class probability 0.677709
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3043387 115 + 22407834
UCCCUCUCCGCUUGGGACGCCAGCUGACCAAGCAGCGGAUGGCGACGACCACGGCAACCAAGUUG---GCGGCCAAGAAGCGGUCAGGCGGACGCCUAAAAAAGCCCAAGAAGACUCC
....(((...((((((.(((((((((......))))...)))))..((((.((.((((...))))---.))((......))))))((((....)))).......)))))).))).... ( -42.40)
>DroSec_CAF1 3115 115 + 1
UCCCUGUCCGCUUGGGACGCCAGCUGGUCAAGCAGCGAAUGGCGAUGACCUUGGCAACCAAGCUG---GCAGCCAAGAAGCGGUCAGGAGGACGCCUAAAAAGGGCCAAGAAGACUGC
..((((.((((((.((..((((((((((((.((........))..))))).(((...))))))))---))..))...)))))).)))).....((((.....))))............ ( -48.10)
>DroSim_CAF1 3124 115 + 1
UCCCUGUCCGCUUGGGACGCCAGCUGGUCAAGCAGCGGAUGGCGAUGAUCUCGGCAACCAAGCUG---GCGGCCAAGAAGCGGUCAGGAGGACGCCUAAAAAGGGCCAAGAAGACUGC
..((((.((((((.((.((((((((.((......))((.((.(((.....))).)).)).)))))---))).))...)))))).)))).....((((.....))))............ ( -48.70)
>DroEre_CAF1 3186 109 + 1
UCUCGCCUCGCUUGGGGCGGCGGGCGAUCAAGCAGCGGAUGCCGACGACCACGGCGGCCAAGCUGGUGGCGAGCAAGAAGCGAUCGGGACG---------AAAGUCCAAGAAGACUGA
..(((((((....)))))))(((.(((((...((((((.(((((.......))))).))..))))((..(......)..)))))))((((.---------...)))).......))). ( -43.70)
>DroYak_CAF1 3200 106 + 1
UCUCGCCUCGCUUGGGCCGCCGGGCGAUCAAGCAGCGUAUGCCGACGAGCACGGCGGCCAAGCUG---GCGGGCAAGAAGCGAUCGGGACG---------AAAGUCCAAGAAGACGGC
.((((((..((((((.((((((.((......(((.....)))......)).)))))))))))).)---))))).......((.((.((((.---------...)))).....)))).. ( -50.50)
>consensus
UCCCUCUCCGCUUGGGACGCCAGCUGAUCAAGCAGCGGAUGGCGACGACCACGGCAACCAAGCUG___GCGGCCAAGAAGCGGUCAGGAGGACGCCUAAAAAAGGCCAAGAAGACUGC
..(((..((((((((..((.....)).)))))).((...((((..((....((((......))))....))))))....))))..))).............................. (-24.10 = -22.38 +  -1.72) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:13 2006