Locus 4106

Sequence ID 3L_DroMel_CAF1
Location 11,986,962 – 11,987,067
Length 105
Max. P 0.837744
window6387

overview

Window 7

Location 11,986,962 – 11,987,067
Length 105
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 85.31
Mean single sequence MFE -41.18
Consensus MFE -28.40
Energy contribution -28.72
Covariance contribution 0.32
Combinations/Pair 1.21
Mean z-score -2.24
Structure conservation index 0.69
SVM decision value 0.74
SVM RNA-class probability 0.837744
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11986962 105 + 23771897
UCCUACACCACCGCCGACUCCCGAUCCACCGCCAC---UUCCUCCAGUGAGGGCACUGCGCAGAUUCUUGUGGUUAAAGAACCGCCUACGCGUCGGCGGUGUGGCGAA
.....(((.(((((((((............(((.(---(..(....)..)))))...(((.((......((((((....)))))))).)))))))))))))))..... ( -39.60)
>DroSec_CAF1 5315 105 + 1
UCCCACACCACCGCCGACUCCCGAUCCUCCGCCAC---UUCCUCCAGUGAGUGCACUGCGCAGAUUCUUGUGGUUAAAGAACCGCCUACGCGUCGGCGGUGUGGCAAA
..(((((((...((((((....((..((.((((((---(..(....)..))))....))).))..))..((((((....))))))......))))))))))))).... ( -39.20)
>DroSim_CAF1 4521 105 + 1
UGCCACACCACCGCCGACUCCCGAUCCUCCGCCAC---UUCCUCCAGUGAGUGCACUGCGCAGAUUCUUGUGGUUAAAGAACCGCCUACGUGUCGGCGGUGUGGCAAA
(((((((((...((((((.(..((..((.((((((---(..(....)..))))....))).))..))..((((((....))))))....).))))))))))))))).. ( -44.20)
>DroYak_CAF1 4547 108 + 1
CCCGCCGAUGCCGCCGACUCCCGAUCCACCGCCACCACCUCCGCCAGUGAGGGCACUGCGCAGAUUCUUGUGGUUGAAGAACCGCCUACGCGUCGGCGGUGUGGCAAA
...(((.(((((((((((............(((..(((........)))..)))...(((.((......((((((....)))))))).)))))))))))))))))... ( -45.80)
>DroAna_CAF1 5442 99 + 1
ACCUACUCCACCG------CCCGAUCCACCUCCAU---UGGAGCCGGUGAGAGCGCUGCGAAGAUUCUUGUGGUUGAAGAACCGCCUACGCGUGGGCGGAGUGGCAAA
.....((((((((------((((((........))---))).).))))).))).((..(.....(((((.......)))))(((((((....))))))).)..))... ( -37.10)
>consensus
UCCCACACCACCGCCGACUCCCGAUCCACCGCCAC___UUCCUCCAGUGAGGGCACUGCGCAGAUUCUUGUGGUUAAAGAACCGCCUACGCGUCGGCGGUGUGGCAAA
..(((((...((((((((...........................((((....))))(((.((......((((((....)))))))).)))))))))))))))).... (-28.40 = -28.72 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:37 2006