Locus 2899

Sequence ID 2L_DroMel_CAF1
Location 8,328,958 – 8,329,053
Length 95
Max. P 0.954861
window4604

overview

Window 4

Location 8,328,958 – 8,329,053
Length 95
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 77.77
Mean single sequence MFE -27.55
Consensus MFE -13.98
Energy contribution -15.21
Covariance contribution 1.22
Combinations/Pair 1.10
Mean z-score -2.57
Structure conservation index 0.51
SVM decision value 1.45
SVM RNA-class probability 0.954861
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8328958 95 + 22407834
CCGA--------AGCCAAUCUGCUCGGCUCG---GCUCUCAGU--UCGCAAUGAGCUGGCUUUUUGAAAAAUCAACGUUUUUCGAAAAGUCAAAUACAAGUUUUCAGA
((((--------.(((.........))))))---).....(((--((.....)))))(((((((((((((((....)))))))))))))))................. ( -27.30)
>DroSec_CAF1 7804 90 + 1
CCGA--------AGCCACUCUGC-----UCG---GCUCUCAGU--UCGCACUGAGAUGGCUUUUUGAAAAAUCAACGUUUUUCGAAAAGUCAAAUACGAGUUUUCAGA
..((--------((.......((-----(((---..(((((((--....)))))))((((((((((((((((....))))))))))))))))....)))))))))... ( -31.01)
>DroSim_CAF1 8409 90 + 1
CCGA--------AGCCACUCCGC-----UCG---GCUCUCAGU--UCGCACUGAGCUGGCUUUUUGAAAAAUCAACGUUUUUCGAAAAGUCAAAUACGAGUUUUCAGA
..((--------((.......((-----(((---...((((((--....)))))).((((((((((((((((....))))))))))))))))....)))))))))... ( -28.71)
>DroEre_CAF1 8396 88 + 1
UCGG--------AGUGGCUCUGC-----UCG----CUCUCCGU--UCGCGCUGAGCUGGCUUUUUGAA-AAUCAACGUUUUUCGAAAAGUCAAAUACGAGUUUUCAGA
((((--------(((......))-----))(----(((..((.--...))..))))((((((((((((-((.......))))))))))))))....)))......... ( -28.30)
>DroYak_CAF1 8573 102 + 1
UCGCAAAGUCACAGUCACUCUGC-----UCGGCGGCUCUCAGU-UUCGCAGCGAGCUGGCUUUUUGAAAAAUCAUCAUUUUUCGAAAAGUCAAAUACGAGUUUUCAGA
................((((.((-----(((((((........-.))))..)))))((((((((((((((((....)))))))))))))))).....))))....... ( -28.90)
>DroAna_CAF1 8391 86 + 1
UCGG--------GGAAGAGCUCU-----UCG---GCUGCUUGCCUGCCGAGCGUGCUGG---UUUGAAAAAUCAACGUUUUUCGAAAAAUUCAAU---AGUUUUCAGA
..(.--------.((..(((.((-----(((---((.........)))))).).)))..---((((((((((....)))))))))).........---..))..)... ( -21.10)
>consensus
CCGA________AGCCACUCUGC_____UCG___GCUCUCAGU__UCGCACUGAGCUGGCUUUUUGAAAAAUCAACGUUUUUCGAAAAGUCAAAUACGAGUUUUCAGA
..................................((((..............))))((((((((((((((((....))))))))))))))))................ (-13.98 = -15.21 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:03 2006