Locus 3594

Sequence ID 3L_DroMel_CAF1
Location 10,579,482 – 10,579,572
Length 90
Max. P 0.986349
window5601

overview

Window 1

Location 10,579,482 – 10,579,572
Length 90
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 76.53
Mean single sequence MFE -20.84
Consensus MFE -11.63
Energy contribution -11.97
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.56
SVM decision value 2.04
SVM RNA-class probability 0.986349
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10579482 90 + 23771897
CCGCUUAUGCGCAUAACUCGUGCAUAAGUUGGGGGAGUUU--GCCAACUC-CAACUGCAGCCCUCAAA------------CC--AACUCAAACCAUCUCAUUUUCCU
..((((((((((.......))))))))))((((((....(--((......-.....))).))))))..------------..--....................... ( -22.40)
>DroPse_CAF1 516355 91 + 1
CCGCUUAUGCGCAUAACUCGUGCAUAAGUUGCACCCGUUCUAGCCGUCACUUAACUCCAC---UCCA-------------CCCAACCCGAAGCCAGCUCAUUUUCCU
..((((((((((.......)))))))))).......(..((.((..((............---....-------------........)).)).))..)........ ( -12.96)
>DroSec_CAF1 458899 84 + 1
CCGCUUAUGCGCAUAACUCGUGCAUAAGUUGGGGGAGUUC--GCCAACUC-CAACUGCAGGC------------------CC--AACUCAAAUCAUCUCAUUUUCCU
..((((((((((.......))))))))))((((((((((.--...)))))-)..(....).)------------------))--)...................... ( -23.90)
>DroEre_CAF1 468218 92 + 1
CCCCUUAUGCGCAUAACUCGUGCAUAAGUUGGGGGAGUUC--GCCAACUC-CAACUGCAGCCCCAAAA------------CCCAAACCCAAACCAUCUCAUUUUCCU
...(((((((((.......)))))))))(((((((((((.--...)))))-)...((......))...------------)))))...................... ( -23.50)
>DroYak_CAF1 470037 104 + 1
CCCCUUAUGCGCAUAACUCGUGCAUAAGUUGGGGGAGUUC--GCCAACUC-CAGCUCCAGCUCCAACUCCAGAUGCAGCUCCCAAACUCAAACCAUCUCAUUUUCCU
...(((((((((.......)))))))))(((((((((((.--...)))))-)((((.((.((........)).)).)))))))))...................... ( -29.30)
>DroPer_CAF1 525607 91 + 1
CCGCUUAUGCGCAUAACUCGUGCAUAAGUUGCACCCGUUCUAGCCGUCACUUAACUCCAC---UCCA-------------CCCAUCCCGAAGCCAGCUCAUUUUCCU
..((((((((((.......)))))))))).......(..((.((..((............---....-------------........)).)).))..)........ ( -12.96)
>consensus
CCGCUUAUGCGCAUAACUCGUGCAUAAGUUGGGGGAGUUC__GCCAACUC_CAACUCCAGCC_UCAA_____________CCCAAACCCAAACCAUCUCAUUUUCCU
(.((((((((((.......)))))))))).)............................................................................ (-11.63 = -11.97 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:45 2006