Locus 4709

Sequence ID 3L_DroMel_CAF1
Location 13,279,794 – 13,279,905
Length 111
Max. P 0.648384
window7424

overview

Window 4

Location 13,279,794 – 13,279,905
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.52
Mean single sequence MFE -34.05
Consensus MFE -20.71
Energy contribution -20.05
Covariance contribution -0.66
Combinations/Pair 1.25
Mean z-score -1.36
Structure conservation index 0.61
SVM decision value 0.24
SVM RNA-class probability 0.648384
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13279794 111 - 23771897
GG-U----GGCCUAUUGGGCUAUUGGUUGCCAUGUCAACGGGGCGGAAAUCAGGCAACAUCCGCUCCAUAAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUGCAG--U--UUCAGA
((-(----((((.....)))))))..(((((((((.(((((((((((.....(....).))))))))((((((((....)).))))))......))).))).)).))))--.--...... ( -35.80)
>DroVir_CAF1 33922 96 - 1
GA-------G-------------CGUCUG--CUGUCAACAAACCGGAGAUCAGGCAACAUCCGUUCCAUAAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUGCUU--CCAUUCAGA
.(-------(-------------(((..(--((((.(((((((((((.....(....)(((((((.....))))))).))))))))))).))).))..)))))......--......... ( -37.70)
>DroPse_CAF1 45391 88 - 1
GGAU----GG---------------------CUGUCAAUGGGUCGGAAAUCAGGCAACAUCCGCUCCAUGAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUACUG--C--GUC---
((((----((---------------------(.....((((..((((.....(....).))))..))))((((((((.....)))))))))).)))))((((......)--)--)).--- ( -28.60)
>DroGri_CAF1 38019 96 - 1
GA-------G-------------CGGCUG--CUGUCAACAAACCGGAGAUCAGGCAACAUCCGUUUCAUAAACGGAUGUCCGGUUUGUUCGCACGUUCACGCUGUGCUG--CCAUUGAGA
(.-------(-------------((((.(--((((.(((((((((((.....(....)(((((((.....))))))).))))))))))).))).(....)))...))))--))....... ( -37.00)
>DroAna_CAF1 41909 117 - 1
GG-UUGGCUGCCCAUUGGGAUAUUGGUCGGCCUGUCAACGGGGCGGAAAUCAGGCAACAUCCGCUCCAUAAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUGCUGUGU--UUCAGG
.(-(((((.(((.((..(....)..)).)))..))))))((((((((.....(....).))))))))((((((((....)).)))))).((((((....)).))))(((...--..))). ( -39.70)
>DroPer_CAF1 45450 87 - 1
GG-U----GG---------------------CUGUCAAUGGGUCGGAAAUCAGGCAACAUCCGCUCCAUGAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUACUG--C--GUC---
.(-(----((---------------------((((.((..(..((((.....(....)(((((.((...)).))))).))))..)..)).))).).))))((......)--)--...--- ( -25.50)
>consensus
GG_U____GG______________GG_UG__CUGUCAACGGGCCGGAAAUCAGGCAACAUCCGCUCCAUAAACGGAUAUCCGGUUUGUUCGCACGUUCACGCUGUGCUG__C__UUCAGA
................................(((.(((((((((((.....(....)(((((.........))))).))))))))))).)))........................... (-20.71 = -20.05 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:23 2006