Locus 4004

Sequence ID 3L_DroMel_CAF1
Location 11,675,304 – 11,675,400
Length 96
Max. P 0.813419
window6237

overview

Window 7

Location 11,675,304 – 11,675,400
Length 96
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 77.67
Mean single sequence MFE -26.15
Consensus MFE -19.26
Energy contribution -19.07
Covariance contribution -0.19
Combinations/Pair 1.13
Mean z-score -1.29
Structure conservation index 0.74
SVM decision value 0.66
SVM RNA-class probability 0.813419
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11675304 96 - 23771897
UAUUC-UAUACUAAUAUUAUUA-UCCUUUUACCCAGUAAAUGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGCCUGGCCCUGAAGCUGGAGCACAUU
.....-................-.........(((((......(((((.(((((((......)))))))..)).)))........)))))........ ( -23.54)
>DroVir_CAF1 6910 95 - 1
AACUUACUAAUCC---UCGCACAUUUUCAUUUGCAGUCAACGACAGUCAGCAGCAUCCGAAUGUGCUGCGUGGCUUGGCGCUGAAGCUGGAGCACAUC
.............---..((.((.(((((...((.((((.....((((((((((((......))))))).)))))))))))))))).))..))..... ( -26.00)
>DroSec_CAF1 662 96 - 1
UAUUC-UAAACUAAUAAUAUUA-UUCUAUUACCCAGUAAAUGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGCUUGGCCCUGAAGCUGGAGCACAUC
.....-................-.........(((((......(((((.(((((((......)))))))..))).))........)))))........ ( -23.54)
>DroEre_CAF1 1613 90 - 1
CAUUC-UUAACUA------ACU-UUCUUUUAUCCAGUGAACGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGCCUGGCCCUGAAGCUGGAGCACAUC
.....-.......------...-........((((((......(((((.(((((((......)))))))..)).)))........))))))....... ( -26.24)
>DroYak_CAF1 674 96 - 1
UAUUC-AUAACUAAUGAUAACU-UUCGUUUGCACAGUGAAUGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGCCUGGCCCUGAAGCUGGAGCACAUC
(((((-((....(((((.....-.)))))......))))))).(((((.(((((((......)))))))..)).)))((((.......)).))..... ( -28.20)
>DroMoj_CAF1 1651 88 - 1
AAUUG-AUAACC---------GGUUUCUGUUUGCAGUCAAUGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGACUGGCGCUGAAGCUGGAGCAGAUU
.....-....((---------((((((.((...(((((..((.....))(((((((......)))))))...)))))..)).))))))))........ ( -29.40)
>consensus
UAUUC_UUAACUA____UAACA_UUCUUUUACCCAGUAAAUGACAGCCAGCAGCAUCCGAAUGUGCUGCGCGGCCUGGCCCUGAAGCUGGAGCACAUC
...................................((........(((.(((((((......)))))))..)))(..((......))..).))..... (-19.26 = -19.07 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:10 2006