Locus 4350

Sequence ID 3R_DroMel_CAF1
Location 11,466,683 – 11,466,779
Length 96
Max. P 0.638699
window7115

overview

Window 5

Location 11,466,683 – 11,466,779
Length 96
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 86.16
Mean single sequence MFE -23.18
Consensus MFE -15.18
Energy contribution -15.54
Covariance contribution 0.36
Combinations/Pair 1.18
Mean z-score -2.10
Structure conservation index 0.65
SVM decision value 0.22
SVM RNA-class probability 0.638699
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11466683 96 + 27905053
AAGUGAGUGCACAUAAAAUUUGUAAUCACUUGGAGUACUUACA-UGCAUAAGAAAU---------GUUUCUUUUGUUUGAAGGGUUUCCCCAACC-CAAUUUCCCCA
((((((.((((.........)))).))))))((((......((-.(((.(((((..---------..))))).))).))..(((((.....))))-)...))))... ( -22.60)
>DroSec_CAF1 865 96 + 1
AAGUGAGUGCACAUAAAAUUUGUAAUCACUUGGAGUACUUACA-UGCAUAAGAAAU---------GUUUCUUUUGUUUGAAGGGUUUCCCCAACC-CAAUUUCCCCG
((((((.((((.........)))).))))))((((......((-.(((.(((((..---------..))))).))).))..(((((.....))))-)...))))... ( -22.60)
>DroSim_CAF1 1065 96 + 1
AAGUGAGUGCACAUAAAAUUUGUAAUCACUUGGAGUACUUACA-UGCAUAAGAAAU---------GUUUCUUUUGUUUGAAGGGUUACCCUAACC-CAAUUUCCCCG
((((((.((((.........)))).))))))((((......((-.(((.(((((..---------..))))).))).))..((((((...)))))-)...))))... ( -23.20)
>DroEre_CAF1 2819 96 + 1
AAGUGAGUGCACAUAAAAUGUGUAAUCACUCGGAGUACUUGCA-UGCAUAAGAAAU---------GUUUCUUUUGUUUGAAGGGUUUCUCCAACC-AAAUAUCUCCC
.(((((.(((((((...))))))).))))).((((..(((.((-.(((.(((((..---------..))))).))).)))))((((.....))))-......)))). ( -27.30)
>DroAna_CAF1 89751 102 + 1
A----AGUGCACAUAAAAU-UGUAAUCACUCGAAGUACUCACAUUGCAUAAGGAAUUUUUUGUGAGUUUCUUUUGUUUGAAGGGUUUCUGCCCCCAAAAUUUCUCCC
.----((((.(((......-)))...)))).(((((.....((..(((.(((((((((.....))))))))).))).))..((((....)))).....))))).... ( -20.20)
>consensus
AAGUGAGUGCACAUAAAAUUUGUAAUCACUUGGAGUACUUACA_UGCAUAAGAAAU_________GUUUCUUUUGUUUGAAGGGUUUCCCCAACC_CAAUUUCCCCC
..(((((((((((.......)))..((....)).))))))))...(((.(((((((((.....))))))))).))).....(((....)))................ (-15.18 = -15.54 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:01 2006