Locus 1665

Sequence ID X_DroMel_CAF1
Location 4,685,393 – 4,685,510
Length 117
Max. P 0.706003
window2740

overview

Window 0

Location 4,685,393 – 4,685,510
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.06
Mean single sequence MFE -30.68
Consensus MFE -26.08
Energy contribution -26.82
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.85
SVM decision value 0.36
SVM RNA-class probability 0.706003
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4685393 117 + 22224390
AGUUAAAGUGUCAGUUGUAGCUUGUCAAAACUU---GUGUUGUCCAAUUAGCAUAAUUUCUUGUCUCAACUUCGGCCCCGAUGCAACAGAUACGUAAUUCGGAUACGAAAGUAUCUACGA
.......(((((.((((((....(.(((((.((---((((((......)))))))).)).))).)......(((....))))))))).))))).......((((((....)))))).... ( -30.50)
>DroSec_CAF1 39017 117 + 1
AGUUUAAGUGUCAGUUGUAGCUUGUCAAAACUU---GUGUUGUCCAAUUAGCAUAAUUUCUUGUCUCAACUUCGGCCCCGAUGCAACAGAUACGUAAUUCGGAUACGAAAGUAUCUACGA
.......(((((.((((((....(.(((((.((---((((((......)))))))).)).))).)......(((....))))))))).))))).......((((((....)))))).... ( -30.50)
>DroEre_CAF1 39410 117 + 1
AGUUAAAGUGUCAGUUGUAGCUUGUCAAAACUU---GUGUUGUCCAAUUAGCAUAAUUUCUUGUCUCAACUUUGGCUCUGACGCAACAGAUACGUAAUUCGGAUACGAAAGUAUCUACGA
.......(((((.(((((..(..((((((..((---((((((......))))))))......((....))))))))...)..))))).))))).......((((((....)))))).... ( -30.20)
>DroYak_CAF1 36259 120 + 1
AGUUAAAGUGUCAGUUGUAGCUUGUCAAAACUUGUUGUGUUGUCCAAUUAGCAUAAUUUCUUGUCUCAACUUUGGCCCCGAUGCAACAGAUACGCAAUUCGGAUACGAAAGUAUCUACGA
.......(((((.((((((....((((((((..(((((((((......))))))))).....))......)))))).....)))))).))))).......((((((....)))))).... ( -31.50)
>consensus
AGUUAAAGUGUCAGUUGUAGCUUGUCAAAACUU___GUGUUGUCCAAUUAGCAUAAUUUCUUGUCUCAACUUCGGCCCCGAUGCAACAGAUACGUAAUUCGGAUACGAAAGUAUCUACGA
.......(((((.((((((....((((((.......((((((......))))))........((....)))))))).....)))))).))))).......((((((....)))))).... (-26.08 = -26.82 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:11 2006