Locus 3637

Sequence ID 3R_DroMel_CAF1
Location 9,815,430 – 9,815,529
Length 99
Max. P 0.500000
window5848

overview

Window 8

Location 9,815,430 – 9,815,529
Length 99
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 76.07
Mean single sequence MFE -24.52
Consensus MFE -13.67
Energy contribution -14.73
Covariance contribution 1.06
Combinations/Pair 1.29
Mean z-score -1.50
Structure conservation index 0.56
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9815430 99 + 27905053
GGAAA----GCGGGGACCACAGUGAAUACC--CAGUCGGUGGGAAAUCAAUUAAGUGAGCAAGAAAAUCUUAAAGGAUUUUCUUUGU-------GUACGCGGCUAAGAAUUG
....(----((.(.(..((((.(((...((--((.....))))...)))...........((((((((((....)))))))))))))-------)..).).)))........ ( -24.80)
>DroSec_CAF1 21702 101 + 1
GGGAAGCAAGCGGGGACCACAGUGAAUACC--CAUUCGGUGGGAAAUCAAUUAAGUGAGCAGGGAAAUCUUAAAGGAUUUCCUUUGU-------GU--GCGGCUAAGAAAUG
.((..(((.(((....)(((..(((...((--(((...)))))...))).....))).))((((((((((....))))))))))...-------.)--))..))........ ( -26.90)
>DroSim_CAF1 22305 97 + 1
GAGAA----GCGGGGACCACAGUGAAUACC--CAUUCGGUGGGAAAUCAAUUAAGUGAGCAGGGAAAUCCUAAAGGAUUUCCUUUGU-------GU--GCGGCUAAGAAAUG
....(----((((...((.((.(((((...--.))))).))))...))......(((.((((((((((((....)))))))).))))-------.)--)).)))........ ( -27.10)
>DroEre_CAF1 22698 95 + 1
GGGAA----GCGGGAACCACAGUGAAUACC--CAUUCAGUGGGAAAUCAAUUAAGUGAGCAGGGGAAUCUAAAAGGAUUUCCUUUGU-------GU----GGCUGAGAAAUG
.....----.(((...((((..(((...((--(((...)))))...))).........((((((((((((....))).)))))))))-------))----)))))....... ( -24.10)
>DroYak_CAF1 22914 97 + 1
GCGAA----GCGGGGACCACAGUGAAUACC--CAUUCAGUGGGAAAUCAAUUAAGUGAGCAGGGAAAUCUGAAAGGAUUUCCUUUGU-------GU--GCGGCUAUAAAAUG
....(----((((...((.((.(((((...--.))))).))))...))......(((.((((((((((((....)))))))).))))-------.)--)).)))........ ( -27.70)
>DroAna_CAF1 22322 103 + 1
CUGAUCCCAGCCGG---UACAGUGAACACACACAUUGAAGGAAAAAUCAAUUAUCCGAACAGGA---UGUGAAUAAAAAUCCUUUGAAAUAUUAGU--GA-AAUUUAAACUC
.(((.....((..(---((..(((......))).(..(((((.........(((((.....)))---))..........)))))..)..)))..))--..-...)))..... ( -16.51)
>consensus
GGGAA____GCGGGGACCACAGUGAAUACC__CAUUCAGUGGGAAAUCAAUUAAGUGAGCAGGGAAAUCUUAAAGGAUUUCCUUUGU_______GU__GCGGCUAAGAAAUG
.........((.....((.((.(((((......))))).))))...(((......)))))((((((((((....))))))))))............................ (-13.67 = -14.73 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:15 2006