Locus 2833

Sequence ID 2R_DroMel_CAF1
Location 9,830,929 – 9,831,020
Length 91
Max. P 0.978372
window4682

overview

Window 2

Location 9,830,929 – 9,831,020
Length 91
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 73.38
Mean single sequence MFE -29.23
Consensus MFE -12.49
Energy contribution -14.72
Covariance contribution 2.22
Combinations/Pair 1.05
Mean z-score -2.47
Structure conservation index 0.43
SVM decision value 1.81
SVM RNA-class probability 0.978372
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9830929 91 - 20766785
CGGAGGAGAAAGAUGGGGAGUGGUCUGUUC---GGUUGGU-----UGAUCGAUCAACGGAUUCCCCCGGAUGAUCU---------------CCAAAAAUAAACAAAACUCUCCA------
....(((((.....((((.(.((((((((.---((((((.-----...)))))))))))))))))))(((.....)---------------))...............))))).------ ( -30.10)
>DroSec_CAF1 68459 87 - 1
CGGAGGAGAAAGAUGGGGAGUGGUCUGGUC---G----GU-----UGAUCGAUCAACGGAUUCCCCCGGAUGAUCU---------------CCAAAAAUAAACAAAACUCUCCA------
....(((((.....(((((((.((.(((((---(----(.-----...)))))))))..))))))).(((.....)---------------))...............))))).------ ( -27.70)
>DroSim_CAF1 70288 87 - 1
CGGAGGAGAAAGAUGGGGAGUGGUCUGGUC---G----GU-----UGAUCGAUCAACGGAUUCCCCCGGAUGAUCU---------------CCAAAAAUAAACAAAACUCUCCA------
....(((((.....(((((((.((.(((((---(----(.-----...)))))))))..))))))).(((.....)---------------))...............))))).------ ( -27.70)
>DroEre_CAF1 73430 75 - 1
CGGAGGAGAGGGAUGGGGAGUGCUCGCUUC---------A-----UGAUCGAUCAACGGAUUCC-CCAGAUGAUCC---------------CCAAAAAUAAACAA---------------
.((.(((..(...((((((((.(.....((---------.-----.....)).....).)))))-)))..)..)))---------------))............--------------- ( -21.90)
>DroYak_CAF1 70766 91 - 1
CGGAGGAGAAAGAUGGGGAGUGGUCGGCUG---------A-----CGAUCGAUCAACGGAUUCCCCCGGAUGAUCC---------------CCAAAAAUAAACAAAACUCUCCAACUCUU
...(((((.....(((((((((((((....---------.-----)))))(((((.(((......)))..))))).---------------...............)))))))).))))) ( -29.30)
>DroAna_CAF1 68239 112 - 1
--GAGAAGGAGCAUCGGGAGCACUGGGAGCACCGGGAGGUGUGUCCCAUCGAUCAACGGAUUCUCCCAGAUGAUCCACAGAAAAGCUUCACCCAAAAAUAAACAAAUCUCUCCA------
--((((.(((.(((((((((...((((((((((....))))).)))))..((((....))))))))).)))).)))...(((....))).................))))....------ ( -38.70)
>consensus
CGGAGGAGAAAGAUGGGGAGUGGUCGGGUC___G____GU_____UGAUCGAUCAACGGAUUCCCCCGGAUGAUCC_______________CCAAAAAUAAACAAAACUCUCCA______
.............((((((((((((.....................))))(((((.(((......)))..)))))...............................))))))))...... (-12.49 = -14.72 +   2.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:35 2006