Locus 1226

Sequence ID 2L_DroMel_CAF1
Location 3,264,997 – 3,265,117
Length 120
Max. P 0.701825
window2012

overview

Window 2

Location 3,264,997 – 3,265,117
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.90
Mean single sequence MFE -22.76
Consensus MFE -17.17
Energy contribution -17.37
Covariance contribution 0.20
Combinations/Pair 1.09
Mean z-score -1.80
Structure conservation index 0.75
SVM decision value 0.35
SVM RNA-class probability 0.701825
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3264997 120 + 22407834
AACAAAAUGUUUGCCAUUCAGCACUUUUAUUCCGCUUUAAACAAAAAAUAUUUGCAAAGCUGUCAGCUGCUUUUUGGCAACGAUUCUAAAUCGAAAUGUAAAUAUUCCAUUUGUCUAGCG
...........(((......))).........((((....(((((.((((((((((.(((.....)))(((....)))..((((.....))))...))))))))))...)))))..)))) ( -21.90)
>DroSec_CAF1 91677 120 + 1
AACAAAAUGUGUGCCAUUCAGCACUUUUAUUCCGCUUUACACAAAAAAUAUUUGCAAAGCUUUCAGCUGCUUUUUGGCAACGAUUCUAAAUCGAAAUGUAAAUAUUCCAUUUGUCUAGCG
..........((((......))))........((((..(((.....((((((((((.(((.....)))(((....)))..((((.....))))...)))))))))).....)))..)))) ( -25.60)
>DroSim_CAF1 94735 119 + 1
AACAAAAUAU-UGCCAUUCAGCACUUUUAUUCCGCUUUACACUAAAAAUAUUUGCAAAGCUAUCAGCUGCUUUUUGGCAACGAUUCUAAAUCGAAAUGUAAAUAUACCAUUUGUCUAGCG
..........-(((......))).........((((..(((......(((((((((.(((.....)))(((....)))..((((.....))))...)))))))))......)))..)))) ( -21.30)
>DroEre_CAF1 88550 118 + 1
AGCCAAAUUUCUGCCAUUCAGCACUUUUAUUCCGCUUUUCACA--AUGUAUUUGCUAAGCAUUCAGCUGCUUUUUGGCAAGAUUUCUAAAUCGAAAUGCAAAUAUUCCAUUUGUCUAGCG
.((...((((((((((...((((((........((((....((--(.....)))..))))....)).))))...))))).((((....)))))))))((((((.....))))))...)). ( -20.60)
>DroYak_CAF1 88049 118 + 1
AACAAAAUGUCUGCCAUUCAGCAUUUUAAUUCCGCUUUUCACA--AAAUAUUUGCAAAGCUUUCAGCUGCUCUUUGGCAACGUUUCUAAAUCGAAAUGCAAAUAUUCCAUUUGUCUAGCG
...((((((.(((.....))))))))).....((((....(((--((((((((((..(((.....)))(((....)))...(((((......)))))))))))))....)))))..)))) ( -24.40)
>consensus
AACAAAAUGUCUGCCAUUCAGCACUUUUAUUCCGCUUUACACAAAAAAUAUUUGCAAAGCUUUCAGCUGCUUUUUGGCAACGAUUCUAAAUCGAAAUGUAAAUAUUCCAUUUGUCUAGCG
...........(((......))).........((((..........((((((((((.(((.....)))(((....)))..................))))))))))..........)))) (-17.17 = -17.37 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:12 2006