Locus 4885

Sequence ID 3L_DroMel_CAF1
Location 13,619,879 – 13,619,991
Length 112
Max. P 0.656996
window7713

overview

Window 3

Location 13,619,879 – 13,619,991
Length 112
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 85.90
Mean single sequence MFE -29.06
Consensus MFE -22.72
Energy contribution -22.68
Covariance contribution -0.04
Combinations/Pair 1.21
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value 0.26
SVM RNA-class probability 0.656996
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13619879 112 - 23771897
AUGUGGCCAGAAAUGGGUAAGAAUUAGGG--CUGUGAGAGGGUCCUUUUUGGGGGUAUGUAUAAUUCCCUAAGCUGGACAUGAUCAGAAUUUAAGAGAUUCUUAAAUCAUCCAG
...((.(((....))).)).......(((--...(((....((((..((((((((..........))))))))..))))....)))((.((((((.....)))))))).))).. ( -30.50)
>DroSec_CAF1 26806 112 - 1
AUGUGGCCAGAAAUGGGUGAGAAGUAGGA--CAGUGAGAGGGUCCUUUUUGGGGGUAUGUAUAAUUCCCUAAGCUGGACAUGAUUAGAAUUUAAGAGAUUCUUAAAUAAUCUAG
..(((.((((...............((((--(..(....).))))).((((((((..........)))))))))))).)))...(((((((((((.....)))))))..)))). ( -27.30)
>DroSim_CAF1 35895 112 - 1
AUGUGGCCAGAAAUGGGUGAGAAGUAGGA--CAGUGAGAGGGUCCUUUUUGGGGGUAUGUAUAAUUCCCUAAGCUGGACAUGAUCAGAAUUUAAGAGAUUCUUAAGUAAUCUAG
......(((....)))........((((.--...(((....((((..((((((((..........))))))))..))))....)))..(((((((.....)))))))..)))). ( -28.50)
>DroEre_CAF1 29582 100 - 1
AUGCGGCCAGAAAUGGGUGAGAAG--------------AGGGUCCUUUUUUGGGGUACGCAUAAUUCCCUAAGCUGGACAUGAUCAGAAUUUAAGGGAUUCUUAAAUCAUGUAG
.(((..(((....)))((((...(--------------(((((((((((((((((...........)))))))((((......)))).....)))))))))))...))))))). ( -28.80)
>DroYak_CAF1 33890 114 - 1
AUGCGACCGGAAAUGGGUGAGCAGAGGGGUCCUGUGAGAGGGUCCUUUUCUGGGGUAUGUAUAAAUCCCUAAACUGGACAUGAUCAGAAUUUAAGAGGUUCUUUAAUCAUAUAG
......((((.........((.((((((..(((.....)))..))))))))(((((........)))))....))))..(((((.((((((.....))))))...))))).... ( -30.20)
>consensus
AUGUGGCCAGAAAUGGGUGAGAAGUAGGA__CAGUGAGAGGGUCCUUUUUGGGGGUAUGUAUAAUUCCCUAAGCUGGACAUGAUCAGAAUUUAAGAGAUUCUUAAAUCAUCUAG
...((.(((....))).))......................((((..((((((((..........))))))))..))))(((((.((((((.....))))))...))))).... (-22.72 = -22.68 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:08 2006