Locus 3941

Sequence ID 3L_DroMel_CAF1
Location 11,430,788 – 11,430,879
Length 91
Max. P 0.593728
window6136

overview

Window 6

Location 11,430,788 – 11,430,879
Length 91
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 78.24
Mean single sequence MFE -23.04
Consensus MFE -12.13
Energy contribution -12.93
Covariance contribution 0.80
Combinations/Pair 1.17
Mean z-score -1.84
Structure conservation index 0.53
SVM decision value 0.12
SVM RNA-class probability 0.593728
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11430788 91 - 23771897
AUCCAAAAAGUAUGGAUCGAUUUUAGGA-----------CGUAGUG------------UUGGCAUACCUGAUUUAAUCCAUGCUACUUUAUUUAGAUACAUAAAUAAGCGGGCU
.(((....(((((((((..(..(((((.-----------....(((------------....))).))))).)..)))))))))..((((((((......)))))))).))).. ( -22.30)
>DroSec_CAF1 150360 91 - 1
AUCAAAACAGUAUGGAUCGAUUUUGGGA-----------CGUAGAG------------CUGGCAUACCUGAUUUAAUCCAUGCUGCUUUAUUUUGAUACAUAAAUAAGCAGGCU
(((((((((((((((((..(..(..((.-----------.((....------------...))...))..).)..)))))))))).....)))))))................. ( -21.20)
>DroSim_CAF1 162011 91 - 1
AUCAUAAAAGUAUGGAUCGAUUUUAGGA-----------CGUAGAG------------CUGGCAUACCUGAUUUAAUCCAUGCUGCUUUAUUUAGAUACAUAAAUAAGCAGGCU
........(((((((((..(..(((((.-----------.((....------------...))...))))).)..)))))))))((((.(((((......)))))))))..... ( -22.00)
>DroEre_CAF1 158092 89 - 1
ACCAAGAAGGUAUGGAUCGAUUCUGC-A-----------CGCAGGA------------CAGGCAUACCUGAUUAAAUCCA-ACUGCUCUAUUUAGAUACAUAAAUAAGCAGGCU
(((.....))).(((((...(((((.-.-----------..)))))------------((((....)))).....)))))-.(((((.((((((......)))))))))))... ( -24.90)
>DroYak_CAF1 149052 114 - 1
AUCAGGAAAAUAUGAAUCGAUUUUAGGACAGGAUUUUAGGGCAGGAUUUUAGGGCAUGCAGGCAUACCUGAUUUAAUCCAAACUGCUUUAUUUAGAUACAUAAAUGAGCAGGCU
.((...(((((........)))))..))...........(((.((((((((((..(((....))).)))))...)))))...((((((.(((((......)))))))))))))) ( -24.80)
>consensus
AUCAAAAAAGUAUGGAUCGAUUUUAGGA___________CGUAGAG____________CUGGCAUACCUGAUUUAAUCCAUGCUGCUUUAUUUAGAUACAUAAAUAAGCAGGCU
..........(((((((..(..(((((.......................................))))).)..)))))))(((((.((((((......)))))))))))... (-12.13 = -12.93 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:32 2006