Locus 8402

Sequence ID 3R_DroMel_CAF1
Location 22,374,286 – 22,374,376
Length 90
Max. P 0.997468
window13532

overview

Window 2

Location 22,374,286 – 22,374,376
Length 90
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 70.56
Mean single sequence MFE -20.07
Consensus MFE -5.94
Energy contribution -7.67
Covariance contribution 1.72
Combinations/Pair 1.07
Mean z-score -3.38
Structure conservation index 0.30
SVM decision value 2.86
SVM RNA-class probability 0.997468
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22374286 90 - 27905053
CAGGGAAAAUCAGCUAAAA-AGCUGACAACA--CAAACUGAUUA-------AAAAGCAGGCAGUAAAAGUCUGUA-CUUCCACUCUAAUAACUAAGUAGAA
...((((..((((((....-)))))).....--...........-------....((((((.......)))))).-.))))..((((.........)))). ( -18.30)
>DroSec_CAF1 15344 77 - 1
CAGGGAAAAUCAGCUAAAA-AGCU---------------GAUUA-------AAAAGCAGGCAGUAUAAGUCUGUA-CUUCCACUCUAAUAACUAAGUAGAA
...((((((((((((....-))))---------------)))).-------....((((((.......)))))).-.))))..((((.........)))). ( -20.50)
>DroSim_CAF1 10921 77 - 1
CAGGGAAAAUCAGCUAAAA-AGCU---------------GAUUG-------AAAAGCAGGCAGUAUAUGUCUGUA-CUUCCACUCUAAUAACUAAGUAGAA
.((((..((((((((....-))))---------------))))(-------((..(((((((.....))))))).-.)))..))))............... ( -22.50)
>DroEre_CAF1 11070 90 - 1
AGGG-AAAAUCAGCUAAAAAAGCUGACAGCA--CAAGCUGAUUA-------AAAAGCAGGGAGUAAAAGUCUGUA-CUUCCACUCUAAUAACCAACUAGAA
((((-....((((((.....))))))((((.--...))))....-------.......(((((((........))-))))).))))............... ( -23.20)
>DroYak_CAF1 11333 93 - 1
AGGGCAAAAUCAGCUAAAAAAGCUGACAGCACACAAGCUGAUUA-------AAAAGCAGGCAGUAAAAGUCUGUA-CUUCCACUCUAAUAACUAACUAGAA
.(((.....((((((.....))))))((((......))))....-------....((((((.......)))))).-..)))..((((.........)))). ( -21.60)
>DroPer_CAF1 28549 84 - 1
CUGGG-----------AAA-AGCUGAUUAUG--GCAAAUAAUUACAUUCCACAAUC---GAACGCCAUAUCUUGACUUUCCACUCUAAUAAGUCGCGAGAA
...((-----------(((-..(.(((.(((--((.....................---....))))))))..)..)))))...........((....)). ( -14.31)
>consensus
CAGGGAAAAUCAGCUAAAA_AGCUGACA_CA__CAA_CUGAUUA_______AAAAGCAGGCAGUAAAAGUCUGUA_CUUCCACUCUAAUAACUAACUAGAA
..((((.....((((.....))))...............................((((((.......))))))...)))).................... ( -5.94 =  -7.67 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:38 2006