Locus 1025

Sequence ID 3R_DroMel_CAF1
Location 3,214,461 – 3,214,552
Length 91
Max. P 0.691667
window1660

overview

Window 0

Location 3,214,461 – 3,214,552
Length 91
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.43
Mean single sequence MFE -41.20
Consensus MFE -31.73
Energy contribution -31.85
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.71
Structure conservation index 0.77
SVM decision value 0.33
SVM RNA-class probability 0.691667
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3214461 91 + 27905053
CGCCUUGGCGCGGCCUUCGUUCGAGUUCCUUUUGCUGGGGGCCGAGGA---GGUUGGG--------------------------GAAUCCCAAAACUGGUCAUUCGAUGGCCGGGCCAAA
....(((((.(((((.....((((((.(((......)))((((.((..---..(((((--------------------------....)))))..)))))))))))).))))).))))). ( -40.70)
>DroSec_CAF1 39181 94 + 1
CGCCUUGGCGCGGCCUUCGUUCGAGUUCCUUUUGCUGGGGGCCGAGGAGUCGGUUGGG--------------------------GAGUCCCAAAACUGGUCAUUCGAUGGUCGGGCCAAA
....(((((.(((((.(((((((.((((((......))))))))))((.(((((((((--------------------------....))))..)))))))...))).))))).))))). ( -41.40)
>DroSim_CAF1 40619 93 + 1
CGCCUUGGCGCGGCCUUCGUUCGAGUUCCUUUUGCUGG-GGCCGAAGAGUCGGUUGGG--------------------------GAGUCCCAAAACUGGUCAUUCGAUGGUCGGGCCAAA
....(((((.(((((.(((((((.(((((.......))-)))))))((.(((((((((--------------------------....))))..)))))))...))).))))).))))). ( -40.50)
>DroEre_CAF1 33607 116 + 1
CGCCUUGGCUCGGCCUUCGUUCGAGUUCCUUUUUCUGG-GGCCAAGGA---GGUUGGGGAGGUUGGGGAGGUUGGGGAGGUCGGGAGUCCCAAAACUGGUCAUUCGAUGGUCGGGCCAAA
....(((((((((((.((((((((.(((((((((((..-((((.....---))))..)))))..)))))).)))))..(..(((...........)))..)...))).))))))))))). ( -45.50)
>DroYak_CAF1 23992 91 + 1
CGCCUUGGCUUGGCCUUCGUUCGAGUUCCUUUUCCUGGGGGCCGAGGA---GGUUGGG--------------------------GAGUCCCAAAACUGGUCAUUCGAUGGUCGGGCCAAA
....(((((((((((.(((...((.(((((((((((.(....).))))---))..)))--------------------------)).))(((....))).....))).))))))))))). ( -37.90)
>consensus
CGCCUUGGCGCGGCCUUCGUUCGAGUUCCUUUUGCUGGGGGCCGAGGA___GGUUGGG__________________________GAGUCCCAAAACUGGUCAUUCGAUGGUCGGGCCAAA
....(((((.(((((.(((((((.((((((......))))))))))((.....(((((..............................)))))......))...))).))))).))))). (-31.73 = -31.85 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:40 2006