Locus 6621

Sequence ID 2R_DroMel_CAF1
Location 20,710,684 – 20,710,794
Length 110
Max. P 0.973440
window10542

overview

Window 2

Location 20,710,684 – 20,710,794
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.05
Mean single sequence MFE -29.93
Consensus MFE -28.67
Energy contribution -28.95
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.66
Structure conservation index 0.96
SVM decision value 1.71
SVM RNA-class probability 0.973440
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20710684 110 - 20766785
UUCAAUUUUCUAGGCCAGUGGACAAGCUAGAAUUCAACUAGGAAUUGGGAUCCGUUGUCCUAGCUAGCGUAACCACAAA----------AAAACGAUAGCAUUGUCGCCUAAGGAUUUGU
..(((.((..(((((..((((....(((((.......((((((..(((...)))...)))))))))))....))))...----------.....((((....)))))))))..)).))). ( -32.51)
>DroSec_CAF1 144211 120 - 1
UUCAAUUUUCUAGGCCAGUGGACAAGCUAGAAUUCAGCUAGGAAUUGAGAUUCGUUGUCCUGGCUAGCGUAACCACAAAAAAAAAAAAAAAAACGAUAGCAUUGUCGCCCAAGGAUUUGU
..(((..((((.(((..((((....(((((....).(((((((..((.....))...)))))))))))....))))..................((((....)))))))..)))).))). ( -28.20)
>DroSim_CAF1 149202 120 - 1
UUCAAUUUUCUAGGCCAGUGGACAAGCUAGAAUUCAGCUAGGAAUUGAGAUUUGUUGUCCUGGCUAGCGUAACCACAAAAAAAAAAAAAAAAACGAUAGCAUUGUCGCCCAAGGAUUUGU
..(((..((((.(((..((((....(((((....).(((((((..............)))))))))))....))))..................((((....)))))))..)))).))). ( -25.64)
>DroEre_CAF1 185402 109 - 1
UUCAAUUUUCUAGGCCAGUGGGCAAGCUACAAUUCAACUAGGAAUUGAUAUCCGUUGUCCUGGCUAGCGUAACCACGCA-----------CAACGAUAGCAUUGUCGCCUAAGGAUUUGU
..(((.((..(((((.....(((((((((((((((......)))))).....(((((((.(((.........))).).)-----------))))).)))).))))))))))..)).))). ( -31.70)
>DroYak_CAF1 150297 109 - 1
UUCAAUUUUCUAGGCCAGUGGGCAAGCUAGAAUUCAACUAGGAAUUGAGAUCCGUUGUCCUGGCUAGCGUAACCACGCA-----------CAACGAUAGCAUUGUCGCCUAAGGAUUUGU
..(((.((..(((((..((((....(((((.......((((((..((.....))...)))))))))))....))))...-----------....((((....)))))))))..)).))). ( -31.61)
>consensus
UUCAAUUUUCUAGGCCAGUGGACAAGCUAGAAUUCAACUAGGAAUUGAGAUCCGUUGUCCUGGCUAGCGUAACCACAAA__________AAAACGAUAGCAUUGUCGCCUAAGGAUUUGU
..(((.((..(((((..((((....(((((.......((((((..((.....))...)))))))))))....))))..................((((....)))))))))..)).))). (-28.67 = -28.95 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:23 2006