Locus 1328

Sequence ID 2R_DroMel_CAF1
Location 5,138,684 – 5,138,777
Length 93
Max. P 0.937968
window2302

overview

Window 2

Location 5,138,684 – 5,138,777
Length 93
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 78.26
Mean single sequence MFE -27.24
Consensus MFE -17.83
Energy contribution -19.56
Covariance contribution 1.73
Combinations/Pair 1.19
Mean z-score -2.06
Structure conservation index 0.65
SVM decision value 1.27
SVM RNA-class probability 0.937968
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5138684 93 - 20766785
CAGACAGUGGCCAGUUGGCAAUUCGACUGAUGUUCCUGGGGU-UCAGGGGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGAGGGACUGGCAAA
.((((..((((((((((.......((((...(((((((....-.)))))))...))))))))))))))))))..(((((((.....))))))). ( -31.11)
>DroVir_CAF1 20443 76 - 1
CAUACAGAGGCAAAUG-G---CUGAACAGUUGUUUU--GCGU-CCA--GGCCAAAGUUUAAUUGGCUAGUUUAAUUGUCAGCA---------AA
................-(---((((.((((((....--((..-...--((((((.......)))))).)).))))))))))).---------.. ( -17.90)
>DroSec_CAF1 14597 87 - 1
CAGACAGUGGCCAGUUGGCCAUUCGACUGAUGUUCCUGGGGU-UCAGGGGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGAG------GCAAA
..((((((....(..((((((...((((...(((((((....-.)))))))...))))....))))))..)..))))))....------..... ( -28.20)
>DroEre_CAF1 13542 94 - 1
CAGACAGUGGCCAGUUGGCCAUUGGACUGAUGUUCCUGGGGUUUCAGGGGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGAGGGACUGGCAAG
....((((((((....))))))))((((...((((((((....))))))))...))))......((((((((...........))))))))... ( -35.10)
>DroYak_CAF1 14499 93 - 1
CAGACAGUGGCCAGUUGGCCAUUGGACUGAUGUUCCUGGGGU-UCAGGGGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGAGGGACUGGCACA
....((((((((....))))))))((((...(((((((....-.)))))))...))))......((((((((...........))))))))... ( -34.80)
>DroMoj_CAF1 20232 76 - 1
CAAGCAGAGGCCAAUG-G---CUGAGCUGUUGUUUU--GCGU-CCA--GGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGCA---------AA
..(((((.((((...)-)---))...)))))..(((--((..-..(--(((....))))...((((..........)))))))---------)) ( -16.30)
>consensus
CAGACAGUGGCCAGUUGGCCAUUGGACUGAUGUUCCUGGGGU_UCAGGGGCUAAAGUUUAAUUGGCUAGUUUAAUUGUCAGAG______GCAAA
..(((((((((((((.......((((((...((((((((....))))))))...)))))))))))))......))))))............... (-17.83 = -19.56 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:19 2006