Locus 3336

Sequence ID 3R_DroMel_CAF1
Location 8,975,937 – 8,976,036
Length 99
Max. P 0.857125
window5374

overview

Window 4

Location 8,975,937 – 8,976,036
Length 99
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.30
Mean single sequence MFE -31.93
Consensus MFE -21.62
Energy contribution -22.57
Covariance contribution 0.95
Combinations/Pair 1.23
Mean z-score -1.46
Structure conservation index 0.68
SVM decision value 0.81
SVM RNA-class probability 0.857125
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8975937 99 + 27905053
--UGGUAUCC-UGCCGAUUCGUGUUCAACAAAUCACUUUGCCGGCGCAACACUUUAAUGUUGGGGAUUAGGCAUUAAGGUGAGAUUUCCAAGUGUUUC---------------AUGC
--(((.(((.-.((((....(((..........))).....))))....((((((((((((........)))))))))))).)))..)))........---------------.... ( -23.90)
>DroVir_CAF1 111020 116 + 1
CAUAGUCCGCUGGUCGCUUUGUCUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCAGGGAUUAGGCAUUAACGUGAGAUUUGCCAGCGUGCGUCCUCGUUCCUUUUAUUG-
....(..(((((((....((((...(((((((....)))))))..))))(((.((((((((........)))))))).)))......)))))))..)...................- ( -33.40)
>DroPse_CAF1 95198 114 + 1
--CAGUAUGC-GGCCGCUUUGUCUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCUGGGAUUAGGCAUUACGGUGAGAUUUCCCUGUGUGCGUUACGGUUACGGUUGCCGC
--......((-(((.(((.((.((.(((((((....)))))))(((((.((((.(((((((((....))))))))).))))((......)).))))).....)).)).))).))))) ( -36.80)
>DroWil_CAF1 95071 94 + 1
--CACUGUGU-GGCCGCUUUGUCUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCAGGGAUUAGGCAUUAAGGUGAGAUUUGCCAGUGUGC--------------------
--(((((.(.-.(...((((((...(((((((....)))))))..))))((((((((((((........))))))))))))))..)..))))))...-------------------- ( -30.50)
>DroAna_CAF1 95850 99 + 1
--CAGCAUGC-GGUCGCUUUGUAUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCAGGGAUUAGGCAUUAAGGUGAGACUUCCCAGGGUCUA---------------GUCA
--..((((((-((.....)))))).(((((((....)))))))..))..((((((((((((........))))))))))))(((((......))))).---------------.... ( -30.20)
>DroPer_CAF1 96437 114 + 1
--CAGUAUGC-GGCCGCUUUGUCUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCUGGGAUUAGGCAUUACGGUGAGAUUUCCCUGUGUGCGUUACGGUUACGGUUGCCGC
--......((-(((.(((.((.((.(((((((....)))))))(((((.((((.(((((((((....))))))))).))))((......)).))))).....)).)).))).))))) ( -36.80)
>consensus
__CAGUAUGC_GGCCGCUUUGUCUACAACAAAUCACUUUGUUGGCGCAACACUUUAAUGUCAGGGAUUAGGCAUUAAGGUGAGAUUUCCCAGUGUGCG_______________CUGC
....((((((.((.....((((...(((((((....)))))))..))))((((((((((((........)))))))))))).......)).)))))).................... (-21.62 = -22.57 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:41 2006