Locus 1972

Sequence ID 3R_DroMel_CAF1
Location 5,566,101 – 5,566,215
Length 114
Max. P 0.765200
window3233

overview

Window 3

Location 5,566,101 – 5,566,215
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.19
Mean single sequence MFE -35.50
Consensus MFE -22.65
Energy contribution -23.15
Covariance contribution 0.50
Combinations/Pair 1.20
Mean z-score -2.18
Structure conservation index 0.64
SVM decision value 0.51
SVM RNA-class probability 0.765200
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5566101 114 - 27905053
UCUGUACUCGCAGAUGAAAUGAAACUAGAUACCAUG---GGCGGACUGCGUAGGUUUCAGUUUCUUUGUCCGGCAAAAAGGAUAAGACGGUCAUCAGAGCGA---GAGAAGUCGAGAGAA
......(((((.(((((...((((((.((.(((.((---.((.....)).))))).))))))))(((((((........)))))))....)))))...))))---).....((....)). ( -34.80)
>DroEre_CAF1 5530 114 - 1
UCUGUACUCGCAGAUGAAAUGAAACUAGAUACCUUG---GGCGGACUGCGUAGGUUUCAGUUUCUUUGUCCGGCAAAAAGGAUAAGACGUUCAUCGGAGCGA---GAGGAGUCGAGAGAA
(((...(((((.((((((..((((((.((.((((.(---.((.....)).))))).))))))))(((((((........)))))))...))))))...))))---).))).((....)). ( -37.70)
>DroYak_CAF1 5402 114 - 1
UCUGUACUCGCAGAUGAAAUGAAACUAGAUACCUUG---GGCGGACUGCGUAGGUUUCAGUUUCUUUGUCCGGCAAAAAGGAUAAGACGUUCAUCGGAGCGA---GAGGAGUCGAGAGAA
(((...(((((.((((((..((((((.((.((((.(---.((.....)).))))).))))))))(((((((........)))))))...))))))...))))---).))).((....)). ( -37.70)
>DroAna_CAF1 7238 120 - 1
UCUCUACUCGUAAUUGAAAUGAAACGAAAUACAUUGGUGGUCUAACUACCAUGGUUUUAGUUUCUUUGUCCGGCAAAGAGGACAAGAUGUUCAUCUCAGUAAGCAGGGGAAUCGAGAGGA
..(((.((((....((((..((((((((((....((((((.....))))))..))))).)))))(((((((........)))))))...))))((((........))))...)))).))) ( -31.80)
>consensus
UCUGUACUCGCAGAUGAAAUGAAACUAGAUACCUUG___GGCGGACUGCGUAGGUUUCAGUUUCUUUGUCCGGCAAAAAGGAUAAGACGUUCAUCGGAGCGA___GAGGAGUCGAGAGAA
(((....((((.((((((..((((((.((.((((.....(.....).....)))).))))))))(((((((........)))))))...))))))...))))....)))..((....)). (-22.65 = -23.15 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:09 2006