Locus 5564

Sequence ID 2R_DroMel_CAF1
Location 17,773,470 – 17,773,577
Length 107
Max. P 0.679529
window8919

overview

Window 9

Location 17,773,470 – 17,773,577
Length 107
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -36.12
Consensus MFE -24.07
Energy contribution -24.14
Covariance contribution 0.07
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.67
SVM decision value 0.30
SVM RNA-class probability 0.679529
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17773470 107 + 20766785
UAAGCCCUGAUGGACACACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCAGAGCAUAUUGCUCGAG------CUUCGGCUUCAGUUCCAGCUCCAUUUCCAUCUCCAG------CUCC
..(((...(((((((((....))))).((((((...........)))))).((((.....(((.(((------(....)))).)))....))))......))))....)------)).. ( -32.60)
>DroSec_CAF1 41178 113 + 1
UAAGCCCUGAUGGACACACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCAGAGCAUAUUGCUCGAG------CUUCGGCUACAGUUCCAGCUCCAUCUCCAACUCCAGGUCCAGCUCC
..(((((((((.(((((....)))))(((...))).))))).......((.((((.....))))..)------)...))))........((((..((((........))))..)))).. ( -32.10)
>DroSim_CAF1 41025 113 + 1
UAAGCCCUGAUGGACACACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCAGAGAAUAUAGCUCGAG------CUUCGGCUUCAGUUCCAGCUCCAUCUCCAGCUCCAGCUGCAGCUCG
..(((.(((((.(((((....)))))(((...))).)))))......(((((.......((((.(((------(....)))).))))..((((........))))....)))))))).. ( -34.40)
>DroEre_CAF1 42959 107 + 1
UAAGCCCUGAUGGACGCACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCAGAGCAAAUAGCUCGAGCAGGAGCUCCGGC------------UGCGGCUUCAGUUCCAUCUCCAUAUCC
........(((((((((....)))))(((..((((((..(((...(((((.((((.....))))..))))).))))))))------------)...))).......))))......... ( -35.60)
>DroYak_CAF1 44406 119 + 1
UAAGCCCUGAUGGACGCACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCCGAGCAAAUAGCUCGAGCUCAAGCUCCGGCUCCAGUUUUAGCUGCAGCUACAGCUCCAGCUCCAUCUCC
........(((((((((....)))))(((((((...........)))))))((((.....))))(((((..((((..((((.((((....)))).))))..))))..)))))))))... ( -45.90)
>consensus
UAAGCCCUGAUGGACACACAAGUGUCGGCAAAGCCGGUCAGUAACUUUGCAGAGCAUAUAGCUCGAG______CUUCGGCUUCAGUUCCAGCUCCAUCUCCAGCUCCAGCUCCAGCUCC
..(((((((((.(((((....)))))(((...))).)))))..........((((.....))))((((....)))).))))...................................... (-24.07 = -24.14 +   0.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:47 2006