Locus 4410

Sequence ID 3R_DroMel_CAF1
Location 11,646,277 – 11,646,397
Length 120
Max. P 0.901423
window7201

overview

Window 1

Location 11,646,277 – 11,646,397
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.83
Mean single sequence MFE -39.08
Consensus MFE -35.76
Energy contribution -35.96
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -1.39
Structure conservation index 0.92
SVM decision value 1.02
SVM RNA-class probability 0.901423
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11646277 120 + 27905053
UUGUUUAUUCCGAUAUCUUUUCGGAGGGCAGACCGGCCUAUUGGUCCGGUUACUUCACCACGCGUCCGUUCUACAAGCUUCUGAGUUCAGAGCUGGAACAUCAGCUGCGAUCUGCUGAAA
........(((((.......)))))((((.((((((((....)).)))))).(........).))))(((((...((((.(((....)))))))))))).(((((........))))).. ( -41.10)
>DroSec_CAF1 27129 120 + 1
UUGUUUAUUCCGAUAUCUUUUCGGAGGGGAGGCCGGCGUACUGGUCUGGAUACUUCACCACGCGUCCGUUCUACAAGCUUCUGAGUUCAGAGCUGGAGCAUCAGCUGCGAUCUGCUGAAA
.......((((((.......))))))...(((((((....)))))))(((..(........)..)))(((((...((((.(((....)))))))))))).(((((........))))).. ( -38.90)
>DroSim_CAF1 29315 120 + 1
UUGUUUAUUCCGAUAUCUUUUCGGAGGGCAGACCGGCCUACUGGUCCGGUUACUUCACCACGCGUCCGUUCUACAAGCUUCUGAGUUCAGAGCUGGAGCAUCAGCUGCGAUCUGCUGAAA
........(((((.......)))))((((.((((((....)))))).(((......)))....))))(((((...((((.(((....)))))))))))).(((((........))))).. ( -42.20)
>DroEre_CAF1 25023 120 + 1
UUGUCUAUUCCGAUAUUUUUUCGGAGGGCAGACCGGCAUACUGGUCAGGCUACUUCACCACGCGACCGUUCUACAAGCUUCUGAGCUCAGAGCUGGAGCAUCAGCUGCGAUCUGCAGAAA
...(((.((((((.......)))))).((((((((((.....((((.((........))....))))(((((...((((.(((....))))))))))))....)))).).)))))))).. ( -39.00)
>DroYak_CAF1 27611 120 + 1
UUGUUUAUUCCGAUAUUUUUUCGGAGGGCAGGCCGGCAUACUGGUCAGGCUACUUCACCACACGUCCGUUCUACAAGCUCCUGAGCUCCGAGCUGGAACAUCAGUUGCGAUCUGCAGAAA
.......((((((.......)))))).((((..((.((.((((((..((........))........(((((...(((((.........))))))))))))))))))))..))))..... ( -34.20)
>consensus
UUGUUUAUUCCGAUAUCUUUUCGGAGGGCAGACCGGCAUACUGGUCAGGCUACUUCACCACGCGUCCGUUCUACAAGCUUCUGAGUUCAGAGCUGGAGCAUCAGCUGCGAUCUGCUGAAA
........(((((.......)))))((((.((((((....)))))).((........))....))))(((((...((((.(((....)))))))))))).(((((........))))).. (-35.76 = -35.96 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:24 2006