Locus 2358

Sequence ID 3R_DroMel_CAF1
Location 6,721,812 – 6,721,929
Length 117
Max. P 0.933798
window3804

overview

Window 4

Location 6,721,812 – 6,721,929
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.36
Mean single sequence MFE -27.00
Consensus MFE -24.30
Energy contribution -24.72
Covariance contribution 0.42
Combinations/Pair 1.16
Mean z-score -1.89
Structure conservation index 0.90
SVM decision value 1.23
SVM RNA-class probability 0.933798
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6721812 117 + 27905053
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGGUUCUUCGAAGACGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA---A
.(((.....(((((.((((.....((((.....))))..(((...(((((((((((......)))))))))))...))).....)))).)))))...))).((((......)))).---. ( -29.20)
>DroSec_CAF1 6231 117 + 1
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGGUUCUUCGAAGAUGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA---A
.(((.....(((((.((((.....((((.....))))..(((...(((((((((((......)))))))))))...))).....)))).)))))...))).((((......)))).---. ( -29.20)
>DroSim_CAF1 6201 117 + 1
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGGUUCUUCGAAGAUGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA---A
.(((.....(((((.((((.....((((.....))))..(((...(((((((((((......)))))))))))...))).....)))).)))))...))).((((......)))).---. ( -29.20)
>DroEre_CAF1 6401 117 + 1
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGGCUCUUCGAAGACGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA---A
.(((.....(((((.((((.....((((.....))))..(((...(((..((((((......))))))..)))...))).....)))).)))))...))).((((......)))).---. ( -26.20)
>DroYak_CAF1 6460 117 + 1
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGAUGUCUCGUGGACGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA---A
.(((.....(((((.((((.....((((.....))))..(((...(((((.((((((....))).))))))))...))).....)))).)))))...))).((((......)))).---. ( -23.50)
>DroAna_CAF1 5854 115 + 1
AGAAAUUAAGUACUUAAGCACAAAUUGAAUACUCUAAAAGA-GAGUCGAUUCUUCAAAAGC-AGAAGAAUCU---GAUUGACAAGCUUUAGUGCCUCUGUAUGAUGAAUGUAUUGAUGAA
.........(((((.((((............(((.....))-)((((((((((((......-.)))))))).---)))).....)))).))))).((.((((.......)))).)).... ( -24.70)
>consensus
AGCAUUUAAGUACUUAAGCACAAAUCGAAUAUGUUGAAGGAUGUUUUGGUUCUUCGAAGACGCGAAGAAUCAAUGAAUCAAUAAGCUUUAGUGCCUCUGUAUGAUGAACAAAUCGA___A
.........(((((.((((.....((((.....))))..(((...(((((((((((......)))))))))))...))).....)))).))))).......((((......))))..... (-24.30 = -24.72 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:21 2006