Locus 1486

Sequence ID 2R_DroMel_CAF1
Location 5,640,318 – 5,640,432
Length 114
Max. P 0.542024
window2525

overview

Window 5

Location 5,640,318 – 5,640,432
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.08
Mean single sequence MFE -31.20
Consensus MFE -24.24
Energy contribution -23.20
Covariance contribution -1.04
Combinations/Pair 1.19
Mean z-score -1.46
Structure conservation index 0.78
SVM decision value 0.02
SVM RNA-class probability 0.542024
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5640318 114 - 20766785
CUGAUGGUGGUAGCCGCUGAUGAAGUGGCGGUUUUGGAUCUGGAAAAUCCGAAACGUAUGGGAGUUUAGUUCGAAAACGGAAUUUCGACGGCUUAAUCAAUUAUAG------AACCGAAU
.(((((((.((.((((((.....)))))).(((((((((.(....)))))))))).....(((((((.(((....))).))))))).)).)))..)))).......------........ ( -30.90)
>DroSec_CAF1 7009 114 - 1
CUGAUGGUGGUAGCCGCUGAUGAAGUGGCGGUUUUGGAUCUGAAAAUCCCGAAACGUAUAGGAGUUUAGUUCGAAAACGGAAUUUCGACGGCUUAAUCAAUUAUAA------AACCGAAU
.(((((((....)))((((.((((((..(.(((((.((.(((((..(((...........))).))))).)).))))).).)))))).))))...)))).......------........ ( -28.30)
>DroSim_CAF1 7079 114 - 1
CUGAUGGUGGUAGCCGCUGAUGAAGUGGCGGUUUUGGAUCUGAAAAACCCAAAACGUAUGGGAGUUUAGUUCGAAAACGGAAUUUUGACGGCUUAAUCAAUUAUAG------AACCGAAU
.(((((((.((.((((((.....)))))).(((((.((.(((((...((((.......))))..))))).)).))))).........)).)))..)))).......------........ ( -31.90)
>DroEre_CAF1 7421 119 - 1
CUGGUGGUGGUAGCCGCUGAUUAAGUGGCGGUUUUGGAUCUGGAAAACC-CAAGCGCAUUGGAGUUUAGUUCGAAAACGGAAUUUUGACGGUUUAAUCAAUUAUAAAACCGAAAACGAAU
(..(((((....((((((.....))))))((((((........))))))-...)).)))..).((((...((((((......))))))((((((...........)))))).)))).... ( -29.80)
>DroYak_CAF1 7020 112 - 1
CUGGUGGUGAUAGCCGCUGAUGAAGUGGCGGUUUUGGAUCUGAAAAACC-GAAACGUAUGGGAGUUUAGUUCGAAAACGUAAUUUCGACGGUUUAAUCAAUU-------UGGAACCGAAU
............((((((.....))))))(((((..(((.(((.(((((-(((((........))))...((((((......))))))))))))..))))))-------..))))).... ( -35.10)
>consensus
CUGAUGGUGGUAGCCGCUGAUGAAGUGGCGGUUUUGGAUCUGAAAAACCCGAAACGUAUGGGAGUUUAGUUCGAAAACGGAAUUUCGACGGCUUAAUCAAUUAUAA______AACCGAAU
.((((...(((.((((((.....)))))).(((((.((.(((((...((...........))..))))).)).)))))............)))..))))..................... (-24.24 = -23.20 +  -1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:59 2006