Locus 2515

Sequence ID 3R_DroMel_CAF1
Location 6,857,867 – 6,857,957
Length 90
Max. P 0.685178
window4118

overview

Window 8

Location 6,857,867 – 6,857,957
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 82.62
Mean single sequence MFE -26.32
Consensus MFE -18.79
Energy contribution -20.40
Covariance contribution 1.61
Combinations/Pair 1.18
Mean z-score -1.86
Structure conservation index 0.71
SVM decision value 0.32
SVM RNA-class probability 0.685178
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6857867 90 - 27905053
UUUGCCC-CCCGGAAAAGCACUCAUAAAUGUGCGCAUCAGUGAGCUC--UGUCAGCUUCAUUAAGAAGCUGCGCCUUUGCUGACUACGUGCCU
.......-.........((((........))))((((.(((.(((..--.(((((((((.....))))))).))....))).)))..)))).. ( -27.60)
>DroSec_CAF1 12272 88 - 1
UUUGCCC-CCAAAAAAAGCACUCAUAAAUGUGCGCAUCAGUGAGC----UGGCAGCUUCAUUAAGAAGCUGCGCCUUUGCUGACUACGUGCCU
.......-.........((((........))))((((.(((.(((----.(((((((((.....)))))))).)....))).)))..)))).. ( -29.70)
>DroSim_CAF1 14189 89 - 1
UUUGCCCCCCAAGAAAAGCACUCAUAAAUGUGCGCAUCAGUGAGC----UGGCAGCUUCAUUAAGAAGCUGCGCCUUUGCUGACUACGUGCCU
.................((((........))))((((.(((.(((----.(((((((((.....)))))))).)....))).)))..)))).. ( -29.70)
>DroEre_CAF1 12805 87 - 1
UUACC-C-CCCGGAAAAACACUCAUAAAUGUGCGCAUCAGUGAGC----UGGCAGCUUCAUUAAGAAGCUGUGCCUUUGCUGACUACGUGCCU
...((-.-...)).....(((........))).((((.(((.(((----.(((((((((.....)))))..))))...))).)))..)))).. ( -25.20)
>DroYak_CAF1 12483 86 - 1
UUAGC---CCCGGAAAAACACUCAUAAAUUUGCGCACCAGUGAGC----UGGCAGCUUCAUUAGGAAGCUGCGCCUUUGCUGACUACGUGCCU
.....---.........................((((.(((.(((----.(((((((((.....)))))))).)....))).)))..)))).. ( -25.10)
>DroPer_CAF1 15685 87 - 1
UUUGGGG-CGCCAGAGAACACUCAUAAAUGUUUGCAUGAGUGAACCGAACGGCAGCUUCAUUAG--ACCGACGCCUAAGC---CUACGUGUUU
..(((((-((((.(((....)))......(((..(....)..))).....))).))))))....--...(((((.((...---.)).))))). ( -20.60)
>consensus
UUUGCCC_CCCGGAAAAACACUCAUAAAUGUGCGCAUCAGUGAGC____UGGCAGCUUCAUUAAGAAGCUGCGCCUUUGCUGACUACGUGCCU
.................((((........))))((((.(((.(((......((((((((.....))))))))......))).)))..)))).. (-18.79 = -20.40 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:20 2006