Locus 5787

Sequence ID 3R_DroMel_CAF1
Location 15,090,233 – 15,090,328
Length 95
Max. P 0.557754
window9485

overview

Window 5

Location 15,090,233 – 15,090,328
Length 95
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.26
Mean single sequence MFE -25.65
Consensus MFE -15.67
Energy contribution -16.00
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.61
SVM decision value 0.05
SVM RNA-class probability 0.557754
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15090233 95 + 27905053
AAAGAAAGAGCAUGAACGAGGGGGCAACGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAA----AGUG--GCCAAGCCUUGUCAGCGUCAAUU
.......((((.(((.(((((....((((.(((......((.......))....))).))))((((..----...)--)))...)))))))))).)).... ( -25.50)
>DroPse_CAF1 16898 89 + 1
AGUCC------GCCAGAGAGCGGGAAAUGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAC----UUUG--GCCAAGCCUUGUCAGCGUCAAUU
..(((------((......)))))...((((((....((((.......((....))....((((((..----...)--))))))))).....))))))... ( -30.50)
>DroEre_CAF1 14599 94 + 1
AAACCAAGAGGAUGAACGAG-GGGCAACGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAA----AGUG--GCCAAGCCUUGUCAGCGUGAAUU
..........(((..(((.(-((((((((.(((......((.......))....))).))))((((..----...)--)))..))))).....)))..))) ( -23.60)
>DroYak_CAF1 6961 91 + 1
----GAUGAGGAUGAACGAGAGGGGAACGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAA----AGUG--GCCAAGCCUUGUCAGCGUGCAUU
----.....(.(((...((.((((.((((.(((......((.......))....))).))))((((..----...)--)))...)))).))..))).)... ( -23.60)
>DroAna_CAF1 12475 89 + 1
AAAGUAAGA------------GGGGCACGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAAGCCGAGUGGAGCCAAGCCUUGUCAGCGUCAAUU
.........------------.......(((((....((((.......((....))....(((((....((....)).))))))))).....))))).... ( -20.20)
>DroPer_CAF1 10658 89 + 1
AGUCC------GCCAGAGAGCGGGAAAUGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAC----UUUG--GCCAAGCCUUGUCAGCGUCAAUU
..(((------((......)))))...((((((....((((.......((....))....((((((..----...)--))))))))).....))))))... ( -30.50)
>consensus
AAACCAAGA__AUGAACGAG_GGGAAACGAUGUAAAUAGGCAGAUUAAGCAUACGCAACGUUGGCCAA____AGUG__GCCAAGCCUUGUCAGCGUCAAUU
............................(((((....((((.......((....))....(((((.............))))))))).....))))).... (-15.67 = -16.00 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:48 2006