Locus 13560

Sequence ID dm3.chrX
Location 7,417,750 – 7,417,870
Length 120
Max. P 0.989994
window18667 window18668

overview

Window 7

Location 7,417,750 – 7,417,870
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.09
Shannon entropy 0.12590
G+C content 0.62352
Mean single sequence MFE -37.03
Consensus MFE -30.55
Energy contribution -30.67
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.656958
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7417750 120 + 22422827
CAGGGGGCACAAAGGGGUUAAACGGACGGUUAGAAGGGGGCAGGGGCGGGGAGGUGCGCUGGCUUAAGCAGGAGGAGACGGGAAGCUAAAGAGGGGCAUCGUCUCCACGGCAGAGAGCCA
...((.((((......(((.....)))............((....))......)))).))(((((..((.(..((((((((...(((.......))).)))))))).).))...))))). ( -35.50, z-score =  -1.68, R)
>droSec1.super_24 625788 117 + 912625
CGGGGGGCACAAAGGGGUUAAACGAAUGGUUAGAAGUGGGCAGGGA-G-AGAGCGGUGCUGGCUUAAGCAGGAGGAGACGGG-AGCUGAAGAGGGGCACCGUCUCCACGGCAGAGAGCCA
((...(((........)))...))..(((((..((((.((((..(.-.-....)..)))).))))..((.(..((((((((.-.(((.......))).)))))))).).))....))))) ( -36.30, z-score =  -1.59, R)
>droSim1.chrX 5943076 119 + 17042790
CGGGGGGCACAAAGGGGUUAAACGUAUGGUUAGAAGUGCGCAGGGG-GGAGAGCGGUGCUGGCUUAAGCAGGAGGAGACGGGGAGCUAAAGAGGGGCACCGUCUCCACGGCAGAGAGCCA
.....(((...............((((........))))((.(...-(((((.(((((((..(((.(((....(....).....))).)))...)))))))))))).).)).....))). ( -39.30, z-score =  -2.15, R)
>consensus
CGGGGGGCACAAAGGGGUUAAACGAAUGGUUAGAAGUGGGCAGGGG_GGAGAGCGGUGCUGGCUUAAGCAGGAGGAGACGGG_AGCUAAAGAGGGGCACCGUCUCCACGGCAGAGAGCCA
.....(((((..........(((.....)))....(....)..............)))))(((((..((.(..((((((((...(((.......))).)))))))).).))...))))). (-30.55 = -30.67 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 7,417,750 – 7,417,870
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.09
Shannon entropy 0.12590
G+C content 0.62352
Mean single sequence MFE -27.32
Consensus MFE -24.17
Energy contribution -24.28
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.91
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.40
SVM RNA-class probability 0.989994
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7417750 120 - 22422827
UGGCUCUCUGCCGUGGAGACGAUGCCCCUCUUUAGCUUCCCGUCUCCUCCUGCUUAAGCCAGCGCACCUCCCCGCCCCUGCCCCCUUCUAACCGUCCGUUUAACCCCUUUGUGCCCCCUG
(((((....((.(.(((((((..((.........))....))))))).)..))...)))))(((((.......((....))........(((.....))).........)))))...... ( -24.40, z-score =  -2.40, R)
>droSec1.super_24 625788 117 - 912625
UGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUCAGCU-CCCGUCUCCUCCUGCUUAAGCCAGCACCGCUCU-C-UCCCUGCCCACUUCUAACCAUUCGUUUAACCCCUUUGUGCCCCCCG
(((((....((.(.((((((((.((.........)).-.)))))))).)..))...)))))((((.((...-.-.....))........(((.....)))..........))))...... ( -27.60, z-score =  -2.90, R)
>droSim1.chrX 5943076 119 - 17042790
UGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUUAGCUCCCCGUCUCCUCCUGCUUAAGCCAGCACCGCUCUCC-CCCCUGCGCACUUCUAACCAUACGUUUAACCCCUUUGUGCCCCCCG
.(((.....)))..(((((((((((....(((.(((...............))).)))...)))))).)))))-.......((((.........................))))...... ( -29.97, z-score =  -3.43, R)
>consensus
UGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUUAGCU_CCCGUCUCCUCCUGCUUAAGCCAGCACCGCUCUCC_CCCCUGCCCACUUCUAACCAUACGUUUAACCCCUUUGUGCCCCCCG
(((((....((.(.((((((((.((.........))...)))))))).)..))...)))))((((.............................................))))...... (-24.17 = -24.28 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:23:38 2011