Locus 1806

Sequence ID dm3.chr2L
Location 14,045,808 – 14,045,905
Length 97
Max. P 0.984633
window2485 window2486

overview

Window 5

Location 14,045,808 – 14,045,902
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 95.96
Shannon entropy 0.07177
G+C content 0.46170
Mean single sequence MFE -33.16
Consensus MFE -30.24
Energy contribution -30.64
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -2.75
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.17
SVM RNA-class probability 0.984633
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14045808 94 - 23011544
ACGACGUUCUUCUUUUGAGCGAGUGUGGCAGUGCUGGGUAUCCCAGUUGUACUGGGUGUGCAAAGUAUAACUGUUGUAUAAACGAUAAACGGCA
.((.(((((.......))))).(((..((((((((..(((((((((.....))))).))))..)))...)))))..)))..........))... ( -31.20, z-score =  -2.10, R)
>droSim1.chr2L 13802832 94 - 22036055
ACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUAUAACUGUUGGAUAACAGAUAAACGGCA
....(((((.......)))))......(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))). ( -35.30, z-score =  -3.53, R)
>droSec1.super_3 304096 94 - 7220098
ACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUAUACUGGGUGUGCAAAGUAUAACUGUUGGAUAACAGAUAAACGGCA
....(((((.......)))))......(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))). ( -35.30, z-score =  -3.77, R)
>droYak2.chr2L 14139034 94 - 22324452
ACGACGUUCUUCUUUUGAGCGACUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUGUAACUGUUGGAUAACAGAUAAACGGCA
....(((((.......)))))......(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))). ( -32.30, z-score =  -2.39, R)
>droEre2.scaffold_4929 15217171 94 + 26641161
ACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCCGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUGUAACUGUUGGAUAACAGAUAAACGGCA
....(((((.......)))))......(((((....(((((((((((((((((..(....)..))))))))))..)))))))......))))). ( -31.70, z-score =  -1.97, R)
>consensus
ACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUAUAACUGUUGGAUAACAGAUAAACGGCA
....(((((.......)))))......(((((....(((((((((((((((((..(....)..))))))))))..)))))))......))))). (-30.24 = -30.64 +   0.40)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,045,809 – 14,045,905
Length 96
Sequences 7
Columns 96
Reading direction reverse
Mean pairwise identity 82.24
Shannon entropy 0.32692
G+C content 0.48222
Mean single sequence MFE -31.70
Consensus MFE -12.08
Energy contribution -15.24
Covariance contribution 3.16
Combinations/Pair 1.04
Mean z-score -2.99
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.782204
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14045809 96 - 23011544
GGCACGACGUUCUUCUUUUGAGCGAGUGUGGCAGUGCUGGGUAUCCCAGUUGUACUGGGUGUGCAAAGUAUAACUGUUGUAUAAACGAUAAACGGC
.((.((.(((((.......))))).(((..((((((((..(((((((((.....))))).))))..)))...)))))..)))..........)))) ( -32.30, z-score =  -2.19, R)
>droSim1.chr2L 13802833 96 - 22036055
GGCACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUAUAACUGUUGGAUAACAGAUAAACGGC
.((((..(((((.......))))).)))).(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))) ( -38.20, z-score =  -4.12, R)
>droSec1.super_3 304097 96 - 7220098
GGCACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUAUACUGGGUGUGCAAAGUAUAACUGUUGGAUAACAGAUAAACGGC
.((((..(((((.......))))).)))).(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))) ( -38.20, z-score =  -4.41, R)
>droYak2.chr2L 14139035 96 - 22324452
GGCACGACGUUCUUCUUUUGAGCGACUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUGUAACUGUUGGAUAACAGAUAAACGGC
..((((.(((((.......)))))..))))(((((.(((.((((((((((((((((..(....)..))))))))))..)))))))))....))))) ( -33.20, z-score =  -2.29, R)
>droEre2.scaffold_4929 15217172 96 + 26641161
GGCACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCCGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUGUAACUGUUGGAUAACAGAUAAACGGC
.((((..(((((.......))))).)))).(((((....(((((((((((((((((..(....)..))))))))))..)))))))......))))) ( -34.60, z-score =  -2.45, R)
>dp4.chr4_group4 967734 73 + 6586962
GGCACGACGGGCAUCUUU--------UGUGG--GUGCUUGUUG-------------GUGUGUGAAAAGUGUAACUGUUGGAUAACAGAUAAACGGC
.(((((((((((((((..--------...))--))))))))).-------------)))).......((.((.(((((....))))).)).))... ( -22.70, z-score =  -2.72, R)
>droPer1.super_16 1330969 73 - 1990440
GGCACGACGGGCAUCUUU--------UGUGG--GUGCUUGUUG-------------GUGUGUGAAAAGUGUAACUGUUGGAUAACAGAUAAACGGC
.(((((((((((((((..--------...))--))))))))).-------------)))).......((.((.(((((....))))).)).))... ( -22.70, z-score =  -2.72, R)
>consensus
GGCACGACGUUCUUCUUUUGAGCGAGUGUGGCUGUGCUGGUUAUCCCAGUUGUACUGGGUGUGCAAAGUGUAACUGUUGGAUAACAGAUAAACGGC
(.((((.(((((.......)))))..)))).)...((((.....(((((.....)))))..............(((((....))))).....)))) (-12.08 = -15.24 +   3.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:39:12 2011