Locus 6727

Sequence ID dm3.chr3L
Location 9,213,090 – 9,213,185
Length 95
Max. P 0.934866
window9258 window9259

overview

Window 8

Location 9,213,090 – 9,213,185
Length 95
Sequences 10
Columns 97
Reading direction forward
Mean pairwise identity 89.83
Shannon entropy 0.21432
G+C content 0.50317
Mean single sequence MFE -33.05
Consensus MFE -22.35
Energy contribution -22.15
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -2.70
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934866
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9213090 95 + 24543557
AACGUUGAUUGGCCAGCGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC--UUCUCCCCAGUCAACUGCA
...(((((((((((......)).....................(((((((((((..((.....))..)))))))))--))....))))))))).... ( -33.30, z-score =  -2.62, R)
>droSim1.chr3L 8610161 95 + 22553184
AACGUUGAUUGGCCAGCGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC--UUCUCCCCAGUCAACUGCA
...(((((((((((......)).....................(((((((((((..((.....))..)))))))))--))....))))))))).... ( -33.30, z-score =  -2.62, R)
>droSec1.super_0 1469378 95 + 21120651
AACGUUGAUUGGCCAGCGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC--UUCUCCCCAGUCAACUGCA
...(((((((((((......)).....................(((((((((((..((.....))..)))))))))--))....))))))))).... ( -33.30, z-score =  -2.62, R)
>droYak2.chr3L 21491399 95 - 24197627
AACGUUGAUUGGCCAGCGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC--UUUUCCCCAGUCAACUGCA
...(((((((((((......))....................((((((((((((..((.....))..)))))))))--)))...))))))))).... ( -34.20, z-score =  -3.02, R)
>droEre2.scaffold_4784 20931931 94 - 25762168
AACGUUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC---UUUUCCCAGUCAACUGCA
...(((((((((((......))....................((((((((((((..((.....))..)))))))))---)))..))))))))).... ( -34.20, z-score =  -3.40, R)
>droAna3.scaffold_13337 19613364 97 + 23293914
AAUGUUGAUUGGCCAGCGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGCAUUUCGCCCCAGUCAGCAGCA
..((((((((((...(((..((...............))......(((((((((..((.....))..)))))))))....))).))))))))))... ( -35.26, z-score =  -3.11, R)
>droWil1.scaffold_181024 1298824 97 + 1751709
AACGUUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGUUUUUGUGCCAACUCUUCUGCA
........(((((....)))))....(((((.......(((.((((((((((((..((.....))..)))))))))))).)))......)))))... ( -30.32, z-score =  -1.77, R)
>droGri2.scaffold_15110 2017691 96 + 24565398
CACAUUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUUAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC-CUUUUGCCAACUCUAGCAAA
...........((.((((..((....................((((((((((((..((.....))..)))))))))-)))...))..)))).))... ( -30.80, z-score =  -2.96, R)
>droVir3.scaffold_13049 811130 96 + 25233164
CACGUUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUUAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC-CUUUUGCCAACUCUCGCCCA
..........(((.((((..((....................((((((((((((..((.....))..)))))))))-)))...))..)))).))).. ( -33.20, z-score =  -2.75, R)
>droMoj3.scaffold_6680 24318716 96 - 24764193
CGCGCUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUUAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC-CUGCUGCCAACUCUUUUCAG
....(((((((((....)))))..(((((.(((.....((...(((((((((((..((.....))..)))))))))-))..))..)))))))))))) ( -32.60, z-score =  -2.16, R)
>consensus
AACGUUGAUUGGCCAGAGCCGGAAAAAGAAGUUAUAACCAUCAAGGCGGAAACGGAUGUGGCACAGACGUUUCCGC__UUCUCCCCAGUCAACUGCA
....(((((.(((....)))((...............))))))).(((((((((..((.....))..)))))))))..................... (-22.35 = -22.15 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 9,213,090 – 9,213,185
Length 95
Sequences 10
Columns 97
Reading direction reverse
Mean pairwise identity 89.83
Shannon entropy 0.21432
G+C content 0.50317
Mean single sequence MFE -33.28
Consensus MFE -20.95
Energy contribution -21.05
Covariance contribution 0.10
Combinations/Pair 1.00
Mean z-score -2.65
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.862686
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9213090 95 - 24543557
UGCAGUUGACUGGGGAGAA--GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACGUU
....(((((...(((((((--(.(((((((..((.....))..)))))))(((.....)))........))))))))(((....)))..)))))... ( -32.50, z-score =  -1.85, R)
>droSim1.chr3L 8610161 95 - 22553184
UGCAGUUGACUGGGGAGAA--GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACGUU
....(((((...(((((((--(.(((((((..((.....))..)))))))(((.....)))........))))))))(((....)))..)))))... ( -32.50, z-score =  -1.85, R)
>droSec1.super_0 1469378 95 - 21120651
UGCAGUUGACUGGGGAGAA--GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACGUU
....(((((...(((((((--(.(((((((..((.....))..)))))))(((.....)))........))))))))(((....)))..)))))... ( -32.50, z-score =  -1.85, R)
>droYak2.chr3L 21491399 95 + 24197627
UGCAGUUGACUGGGGAAAA--GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACGUU
....(((((...(((((((--(.(((((((..((.....))..)))))))(((.....)))........))))))))(((....)))..)))))... ( -32.40, z-score =  -2.14, R)
>droEre2.scaffold_4784 20931931 94 + 25762168
UGCAGUUGACUGGGAAAA---GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCUCUGGCCAAUCAACGUU
....(((((..(((((((---(.(((((((..((.....))..)))))))(((.....)))........))))))))(((....)))..)))))... ( -32.60, z-score =  -3.01, R)
>droAna3.scaffold_13337 19613364 97 - 23293914
UGCUGCUGACUGGGGCGAAAUGCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACAUU
.(((.(.....).))).....(((((((((..((.....))..))))))))).(((((((...............))(((....))).))))).... ( -27.86, z-score =  -0.61, R)
>droWil1.scaffold_181024 1298824 97 - 1751709
UGCAGAAGAGUUGGCACAAAAACGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCUCUGGCCAAUCAACGUU
...(((((.((.((((((...(((....))).))))))))..(((((........)))))......)))))......(((....))).......... ( -28.40, z-score =  -1.94, R)
>droGri2.scaffold_15110 2017691 96 - 24565398
UUUGCUAGAGUUGGCAAAAG-GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUAAUGGUUAUAACUUCUUUUUCCGGCUCUGGCCAAUCAAUGUG
...(((((((((((...(((-(((((((((..((.....))..))))))))))))...(((....))).......)))))))))))........... ( -38.80, z-score =  -5.66, R)
>droVir3.scaffold_13049 811130 96 - 25233164
UGGGCGAGAGUUGGCAAAAG-GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUAAUGGUUAUAACUUCUUUUUCCGGCUCUGGCCAAUCAACGUG
..(((.((((((((...(((-(((((((((..((.....))..))))))))))))...(((....))).......)))))))).))).......... ( -40.90, z-score =  -4.77, R)
>droMoj3.scaffold_6680 24318716 96 + 24764193
CUGAAAAGAGUUGGCAGCAG-GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUAAUGGUUAUAACUUCUUUUUCCGGCUCUGGCCAAUCAGCGCG
((((((((((.(((((.(((-(((....))))))))))).....(((...(((.....)))...)))))))))....(((....)))..)))).... ( -34.30, z-score =  -2.79, R)
>consensus
UGCAGUUGACUGGGGAGAA__GCGGAAACGUCUGUGCCACAUCCGUUUCCGCCUUGAUGGUUAUAACUUCUUUUUCCGGCGCUGGCCAAUCAACGUU
............((.......(((((((((..((.....))..)))))))))......(((....))).......))(((....))).......... (-20.95 = -21.05 +   0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:13:18 2011