Locus 10630

Sequence ID dm3.chr3R
Location 15,189,217 – 15,189,317
Length 100
Max. P 0.996575
window14619 window14620

overview

Window 9

Location 15,189,217 – 15,189,317
Length 100
Sequences 12
Columns 119
Reading direction forward
Mean pairwise identity 73.46
Shannon entropy 0.55709
G+C content 0.51494
Mean single sequence MFE -36.38
Consensus MFE -23.23
Energy contribution -22.76
Covariance contribution -0.47
Combinations/Pair 1.36
Mean z-score -2.08
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.95
SVM RNA-class probability 0.996575
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15189217 100 + 27905053
--UUUGUGUGAUGUUCACACUUUAGGAAA-GUUUGGUUUG-GGCCACG----CAGGGCC-GCCAGGUGCGAAGACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
--...((((((((..((((((((......-...((((...-((((...----...))))-))))((.((((.....----------...))))))))))))))..))))).)))..... ( -38.00, z-score =  -2.10, R)
>droPer1.super_6 5022110 107 + 6141320
--UCCCAGUGAUGUUCACACUUUACGAAAAGUUUGGUUUGCGGCCUCAGCCCCACUGCCCGUAAGGUGCUAAAACA----------UUGUCGCCCCAAGUGUGGCCAUCAUCAUCAUCA
--.....((((((..(((((((..(((.((.((((((((((((...(((.....))).))))))...))))))...----------)).)))....)))))))..))))))........ ( -30.80, z-score =  -2.18, R)
>dp4.chr2 29651123 106 + 30794189
--UCCCAGUGAUGUUCACACUUUACGAAA-GUUUGGUUUGCGGCCUCAGCCCCACUGCCCGUAAGGUGCUAAAACA----------UUGUCGCCCCAAGUGUGGCCAUCAUCAUCAUCA
--.....((((((..(((((...((....-))((((...(((((............((((....)).)).......----------..))))).)))))))))..))))))........ ( -32.10, z-score =  -2.64, R)
>droAna3.scaffold_13340 8496596 96 - 23697760
----UUUGUGAUGUUCACACUUUAGGAAA-GUUUGGUUUUGGCCCUCU-----GAGGCC-GGGAGGUGCGAAAACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAU--
----...((((((..(((((((..((...-.....(((((.(((((((-----......-.))))).)).))))).----------......))..)))))))..))))))......-- ( -38.06, z-score =  -3.39, R)
>droEre2.scaffold_4770 11301127 99 - 17746568
--UUUGUGUGAUGUUCACACUUUAGGAAA-GUUUGGUUUG-GGU-GCG----CAGGGCC-GCGAGGUGCGAAGACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
--...((((((((..(((((((..((...-.....((((.-...-.((----(...(((-....)))))).)))).----------......))..)))))))..))))).)))..... ( -34.06, z-score =  -1.24, R)
>droYak2.chr3R 3911179 100 + 28832112
--CUUGUGUGAUGUUCACACUUUAGGAAA-GUUUGGUUUG-GACCACG----CAGGGCC-GCGAGGUGCGAAGACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
--...((((((((..((((((((......-((.((((...-.)))).)----).((((.-((((.((......)).----------)))).))))))))))))..))))).)))..... ( -37.30, z-score =  -2.08, R)
>droSec1.super_25 248625 100 - 827797
--UUUGUGUGAUGUUCACACUUUUGGAAA-GUUUGGUUUG-GGCCACG----CAGGGCC-GCGAGGUGCGAAGACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
--.(..(((((((.(((.((((.....))-)).)))....-(((((((----(.((((.-((((.((......)).----------)))).))))...))))))))..))))).))..) ( -37.40, z-score =  -1.78, R)
>droSim1.chr3R 21227945 100 - 27517382
--UUUGUGUGAUGUUCACACUUUAGGAAA-GUUUGGUUUG-GGCCACG----CAGGGCC-GCGAGGUGCGAAGACA----------UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
--...((((((((..((((((((......-((.((((...-.)))).)----).((((.-((((.((......)).----------)))).))))))))))))..))))).)))..... ( -37.70, z-score =  -2.09, R)
>droVir3.scaffold_13047 2779955 116 - 19223366
CUGCCGGUUGAUGUUCACACUUUAGGAAA-GUUGGUUUUCAGGGCCAAUGUUUUGUGGCCGCGAGGUGCGAAAACAGUUUGCAACGUUGUCGCCCGAAGUGUGGCCAUCGUCACCGA--
....(((((((((..((((((((..((((-(....))))).(((((((((((.....(((....)))(((((.....))))))))))))..))))))))))))..)))))..)))).-- ( -46.30, z-score =  -2.82, R)
>droMoj3.scaffold_6540 21387936 116 - 34148556
UGUGAGGCUGAUGUUCACACUUUAGGAAA-GUUGGUUUUCAGGGCCGUCGCUAUCUGGCCGGGAGGUGCGAAAACAGUUUGCAACGUUGUCGCCCAAAGUGUGGCCAUCGUCACCGA--
.((((...(((((..((((((((......-........((..(((((........)))))..))((.((((.(((.((.....))))).))))))))))))))..)))))))))...-- ( -39.00, z-score =  -0.48, R)
>droGri2.scaffold_15116 429877 104 - 1808639
CCACUUGCUGAUGUUCACACUUUAGGAAA-GUUGGUUUUCAGGGCCGC--------------GAGGUGCGAAAACAGUUUGCAGUGUUGUCGCCCAAAGUGUGGCCAUCAUCACCGAAA
.....((.(((((..((((((((..((((-(....))))).((((.((--------------((.(((((((.....)))))).).)))).))))))))))))..))))).))...... ( -37.90, z-score =  -2.50, R)
>droWil1.scaffold_181130 12693020 100 - 16660200
------CUUGAUGUUCACACUUUACGAAA-GUUAGUUUUCAGAGGCCC------------GUAAGGUGCGAAAACUGUUUUCAACAUUGUCGCCUGAAGUGUGGCCCUCGUCAUCAGCG
------..(((((.(((((((((((....-))((((((((....((((------------....)).))))))))))..................)))))))))....)))))...... ( -28.00, z-score =  -1.62, R)
>consensus
__UUUGUGUGAUGUUCACACUUUAGGAAA_GUUUGGUUUG_GGCCACG____CAGGGCC_GCGAGGUGCGAAAACA__________UUGUCGCCCGAAGUGUGGCCAUCAUCAUCAUGG
........(((((..((((((((..........((((.....))))..................((.((((.((............)).))))))))))))))..)))))......... (-23.23 = -22.76 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,189,217 – 15,189,317
Length 100
Sequences 12
Columns 119
Reading direction reverse
Mean pairwise identity 73.46
Shannon entropy 0.55709
G+C content 0.51494
Mean single sequence MFE -32.37
Consensus MFE -16.16
Energy contribution -16.75
Covariance contribution 0.59
Combinations/Pair 1.11
Mean z-score -2.12
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.23
SVM RNA-class probability 0.986161
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15189217 100 - 27905053
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUCUUCGCACCUGGC-GGCCCUG----CGUGGCC-CAAACCAAAC-UUUCCUAAAGUGUGAACAUCACACAAA--
...((.((.(((((..(((((((..(((((...----------.....))))...(((.-((((...----...))))-....)))...-....)..)))))))..)))))))))..-- ( -32.20, z-score =  -2.16, R)
>droPer1.super_6 5022110 107 - 6141320
UGAUGAUGAUGAUGGCCACACUUGGGGCGACAA----------UGUUUUAGCACCUUACGGGCAGUGGGGCUGAGGCCGCAAACCAAACUUUUCGUAAAGUGUGAACAUCACUGGGA--
.........(((((..(((((((...((((.((----------.((((..((.((....))))..((.(((....))).))....)))))).)))).)))))))..)))))......-- ( -33.70, z-score =  -1.21, R)
>dp4.chr2 29651123 106 - 30794189
UGAUGAUGAUGAUGGCCACACUUGGGGCGACAA----------UGUUUUAGCACCUUACGGGCAGUGGGGCUGAGGCCGCAAACCAAAC-UUUCGUAAAGUGUGAACAUCACUGGGA--
.........(((((..(((((((((.(((....----------.((((((((.(((.((.....))))))))))))))))...))..((-....)).)))))))..)))))......-- ( -33.40, z-score =  -1.14, R)
>droAna3.scaffold_13340 8496596 96 + 23697760
--AUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUUUUCGCACCUCCC-GGCCUC-----AGAGGGCCAAAACCAAAC-UUUCCUAAAGUGUGAACAUCACAAA----
--....((.(((((..(((((((..(((((...----------.....)))).......-(((((.-----...)))))..........-....)..)))))))..)))))))..---- ( -32.50, z-score =  -3.33, R)
>droEre2.scaffold_4770 11301127 99 + 17746568
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUCUUCGCACCUCGC-GGCCCUG----CGC-ACC-CAAACCAAAC-UUUCCUAAAGUGUGAACAUCACACAAA--
...((.((.(((((..(((((((..(((((...----------.....)))).....((-(......----)))-...-..........-....)..)))))))..)))))))))..-- ( -28.10, z-score =  -2.43, R)
>droYak2.chr3R 3911179 100 - 28832112
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUCUUCGCACCUCGC-GGCCCUG----CGUGGUC-CAAACCAAAC-UUUCCUAAAGUGUGAACAUCACACAAG--
...((.((.(((((..(((((((..(((((...----------.....))))(((.(((-(....))----)).))).-..........-....)..)))))))..)))))))))..-- ( -32.70, z-score =  -2.74, R)
>droSec1.super_25 248625 100 + 827797
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUCUUCGCACCUCGC-GGCCCUG----CGUGGCC-CAAACCAAAC-UUUCCAAAAGUGUGAACAUCACACAAA--
...((.(((((..((((((.(...(((((((..----------.)))..(((.....))-))))).)----.))))))-.....((.((-((.....)))).))..)))))))....-- ( -31.30, z-score =  -2.20, R)
>droSim1.chr3R 21227945 100 + 27517382
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA----------UGUCUUCGCACCUCGC-GGCCCUG----CGUGGCC-CAAACCAAAC-UUUCCUAAAGUGUGAACAUCACACAAA--
...((.((.(((((..(((((((..(((((...----------(((....)))..))))-((((...----...))))-..........-....)..)))))))..)))))))))..-- ( -31.60, z-score =  -2.50, R)
>droVir3.scaffold_13047 2779955 116 + 19223366
--UCGGUGACGAUGGCCACACUUCGGGCGACAACGUUGCAAACUGUUUUCGCACCUCGCGGCCACAAAACAUUGGCCCUGAAAACCAAC-UUUCCUAAAGUGUGAACAUCAACCGGCAG
--(((((...((((..(((((((..((((((...))))).....((((((((.....))(((((........)))))..))))))....-....)..)))))))..)))).)))))... ( -41.80, z-score =  -3.81, R)
>droMoj3.scaffold_6540 21387936 116 + 34148556
--UCGGUGACGAUGGCCACACUUUGGGCGACAACGUUGCAAACUGUUUUCGCACCUCCCGGCCAGAUAGCGACGGCCCUGAAAACCAAC-UUUCCUAAAGUGUGAACAUCAGCCUCACA
--..(((...((((..((((((((((((((.((((........)))).))))...((..((((..........))))..))........-....))))))))))..)))).)))..... ( -37.70, z-score =  -2.35, R)
>droGri2.scaffold_15116 429877 104 + 1808639
UUUCGGUGAUGAUGGCCACACUUUGGGCGACAACACUGCAAACUGUUUUCGCACCUC--------------GCGGCCCUGAAAACCAAC-UUUCCUAAAGUGUGAACAUCAGCAAGUGG
...((.(..(((((..((((((((((((((.((((........)))).)))).....--------------........((((......-))))))))))))))..)))))...).)). ( -30.90, z-score =  -1.52, R)
>droWil1.scaffold_181130 12693020 100 + 16660200
CGCUGAUGACGAGGGCCACACUUCAGGCGACAAUGUUGAAAACAGUUUUCGCACCUUAC------------GGGCCUCUGAAAACUAAC-UUUCGUAAAGUGUGAACAUCAAG------
..........((.(..(((((((...((((....(((......(((((((((.((....------------))))....))))))))))-..)))).)))))))..).))...------ ( -22.50, z-score =  -0.06, R)
>consensus
CCAUGAUGAUGAUGGCCACACUUCGGGCGACAA__________UGUUUUCGCACCUCGC_GGCCCUG____CGGGGCC_CAAACCAAAC_UUUCCUAAAGUGUGAACAUCACACAAA__
..........((((..(((((((.((((((..................)))).))..................((.........))...........)))))))..))))......... (-16.16 = -16.75 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:36 2011