Locus 2933

Sequence ID dm3.chr2RHet
Location 2,583,195 – 2,583,251
Length 56
Max. P 0.989856
window4030 window4031

overview

Window 0

Location 2,583,195 – 2,583,251
Length 56
Sequences 7
Columns 58
Reading direction forward
Mean pairwise identity 64.07
Shannon entropy 0.70680
G+C content 0.65175
Mean single sequence MFE -22.69
Consensus MFE -14.78
Energy contribution -15.09
Covariance contribution 0.31
Combinations/Pair 1.38
Mean z-score -1.03
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.39
SVM RNA-class probability 0.989856
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 2583195 56 + 3288761
GACUUAGGCUAA--UCCGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGCGU
......((....--.))((((.(((.((((((.((.....)).)))))).))).)))) ( -24.80, z-score =  -0.54, R)
>droSim1.chr3h_random 107942 54 - 1452968
--CUUAGCCUAA--GUCGAAGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGC
--..........--((((.......(((((((.(((...))).)))))))..)))).. ( -22.50, z-score =  -1.28, R)
>droSec1.super_160 33429 54 - 40611
--CUUAGCCUAA--GUCGAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGC
--.....(((..--....))).((.(((((((.(((...))).))))))).))..... ( -23.50, z-score =  -1.19, R)
>droYak2.chrX_random 539170 56 + 1802292
GUCGAAGGCUAA--GCCGCGUAGCUGCGCUGCCGGAUACGACAGCAGCGGAGCGGCUC
...........(--(((((....((((((((.((....)).)))).)))).)))))). ( -25.30, z-score =  -1.23, R)
>droEre2.scaffold_4845 338015 54 + 22589142
---UUAGCCUAGA-GAUGCGCAACUUCGCUGCGAGAGAGACCGGCAGCGGAGCGCCUG
---..........-...((((...((((((((..(......).))))))))))))... ( -17.80, z-score =  -0.45, R)
>droAna3.scaffold_13230 2044947 51 - 3602488
-----AACUUAC--GAUACAAGACUGCGCUGCUGCAGAGGGCAGCGGCUGAGCGUCAG
-----.......--.......(((.((((((((((.....))))))))...))))).. ( -19.00, z-score =  -1.55, R)
>droPer1.super_81 267500 58 - 277874
UUUGUAAGCCAAAAGCCGCGGAGCUGCGCUGCCAGUGACGCCGGCAGCGGAGCGGCAG
.......(((.....(....).(((.(((((((.(.....).))))))).)))))).. ( -25.90, z-score =  -0.96, R)
>consensus
__CUUAGCCUAA__GCCGCGGAGCUGCGCUGCCGGAGACGCCAGCAGCGGAGCGGCGC
..............(((((.......((((((.((.....)).))))))..))))).. (-14.78 = -15.09 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 2,583,195 – 2,583,251
Length 56
Sequences 7
Columns 58
Reading direction reverse
Mean pairwise identity 64.07
Shannon entropy 0.70680
G+C content 0.65175
Mean single sequence MFE -21.80
Consensus MFE -14.42
Energy contribution -14.53
Covariance contribution 0.11
Combinations/Pair 1.27
Mean z-score -0.87
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983916
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 2583195 56 - 3288761
ACGCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCGGA--UUAGCCUAAGUC
.(((.(((.(((((((((.....))))))))).)))...)))..--............ ( -24.60, z-score =  -1.39, R)
>droSim1.chr3h_random 107942 54 + 1452968
GCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCUUCGAC--UUAGGCUAAG--
..(((((.(((((((.(((...))).))))))).)).....)))--..........-- ( -22.50, z-score =  -0.50, R)
>droSec1.super_160 33429 54 + 40611
GCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUCGAC--UUAGGCUAAG--
..(((((.(((((((.(((...))).))))))).)).....)))--..........-- ( -22.50, z-score =  -0.35, R)
>droYak2.chrX_random 539170 56 - 1802292
GAGCCGCUCCGCUGCUGUCGUAUCCGGCAGCGCAGCUACGCGGC--UUAGCCUUCGAC
(((((((...((((((((((....)))))..)))))...)))))--)).......... ( -25.70, z-score =  -2.09, R)
>droEre2.scaffold_4845 338015 54 - 22589142
CAGGCGCUCCGCUGCCGGUCUCUCUCGCAGCGAAGUUGCGCAUC-UCUAGGCUAA---
...((((..((((((.((.....)).)))))).....))))...-..........--- ( -18.20, z-score =  -0.50, R)
>droAna3.scaffold_13230 2044947 51 + 3602488
CUGACGCUCAGCCGCUGCCCUCUGCAGCAGCGCAGUCUUGUAUC--GUAAGUU-----
(((.((((.....(((((.....)))))))))))).........--.......----- ( -14.00, z-score =  -0.15, R)
>droPer1.super_81 267500 58 + 277874
CUGCCGCUCCGCUGCCGGCGUCACUGGCAGCGCAGCUCCGCGGCUUUUGGCUUACAAA
((((.(((.(((((((((.....))))))))).)))...))))..((((.....)))) ( -25.10, z-score =  -1.12, R)
>consensus
CCGCCGCUCCGCUGCUGGCGUCUCCGGCAGCGCAGCUCCGCGGC__UUAGGCUAAG__
.....(((.((((((.((.....)).)))))).)))...................... (-14.42 = -14.53 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:00:34 2011