Locus 8635

Sequence ID dm3.chr3R
Location 46,630 – 46,745
Length 115
Max. P 0.984223
window11854 window11855

overview

Window 4

Location 46,630 – 46,745
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.95
Shannon entropy 0.44372
G+C content 0.59963
Mean single sequence MFE -38.60
Consensus MFE -25.82
Energy contribution -27.78
Covariance contribution 1.96
Combinations/Pair 1.04
Mean z-score -2.08
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.16
SVM RNA-class probability 0.984223
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 46630 115 + 27905053
GAUAAGAGCACAGCGCCACAUAUCGAUGGUGAGCCAGGCCUGCGCGAUCAAGCUAUCGGAGCAAACUGAUUCCGCUCCACCCUGCUGAGGAACCUGCUCCUCCGCAGCCCUGGAU-----
.............(((((........)))))..(((((.(((((......(((....(((((...........))))).....)))(((((......)))))))))).)))))..----- ( -38.90, z-score =  -1.07, R)
>droEre2.scaffold_4770 404958 97 + 17746568
-----------------------CGAUGGCGCGCCAGGGCUGCGGCAUCAAGUUAUCGGAGCCAACUGAUUCCGCUCCCACCUGCUGCCGAGCCUGCACCUCCGCAGCCCUGCACAUUCU
-----------------------.......(.((.((((((((((((.((.((....(((((...........))))).)).)).))))(((.......))).)))))))))).)..... ( -36.00, z-score =  -1.05, R)
>droYak2.chr3R 409981 97 + 28832112
-----------------------CGAUUGUUCGCCAGGGCUACGGGAUCAAGUUAUCGGAGCCAACAGCUUCCGCUCCCACCUGCUGCCGAACCUGGACCUCCGCAGCCCUGCACAUUCA
-----------------------.((.(((..((.((((((.((((.((.((...(((((((....(((....))).......))).))))..)).)).).))).))))))))))).)). ( -32.20, z-score =  -1.41, R)
>droSec1.super_6 174439 114 + 4358794
GAUAAGAUCACAGCACCAAAUAUCGAUGUUGAGCCAGGGCUGGGCGAUCAAGCUAUCGGAGCAAACUGAUUCCGCUCCACCCCGCUGAG-AACCAGCACCUCCGCAGCCCUGGAU-----
..........(((((.(.......).)))))..(((((((((((.(...........(((((...........))))).....((((..-...))))..).)).)))))))))..----- ( -39.60, z-score =  -2.59, R)
>droSim1.chr3R 129208 114 + 27517382
GAUAAGAUCACAGCACCAAAUACCGAUGUUGAGCCAGGGCUGCGCGAUCAAGCUAUCGGAGCAAACUGGUUCCGCUCCGCCCCGCUGAG-AACCAGCACCUCCGCAGCCCUGGAU-----
..........(((((.(.......).)))))..((((((((((((......))....((((....((((((((((........)).).)-))))))...))))))))))))))..----- ( -46.30, z-score =  -4.28, R)
>consensus
GAUAAGA_CACAGC_CCA_AUA_CGAUGGUGAGCCAGGGCUGCGCGAUCAAGCUAUCGGAGCAAACUGAUUCCGCUCCACCCUGCUGAGGAACCUGCACCUCCGCAGCCCUGGAU_____
.................................(((((((((((......(((....(((((...........))))).....)))((((........)))))))))))))))....... (-25.82 = -27.78 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 46,630 – 46,745
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.95
Shannon entropy 0.44372
G+C content 0.59963
Mean single sequence MFE -47.48
Consensus MFE -30.80
Energy contribution -33.12
Covariance contribution 2.32
Combinations/Pair 1.11
Mean z-score -2.07
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.05
SVM RNA-class probability 0.980530
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 46630 115 - 27905053
-----AUCCAGGGCUGCGGAGGAGCAGGUUCCUCAGCAGGGUGGAGCGGAAUCAGUUUGCUCCGAUAGCUUGAUCGCGCAGGCCUGGCUCACCAUCGAUAUGUGGCGCUGUGCUCUUAUC
-----..(((((.(((((((((((....))))))..((((.(((((((((.....)))))))))....))))....))))).))))).........((((...(((.....)))..)))) ( -45.50, z-score =  -0.44, R)
>droEre2.scaffold_4770 404958 97 - 17746568
AGAAUGUGCAGGGCUGCGGAGGUGCAGGCUCGGCAGCAGGUGGGAGCGGAAUCAGUUGGCUCCGAUAACUUGAUGCCGCAGCCCUGGCGCGCCAUCG-----------------------
.....((((((((((((.(((.......)))((((.(((((.(((((.((.....)).)))))....))))).)))))))))))).)))).......----------------------- ( -48.10, z-score =  -2.27, R)
>droYak2.chr3R 409981 97 - 28832112
UGAAUGUGCAGGGCUGCGGAGGUCCAGGUUCGGCAGCAGGUGGGAGCGGAAGCUGUUGGCUCCGAUAACUUGAUCCCGUAGCCCUGGCGAACAAUCG-----------------------
.((.(((.(((((((((((.((((.((..((((.(((....((.(((....))).)).)))))))...)).)))))))))))))))....))).)).----------------------- ( -49.20, z-score =  -4.19, R)
>droSec1.super_6 174439 114 - 4358794
-----AUCCAGGGCUGCGGAGGUGCUGGUU-CUCAGCGGGGUGGAGCGGAAUCAGUUUGCUCCGAUAGCUUGAUCGCCCAGCCCUGGCUCAACAUCGAUAUUUGGUGCUGUGAUCUUAUC
-----..((((((((((.((((.......)-))).)).((((((((((((.....))))))))(((......)))))))))))))))(.((.((((((...)))))).)).)........ ( -44.20, z-score =  -1.14, R)
>droSim1.chr3R 129208 114 - 27517382
-----AUCCAGGGCUGCGGAGGUGCUGGUU-CUCAGCGGGGCGGAGCGGAACCAGUUUGCUCCGAUAGCUUGAUCGCGCAGCCCUGGCUCAACAUCGGUAUUUGGUGCUGUGAUCUUAUC
-----..((((((((((((((..(((((((-((..((........)))))))))))...))))....((......)))))))))))).....((.((((((...))))))))........ ( -50.40, z-score =  -2.33, R)
>consensus
_____AUCCAGGGCUGCGGAGGUGCAGGUUCCUCAGCAGGGGGGAGCGGAAUCAGUUUGCUCCGAUAGCUUGAUCGCGCAGCCCUGGCUCACCAUCG_UAU_UGG_GCUGUG_UCUUAUC
.......(((((((((((((((........))))..((((.(((((((((.....)))))))))....))))....)))))))))))................................. (-30.80 = -33.12 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:49:15 2011