Locus 9272

Sequence ID dm3.chr3R
Location 5,462,767 – 5,462,874
Length 107
Max. P 0.983872
window12707 window12708

overview

Window 7

Location 5,462,767 – 5,462,874
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 60.90
Shannon entropy 0.73530
G+C content 0.60116
Mean single sequence MFE -38.16
Consensus MFE -14.60
Energy contribution -17.72
Covariance contribution 3.12
Combinations/Pair 1.46
Mean z-score -1.20
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.797462
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5462767 107 + 27905053
GUGGAUGUGGAGGAGGCGGAUGCGGAUGCGGAGGAGGUGGCAUUCGUACUGGCCCCUGGCGCAGCAGAAUUGCUCCCGCUACUGGUACUGCUAUCACGUCCGCCCGA
((((((((((((.((.(((.(((((((((.(......).))))))))))))(((..(((((.(((......)))..)))))..))).)).)).)))))))))).... ( -45.60, z-score =  -0.80, R)
>droSec1.super_0 4685928 101 - 21120651
GUGGAUGUGGAGGAGGCGGAUGCGGA------GGAGGUGGCAUUCGUACUGGCUCCUGCCGCAGCAGAAUUGCUCCCGCUGCUGUUGCUGCUAUCACGUCCGCCUGA
(((((((((((((((.(((.((((((------.(......).))))))))).)))))((.(((((((....((....))..))))))).))..)))))))))).... ( -48.00, z-score =  -2.29, R)
>droYak2.chr3R 9515806 95 + 28832112
GUGGAUGUGGAGGAGGCGGA------------GGUGGUGGCAUUCGUACUGGCUCCUGCCGCAGCAGAAUUGCUCCCGCUGCUGGUGCUGCUAUCACGUCCGCCGGA
..............((((((------------.(((((((((...((((((((....)))(((((.((.....))..))))).)))))))))))))).))))))... ( -46.30, z-score =  -2.08, R)
>droEre2.scaffold_4770 1611209 95 - 17746568
GUGGAUGUGGAGGAGGCGGA------------GGAUGUGGCAUUCGUACUGGCUCCUGCCGCAGCAGAAUUGCUCCCGCUGCUGUUGCUGCUAUCACGUCCGCCCGA
(((((((((((((((.(((.------------(((((...)))))...))).)))))((.(((((((....((....))..))))))).))..)))))))))).... ( -44.80, z-score =  -2.51, R)
>droAna3.scaffold_13340 9521547 89 - 23697760
GUGGAUGAGGAGUUAGCGUUUGGGUU------GGAGGCGUUGUUUCCAUUG-CCACUGGUGUUG--GAAUUGGUGCCGUUGCUGUCGCGACCCCCUGA---------
((((....((((.((((((((.....------..)))))))).))))....-)))).((..((.--.....))..))(((((....))))).......--------- ( -26.60, z-score =   0.17, R)
>anoGam1.chr2R 34899704 88 + 62725911
--------ACUGCUGACGGACGA---------AUUGUUGCCGCCGGUACCA--UCCGAUAGCCGCUUGAUAGAUUUCGCUACUACUGUAUGCGUGACACCCUUUGUG
--------...((((.((((...---------..((.((((...)))).))--)))).))))(((...........((((((....))).)))...........))) ( -17.65, z-score =   0.29, R)
>consensus
GUGGAUGUGGAGGAGGCGGAUG__________GGAGGUGGCAUUCGUACUGGCUCCUGCCGCAGCAGAAUUGCUCCCGCUGCUGUUGCUGCUAUCACGUCCGCCCGA
((((((((((.((.((((................(((.(.((.......)).).)))...(((((.(........).)))))...)))).)).)))))))))).... (-14.60 = -17.72 +   3.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,462,767 – 5,462,874
Length 107
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 60.90
Shannon entropy 0.73530
G+C content 0.60116
Mean single sequence MFE -32.85
Consensus MFE -13.74
Energy contribution -17.13
Covariance contribution 3.39
Combinations/Pair 1.32
Mean z-score -1.69
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983872
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5462767 107 - 27905053
UCGGGCGGACGUGAUAGCAGUACCAGUAGCGGGAGCAAUUCUGCUGCGCCAGGGGCCAGUACGAAUGCCACCUCCUCCGCAUCCGCAUCCGCCUCCUCCACAUCCAC
..(((((((.(((((.((.......(((((((((....)))))))))...((((((..........))).))).....)))).))).)))))))............. ( -38.40, z-score =  -1.10, R)
>droSec1.super_0 4685928 101 + 21120651
UCAGGCGGACGUGAUAGCAGCAACAGCAGCGGGAGCAAUUCUGCUGCGGCAGGAGCCAGUACGAAUGCCACCUCC------UCCGCAUCCGCCUCCUCCACAUCCAC
..(((((((.((....)).((....(((((((((....)))))))))((.(((((...(((....)))...))))------))))).)))))))............. ( -40.90, z-score =  -2.96, R)
>droYak2.chr3R 9515806 95 - 28832112
UCCGGCGGACGUGAUAGCAGCACCAGCAGCGGGAGCAAUUCUGCUGCGGCAGGAGCCAGUACGAAUGCCACCACC------------UCCGCCUCCUCCACAUCCAC
...((((((.(((...(((......(((((((((....)))))))))(((....)))........)))...))).------------)))))).............. ( -39.80, z-score =  -3.15, R)
>droEre2.scaffold_4770 1611209 95 + 17746568
UCGGGCGGACGUGAUAGCAGCAACAGCAGCGGGAGCAAUUCUGCUGCGGCAGGAGCCAGUACGAAUGCCACAUCC------------UCCGCCUCCUCCACAUCCAC
..(((((((.(.(((.(..(((...(((((((((....)))))))))(((....)))........)))..)))))------------)))))))............. ( -37.70, z-score =  -2.33, R)
>droAna3.scaffold_13340 9521547 89 + 23697760
---------UCAGGGGGUCGCGACAGCAACGGCACCAAUUC--CAACACCAGUGG-CAAUGGAAACAACGCCUCC------AACCCAAACGCUAACUCCUCAUCCAC
---------..(((((...(((...((....))........--........(.((-(..((....))..))).).------........)))...)))))....... ( -19.40, z-score =  -0.36, R)
>anoGam1.chr2R 34899704 88 - 62725911
CACAAAGGGUGUCACGCAUACAGUAGUAGCGAAAUCUAUCAAGCGGCUAUCGGA--UGGUACCGGCGGCAACAAU---------UCGUCCGUCAGCAGU--------
......((((....(((.(((....))))))..)))).....((.(((..((((--((((....))(....)...---------.))))))..))).))-------- ( -20.90, z-score =  -0.25, R)
>consensus
UCCGGCGGACGUGAUAGCAGCAACAGCAGCGGGAGCAAUUCUGCUGCGGCAGGAGCCAGUACGAAUGCCACCUCC__________CAUCCGCCUCCUCCACAUCCAC
...((((((................(((((((((....)))))))))....((((...(((....)))...))))............)))))).............. (-13.74 = -17.13 +   3.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:01:08 2011