Locus 10190

Sequence ID dm3.chr3R
Location 12,031,903 – 12,031,954
Length 51
Max. P 0.852168
window14011 window14012

overview

Window 1

Location 12,031,903 – 12,031,954
Length 51
Sequences 9
Columns 56
Reading direction forward
Mean pairwise identity 68.58
Shannon entropy 0.63390
G+C content 0.52823
Mean single sequence MFE -17.43
Consensus MFE -5.12
Energy contribution -5.14
Covariance contribution 0.03
Combinations/Pair 1.67
Mean z-score -2.23
Structure conservation index 0.29
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.852168
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12031903 51 + 27905053
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA-----
.(((((((....)))))))..((((((((((.........))).)))))))----- ( -22.40, z-score =  -4.07, R)
>droPer1.super_6 606318 50 + 6141320
------ACAAGUGUCCGUUAGACGAGUGUUAAUGAAAAGCUGAGCACCGACAUCGG
------....(((((((.....)).(((((..(....)....))))).)))))... (  -8.10, z-score =   0.30, R)
>dp4.chr2 25278400 50 + 30794189
------ACUAGUGUCCGUUAGACGAGUGUUAAUGAAAAGCUGAGCACCGACAUCGG
------.(..(((((((.....)).(((((..(....)....))))).)))))..) (  -9.80, z-score =  -0.33, R)
>droAna3.scaffold_12911 2853468 56 - 5364042
GAGCGGACAAGCGCCCGUUAGCCGGGUGCUAAUAAAAAGCUGAACACCCGGGACGA
.(((((........)))))..(((((((................)))))))..... ( -17.49, z-score =  -0.99, R)
>droEre2.scaffold_4770 11555488 51 + 17746568
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA-----
.(((((((....)))))))..((((((((((.........))).)))))))----- ( -22.40, z-score =  -4.07, R)
>droYak2.chr3R 14432523 51 - 28832112
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA-----
.(((((((....)))))))..((((((((((.........))).)))))))----- ( -22.40, z-score =  -4.07, R)
>droSec1.super_12 6647 51 - 2123299
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA-----
.(((((((....)))))))..((((((((((.........))).)))))))----- ( -22.40, z-score =  -4.07, R)
>droSim1.chr3R 18073112 51 - 27517382
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA-----
.(((((((....)))))))..((((((((((.........))).)))))))----- ( -22.40, z-score =  -4.07, R)
>droGri2.scaffold_14906 13627941 52 - 14172833
---AGGCCUCGCACUGAUUUCUUAGCAGCCAA-AGACCGAUAGGCGUUGCGCUCAG
---..((..(((.(((...((((........)-)))....))))))..))...... (  -9.50, z-score =   1.32, R)
>consensus
GAGCGGACAAGUGUCCGUUAGUCGGGUGCUAAUAAAAACCUGGACACCCGA_____
.........((..((((.....))))..)).......................... ( -5.12 =  -5.14 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,031,903 – 12,031,954
Length 51
Sequences 9
Columns 56
Reading direction reverse
Mean pairwise identity 68.58
Shannon entropy 0.63390
G+C content 0.52823
Mean single sequence MFE -15.56
Consensus MFE -5.49
Energy contribution -5.25
Covariance contribution -0.23
Combinations/Pair 2.00
Mean z-score -1.76
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.797048
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12031903 51 - 27905053
-----UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
-----((((((((..............))))))))....(((((....)))))... ( -18.94, z-score =  -3.21, R)
>droPer1.super_6 606318 50 - 6141320
CCGAUGUCGGUGCUCAGCUUUUCAUUAACACUCGUCUAACGGACACUUGU------
..(((((..(((..........)))..))).))(((.....)))......------ (  -6.80, z-score =   0.59, R)
>dp4.chr2 25278400 50 - 30794189
CCGAUGUCGGUGCUCAGCUUUUCAUUAACACUCGUCUAACGGACACUAGU------
..(((((..(((..........)))..))).))(((.....)))......------ (  -6.80, z-score =   0.57, R)
>droAna3.scaffold_12911 2853468 56 + 5364042
UCGUCCCGGGUGUUCAGCUUUUUAUUAGCACCCGGCUAACGGGCGCUUGUCCGCUC
.....(((((((((.(........).)))))))))....(((((....)))))... ( -20.30, z-score =  -2.16, R)
>droEre2.scaffold_4770 11555488 51 - 17746568
-----UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
-----((((((((..............))))))))....(((((....)))))... ( -18.94, z-score =  -3.21, R)
>droYak2.chr3R 14432523 51 + 28832112
-----UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
-----((((((((..............))))))))....(((((....)))))... ( -18.94, z-score =  -3.21, R)
>droSec1.super_12 6647 51 + 2123299
-----UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
-----((((((((..............))))))))....(((((....)))))... ( -18.94, z-score =  -3.21, R)
>droSim1.chr3R 18073112 51 + 27517382
-----UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
-----((((((((..............))))))))....(((((....)))))... ( -18.94, z-score =  -3.21, R)
>droGri2.scaffold_14906 13627941 52 + 14172833
CUGAGCGCAACGCCUAUCGGUCU-UUGGCUGCUAAGAAAUCAGUGCGAGGCCU---
....(((...))).....(((((-(..((.(((.(....).))))))))))).--- ( -11.40, z-score =   1.16, R)
>consensus
_____UCGGGUGUCCAGGUUUUUAUUAGCACCCGACUAACGGACACUUGUCCGCUC
......(..((((((.........................))))))..)....... ( -5.49 =  -5.25 +  -0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:19:11 2011