Locus 12845

Sequence ID dm3.chrX
Location 2,597,137 – 2,597,233
Length 96
Max. P 0.538821
window17658 window17659

overview

Window 8

Location 2,597,137 – 2,597,233
Length 96
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 65.87
Shannon entropy 0.57920
G+C content 0.52652
Mean single sequence MFE -24.83
Consensus MFE -11.02
Energy contribution -11.25
Covariance contribution 0.23
Combinations/Pair 1.19
Mean z-score -1.18
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.517518
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2597137 96 + 22422827
ACCACCUUCACCUCCACCUCUUCGACUCGUU---UGCUUUUACUGCUGAUGUUGCUGCUUGCGUGGACAGACCCACGUCGAGGUUUCGUGGAAGUGGCU
.......((((.(((((..(((((((.((((---.((.......)).))))..((.....))((((......)))))))))))....))))).)))).. ( -31.60, z-score =  -2.29, R)
>droSim1.chrX 1800267 91 + 17042790
-----AACCACCUCCACCUCUACGACUCGUU---UGCUUUUACUGCUGAUGUUGCUGCUUGCGUGGACAGACCCACGUCGAGGUUUCGUGGAAGUGGCU
-----........((((.(((((((..((((---.((.......)).))))......(((((((((......))))).))))...))))))).)))).. ( -30.30, z-score =  -2.10, R)
>droSec1.super_10 2358721 94 + 3036183
-----AACCACCUCCACCUCUACGACUCGUUUACUGCUUUUACUGCUGAUGUUGCUGCUUGCGUGGACAGACCCACGUCGAGGUUUCGUGGAAGUGGCU
-----........((((.(((((((..(((..((.((.......))....)).))..(((((((((......))))).)))))..))))))).)))).. ( -28.90, z-score =  -1.65, R)
>droYak2.chrX 16017681 91 - 21770863
-----UACGUCCACCACCUCCACCUCUCGUU---UGCUUUCACUGCUGAUGUUGCUGCUUGCGUGGACAGACCCACGUUGAGGUGUCGUGGAAGUACCC
-----(((.(((((((((((((.(...((((---.((.......)).))))..).))...((((((......)))))).))))))..))))).)))... ( -29.60, z-score =  -1.76, R)
>dp4.chrXL_group1e 1992664 75 + 12523060
------------------UUCACUUCCAGC-----GCCUCUGCUGAUC-UGCUGUUGCUUGCGUGGAAUUGCCAACGUAAAUGCUUUGCCAACAUUCCA
------------------........((((-----(....)))))...-.((....((((((((((.....)).))))))..))...)).......... ( -14.30, z-score =   0.36, R)
>droPer1.super_18 843040 75 + 1952607
------------------UUCACUUCCAGC-----GCCUCUGCUGAUC-UGCUGUUGCUUGCGUGGAAUUGCCAACGUAAAUGCUUUGCCAACAUUCCA
------------------........((((-----(....)))))...-.((....((((((((((.....)).))))))..))...)).......... ( -14.30, z-score =   0.36, R)
>consensus
______ACCACCUCCACCUCCACGACUCGUU___UGCUUUUACUGCUGAUGUUGCUGCUUGCGUGGACAGACCCACGUCGAGGUUUCGUGGAAGUGCCU
...............(((((...............((..(.((.......)).)..))..((((((......)))))).)))))............... (-11.02 = -11.25 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 2,597,137 – 2,597,233
Length 96
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 65.87
Shannon entropy 0.57920
G+C content 0.52652
Mean single sequence MFE -27.62
Consensus MFE -11.10
Energy contribution -11.80
Covariance contribution 0.70
Combinations/Pair 1.22
Mean z-score -1.41
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.538821
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2597137 96 - 22422827
AGCCACUUCCACGAAACCUCGACGUGGGUCUGUCCACGCAAGCAGCAACAUCAGCAGUAAAAGCA---AACGAGUCGAAGAGGUGGAGGUGAAGGUGGU
.(((((((.(((...(((((((((((((....)))))((..((.((.......)).))....)).---.....)))...)))))....))).))))))) ( -30.20, z-score =  -1.24, R)
>droSim1.chrX 1800267 91 - 17042790
AGCCACUUCCACGAAACCUCGACGUGGGUCUGUCCACGCAAGCAGCAACAUCAGCAGUAAAAGCA---AACGAGUCGUAGAGGUGGAGGUGGUU-----
((((((((((((....(..(((((((((....)))))((..((.((.......)).))....)).---.....))))..)..))))))))))))----- ( -32.40, z-score =  -2.66, R)
>droSec1.super_10 2358721 94 - 3036183
AGCCACUUCCACGAAACCUCGACGUGGGUCUGUCCACGCAAGCAGCAACAUCAGCAGUAAAAGCAGUAAACGAGUCGUAGAGGUGGAGGUGGUU-----
((((((((((((....(..(((((((((....)))))((..((.((.......)).))....)).........))))..)..))))))))))))----- ( -32.40, z-score =  -2.53, R)
>droYak2.chrX 16017681 91 + 21770863
GGGUACUUCCACGACACCUCAACGUGGGUCUGUCCACGCAAGCAGCAACAUCAGCAGUGAAAGCA---AACGAGAGGUGGAGGUGGUGGACGUA-----
...(((.(((((..((((((..((((((....))))))..........((((....((.......---.))....))))))))))))))).)))----- ( -29.30, z-score =  -0.61, R)
>dp4.chrXL_group1e 1992664 75 - 12523060
UGGAAUGUUGGCAAAGCAUUUACGUUGGCAAUUCCACGCAAGCAACAGCA-GAUCAGCAGAGGC-----GCUGGAAGUGAA------------------
((((((((..((...........))..)).))))))(((..((....)).-..(((((......-----)))))..)))..------------------ ( -20.70, z-score =  -0.70, R)
>droPer1.super_18 843040 75 - 1952607
UGGAAUGUUGGCAAAGCAUUUACGUUGGCAAUUCCACGCAAGCAACAGCA-GAUCAGCAGAGGC-----GCUGGAAGUGAA------------------
((((((((..((...........))..)).))))))(((..((....)).-..(((((......-----)))))..)))..------------------ ( -20.70, z-score =  -0.70, R)
>consensus
AGCCACUUCCACGAAACCUCGACGUGGGUCUGUCCACGCAAGCAGCAACAUCAGCAGUAAAAGCA___AACGAGACGUAGAGGUGGAGGUGGU______
...((((((.((..........((((((....))))))...((....((.......))....))............)).)))))).............. (-11.10 = -11.80 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:09:52 2011