Locus 8553

Sequence ID dm3.chr3RHet
Location 610,049 – 610,143
Length 94
Max. P 0.952691
window11752 window11753

overview

Window 2

Location 610,049 – 610,143
Length 94
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 60.96
Shannon entropy 0.53291
G+C content 0.39168
Mean single sequence MFE -20.80
Consensus MFE -11.84
Energy contribution -13.19
Covariance contribution 1.35
Combinations/Pair 1.32
Mean z-score -1.61
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.59
SVM RNA-class probability 0.952691
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 610049 94 + 2517507
UUCGUCCAGAUAGAUGUAAGCAUUGAUCGUCGUUUUUUGGGU-CGAUUCUUGU----GUAUCCAAAAAGAGUCAAUCGAUGCCUUUAGGUAAGAUUUCG
..((((......))))...((((((((.(.(.((((((((((-((.......)----).)))))))))).).).))))))))................. ( -20.70, z-score =  -1.00, R)
>droSec1.super_46 224355 94 + 322281
UUUGUCUAGAUAGAUGUAAGCAUCGAUCGUCGCUUUUCGGGU-CGUUACUUGU----GCAUCCAAAAAGAGUCGAUCGAUGCCUUCAGGUAAGAUAUCG
..(((((..((...((...((((((((((.(.(((((.((((-.((.......----)))))).))))).).))))))))))...)).)).)))))... ( -30.50, z-score =  -3.21, R)
>droYak2.chrX 21227154 84 + 21770863
UUCGUGUUGAUCCUUGUGUGUAUUGAUUGUCGUUUCCUGUGUGCGUUUUUCUUAGUUGUAUCUAAUAGGAAGAAAAAGAUUUUC---------------
........................((..(((.(((((((((((((...........)))))...)))))))).....)))..))--------------- ( -11.20, z-score =  -0.62, R)
>consensus
UUCGUCUAGAUAGAUGUAAGCAUUGAUCGUCGUUUUUUGGGU_CGUUUCUUGU____GUAUCCAAAAAGAGUCAAUCGAUGCCUU_AGGUAAGAU_UCG
..((((......))))...((((((((((...((((((((((.(.............).))))))))))...))))))))))................. (-11.84 = -13.19 +   1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 610,049 – 610,143
Length 94
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 60.96
Shannon entropy 0.53291
G+C content 0.39168
Mean single sequence MFE -17.13
Consensus MFE -5.78
Energy contribution -7.57
Covariance contribution 1.79
Combinations/Pair 1.32
Mean z-score -2.33
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.835185
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 610049 94 - 2517507
CGAAAUCUUACCUAAAGGCAUCGAUUGACUCUUUUUGGAUAC----ACAAGAAUCG-ACCCAAAAAACGACGAUCAAUGCUUACAUCUAUCUGGACGAA
((.............((((((.(((((.(..(((((((....----..........-..)))))))..).))))).))))))...(((....))))).. ( -15.89, z-score =  -1.33, R)
>droSec1.super_46 224355 94 - 322281
CGAUAUCUUACCUGAAGGCAUCGAUCGACUCUUUUUGGAUGC----ACAAGUAACG-ACCCGAAAAGCGACGAUCGAUGCUUACAUCUAUCUAGACAAA
.((((((......))((((((((((((.(.((((((((.(((----....)))...-..)))))))).).)))))))))))).....))))........ ( -29.10, z-score =  -4.47, R)
>droYak2.chrX 21227154 84 - 21770863
---------------GAAAAUCUUUUUCUUCCUAUUAGAUACAACUAAGAAAAACGCACACAGGAAACGACAAUCAAUACACACAAGGAUCAACACGAA
---------------((((.....)))).((((.((((......))))..............(....).................)))).......... (  -6.40, z-score =  -1.20, R)
>consensus
CGA_AUCUUACCU_AAGGCAUCGAUUGACUCUUUUUGGAUAC____ACAAGAAACG_ACCCAAAAAACGACGAUCAAUGCUUACAUCUAUCUAGACGAA
...............((((((.(((((.(..(((((((.....................)))))))..).))))).))))))................. ( -5.78 =  -7.57 +   1.79)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:47:48 2011