Locus 14055

Sequence ID dm3.chrX
Location 10,862,156 – 10,862,293
Length 137
Max. P 0.889976
window19327 window19328

overview

Window 7

Location 10,862,156 – 10,862,259
Length 103
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 85.28
Shannon entropy 0.23916
G+C content 0.46616
Mean single sequence MFE -29.30
Consensus MFE -20.75
Energy contribution -20.35
Covariance contribution -0.40
Combinations/Pair 1.20
Mean z-score -2.08
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.785895
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10862156 103 + 22422827
CCGAGAUCCGAGCGUCU----------UCACAGACCCCCAGCAUU------UAUAUUGAGUUGUUGAUUGGGUCCUGAGCCCAAAUGCUUACACGCGAGUGUUUCCUUAACUAAUUAGA
..((((..(..((((..----------.....(((((.(((((..------..........)))))...))))).(((((......))))).))))..)..)))).............. ( -24.40, z-score =  -1.58, R)
>droSim1.chrX 8415283 103 + 17042790
CCGAGAUCCGAGCGUCU----------UCACAGACCCCCAGCAUU------UAUAUUGAGUUGUUGGUUGGGUCCUGAGCCCAAAUGCUUACACGCGAGGAUUUCCUUAACUAAUUAGA
..(((((((..((((..----------.....(((((((((((..------..........))))))..))))).(((((......))))).))))..))))))).............. ( -33.90, z-score =  -3.85, R)
>droSec1.super_15 1564498 103 + 1954846
CCGAGAUGCGAGCGUCU----------UCACAGACCCCGAGCAUU------UAUAUUGAGUUGUUGGUUGGGUCCUGAGGCCAAAUGCUUACACGCGAGGAUUUCCUUAACUAAUUAGA
..(((((.(..((((..----------...(((..(((((.((..------.((.....))...)).)))))..)))((((.....))))..))))..).))))).............. ( -25.90, z-score =  -0.42, R)
>droYak2.chrX 10508509 109 - 21770863
CCGAGAUCCGAGCGUCU----------UAGCAGAUUCCCAGCAUACAUAUGUAUAUUAAGUUGUUGUUUGGGUCCUAAGCCCAAAUGCUUACGCGCGAGUGUUUCCUAAACUAAUUAGA
..((((..(..((((..----------.((((......(((((.((.((.......)).)))))))(((((((.....)))))))))))...))))..)..))))((((.....)))). ( -27.00, z-score =  -1.81, R)
>droEre2.scaffold_4690 14479760 112 - 18748788
CCGAGAUUCGAGCGAUUCUGCGAGGACUCGCAGAUCCCCAGCACA------UAUAUUGAGUUGUUGUUUGGGUCCUAAGCCCAAAUGCUUACACGCGAGGGUUUCCUAAACUAAUUAG-
..(((((((..(((..(((((((....)))))))....((((.((------.....)).))))..((((((((.....)))))))).......)))..))))))).............- ( -35.30, z-score =  -2.71, R)
>consensus
CCGAGAUCCGAGCGUCU__________UCACAGACCCCCAGCAUU______UAUAUUGAGUUGUUGGUUGGGUCCUGAGCCCAAAUGCUUACACGCGAGGGUUUCCUUAACUAAUUAGA
..(((((.(..((((.................(((((.(((((..................)))))...))))).(((((......))))).))))..).))))).............. (-20.75 = -20.35 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,862,186 – 10,862,293
Length 107
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 73.23
Shannon entropy 0.50876
G+C content 0.47229
Mean single sequence MFE -30.01
Consensus MFE -15.68
Energy contribution -16.99
Covariance contribution 1.31
Combinations/Pair 1.27
Mean z-score -1.67
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.09
SVM RNA-class probability 0.889976
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10862186 107 + 22422827
------GCAUUUAUAUUGAGUUGUUGAUUGGGUC-CUGAGCCCAAAUGCUUACACGCGAGUGUUUCCUUAACUAAUUAGAGAAAUGCUAACCGAAGGAAGUCCACAGCAGCCGU
------...........(.(((((((.((((((.-....))))))......((((....))))((((((......(((((....).))))...)))))).....)))))))).. ( -27.20, z-score =  -1.45, R)
>droSim1.chrX 8415313 107 + 17042790
------GCAUUUAUAUUGAGUUGUUGGUUGGGUC-CUGAGCCCAAAUGCUUACACGCGAGGAUUUCCUUAACUAAUUAGAGAAAUGCUCCCCGAAGGAAGUCCACAGCAGCCGG
------..........((.(((((((.((((((.-....)))))).(((......))).((((((((((.........(((.....)))....)))))))))).))))))))). ( -31.72, z-score =  -1.82, R)
>droSec1.super_15 1564528 107 + 1954846
------GCAUUUAUAUUGAGUUGUUGGUUGGGUC-CUGAGGCCAAAUGCUUACACGCGAGGAUUUCCUUAACUAAUUAGAGAAAUGCUCCCCGAAGGAAGUCCACAGCAGCCGU
------...........(.(((((((....((((-....))))...(((......))).((((((((((.........(((.....)))....)))))))))).)))))))).. ( -28.72, z-score =  -0.75, R)
>droYak2.chrX 10508539 113 - 21770863
GCAUACAUAUGUAUAUUAAGUUGUUGUUUGGGUC-CUAAGCCCAAAUGCUUACGCGCGAGUGUUUCCUAAACUAAUUAGAGAAAUGCUCUCCGAAGGAAGUCCACAGCAGCCGU
..((((....)))).....((((((((((((((.-....)))))).(.(((.((.(.(((((((((((((.....)))).))))))))).)))))).).....))))))))... ( -33.30, z-score =  -2.91, R)
>droEre2.scaffold_4690 14479800 92 - 18748788
------GCACAUAUAUUGAGUUGUUGUUUGGGUC-CUAAGCCCAAAUGCUUACACGCGAGGGUUUCCUAAACUAAUUAGAG---------------GAAGUCCACAGCAGCCGU
------...........(.((((((((((((((.-....)))))).(((......))).((..(((((...........))---------------)))..))))))))))).. ( -27.30, z-score =  -2.01, R)
>droAna3.scaffold_13417 5871301 91 - 6960332
-------------UCUUUA--UGUUGGAGGGGUCACGGGGGUCAGGCCCUUA-------AGGCGCCCUAAACUACUAAGAACACGGCUACCGAGGACUCGUCC-CAACAGCCAU
-------------......--(((((((.(((((.(((..(((.(((((...-------.)).))).....((....)).....)))..)))..))))).).)-)))))..... ( -31.80, z-score =  -1.11, R)
>consensus
______GCAUUUAUAUUGAGUUGUUGGUUGGGUC_CUGAGCCCAAAUGCUUACACGCGAGGGUUUCCUAAACUAAUUAGAGAAAUGCUCCCCGAAGGAAGUCCACAGCAGCCGU
...................(((((((.((((((......))))))..............(((((((((..........................))))))))).)))))))... (-15.68 = -16.99 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:32:45 2011