Locus 14593

Sequence ID dm3.chrX
Location 14,271,281 – 14,271,422
Length 141
Max. P 0.892914
window20091 window20092

overview

Window 1

Location 14,271,281 – 14,271,396
Length 115
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 73.33
Shannon entropy 0.50248
G+C content 0.49443
Mean single sequence MFE -34.77
Consensus MFE -22.21
Energy contribution -25.35
Covariance contribution 3.14
Combinations/Pair 1.19
Mean z-score -1.27
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.10
SVM RNA-class probability 0.890883
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14271281 115 - 22422827
CCGGCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAGAGGAG-AAGACUCCAG---
..(((...((((((.((.((((((((((((((.(((((....))))).))))..)))))))))).)).)))))).((((....)))).......)))....((((-....))))..--- ( -44.90, z-score =  -3.16, R)
>droSim1.chrX 10964690 117 - 17042790
CCGGCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGCGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAGAGGAG--AGACACCACCAG
..........((((.((.((((((((((((((.((.((....)).)).))))..)))))))))).))...((((((.....(((.........))).....))))--)).))))..... ( -37.90, z-score =  -1.50, R)
>droSec1.super_20 874744 107 - 1148123
----------GGUGAAUGGGCCAAAAUGGAGGAUGCGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAGAGGAG--AGACACCACCAG
----------((((.((.((((((((((((((.((.((....)).)).))))..)))))))))).))...((((((.....(((.........))).....))))--)).))))..... ( -37.70, z-score =  -2.35, R)
>droYak2.chrX 8514530 116 - 21770863
CCGGCAAAAAGGUGAAUGGGCCAAAAUGCAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAAAAAGGAGAGACAUGAA---
..(((.......((((((((((((((((((((.(((((....))))).)))..)))))))))))...........((((....)))))))))).)))...................--- ( -38.60, z-score =  -1.66, R)
>droEre2.scaffold_4690 6076606 107 + 18748788
CCGGCAAAAAGGUGAAUGGUCC-AAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAGAGAAG--AGA---------
..(((....(((((..(((((.-(((((((((.(((((....))))).))))..))))).)))))..........((((....)))))))))..)))........--...--------- ( -30.80, z-score =  -0.04, R)
>droAna3.scaffold_13248 1971038 101 - 4840945
------------CCAGCCGAGUCAGGUGAAUAA-GGUCUGAGGCCGGGC---GGGGAUGAUGUUGAAAUAUAUUCUGCAAUGUUGCACAUUUAUACAAGAGAGUGAGAGAGAGACAG--
------------((.(((...(((((.......-..)))))))).))((---((((...((((....)))).))))))..((((.(.(((((........))))).).....)))).-- ( -18.70, z-score =   1.06, R)
>consensus
CCGGCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUGCAAUGCUGCACAUUUAAGCCAAGAGGAG__AGACACCAA___
..........((((((((((((((((((((((.(((((....))))).))))..))))))))))...........((((....)))))))))..)))...................... (-22.21 = -25.35 +   3.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,271,319 – 14,271,422
Length 103
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 70.59
Shannon entropy 0.55653
G+C content 0.50946
Mean single sequence MFE -32.52
Consensus MFE -13.65
Energy contribution -16.07
Covariance contribution 2.42
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892914
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14271319 103 - 22422827
GACCGCAUUACCAACUGCCAAACUGACCG--GCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUG
.......(((((...((((.........)--)))....)))))((.((((((((((((((.(((((....))))).))))..)))))))))).)).......... ( -37.90, z-score =  -2.80, R)
>droSim1.chrX 10964730 103 - 17042790
GACCGCAUUACCAACUGCCAAACUGACCG--GCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGCGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUG
.......(((((...((((.........)--)))....)))))((.((((((((((((((.((.((....)).)).))))..)))))))))).)).......... ( -34.30, z-score =  -2.03, R)
>droSec1.super_20 874784 80 - 1148123
------------------------GACCG-CAUUACCAGGUGAAUGGGCCAAAAUGGAGGAUGCGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAUAUAUUUUCUG
------------------------.(((.-........)))..((.((((((((((((((.((.((....)).)).))))..)))))))))).)).......... ( -27.30, z-score =  -1.65, R)
>droYak2.chrX 8514569 103 - 21770863
GACCGCAUUACCAACUGCCAAAGUGACCG--GCAAAAAGGUGAAUGGGCCAAAAUGCAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUG
.....(((((((...((((.........)--)))....)))).)))((((((((((((((.(((((....))))).)))..)))))))))))............. ( -37.80, z-score =  -2.51, R)
>droEre2.scaffold_4690 6076637 102 + 18748788
GACCGCAUUACCAACUGCCAAACUGACCG--GCAAAAAGGUGAAUGGUCC-AAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUG
.......(((((...((((.........)--)))....))))).(((((.-(((((((((.(((((....))))).))))..))))).)))))............ ( -30.50, z-score =  -0.97, R)
>droAna3.scaffold_13248 1971078 92 - 4840945
------------AACCGCAUUAUCAUCAACUGCCAAAAACUGACCAGCCGAGUCAGGUGAAUAAGGUCUGAGGCCGGGCGGGGAUGAU-GUUGAAAUAUAUUCUG
------------..(.((((((((.....(((((.....((((((....).)))))........(((.....))).))))).))))))-)).)............ ( -27.30, z-score =  -1.50, R)
>consensus
GACCGCAUUACCAACUGCCAAACUGACCG__GCAAAAAGGUGAAUGGGCCAAAAUGGAGGAUGGGCCGCAGCUCAGCCUCAGCAUUUUGGCCGAAAUAUUUUCUG
..............................................((((((((((((((.((.((....)).)).))))..))))))))))............. (-13.65 = -16.07 +   2.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:04 2011