Locus 5103

Sequence ID dm3.chr2R
Location 17,775,625 – 17,775,727
Length 102
Max. P 0.979357
window7001 window7002

overview

Window 1

Location 17,775,625 – 17,775,724
Length 99
Sequences 8
Columns 102
Reading direction reverse
Mean pairwise identity 65.64
Shannon entropy 0.71406
G+C content 0.55685
Mean single sequence MFE -29.36
Consensus MFE -15.50
Energy contribution -16.29
Covariance contribution 0.79
Combinations/Pair 1.68
Mean z-score -0.89
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.940981
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17775625 99 - 21146708
AAACUUUCGACCACUUGGCAACCC-UAUAGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC--CUUUGCACGCGACUCUUUGCCGAUGCAA
..............(((((((...-....(((((((.....)))))))................((((((((--....))))))))....)))))))..... ( -27.50, z-score =  -2.13, R)
>droSim1.chr2R 16411049 99 - 19596830
AAACUUUCGACCACUUGGCAACCC-UGUGGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC--GUUUGCACGCGACUCUUUGCCGAUGCAA
..............(((((((...-.((((((((((.....))))))....)))).........((((((((--....))))))))....)))))))..... ( -29.30, z-score =  -1.11, R)
>droSec1.super_9 1090704 91 - 3197100
AAACUUUCGACCACUUGGCAACCC-UGUAGGCUCUGCCAAACAGAGUUGCCCCAUUUCCCGUGUUUGCGUG----------CGCGACUCUUUGCCGAUGCAA
......(((.......((((((.(-(((.(((...)))..)))).))))))........(((((......)----------)))).........)))..... ( -24.10, z-score =  -1.14, R)
>droYak2.chr2R 9730000 101 + 21139217
AAACUUUCGACCACUUGGCAACCC-UAUAGCCUAUGCCAAACAGAGUUGCUCCAUUUCCCAUGUUUGCGUGCGUGUGUGUGCGCGACUCUUUGCCGAUGCAA
..............(((((((...-....((....)).....((((((((.((((....(((((......))))).))).).)))))))))))))))..... ( -25.10, z-score =  -0.83, R)
>droEre2.scaffold_4845 11909393 99 - 22589142
AAACUUUCGACCACUUGGCAACCC-UAUAGGCACUGCCAAACAGAGUUGCUCCAUUUCCCAUGUUUGCGUGC--GUGUGUGCGCGACUCUUUGCCGAUGCAA
..............(((((((...-....(((...)))....((((((((.((((..(.((((....)))).--).))).).)))))))))))))))..... ( -27.90, z-score =  -1.21, R)
>droAna3.scaffold_13266 11155186 95 - 19884421
----UCUCACCGCCCUGACAACCC-UGGAGGCUCGGCUUGCCAGAGUUGCUCCAUUUCCGCUGUUUGCGUGC--GUGUGUGCGUGACUCUUUGACGGUUCAA
----....((((....((((((.(-(((((((...)))).)))).)))).))............(..((..(--....)..))..)........)))).... ( -24.00, z-score =   1.42, R)
>droVir3.scaffold_12875 10346680 77 - 20611582
--------AAGCAUUUGCCAACAC-UGGG----UUGGCCACCAGAGUUGCCACAGUGCGUUCCGUUGC-----------UGAGUGACUCUUUGGCAGCACG-
--------..(((((((.((((.(-(((.----.......)))).)))).)).))))).....(((((-----------..((......))..)))))...- ( -26.90, z-score =  -0.84, R)
>anoGam1.chrX 12360919 96 + 22145176
AAACCUCCCGCCCCGCGAUGGGAUAUGGGGGCCCGAGCGAGGUCGGUGGGAUGUGUGCGUGUGUACGCGCGCGCGCGCCUGCGUGUCGCUUGGCCA------
......((((.(((.....)))...))))((((.((((((.(.(.(..((.(((((((((((....)))))))))))))..))).)))))))))).------ ( -50.10, z-score =  -1.25, R)
>consensus
AAACUUUCGACCACUUGGCAACCC_UGUAGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC__GUGUGUGCGCGACUCUUUGCCGAUGCAA
..............(((((((........(((((((.....)))))))................((((((((......))))))))....)))))))..... (-15.50 = -16.29 +   0.79)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,775,628 – 17,775,727
Length 99
Sequences 8
Columns 102
Reading direction reverse
Mean pairwise identity 64.50
Shannon entropy 0.74297
G+C content 0.54976
Mean single sequence MFE -29.21
Consensus MFE -13.65
Energy contribution -14.62
Covariance contribution 0.97
Combinations/Pair 1.71
Mean z-score -1.34
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.02
SVM RNA-class probability 0.979357
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17775628 99 - 21146708
AAAAAACUUUCGACCACUUGGCAACCC-UAUAGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC--CUUUGCACGCGACUCUUUGCCGAUG
.................(((((((...-....(((((((.....)))))))................((((((((--....))))))))....))))))).. ( -27.50, z-score =  -2.76, R)
>droSim1.chr2R 16411052 99 - 19596830
AAAAAACUUUCGACCACUUGGCAACCC-UGUGGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC--GUUUGCACGCGACUCUUUGCCGAUG
.................(((((((...-.((((((((((.....))))))....)))).........((((((((--....))))))))....))))))).. ( -29.30, z-score =  -1.71, R)
>droSec1.super_9 1090707 91 - 3197100
AAAAAACUUUCGACCACUUGGCAACCC-UGUAGGCUCUGCCAAACAGAGUUGCCCCAUUUCCCGUGUUUGCGUGC--G--------CGACUCUUUGCCGAUG
.........(((.......((((((.(-(((.(((...)))..)))).))))))........(((((......))--)--------)).........))).. ( -24.10, z-score =  -1.79, R)
>droYak2.chr2R 9730003 101 + 21139217
GAAAAACUUUCGACCACUUGGCAACCC-UAUAGCCUAUGCCAAACAGAGUUGCUCCAUUUCCCAUGUUUGCGUGCGUGUGUGUGCGCGACUCUUUGCCGAUG
.................(((((((...-....((....)).....((((((((.((((....(((((......))))).))).).))))))))))))))).. ( -25.10, z-score =  -1.41, R)
>droEre2.scaffold_4845 11909396 99 - 22589142
UAAAAACUUUCGACCACUUGGCAACCC-UAUAGGCACUGCCAAACAGAGUUGCUCCAUUUCCCAUGUUUGCGUGC--GUGUGUGCGCGACUCUUUGCCGAUG
.................(((((((...-....(((...)))....((((((((.((((..(.((((....)))).--).))).).))))))))))))))).. ( -27.90, z-score =  -1.93, R)
>droAna3.scaffold_13266 11155189 92 - 19884421
-------UCUCACCGCCCUGACAACCC-UGGAGGCUCGGCUUGCCAGAGUUGCUCCAUUUCCGCUGUUUGCGUGC--GUGUGUGCGUGACUCUUUGACGGUU
-------....((((....((((((.(-(((((((...)))).)))).)))).))............(..((..(--....)..))..)........)))). ( -24.00, z-score =   1.26, R)
>droVir3.scaffold_12875 10346682 77 - 20611582
---------CAAAGCAUUUGCCAACAC-UGGG----UUGGCCACCAGAGUUGCCACAGUGCGUUCCGUUGC-----------UGAGUGACUCUUUGGCAGCA
---------....(((((((.((((.(-(((.----.......)))).)))).)).))))).....(((((-----------..((......))..))))). ( -26.90, z-score =  -0.71, R)
>anoGam1.chrX 12360922 96 + 22145176
CAAAAACCUCCCGCCCCGCGAUGGGAUAUGGGGGCCCGAGCGAGGUCGGUGGGAUGUGUGCGUGUGUACGCGCGCGCGCGCCUGCGUGUCGCUUGG------
......(((((..(((......)))....))))).((((((((.(.(.(..((.(((((((((((....)))))))))))))..))).))))))))------ ( -48.90, z-score =  -1.64, R)
>consensus
AAAAAACUUUCGACCACUUGGCAACCC_UGUAGGCUCUGCCAAACAGAGUUGCUCCAUUUCCCGUGUUUGCGUGC__GUGUGUGCGCGACUCUUUGCCGAUG
.................(((((((........(((((((.....)))))))................(((((((........)))))))....))))))).. (-13.65 = -14.62 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:41:53 2011