Locus 14330

Sequence ID dm3.chrX
Location 12,676,220 – 12,676,348
Length 128
Max. P 0.953530
window19726 window19727

overview

Window 6

Location 12,676,220 – 12,676,322
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 85.36
Shannon entropy 0.23501
G+C content 0.33592
Mean single sequence MFE -23.50
Consensus MFE -14.99
Energy contribution -15.05
Covariance contribution 0.06
Combinations/Pair 1.24
Mean z-score -2.04
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.511100
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 12676220 102 - 22422827
AUAGCUGCAAAGGCCAGCUGAUCAAUAAUUUAGCUUGCCAAAAAUAAGCAAGUUAAUAAUUCAUUUCAAUGAGCAGGCUAAAUUUCGAAAAAGAAAGGAAAU
.(((((((...(((.((((((........)))))).))).....................((((....))))))).))))..((((......))))...... ( -23.80, z-score =  -1.89, R)
>droEre2.scaffold_4690 4577723 101 + 18748788
AUAGUUGUAAAGGCAGGCUGAUCAAUAAUUUAGCUUGCCAAAAGAAAGGAGUUUAAAUUUUCAUUGCCAAAAGCAGGAGAAAUUCCCCAAAA-AAAGUCAAU
...((((....((((((((((........))))))))))........((((((.....((((.((((.....))))))))))))))......-.....)))) ( -25.70, z-score =  -3.19, R)
>droSec1.super_21 430761 100 - 1102487
AUAGCUGAAAAGGUCAGCUGAUCAAUAAUUUAGCUUGCCAAAAAUAAGCAAGUUAAUAAUUCAUUUCAAUGAGCAGGCUAAAUUCCCCAAA--AAAGGCAAU
.(((((((.....)))))))......((((((((((((....(((......)))......((((....))))))))))))))))..((...--...)).... ( -22.20, z-score =  -1.96, R)
>droSim1.chrX 10510966 99 - 17042790
AUAGCUGUAAAGGCCAGCUGAUCAAUAAUUUAGCUUGCCAAAAAUAAGCAAGUUAAUAAUUCAUUUCAAUGAGCAGGCGAAAUGCCCAAA---AAAGGCAAU
....((((...(((.((((((........)))))).))).....................((((....))))))))......((((....---...)))).. ( -22.30, z-score =  -1.11, R)
>consensus
AUAGCUGUAAAGGCCAGCUGAUCAAUAAUUUAGCUUGCCAAAAAUAAGCAAGUUAAUAAUUCAUUUCAAUGAGCAGGCGAAAUUCCCAAAA__AAAGGCAAU
....((((...(((.((((((........)))))).))).....................((((....)))))))).......................... (-14.99 = -15.05 +   0.06)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,676,258 – 12,676,348
Length 90
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 73.55
Shannon entropy 0.46658
G+C content 0.30603
Mean single sequence MFE -16.10
Consensus MFE -9.58
Energy contribution -9.18
Covariance contribution -0.40
Combinations/Pair 1.33
Mean z-score -1.85
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.60
SVM RNA-class probability 0.953530
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 12676258 90 - 22422827
GCAAAAAAAAAAGUAAAACACAAAUAAUAGCUGCAAAGGC--CAGCUGAUCAAUAAUUUAGCUUGCCAAAAA-UAAGCAAGUUAAUAAUUCAU
...........................(((((((....).--)))))).........(((((((((......-...)))))))))........ ( -15.40, z-score =  -0.73, R)
>droEre2.scaffold_4690 4577760 72 + 18748788
------------------UGAAAUUAAUAGUUGUAAAGGC--AGGCUGAUCAAUAAUUUAGCUUGCCAAAAG-AAAGGAGUUUAAAUUUUCAU
------------------...................(((--(((((((........))))))))))....(-((((.........))))).. ( -17.90, z-score =  -3.01, R)
>droYak2.chrX 6953967 83 - 21770863
------CAAAAUGCGAAACACAAAUAAUAAUUGCAACGGCAACAGUUGUUCAAUAAUUUAGUUUGCCAAAAAGUAAGCAAGUUAAGUCU----
------......((..(((..........((((.((((((....))))))))))......((((((......))))))..)))..))..---- ( -13.30, z-score =  -0.99, R)
>droSec1.super_21 430797 88 - 1102487
--GCCACAAAAAGCAAAACACAUAUAAUAGCUGAAAAGGU--CAGCUGAUCAAUAAUUUAGCUUGCCAAAAA-UAAGCAAGUUAAUAAUUCAU
--((........)).............(((((((.....)--)))))).........(((((((((......-...)))))))))........ ( -17.60, z-score =  -2.86, R)
>droSim1.chrX 10511001 88 - 17042790
--GCCACAGAAAGCAAAACACAUAUAAUAGCUGUAAAGGC--CAGCUGAUCAAUAAUUUAGCUUGCCAAAAA-UAAGCAAGUUAAUAAUUCAU
--......(((................((((((.......--)))))).........(((((((((......-...)))))))))...))).. ( -16.30, z-score =  -1.64, R)
>consensus
_____ACAAAAAGCAAAACACAAAUAAUAGCUGCAAAGGC__CAGCUGAUCAAUAAUUUAGCUUGCCAAAAA_UAAGCAAGUUAAUAAUUCAU
...........................((((((.........)))))).........(((((((((..........)))))))))........ ( -9.58 =  -9.18 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:09 2011