Locus 7028

Sequence ID dm3.chr3L
Location 11,591,330 – 11,591,422
Length 92
Max. P 0.975417
window9676 window9677

overview

Window 6

Location 11,591,330 – 11,591,422
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 67.73
Shannon entropy 0.59166
G+C content 0.62511
Mean single sequence MFE -32.17
Consensus MFE -13.48
Energy contribution -14.53
Covariance contribution 1.06
Combinations/Pair 1.33
Mean z-score -1.55
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796124
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 11591330 92 + 24543557
CAGAAUGCACGGCGCAGCACAGACGACGGGUCAUGGCCACGGCCACGGCCACGAAUAUGGCAUUUCGGCGACUCCGGUUGCGG--AUACAACAA
.....(((.....)))((.((.....((((((.((((....)))).)))).))....))))...((.(((((....))))).)--)........ ( -29.20, z-score =  -0.58, R)
>droPer1.super_20 1839413 75 - 1872136
-------CGGGUCAUGGCCAUGGCCAUGG-CCACGACCACGACCACGGCCACGAAUAUGGCAUUUCGGCGAUGGAUGCCGCCU-----------
-------((((((.(((((((....))))-))).)))).))......((((......)))).....((((........)))).----------- ( -32.40, z-score =  -1.77, R)
>dp4.chrXR_group6 3213801 81 - 13314419
-CGGGUCAUGGCCAUGGCCAUGGCCACGG-CCACGACCACGACCACGGCCACGAAUAUGGCAUUUCGGCGAUGGAUGCCGCCU-----------
-((((((.(((((.((((....)))).))-))).)))).))......((((......)))).....((((........)))).----------- ( -38.60, z-score =  -2.62, R)
>droAna3.scaffold_13337 5867004 82 + 23293914
CAGAGAACGGAGUACAG----GACGACGGGUCAUGGCCACGGCCACG------AAUAUGGCAUUUCGGCGACUCCGGCCAUGA--CUCCGGCAG
.......((((((.(((----(....((((((.((((....))))((------((........))))..))).))).)).)))--))))).... ( -32.00, z-score =  -2.70, R)
>droEre2.scaffold_4784 11578157 92 + 25762168
CAGAAUGCACGGCGCAGCACAGACGACGGGUCAUGGCCACGGCCACGGCCACGAAUAUGGCAUUUCGGCGACUCCGGUUGCGG--AUACAACAA
.....(((.....)))((.((.....((((((.((((....)))).)))).))....))))...((.(((((....))))).)--)........ ( -29.20, z-score =  -0.58, R)
>droSim1.chr3L 10967275 94 + 22553184
CAGAAUGCACGGCGCAGCACAGACGACGGGUCAUGGCCACGGCCACGGCCACGAAUAUGGCAUUUCGGCGACUCCGGUUGCGGGGAUACAACAA
.....(((.....)))((.((.....((((((.((((....)))).)))).))....))))((..(.(((((....))))).)..))....... ( -31.60, z-score =  -1.05, R)
>consensus
CAGAAUGCACGGCACAGCACAGACGACGGGUCAUGGCCACGGCCACGGCCACGAAUAUGGCAUUUCGGCGACUCCGGCCGCGG__AUACAACAA
............((((((...(((.....)))...(((.((....))((((......)))).....))).......))))))............ (-13.48 = -14.53 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,591,330 – 11,591,422
Length 92
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 67.73
Shannon entropy 0.59166
G+C content 0.62511
Mean single sequence MFE -36.02
Consensus MFE -15.94
Energy contribution -15.97
Covariance contribution 0.03
Combinations/Pair 1.43
Mean z-score -2.07
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.93
SVM RNA-class probability 0.975417
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 11591330 92 - 24543557
UUGUUGUAU--CCGCAACCGGAGUCGCCGAAAUGCCAUAUUCGUGGCCGUGGCCGUGGCCAUGACCCGUCGUCUGUGCUGCGCCGUGCAUUCUG
....(((((--.((((..((.((.((.((....(((((....)))))((((((....))))))...)).)).)).)).))))..)))))..... ( -30.70, z-score =  -0.34, R)
>droPer1.super_20 1839413 75 + 1872136
-----------AGGCGGCAUCCAUCGCCGAAAUGCCAUAUUCGUGGCCGUGGUCGUGGUCGUGG-CCAUGGCCAUGGCCAUGACCCG-------
-----------.(((((......))))).....(((((....)))))((.((((((((((((((-(....)))))))))))))))))------- ( -44.10, z-score =  -4.54, R)
>dp4.chrXR_group6 3213801 81 + 13314419
-----------AGGCGGCAUCCAUCGCCGAAAUGCCAUAUUCGUGGCCGUGGUCGUGGUCGUGG-CCGUGGCCAUGGCCAUGGCCAUGACCCG-
-----------.(((((......))))).....(((((....)))))((.((((((((((((((-((((....))))))))))))))))))))- ( -48.50, z-score =  -4.40, R)
>droAna3.scaffold_13337 5867004 82 - 23293914
CUGCCGGAG--UCAUGGCCGGAGUCGCCGAAAUGCCAUAUU------CGUGGCCGUGGCCAUGACCCGUCGUC----CUGUACUCCGUUCUCUG
..(.(((.(--(((((((((..(((((.(((........))------))))))..))))))))))))).)...----................. ( -31.10, z-score =  -2.25, R)
>droEre2.scaffold_4784 11578157 92 - 25762168
UUGUUGUAU--CCGCAACCGGAGUCGCCGAAAUGCCAUAUUCGUGGCCGUGGCCGUGGCCAUGACCCGUCGUCUGUGCUGCGCCGUGCAUUCUG
....(((((--.((((..((.((.((.((....(((((....)))))((((((....))))))...)).)).)).)).))))..)))))..... ( -30.70, z-score =  -0.34, R)
>droSim1.chr3L 10967275 94 - 22553184
UUGUUGUAUCCCCGCAACCGGAGUCGCCGAAAUGCCAUAUUCGUGGCCGUGGCCGUGGCCAUGACCCGUCGUCUGUGCUGCGCCGUGCAUUCUG
....(((((...((((..((.((.((.((....(((((....)))))((((((....))))))...)).)).)).)).))))..)))))..... ( -31.00, z-score =  -0.54, R)
>consensus
UUGUUGUAU__CCGCAACCGGAGUCGCCGAAAUGCCAUAUUCGUGGCCGUGGCCGUGGCCAUGACCCGUCGUCUGUGCUGCGCCCUGCAUUCUG
.............(((.........((((....(((((....)))))..))))((((((...(((.....)))...))))))...)))...... (-15.94 = -15.97 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:06 2011