Locus 15416

Sequence ID dm3.chrX
Location 18,936,907 – 18,937,002
Length 95
Max. P 0.980129
window21234 window21235

overview

Window 4

Location 18,936,907 – 18,937,002
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 82.79
Shannon entropy 0.29320
G+C content 0.32320
Mean single sequence MFE -11.22
Consensus MFE -10.00
Energy contribution -10.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.20
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.807170
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18936907 95 + 22422827
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUAAAAGCAAAAAAGCUGUGGCGAAAAAAAACCAGC
....................(((((((((.(((......))).)))).................(((......))).)))))............. ( -15.80, z-score =  -1.34, R)
>droSim1.chrX_random 4902601 82 + 5698898
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUAAAAGCAGAAAAAAAACCAGC-------------
....................(((..((((.(((......))).))))..)))..............................------------- ( -10.00, z-score =  -1.20, R)
>droSec1.super_8 1230720 81 + 3762037
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUUAAAGCAAAAAAAAACCAGC--------------
.........(((((......(((..((((.(((......))).))))..))).....)))))...................-------------- ( -10.30, z-score =  -1.23, R)
>droEre2.scaffold_4690 9219721 77 + 18748788
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUAAG-GCAAAAAAACCCC-----------------
....................(((..((((.(((......))).))))..)))............-.............----------------- ( -10.00, z-score =  -1.17, R)
>droAna3.scaffold_12903 13615 76 - 802071
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUAAAAGGGAGAGAAAA-------------------
....................(((..((((.(((......))).))))..)))........................------------------- ( -10.00, z-score =  -1.03, R)
>consensus
AAUAAAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACUUAAGCGAAAUCAAUUAAAAGCAAAAAAAAACC_________________
....................(((..((((.(((......))).))))..)))........................................... (-10.00 = -10.00 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 18,936,907 – 18,937,002
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 82.79
Shannon entropy 0.29320
G+C content 0.32320
Mean single sequence MFE -15.30
Consensus MFE -12.62
Energy contribution -12.62
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.980129
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18936907 95 - 22422827
GCUGGUUUUUUUUCGCCACAGCUUUUUUGCUUUUAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
..((((........)))).(((......)))((.((((((...((((.((((.((((....)))).)))).))))....)))))).))....... ( -17.20, z-score =  -1.59, R)
>droSim1.chrX_random 4902601 82 - 5698898
-------------GCUGGUUUUUUUUCUGCUUUUAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
-------------((.((.......)).)).((.((((((...((((.((((.((((....)))).)))).))))....)))))).))....... ( -13.60, z-score =  -1.68, R)
>droSec1.super_8 1230720 81 - 3762037
--------------GCUGGUUUUUUUUUGCUUUAAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
--------------((..(......)..)).(((((((((...((((.((((.((((....)))).)))).))))....)))))))))....... ( -16.40, z-score =  -2.70, R)
>droEre2.scaffold_4690 9219721 77 - 18748788
-----------------GGGGUUUUUUUGC-CUUAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
-----------------(((((......))-)))((((((...((((.((((.((((....)))).)))).))))....)))))).......... ( -16.60, z-score =  -2.39, R)
>droAna3.scaffold_12903 13615 76 + 802071
-------------------UUUUCUCUCCCUUUUAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
-------------------............((.((((((...((((.((((.((((....)))).)))).))))....)))))).))....... ( -12.70, z-score =  -2.99, R)
>consensus
_________________GGUUUUUUUUUGCUUUUAAUUGAUUUCGCUUAAGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUUUAUU
..................................((((((...((((.((((.((((....)))).)))).))))....)))))).......... (-12.62 = -12.62 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:58:49 2011