Locus 15653

Sequence ID dm3.chrX
Location 20,231,589 – 20,231,717
Length 128
Max. P 0.664798
window21576 window21577

overview

Window 6

Location 20,231,589 – 20,231,717
Length 128
Sequences 5
Columns 128
Reading direction forward
Mean pairwise identity 78.96
Shannon entropy 0.35959
G+C content 0.42624
Mean single sequence MFE -28.22
Consensus MFE -17.68
Energy contribution -19.12
Covariance contribution 1.44
Combinations/Pair 1.21
Mean z-score -1.55
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.576947
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20231589 128 + 22422827
AAUGUGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCUCUCACACACUCGCACGCUCGCACAUAAACAAGCACACGGAUUCGCACUCA
...(((((((..((((((((((.....((((.......))))......(((((((......))))))))))).................((......))..........))).)))..)))))))... ( -30.70, z-score =  -1.47, R)
>droSim1.chrX_random 5260781 108 + 5698898
AAUGUGCGAAUAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAGUGUCUGGAUGGGCUCUCACACA--------------------AGCAAGCACACGGAUUCGCACUCA
...((((((((.((((((((((.....((((.......))))......(((((((......))))))))))).(((........--------------------)))..))).))).))))))))... ( -32.20, z-score =  -2.51, R)
>droSec1.super_8 2419827 124 + 3762037
AAUGUGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCUCACACACUCGCACG----CUCACACAAACAAGCACGCGGAUUCGCACUCA
...(((((((.......(((((.....((((.......))))......(((((((......))))))))))))............((((..(----((..........)))..)))).)))))))... ( -32.20, z-score =  -1.92, R)
>droEre2.scaffold_4690 8430442 110 - 18748788
AAUGUGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGAGCAUAAAUAAAUGUCUGGAUGGGCACUCACACACA------------------AGCAAGCACACGGAUUCGAACUCA
..(((((........((((((...((.((((.......)))).))..))).)))........((..((..((........))..))------------------..)).))))).............. ( -19.60, z-score =   0.82, R)
>droAna3.scaffold_13417 5436330 100 - 6960332
AAUGUGCGAAAAUGUUGUCGGCAUUUCUGCACAAAAUAUGCAUAAAUACAUACAUAAAUAAAUGUCUGAAUGGGGCCCCCCCCU--------------------AUUA--CACACAGACACA------
..((((((.((((((.....)))))).))))))...((((........))))..........(((((((((((((.....))))--------------------))).--....))))))..------ ( -26.40, z-score =  -2.64, R)
>consensus
AAUGUGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCUCACACAC___________________AACAAGCACACGGAUUCGCACUCA
...(((((((..(((..(((((.....((((.......))))......(((((((......))))))))))))((..................................))..)))..)))))))... (-17.68 = -19.12 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,231,589 – 20,231,717
Length 128
Sequences 5
Columns 128
Reading direction reverse
Mean pairwise identity 78.96
Shannon entropy 0.35959
G+C content 0.42624
Mean single sequence MFE -34.28
Consensus MFE -18.16
Energy contribution -19.24
Covariance contribution 1.08
Combinations/Pair 1.21
Mean z-score -2.03
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664798
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20231589 128 - 22422827
UGAGUGCGAAUCCGUGUGCUUGUUUAUGUGCGAGCGUGCGAGUGUGUGAGAGAGCCCAUCCAGACAUUUAUUUAUGCCCGUAUUUAUGCAUAUUUUGUGCAGAAUUGACGGCAACAUUUUCGCACAUU
...(((((((...(..(((((((......)))))))..)((((((.((.((.......)))).)))))).....((((.((.....(((((.....)))))......)))))).....)))))))... ( -43.10, z-score =  -3.22, R)
>droSim1.chrX_random 5260781 108 - 5698898
UGAGUGCGAAUCCGUGUGCUUGCU--------------------UGUGUGAGAGCCCAUCCAGACACUUAUUUAUGCCCGUAUUUAUGCAUAUUUUGUGCAGAAUUGACGGCAACAUAUUCGCACAUU
...((((((((..(((((..((..--------------------((.((....)).))..))..))).......((((.((.....(((((.....)))))......))))))))..))))))))... ( -32.40, z-score =  -2.48, R)
>droSec1.super_8 2419827 124 - 3762037
UGAGUGCGAAUCCGCGUGCUUGUUUGUGUGAG----CGUGCGAGUGUGUGAGAGCCCAUCCAGACAUUUAUUUAUGCCCGUAUUUAUGCAUAUUUUGUGCAGAAUUGACGGCAACAUUUUCGCACAUU
...(((((((...(((((((..(....)..))----)))))((((((.((.((.....)))).)))))).....((((.((.....(((((.....)))))......)))))).....)))))))... ( -40.50, z-score =  -2.60, R)
>droEre2.scaffold_4690 8430442 110 + 18748788
UGAGUUCGAAUCCGUGUGCUUGCU------------------UGUGUGUGAGUGCCCAUCCAGACAUUUAUUUAUGCUCGUAUUUAUGCAUAUUUUGUGCAGAAUUGACGGCAACAUUUUCGCACAUU
...((.((((...(.(..((..(.------------------.....)..))..).).................(((.(((.....(((((.....)))))......)))))).....)))).))... ( -25.20, z-score =   0.08, R)
>droAna3.scaffold_13417 5436330 100 + 6960332
------UGUGUCUGUGUG--UAAU--------------------AGGGGGGGGCCCCAUUCAGACAUUUAUUUAUGUAUGUAUUUAUGCAUAUUUUGUGCAGAAAUGCCGACAACAUUUUCGCACAUU
------.(((((((....--.(((--------------------.((((....)))))))))))))).....((((((((....))))))))...(((((..(((((.......)))))..))))).. ( -30.20, z-score =  -1.92, R)
>consensus
UGAGUGCGAAUCCGUGUGCUUGCU___________________GUGUGUGAGAGCCCAUCCAGACAUUUAUUUAUGCCCGUAUUUAUGCAUAUUUUGUGCAGAAUUGACGGCAACAUUUUCGCACAUU
...(((((((...((((..........................((.((.((.......)))).)).........(((.(((.....(((((.....)))))......)))))))))).)))))))... (-18.16 = -19.24 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:03:26 2011