Locus 14902

Sequence ID dm3.chrX
Location 16,172,827 – 16,172,986
Length 159
Max. P 0.983602
window20532 window20533

overview

Window 2

Location 16,172,827 – 16,172,946
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.83
Shannon entropy 0.14273
G+C content 0.58814
Mean single sequence MFE -50.62
Consensus MFE -44.18
Energy contribution -45.62
Covariance contribution 1.44
Combinations/Pair 1.12
Mean z-score -2.36
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.961239
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16172827 119 + 22422827
CGCACCGGGUUCAGGAAAAAGGAUGCUCGGAUUGUGGGAUGGGUCGUUGUGGUAAGGGGGUCGUGGGCGGGGG-UUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUU
((((((((((((.........)).))))))..))))...((((((((.((((...(((((((..(.(((.(((-(.....))))....))).)....))))))))))))))))))).... ( -50.40, z-score =  -2.44, R)
>droSim1.chrX_random 4188149 120 + 5698898
CGCACCGGGUUCAGGAAAAAGGAUGCUCGGAUUGUGGGAGGGGUCGUCACGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUU
((((((((((((.........)).))))))..))))....(((((((....(((((((((((.(((((((.((((.....))))....).)))))).))))))))))))))))))..... ( -54.20, z-score =  -2.85, R)
>droSec1.super_8489 448 120 + 1584
CGCACCGGGUUCAGGAAAAAGGAUGCUCGGAUUGUGGGAGGGGUCGUCAUGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUU
((((((((((((.........)).))))))..))))....(((((((....(((((((((((.(((((((.((((.....))))....).)))))).))))))))))))))))))..... ( -54.20, z-score =  -3.08, R)
>droYak2.chrX 10316886 118 + 21770863
CGCACCGGGUUCA--AAAAAGGAUGCACGGUUUGUGGGAGGGGUCGUCGUGAGGAAGGGGCCGUGGACAGGGGGUUCUUAACCCAGAACGCGCGUAAGGCCCCUUUGCACGACCUAAAUU
(((((((.((((.--.....))))...))))..)))....((((((((....)(((((((((....((.(.(.(((((......))))).).)))..)))))))))..)))))))..... ( -45.80, z-score =  -1.28, R)
>droEre2.scaffold_4690 7833936 118 - 18748788
CGCACCGGGUUCAG-AAAAAGGAUGCUCCGUUUGUGGGAGGGGUCGUCGUGAUGAGGGG-UCGUGAGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGACCCCUUUGCACGACCUAAAUU
((((.(((((((..-......)).)).)))..))))....(((((((.((...((((((-((.(((((((.((((.....))))....).)))))).)))))))).)))))))))..... ( -48.50, z-score =  -2.16, R)
>consensus
CGCACCGGGUUCAGGAAAAAGGAUGCUCGGAUUGUGGGAGGGGUCGUCGUGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUU
((((((((((((.........)).))))))..))))....(((((((....(((((((((((.(((((((.((((.....))))....).)))))).))))))))))))))))))..... (-44.18 = -45.62 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,172,867 – 16,172,986
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.83
Shannon entropy 0.19314
G+C content 0.55515
Mean single sequence MFE -50.62
Consensus MFE -43.10
Energy contribution -44.70
Covariance contribution 1.60
Combinations/Pair 1.18
Mean z-score -2.60
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.14
SVM RNA-class probability 0.983602
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16172867 119 + 22422827
GGGUCGUUGUGGUAAGGGGGUCGUGGGCGGGGG-UUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUUCCGCAUGGAAUCGCCGCUUUUGAGGCUUAAAAGAGGUCUA
(((((((.((((...(((((((..(.(((.(((-(.....))))....))).)....))))))))))))))))))..(((((....))))).(((.(((((((...))))))).)))... ( -48.80, z-score =  -1.82, R)
>droSim1.chrX_random 4188189 120 + 5698898
GGGUCGUCACGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUUCCGCAUGGAAUCGCCGCUUUUGAGGCUUAAAAGAGGCCUU
(((((((....(((((((((((.(((((((.((((.....))))....).)))))).))))))))))))))))))..(((((....))))).(((.(((((((...))))))).)))... ( -55.70, z-score =  -2.87, R)
>droSec1.super_8489 488 120 + 1584
GGGUCGUCAUGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUUCCGCAUGGAAUCGCCGCUUUUGAGGCUUAAAAGAGACCUU
((((((((...(((((((((((.(((((((.((((.....))))....).)))))).)))))))))))..)))....(((((....))))).(((........)))........))))). ( -52.00, z-score =  -2.36, R)
>droYak2.chrX 10316924 120 + 21770863
GGGUCGUCGUGAGGAAGGGGCCGUGGACAGGGGGUUCUUAACCCAGAACGCGCGUAAGGCCCCUUUGCACGACCUAAAUUCCGAAUGGAAUCUUCGAUUUUGAAACUCAAAAGACGUAUA
..(((((((((..(((((((((....((.(.(.(((((......))))).).)))..))))))))).))))))....(((((....)))))......(((((.....))))))))..... ( -44.90, z-score =  -2.31, R)
>droEre2.scaffold_4690 7833975 119 - 18748788
GGGUCGUCGUGAUGAGGGG-UCGUGAGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGACCCCUUUGCACGACCUAAAUUCCGAUUGGAAUCUCCGCUUUUGAGACUCAAAAGAGGUCUA
(((((((.((...((((((-((.(((((((.((((.....))))....).)))))).)))))))).)))))))))..(((((....)))))..((.((((((.....)))))).)).... ( -51.70, z-score =  -3.65, R)
>consensus
GGGUCGUCGUGGUGAGGGGGUCGUGGGCGGGGGGUUCUUAACCCAGAACGCGCUUAAGGCCCCUUCGCACGACCUAAAUUCCGCAUGGAAUCGCCGCUUUUGAGGCUUAAAAGAGGUCUA
(((((((....(((((((((((.(((((((.((((.....))))....).)))))).))))))))))))))))))..(((((....))))).(((.(((((((...))))))).)))... (-43.10 = -44.70 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:12 2011