Locus 14161

Sequence ID dm3.chrX
Location 11,546,216 – 11,546,366
Length 150
Max. P 0.831393
window19490 window19491

overview

Window 0

Location 11,546,216 – 11,546,327
Length 111
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.53
Shannon entropy 0.32646
G+C content 0.41267
Mean single sequence MFE -26.17
Consensus MFE -16.49
Energy contribution -17.22
Covariance contribution 0.72
Combinations/Pair 1.17
Mean z-score -2.05
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.831393
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11546216 111 - 22422827
GUAGCUCGGUUUUUCCGCAGAACCACAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUCGAGCAUUU-------UCUCUUUGUAAGGUUUUCCUCUCACCCUAUUUGGGAUUUUCC
......(((.....))).(((((((((((.((((.....))))...(((((((((....))))))))).-------....)))))..)))))).......(((.....)))....... ( -26.50, z-score =  -2.40, R)
>droAna3.scaffold_13335 2795864 113 + 3335858
-UUUGAGAGCAUAUCUGGUUAACCACAA----AUUUCAAGUACCUUAAUGCUUGAAUUCAUUGCAAUUUUGAGUGAUUUCCUUUGUGGGUUUGACGCCCAGCUCUUCCGGAACUUCCC
-...((((((......((....))((((----(.((((((((......)))))))).(((((.((....))))))).....)))))((((.....)))).))))))..((.....)). ( -26.80, z-score =  -1.37, R)
>droEre2.scaffold_4690 15109365 110 + 18748788
GUAGCUCGG-UUUUCCGCAGAACCACAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUCGAGCAUUU-------UCUCUUUGUAAGAUUUUCCUCUCACCCUAUUUGGGAUUUUCC
.......((-(((......)))))(((((.((((.....))))...(((((((((....))))))))).-------....)))))...............(((.....)))....... ( -24.90, z-score =  -2.02, R)
>droYak2.chrX 6632091 110 + 21770863
GUAGCUCGG-UUUUCCGCAGAACCACAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUUGAGCAUUU-------UCUCUUUGUAAGGUUUUCCUCUCACCCUAUUUGGGAUUUUCC
.......((-(((......)))))..((((((...((((((((((........))))))))))))))))-------......((..(((....)))..))(((.....)))....... ( -26.70, z-score =  -2.27, R)
>droSec1.super_36 235356 110 - 449511
GUAGCUCGG-UUUUCCGCAGAACCAAAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUCGAGCAUUU-------UCUCUUUGUAAGGUUUUCCUCUCACCCUAUUUGGGAUUUUCC
.......((-(((......)))))......((((.....))))...(((((((((....))))))))).-------......((..(((....)))..))(((.....)))....... ( -25.60, z-score =  -1.97, R)
>droSim1.chrX 8875667 110 - 17042790
GUAGCUCGG-UUUUCCGCAGAACCACAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUCGAGCAUUU-------UCUCUUUGUAAGGUUUUCCCCUCACCCUAUUUGGGAUUUUCC
......(((-....))).(((((((((((.((((.....))))...(((((((((....))))))))).-------....)))))..)))))).......(((.....)))....... ( -26.50, z-score =  -2.25, R)
>consensus
GUAGCUCGG_UUUUCCGCAGAACCACAAAUGUAUAUCAAGUACUUUAAUGCUCGAGUGCUCGAGCAUUU_______UCUCUUUGUAAGGUUUUCCUCUCACCCUAUUUGGGAUUUUCC
................(.((((((......((((.....))))...(((((((((....)))))))))...................)))))).).....(((.....)))....... (-16.49 = -17.22 +   0.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,546,256 – 11,546,366
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.23
Shannon entropy 0.34215
G+C content 0.37713
Mean single sequence MFE -23.84
Consensus MFE -14.09
Energy contribution -15.90
Covariance contribution 1.81
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.689696
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11546256 110 + 22422827
---------GAAAAUGCUCGAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUGUGGUUCUGCGGAAAAACCGAGCUACUUAAUUCCACUGAAUAAUGUCA-UUCCACUUUCAACGACU
---------...(((((((((....)))))))))(((((...((((((......(((((((...((.....)))))))))...((((....)))).))))))-....)))))........ ( -27.00, z-score =  -3.05, R)
>droAna3.scaffold_13335 2795902 111 - 3335858
GAAAUCACUCAAAAUUGCAAUGAAUUCAAGCAUUAAGGUACUUGAA----AUUUGUGGUUAACCAGAUAU-----GCUCUCAAAGAGAUUUUAGGAAAAUAAUAAUCAUUUUCAAACACU
((((((.((.......(((.....((((((.((....)).))))))----...(.(((....))).)..)-----))......)).))))))..((((((.......))))))....... ( -15.72, z-score =   0.08, R)
>droEre2.scaffold_4690 15109405 109 - 18748788
---------GAAAAUGCUCGAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUGUGGUUCUGCGGAAAA-CCGAGCUACUUAAUUCCACUGAAUAAUGUCA-UUCCGCUUUCAACGACU
---------...(((((((((....)))))))))(((((...((((((......(((((((...((....-)))))))))...((((....)))).))))))-....)))))........ ( -27.30, z-score =  -2.63, R)
>droYak2.chrX 6632131 110 - 21770863
---------GAAAAUGCUCAAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUGUGGUUCUGCGGAAAA-CCGAGCUACUUAAUUCCACUGAAUAAUGUCAAUUCCGCUUUCAACGACU
---------...(((((((........)))))))(((((..(((((((......(((((((...((....-)))))))))...((((....)))).)))))))....)))))........ ( -22.70, z-score =  -1.47, R)
>droSec1.super_36 235396 109 + 449511
---------GAAAAUGCUCGAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUUUGGUUCUGCGGAAAA-CCGAGCUACUUAAUUCCACUGAAUAAUGUAA-UUCCGCUUUCAACGACU
---------...(((((((((....)))))))))..(((..((((....((....)).....((((((..-......(((...((((....))))...))).-))))))..))))..))) ( -23.00, z-score =  -1.74, R)
>droSim1.chrX 8875707 109 + 17042790
---------GAAAAUGCUCGAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUGUGGUUCUGCGGAAAA-CCGAGCUACUUAAUUCCACUGAAUAAUGUCA-UUCCGCUUUCAACGACU
---------...(((((((((....)))))))))(((((...((((((......(((((((...((....-)))))))))...((((....)))).))))))-....)))))........ ( -27.30, z-score =  -2.63, R)
>consensus
_________GAAAAUGCUCGAGCACUCGAGCAUUAAAGUACUUGAUAUACAUUUGUGGUUCUGCGGAAAA_CCGAGCUACUUAAUUCCACUGAAUAAUGUCA_UUCCGCUUUCAACGACU
............(((((((((....)))))))))..(((..((((.........(((((((............)))))))...((((....))))................))))..))) (-14.09 = -15.90 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:56 2011