Locus 13745

Sequence ID dm3.chrX
Location 8,873,066 – 8,873,164
Length 98
Max. P 0.985318
window18908 window18909

overview

Window 8

Location 8,873,066 – 8,873,164
Length 98
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 70.34
Shannon entropy 0.44930
G+C content 0.39274
Mean single sequence MFE -18.21
Consensus MFE -10.90
Energy contribution -11.53
Covariance contribution 0.63
Combinations/Pair 1.18
Mean z-score -1.49
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.804922
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8873066 98 + 22422827
UUUUGGGUUAGCUCAUCAACUUUUGGAAACU-AUCAACUAUCAGCUCUACUCAUCACUGGCGGAAUUUCAUUAUUCAAUCAGUAGCGAACAGGUGGACU
...(((((.((((...........(....).-..........))))..)))))..(((((..((((......))))..)))))................ ( -16.85, z-score =  -0.40, R)
>droEre2.scaffold_4690 12509638 93 - 18748788
-UUCUGGUUAGUUAAUAAAUUUUGGAAAACG-AU-AACUA---GUUCUUCUCAUCACUGGCGGGCUUUAAUUAUUCAAUCAGUAGCGAACAGGUGAACU
-..(((((((.....................-.)-)))))---).........(((((..((.(((..............)))..))....)))))... ( -10.59, z-score =   1.65, R)
>droSec1.super_34 235449 77 + 457129
-------------------UUCUGGUUAGUUCAUCAACCA---GCACUUCUCAUCACUGGCGGAAUUUCAUUAUUCAAUCAGUGACGAACAGGUGGAAA
-------------------..((((((........)))))---)(((((.((.(((((((..((((......))))..))))))).))..))))).... ( -23.30, z-score =  -3.64, R)
>droSim1.chrX 7071398 77 + 17042790
-------------------UUCUGGUUAGUUCAUCAACUA---GCACUUCUCAUCACUGGCGGAAUUUUAUUAUUCAAUCAGUGACGAACAGGUGGACU
-------------------.(((((((((((....)))))---)).....((.(((((((..((((......))))..))))))).)).))))...... ( -22.10, z-score =  -3.57, R)
>consensus
___________________UUCUGGUAAACU_AUCAACUA___GCACUUCUCAUCACUGGCGGAAUUUCAUUAUUCAAUCAGUAACGAACAGGUGGACU
............................................((((..((.(((((((..((((......))))..))))))).))...)))).... (-10.90 = -11.53 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,873,066 – 8,873,164
Length 98
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 70.34
Shannon entropy 0.44930
G+C content 0.39274
Mean single sequence MFE -17.71
Consensus MFE -11.45
Energy contribution -12.20
Covariance contribution 0.75
Combinations/Pair 1.06
Mean z-score -2.13
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.20
SVM RNA-class probability 0.985318
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8873066 98 - 22422827
AGUCCACCUGUUCGCUACUGAUUGAAUAAUGAAAUUCCGCCAGUGAUGAGUAGAGCUGAUAGUUGAU-AGUUUCCAAAAGUUGAUGAGCUAACCCAAAA
.......(((((((.(((((...((((......))))...))))).)))))))((((.((..(((..-......)))......)).))))......... ( -15.90, z-score =  -0.64, R)
>droEre2.scaffold_4690 12509638 93 + 18748788
AGUUCACCUGUUCGCUACUGAUUGAAUAAUUAAAGCCCGCCAGUGAUGAGAAGAAC---UAGUU-AU-CGUUUUCCAAAAUUUAUUAACUAACCAGAA-
.((((.....((((.(((((....................))))).))))..))))---(((((-(.-.((((....))))....)))))).......- ( -10.35, z-score =   0.44, R)
>droSec1.super_34 235449 77 - 457129
UUUCCACCUGUUCGUCACUGAUUGAAUAAUGAAAUUCCGCCAGUGAUGAGAAGUGC---UGGUUGAUGAACUAACCAGAA-------------------
....(((...((((((((((...((((......))))...))))))))))..)))(---((((((......)))))))..------------------- ( -25.30, z-score =  -4.92, R)
>droSim1.chrX 7071398 77 - 17042790
AGUCCACCUGUUCGUCACUGAUUGAAUAAUAAAAUUCCGCCAGUGAUGAGAAGUGC---UAGUUGAUGAACUAACCAGAA-------------------
....(((...((((((((((...((((......))))...))))))))))..))).---(((((....))))).......------------------- ( -19.30, z-score =  -3.38, R)
>consensus
AGUCCACCUGUUCGCCACUGAUUGAAUAAUGAAAUUCCGCCAGUGAUGAGAAGAGC___UAGUUGAU_AACUAACCAAAA___________________
.......((.((((((((((...((((......))))...)))))))))).)).............................................. (-11.45 = -12.20 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:26:59 2011