Locus 15523

Sequence ID dm3.chrX
Location 19,389,567 – 19,389,645
Length 78
Max. P 0.976429
window21406 window21407

overview

Window 6

Location 19,389,567 – 19,389,645
Length 78
Sequences 7
Columns 106
Reading direction forward
Mean pairwise identity 73.19
Shannon entropy 0.45284
G+C content 0.38504
Mean single sequence MFE -19.36
Consensus MFE -9.78
Energy contribution -10.69
Covariance contribution 0.90
Combinations/Pair 1.42
Mean z-score -2.46
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.95
SVM RNA-class probability 0.976429
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19389567 78 + 22422827
CUUCUAAUUCGCUGCGGGUAUUUUUUUU------GUGUUUGUUGUUACAUAUAAUC-CGAUCA-AUUUCGAUCGCCCGCUUGGCAA--------------------
..........(((((((((........(------((((........))))).....-.((((.-.....))))))))))..)))..-------------------- ( -21.20, z-score =  -3.19, R)
>droSim1.chrX 14980738 78 + 17042790
CUUCUAAUUCGCUGCGGGUAUUUUUUUU------GUGUUUGUUGUUACAUAUAAUC-CGAUCA-AUUUCGAUCGCCCGCUUGGCAA--------------------
..........(((((((((........(------((((........))))).....-.((((.-.....))))))))))..)))..-------------------- ( -21.20, z-score =  -3.19, R)
>droSec1.super_8 1672567 78 + 3762037
CUUCUAAUUCGCUGCGGGUAUUUUUUUU------GUGUUUGUUGUUACAUAUAAUC-CGAUCA-AUUUCGAUCGCCCGCUUGGCAA--------------------
..........(((((((((........(------((((........))))).....-.((((.-.....))))))))))..)))..-------------------- ( -21.20, z-score =  -3.19, R)
>droYak2.chrX 9824435 78 - 21770863
CUUCUAAUUCGCUGCGGGUAUUUUUUUU------GUGUUUGUUGUUACAUAUAAUC-CGAUCA-ACUUCGAUCGCCCGCUUGGCAA--------------------
..........(((((((((........(------((((........))))).....-.((((.-.....))))))))))..)))..-------------------- ( -21.20, z-score =  -3.24, R)
>droEre2.scaffold_4690 9628098 80 + 18748788
CUUCUAAUUCGCUGCGGGUAUUUUUUUUUU----GUGUUUGUUGUUACAUAUAAAC-CGAUCA-ACUUCGAUCGCCCGCCUGGCAA--------------------
..........(((((((((...........----(.((((((........))))))-)((((.-.....))))))))))..)))..-------------------- ( -21.80, z-score =  -3.29, R)
>droAna3.scaffold_13417 4405154 102 - 6960332
CUUCUAAUUCGCUGCUGGUUUUUUUUUUUUUUUUGUAUUUGUCGUUACACAUAAUC-CAACCA---UUCAGAGCCAAGGAGAGCAAUUCGAUUGAUUGCACGACAG
..(((..((.(((.((((...............((((........)))).......-......---.))))))).))..)))((((((.....))))))....... ( -15.45, z-score =   0.40, R)
>droVir3.scaffold_13042 4191679 78 - 5191987
---CUAAUACGCUGCGGGAUUUUUUUUUUU-----GCUCUAUUACUAUUUUUUGUCGUAAUUGUAAUUUGAUCGUCGAAUUGCAAA--------------------
---....((((..((((((.......))))-----))......((........)))))).((((((((((.....)))))))))).-------------------- ( -13.50, z-score =  -1.52, R)
>consensus
CUUCUAAUUCGCUGCGGGUAUUUUUUUU______GUGUUUGUUGUUACAUAUAAUC_CGAUCA_AUUUCGAUCGCCCGCUUGGCAA____________________
..........(((((((((................(((.(((....))).))).....((((.......))))))))))..)))...................... ( -9.78 = -10.69 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,389,567 – 19,389,645
Length 78
Sequences 7
Columns 106
Reading direction reverse
Mean pairwise identity 73.19
Shannon entropy 0.45284
G+C content 0.38504
Mean single sequence MFE -16.14
Consensus MFE -8.06
Energy contribution -8.90
Covariance contribution 0.84
Combinations/Pair 1.35
Mean z-score -2.03
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.886019
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19389567 78 - 22422827
--------------------UUGCCAAGCGGGCGAUCGAAAU-UGAUCG-GAUUAUAUGUAACAACAAACAC------AAAAAAAAUACCCGCAGCGAAUUAGAAG
--------------------((((...(((((((((((....-))))))-.......(((....))).....------..........))))).))))........ ( -18.10, z-score =  -3.09, R)
>droSim1.chrX 14980738 78 - 17042790
--------------------UUGCCAAGCGGGCGAUCGAAAU-UGAUCG-GAUUAUAUGUAACAACAAACAC------AAAAAAAAUACCCGCAGCGAAUUAGAAG
--------------------((((...(((((((((((....-))))))-.......(((....))).....------..........))))).))))........ ( -18.10, z-score =  -3.09, R)
>droSec1.super_8 1672567 78 - 3762037
--------------------UUGCCAAGCGGGCGAUCGAAAU-UGAUCG-GAUUAUAUGUAACAACAAACAC------AAAAAAAAUACCCGCAGCGAAUUAGAAG
--------------------((((...(((((((((((....-))))))-.......(((....))).....------..........))))).))))........ ( -18.10, z-score =  -3.09, R)
>droYak2.chrX 9824435 78 + 21770863
--------------------UUGCCAAGCGGGCGAUCGAAGU-UGAUCG-GAUUAUAUGUAACAACAAACAC------AAAAAAAAUACCCGCAGCGAAUUAGAAG
--------------------((((...(((((((((((....-))))))-.......(((....))).....------..........))))).))))........ ( -18.10, z-score =  -2.74, R)
>droEre2.scaffold_4690 9628098 80 - 18748788
--------------------UUGCCAGGCGGGCGAUCGAAGU-UGAUCG-GUUUAUAUGUAACAACAAACAC----AAAAAAAAAAUACCCGCAGCGAAUUAGAAG
--------------------((((...(((((((((((....-))))))-.......(((....))).....----............))))).))))........ ( -19.20, z-score =  -2.48, R)
>droAna3.scaffold_13417 4405154 102 + 6960332
CUGUCGUGCAAUCAAUCGAAUUGCUCUCCUUGGCUCUGAA---UGGUUG-GAUUAUGUGUAACGACAAAUACAAAAAAAAAAAAAAAACCAGCAGCGAAUUAGAAG
.(((((((((...((((.((((..((...........)).---.)))).-))))...))).))))))....................................... ( -16.10, z-score =   0.02, R)
>droVir3.scaffold_13042 4191679 78 + 5191987
--------------------UUUGCAAUUCGACGAUCAAAUUACAAUUACGACAAAAAAUAGUAAUAGAGC-----AAAAAAAAAAAUCCCGCAGCGUAUUAG---
--------------------(((((((((.(.....).))))...(((((...........)))))...))-----)))........................--- (  -5.30, z-score =   0.28, R)
>consensus
____________________UUGCCAAGCGGGCGAUCGAAAU_UGAUCG_GAUUAUAUGUAACAACAAACAC______AAAAAAAAUACCCGCAGCGAAUUAGAAG
....................((((...(((((.(((((.....))))).........(((....))).....................))))).))))........ ( -8.06 =  -8.90 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:01:06 2011