Locus 13585

Sequence ID dm3.chrX
Location 7,604,863 – 7,604,965
Length 102
Max. P 0.978641
window18700 window18701

overview

Window 0

Location 7,604,863 – 7,604,965
Length 102
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 62.17
Shannon entropy 0.66692
G+C content 0.39083
Mean single sequence MFE -23.09
Consensus MFE -10.84
Energy contribution -13.24
Covariance contribution 2.40
Combinations/Pair 1.30
Mean z-score -1.02
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.826337
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7604863 102 + 22422827
-AUUGAU--AAAGAAAUAUUUUGAACGGCGCGCCAAUUAAGUGCUACCCAUGCGGGC-AAUUUAA-CAUGGCUAGCAUUGACCGUCGAUAAA-UUUUUAAAUGCUCGA
-......--..((((((...((((.(((...........(((((((.(((((.....-.......-))))).)))))))..)))))))...)-))))).......... ( -19.22, z-score =   0.75, R)
>droSim1.chrX_random 2316601 106 + 5698898
-AUUGAUUAAAAAAAAUAUUUUGAACGGCGCGCCAAUUCAGUGCUACCCAUGAAGAC-AAUAUAAGUAUGGGCAGCAUUGGCCGUCGAUAAUCUUUUUAAAUGCUCGA
-.((((((((((......)))))).(((((.((((.....(((((.((((((.....-........)))))).)))))))))))))).................)))) ( -26.92, z-score =  -1.78, R)
>droSec1.super_24 810021 106 + 912625
-AUUGAUUAAAAAAAAUAUUUUGAACGGGGCGCCAAUUCUGUGCUACCCAUGAAGAC-AAUAUAAGUAUGGGUAGCAUUGGCCGUCGAUAAUCUUUUUAAAUGCUCGA
-.((((((((((......)))))).(((.(.((((.....((((((((((((.....-........))))))))))))))))).))).................)))) ( -27.62, z-score =  -2.09, R)
>droEre2.scaffold_4690 16524244 101 + 18748788
-UUUGAUAAAAAAAAACAUUUUGAAAAUCGCGCCAAUUAAGUGCGACCCAUGCCUCCGAAUGUACGUAUGGGCAGCAUUGGCUAACGAUUAA-CUUUUAAAUG-----
-...............(((((.((((((((.((((.....((((..(((((((............)))))))..))))))))...)))))..-.))).)))))----- ( -24.50, z-score =  -2.41, R)
>droVir3.scaffold_12970 3882613 84 + 11907090
CAAUUAUUUCGGCAAACUUUUCACGACGCGCCUCUUAUUAUUUUGAAAUGCGCGGGC-AAAGCACGUGCUGCAAACUUUGCUUGA-----------------------
..........((((((.(((.((((.(((((...(((......)))...))))).((-...)).))))....))).))))))...----------------------- ( -17.20, z-score =   0.45, R)
>consensus
_AUUGAUUAAAAAAAAUAUUUUGAACGGCGCGCCAAUUAAGUGCUACCCAUGCAGAC_AAUAUAAGUAUGGGCAGCAUUGGCCGUCGAUAAA_UUUUUAAAUGCUCGA
.........................(((((.((((.....(((((.((((((..............)))))).))))))))))))))..................... (-10.84 = -13.24 +   2.40)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 7,604,863 – 7,604,965
Length 102
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 62.17
Shannon entropy 0.66692
G+C content 0.39083
Mean single sequence MFE -23.82
Consensus MFE -12.11
Energy contribution -12.51
Covariance contribution 0.40
Combinations/Pair 1.47
Mean z-score -1.44
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.00
SVM RNA-class probability 0.978641
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7604863 102 - 22422827
UCGAGCAUUUAAAAA-UUUAUCGACGGUCAAUGCUAGCCAUG-UUAAAUU-GCCCGCAUGGGUAGCACUUAAUUGGCGCGCCGUUCAAAAUAUUUCUUU--AUCAAU-
..((((...(((...-.)))..(.((((((((((((.(((((-(......-....)))))).))))).....))))).)).))))).............--......- ( -22.20, z-score =  -0.49, R)
>droSim1.chrX_random 2316601 106 - 5698898
UCGAGCAUUUAAAAAGAUUAUCGACGGCCAAUGCUGCCCAUACUUAUAUU-GUCUUCAUGGGUAGCACUGAAUUGGCGCGCCGUUCAAAAUAUUUUUUUUAAUCAAU-
........(((((((((.(((((.(((((((((((((((((((.......-))....)))))))))).....))))).)).))......))).))))))))).....- ( -27.50, z-score =  -2.34, R)
>droSec1.super_24 810021 106 - 912625
UCGAGCAUUUAAAAAGAUUAUCGACGGCCAAUGCUACCCAUACUUAUAUU-GUCUUCAUGGGUAGCACAGAAUUGGCGCCCCGUUCAAAAUAUUUUUUUUAAUCAAU-
........(((((((((.(((.(((((((((((((((((((((.......-))....)))))))))).....)))))....))))....))).))))))))).....- ( -26.10, z-score =  -2.91, R)
>droEre2.scaffold_4690 16524244 101 - 18748788
-----CAUUUAAAAG-UUAAUCGUUAGCCAAUGCUGCCCAUACGUACAUUCGGAGGCAUGGGUCGCACUUAAUUGGCGCGAUUUUCAAAAUGUUUUUUUUUAUCAAA-
-----.........(-..((((((..((((((((.((((((.(.(........).).)))))).))).....)))))))))))..).....................- ( -23.90, z-score =  -1.57, R)
>droVir3.scaffold_12970 3882613 84 - 11907090
-----------------------UCAAGCAAAGUUUGCAGCACGUGCUUU-GCCCGCGCAUUUCAAAAUAAUAAGAGGCGCGUCGUGAAAAGUUUGCCGAAAUAAUUG
-----------------------....(((((.(((...(((((((((((-((....))(((.......)))..))))))))).))..))).)))))........... ( -19.40, z-score =   0.10, R)
>consensus
UCGAGCAUUUAAAAA_AUUAUCGACGGCCAAUGCUACCCAUACUUACAUU_GCCCGCAUGGGUAGCACUGAAUUGGCGCGCCGUUCAAAAUAUUUUUUUUAAUCAAU_
..........................(((((((((((((((................))))))))).....))))))............................... (-12.11 = -12.51 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:24:05 2011