Locus 15188

Sequence ID dm3.chrX
Location 17,864,147 – 17,864,289
Length 142
Max. P 0.998530
window20922 window20923

overview

Window 2

Location 17,864,147 – 17,864,265
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.25
Shannon entropy 0.40444
G+C content 0.45018
Mean single sequence MFE -31.35
Consensus MFE -22.92
Energy contribution -22.95
Covariance contribution 0.03
Combinations/Pair 1.27
Mean z-score -2.79
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.09
SVM RNA-class probability 0.997356
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17864147 118 - 22422827
--UCGGAAAAUAUGCAUUUUCCGCGUUUUUCCGACCCAACCGACCGACCCCUCGCUGGUAAUAAAUUUGGCUAGCAGCUUAACAAGGGAGCUCAACAGCAAUGAACAAAAACAAAAAAUA
--((((((((.((((.......))))))))))))(((........((....))((((((..........))))))..........))).(((....)))..................... ( -25.70, z-score =  -1.16, R)
>droSim1.chrX 13913081 114 - 17042790
--UCGGAAAAUAUGCAUUUUCCGCGUUUUUCCGCCACA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUUAACAAGGGAGCUGAACAGCAAUGAACAAAAACAAAAAAAA
--.(((((((.((((.......))))))))))).....----(((((....))((((((((......))))))))..........))).(((....)))..................... ( -32.80, z-score =  -3.09, R)
>droSec1.super_8 165525 114 - 3762037
--UCGGAAAAUACGCAUUAUCCGCGUUUUUCCGCCACA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUUAACAAGGGAGCUGAACAGCAAUGAACAAAAACAAAAAAAA
--.(((((((.((((.......))))))))))).....----(((((....))((((((((......))))))))..........))).(((....)))..................... ( -34.60, z-score =  -3.99, R)
>droYak2.chrX 16483185 107 - 21770863
--UAGGAAAAUAUGCAUUUUCCGCGUUUUUCCGCCCCA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUUAACAAGGGAGCUGAACAGCAAUGAAAAAAAAAA-------
--..(((((((....)))))))..(((.(((.(((((.----...((....))((((((((......))))))))..........))).)).))).)))..............------- ( -33.30, z-score =  -3.17, R)
>droEre2.scaffold_4690 8189792 106 - 18748788
--UCGGAAAAUAUGCAUUUUCCGCGCCUUUGCGCUCCA----CCCGACCCCUUGCUGGCCAUAAAUUUGGCCAGCAGCUUAACAA-GAAGCUGAAUAGCAACGAACCCAAAGA-------
--..(((((((....)))))))((((....))))....----..((.......((((((((......))))))))(((((.....-.))))).........))..........------- ( -34.20, z-score =  -3.96, R)
>droAna3.scaffold_13335 1566871 108 + 3335858
CUGCCAAAAAUAUGCAUUUUUCG------GCAGCUCUA------UGGGGAAUCGUUGGCCAUAAAUUUGGUUAGCAGCUUAACAAGUGAGCCGAAGAGGACCAAAAAAAUCCACAAAAAU
(((((((((((....)))))).)------))))((((.------((.......((((((((......)))))))).(((((.....))))))).))))...................... ( -27.50, z-score =  -1.37, R)
>consensus
__UCGGAAAAUAUGCAUUUUCCGCGUUUUUCCGCCCCA____CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUUAACAAGGGAGCUGAACAGCAAUGAACAAAAACAAAAAAAA
....(((((((....)))))))((.............................((((((((......))))))))(((((.......))))).....))..................... (-22.92 = -22.95 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,864,187 – 17,864,289
Length 102
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 74.76
Shannon entropy 0.45983
G+C content 0.55163
Mean single sequence MFE -32.77
Consensus MFE -19.09
Energy contribution -20.04
Covariance contribution 0.95
Combinations/Pair 1.32
Mean z-score -3.09
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.39
SVM RNA-class probability 0.998530
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17864187 102 - 22422827
-UCCAUG-GCCCCAUGGCCUGCCCCCUCGGAAAAUAUGCAUUU------UCCGCGUUUUUCCGACCCAACCGACCGACCCCUCGCUGGUAAUAAAUUUGGCUAGCAGCUU
-.(((((-....))))).((((..((((((((((.((((....------...))))))))))))....((((..(((....))).)))).........))...))))... ( -28.30, z-score =  -1.94, R)
>droSim1.chrX 13913121 98 - 17042790
CUCCAUG-GCCUCAUGGCCUG-CCCCUCGGAAAAUAUGCAUUU------UCCGCGUUUUUCCGCCACA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUU
......(-(((....)))).(-(....(((((((.((((....------...))))))))))).....----...........((((((((......)))))))).)).. ( -33.90, z-score =  -3.72, R)
>droSec1.super_8 165565 98 - 3762037
CUCCAUG-GCCUCAUGGCCUG-CCCCUCGGAAAAUACGCAUUA------UCCGCGUUUUUCCGCCACA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUU
......(-(((....)))).(-(....(((((((.((((....------...))))))))))).....----...........((((((((......)))))))).)).. ( -35.70, z-score =  -4.43, R)
>droYak2.chrX 16483218 90 - 21770863
---------AUUCAUGGCCAG-CUCCUAGGAAAAUAUGCAUUU------UCCGCGUUUUUCCGCCCCA----CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUU
---------....((((((((-(.....(((((((....))))------)))(((......)))....----...........)))))))))......(((.....))). ( -28.20, z-score =  -3.00, R)
>droEre2.scaffold_4690 8189824 98 - 18748788
CUCCAAG-GCCCCAUGGCCAG-CCCCUCGGAAAAUAUGCAUUU------UCCGCGCCUUUGCGCUCCA----CCCGACCCCUUGCUGGCCAUAAAUUUGGCCAGCAGCUU
......(-(((....))))((-(...(((((((((....))))------)))((((....))))....----...)).....(((((((((......)))))))))))). ( -38.90, z-score =  -4.34, R)
>droAna3.scaffold_13335 1566911 107 + 3335858
CCCGAUGUAUCCCCUGGCAAGCCCCCCUAAACCACGCCCCUGCCAAAAAUAUGCAUUUUUCGGCAGCUC---UAUGGGGAAUCGUUGGCCAUAAAUUUGGUUAGCAGCUU
...(((...(((((.(((.................))).(((((((((((....)))))).)))))...---...))))))))((((((((......))))))))..... ( -31.63, z-score =  -1.12, R)
>consensus
CUCCAUG_GCCCCAUGGCCAG_CCCCUCGGAAAAUAUGCAUUU______UCCGCGUUUUUCCGCCCCA____CCCGACCCCUCGCUGGCCAUAAAUUUGGCUAGCAGCUU
...............(((.........(((((((.((((.............)))))))))))....................((((((((......)))))))).))). (-19.09 = -20.04 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:54:37 2011