Locus 15252

Sequence ID dm3.chrX
Location 18,132,500 – 18,132,650
Length 150
Max. P 0.987949
window21009 window21010 window21011

overview

Window 9

Location 18,132,500 – 18,132,614
Length 114
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 82.59
Shannon entropy 0.31141
G+C content 0.47039
Mean single sequence MFE -32.84
Consensus MFE -21.42
Energy contribution -21.86
Covariance contribution 0.44
Combinations/Pair 1.21
Mean z-score -2.28
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.26
SVM RNA-class probability 0.918099
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18132500 114 + 22422827
GACAACUCGAAUUCGGCCAAUCAAAGCUUGGGGAAUUCCGUGUAAAACCGUUCAGCCAGA-GCCACUCAACCCUGAUUGAACGCGAGUUGAAAGGCUUCUGCUAUAAAGAGCCUG
..((((((((((((..((((.......)))).))))))..........((((((..(((.-(........).)))..)))))).))))))..(((((.((.......))))))). ( -33.30, z-score =  -1.95, R)
>droSim1.chrX 13997513 113 + 17042790
GACAACUCCAAUUUGGCCAAUCAAAGCUUGGGGAGUUCCGUGUAAAAGCGUUCAACCAGA-GCCACUCGAGC-UGAUUGAACGCGAGUUGAAAGGCUCCUGCUAUAAAGAGCCUG
..((((((.....((..((((((..(((((((..(((((((......)))........))-))..)))))))-))))))..)).))))))..((((((.(......).)))))). ( -36.40, z-score =  -2.20, R)
>droSec1.super_8 444830 113 + 3762037
GACAACUCCAAUUCGGCCAAUCGAAGCUUGGGGAAUUCCGUGUAAAAGCGUUCAACCAGA-GCCACUCAAGC-UGAUUGAACGCGAGUUGAAAGACUCCUGCUAUAAAGAGCCUG
.....(((((((((((....)))))..))))))..(((..((((...((((((((.(((.-..........)-)).))))))))(((((....)))))....))))..))).... ( -31.80, z-score =  -1.74, R)
>droYak2.chrX 16762195 104 + 21770863
AACA-CUCCAAUUUGGUCAAUCAGAAC---------UCCGUGAAAUUGCGUUCAACCAAAAGCAGUUCAAUC-UGAUUGAACGCAAGUUGAAGGGCUCUUGCUAUAAAGAGCCUG
....-((.(((((((((((((((((..---------....((((.((((............)))))))).))-)))))).)).))))))).))(((((((......))))))).. ( -35.20, z-score =  -4.50, R)
>droEre2.scaffold_4690 8462927 112 + 18748788
GACA-CUCAAAUUCGGUCAAAGAAAACCUGGGGAAUUCCGUGAAAACACGUUCAACCAAA-GCCAUGCAAGC-UGAUUGAACGAGAGUUGAAUGGCUCGUGCUAUAAAGAGCCAG
(((.-(((...(((((((..........(((((....))(((....)))......))).(-((.......))-)))))))).))).)))...((((((..........)))))). ( -27.50, z-score =  -1.01, R)
>consensus
GACAACUCCAAUUCGGCCAAUCAAAGCUUGGGGAAUUCCGUGUAAAAGCGUUCAACCAGA_GCCACUCAAGC_UGAUUGAACGCGAGUUGAAAGGCUCCUGCUAUAAAGAGCCUG
..((((((......(((........)))...................((((((((.((...((.......)).)).))))))))))))))..((((((.(......).)))))). (-21.42 = -21.86 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,132,500 – 18,132,614
Length 114
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 82.59
Shannon entropy 0.31141
G+C content 0.47039
Mean single sequence MFE -37.06
Consensus MFE -27.40
Energy contribution -28.44
Covariance contribution 1.04
Combinations/Pair 1.16
Mean z-score -2.62
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.30
SVM RNA-class probability 0.987949
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18132500 114 - 22422827
CAGGCUCUUUAUAGCAGAAGCCUUUCAACUCGCGUUCAAUCAGGGUUGAGUGGC-UCUGGCUGAACGGUUUUACACGGAAUUCCCCAAGCUUUGAUUGGCCGAAUUCGAGUUGUC
.(((((((.......)).)))))..((((((.((((((..(((((((....)))-))))..))))))..........((((((.((((.......))))..)))))))))))).. ( -40.10, z-score =  -2.58, R)
>droSim1.chrX 13997513 113 - 17042790
CAGGCUCUUUAUAGCAGGAGCCUUUCAACUCGCGUUCAAUCA-GCUCGAGUGGC-UCUGGUUGAACGCUUUUACACGGAACUCCCCAAGCUUUGAUUGGCCAAAUUGGAGUUGUC
.((((((((......))))))))..(((((((((((((((((-(..(.....).-.))))))))))))........((......))..(((......))).......)))))).. ( -38.80, z-score =  -2.45, R)
>droSec1.super_8 444830 113 - 3762037
CAGGCUCUUUAUAGCAGGAGUCUUUCAACUCGCGUUCAAUCA-GCUUGAGUGGC-UCUGGUUGAACGCUUUUACACGGAAUUCCCCAAGCUUCGAUUGGCCGAAUUGGAGUUGUC
.((((((((......))))))))..(((((((((((((((((-(((.....)))-..)))))))))))..........(((((.((((.......))))..))))).)))))).. ( -38.50, z-score =  -2.46, R)
>droYak2.chrX 16762195 104 - 21770863
CAGGCUCUUUAUAGCAAGAGCCCUUCAACUUGCGUUCAAUCA-GAUUGAACUGCUUUUGGUUGAACGCAAUUUCACGGA---------GUUCUGAUUGACCAAAUUGGAG-UGUU
..(((((((......)))))))((((((.(((((((((((((-((..........))))))))))))))).....(((.---------...)))..........))))))-.... ( -35.00, z-score =  -3.35, R)
>droEre2.scaffold_4690 8462927 112 - 18748788
CUGGCUCUUUAUAGCACGAGCCAUUCAACUCUCGUUCAAUCA-GCUUGCAUGGC-UUUGGUUGAACGUGUUUUCACGGAAUUCCCCAGGUUUUCUUUGACCGAAUUUGAG-UGUC
.((((((..........))))))....((.((((((((((((-(((.....)))-..)))))))))(((....))).((((((....((((......)))))))))))))-.)). ( -32.90, z-score =  -2.25, R)
>consensus
CAGGCUCUUUAUAGCAGGAGCCUUUCAACUCGCGUUCAAUCA_GCUUGAGUGGC_UCUGGUUGAACGCUUUUACACGGAAUUCCCCAAGCUUUGAUUGGCCGAAUUGGAGUUGUC
.((((((((......))))))))..(((((((((((((((((.(((.....)))...)))))))))))....................(((......))).......)))))).. (-27.40 = -28.44 +   1.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,132,540 – 18,132,650
Length 110
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 72.56
Shannon entropy 0.52935
G+C content 0.43534
Mean single sequence MFE -28.43
Consensus MFE -12.40
Energy contribution -13.16
Covariance contribution 0.76
Combinations/Pair 1.50
Mean z-score -2.13
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.48
SVM RNA-class probability 0.941852
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18132540 110 - 22422827
---CCACCUAGAUGAAAU-UUCCCACUAUUACUGAAAAUACAGGCUCUUUAUAGCAGAAGCCUUUCAACUCGCGUUCAAUCAGGGUUGAGUGGC-UCUGGCUGAACGGUUUUACA
---.........((((((-.............((((.....(((((((.......)).))))))))).....((((((..(((((((....)))-))))..)))))))))))).. ( -26.00, z-score =  -0.54, R)
>droSim1.chrX 13997553 109 - 17042790
---CCACCUAGAUGCAAU-UUCCCACUAUUACCAAAAAUACAGGCUCUUUAUAGCAGGAGCCUUUCAACUCGCGUUCAAUCA-GCUCGAGUGGC-UCUGGUUGAACGCUUUUACA
---...............-......................((((((((......))))))))........(((((((((((-(..(.....).-.))))))))))))....... ( -28.40, z-score =  -2.49, R)
>droSec1.super_8 444870 109 - 3762037
---CCACCUAGAUGCAAU-UUCCCACUAUUACUGAAAAUACAGGCUCUUUAUAGCAGGAGUCUUUCAACUCGCGUUCAAUCA-GCUUGAGUGGC-UCUGGUUGAACGCUUUUACA
---...............-.............((((.....((((((((......))))))))))))....(((((((((((-(((.....)))-..)))))))))))....... ( -27.00, z-score =  -1.52, R)
>droYak2.chrX 16762225 110 - 21770863
---CCACCUAUAUGCAAU-UUCCCACUAUUACUGCAAAUACAGGCUCUUUAUAGCAAGAGCCCUUCAACUUGCGUUCAAUCA-GAUUGAACUGCUUUUGGUUGAACGCAAUUUCA
---.....(((.((((..-.............)))).)))..(((((((......))))))).......(((((((((((((-((..........)))))))))))))))..... ( -30.86, z-score =  -4.63, R)
>droEre2.scaffold_4690 8462966 109 - 18748788
---ACACGCAGAAGCGAU-UUCCCACUAUUACUGGAAAUACUGGCUCUUUAUAGCACGAGCCAUUCAACUCUCGUUCAAUCA-GCUUGCAUGGC-UUUGGUUGAACGUGUUUUCA
---...(((....)))..-..............((((((((((((((..........))))))..........(((((((((-(((.....)))-..))))))))))))))))). ( -32.40, z-score =  -3.21, R)
>droAna3.scaffold_13248 3728206 99 + 4840945
CCACUGGCGGCAGGCAAUGUCCCCCCUAUUGUUG-AAAUACAGGUGUUUUAUAGGA-AAGUGUGUGUUUCAAUGAGAGGUUUCAACCGAUUGGC----GAUUGAA----------
.....((.((((.....)))))).(((.(..(((-(((((((.(..(((.....))-)..).))))))))))..).))).(((((.((.....)----).)))))---------- ( -25.90, z-score =  -0.41, R)
>consensus
___CCACCUAGAUGCAAU_UUCCCACUAUUACUGAAAAUACAGGCUCUUUAUAGCAGGAGCCUUUCAACUCGCGUUCAAUCA_GCUUGAGUGGC_UCUGGUUGAACGCUUUUACA
.........................................((((((((......)))))))).........((((((((((...............))))))))))........ (-12.40 = -13.16 +   0.76)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:55:48 2011