Locus 14657

Sequence ID dm3.chrX
Location 14,624,443 – 14,624,550
Length 107
Max. P 0.997161
window20179 window20180

overview

Window 9

Location 14,624,443 – 14,624,550
Length 107
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 69.29
Shannon entropy 0.58393
G+C content 0.56554
Mean single sequence MFE -40.32
Consensus MFE -17.52
Energy contribution -20.22
Covariance contribution 2.70
Combinations/Pair 1.24
Mean z-score -1.43
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.722085
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14624443 107 + 22422827
-CACUUCUUAGCCCAGCUGAUGGACUUUAAUUCGUGAAAAGGGCAUCAAAAUUAAGUUGCAGGCAGCACCUGCAGCCUGCAACUCGGCGG--CGAAG--UGGAGGUUGGACA--
-((((((...(((....(((((..((((.........))))..)))))......((((((((((.((....)).)))))))))).)))..--.))))--))...........-- ( -40.30, z-score =  -2.35, R)
>droAna3.scaffold_12948 28057 112 - 692136
CUGCACCUGCGGCCAGUGAUGAGAAUGGAAAUGGU--AAGGGAAAUGUGGCAGGGACUGGAGAGGCAGCCUGCUUGCUGCAGCAGCGAGGAACGAGACGCUGCGGCCAAGAACA
..((....))((((.....................--........((..((((((.(((......))))))...)))..))((((((..........))))))))))....... ( -34.20, z-score =   0.47, R)
>droEre2.scaffold_4690 6385972 109 - 18748788
-CCCUUCUUAGCGCAGCCGAUGGACUCCAGUCCGUGGAAGGGGCAUCCACAUUAAGUUGCAGGCAGCACCUGCAGCCCGCAACUCGGCGG--CGCAGCGCGGGGGUUGGACA--
-((((.(...((((.(((((.((((....))))(((((.......))))).....(((((.(((.((....)).))).)))))))))).)--)))...).))))........-- ( -49.30, z-score =  -1.61, R)
>droYak2.chrX 8851041 101 + 21770863
-CACUACUUAGAGCAGCUGUUGGACUCCAAUCCGUGGAGAGGGCAUCAAAAUUAAGUUGCAUGCAGCACCUGCAGCCUGCCACUCGGUGG--CGGAG-ACAAGGG---------
-...........((((.(((((..(((((.....)))))...(((.(........).)))...))))).))))..((((((((...))))--)(...-.).))).--------- ( -32.50, z-score =  -0.18, R)
>droSec1.super_32 77820 107 + 562834
-CACUUCUUAGCCCAGCUGAUGGACUCUAAUCCCUGGAAAGGGCAUCAAAAUUAAGUUGCAGGCAGCACCUGCAGCCUGCAACUCGUCGG--CGAAG--UGGAGGUUGGACA--
-.((((((..((...(((((((.........((((....))))...........((((((((((.((....)).))))))))))))))))--)...)--)))))))......-- ( -42.50, z-score =  -2.61, R)
>droSim1.chrX 11284218 107 + 17042790
-CACUUCUCAGCCCAGCUGAUGGACUCUAAUCCCUGGAAAGGGCAUCAAAAUUAAGUUGCAGGCAGCACCUGCAGCCUGCAACUCGGCGG--CGAAG--UGGAGGUUGGACA--
-((((((.(.(((....(((((.........((((....)))))))))......((((((((((.((....)).)))))))))).))).)--.))))--))...........-- ( -43.10, z-score =  -2.28, R)
>consensus
_CACUUCUUAGCCCAGCUGAUGGACUCUAAUCCGUGGAAAGGGCAUCAAAAUUAAGUUGCAGGCAGCACCUGCAGCCUGCAACUCGGCGG__CGAAG__CGGAGGUUGGACA__
..((((((..((((.......(((......))).......))))..........((((((((((.((....)).))))))))))................))))))........ (-17.52 = -20.22 +   2.70)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,624,443 – 14,624,550
Length 107
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 69.29
Shannon entropy 0.58393
G+C content 0.56554
Mean single sequence MFE -40.18
Consensus MFE -21.38
Energy contribution -24.16
Covariance contribution 2.78
Combinations/Pair 1.24
Mean z-score -2.35
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.05
SVM RNA-class probability 0.997161
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14624443 107 - 22422827
--UGUCCAACCUCCA--CUUCG--CCGCCGAGUUGCAGGCUGCAGGUGCUGCCUGCAACUUAAUUUUGAUGCCCUUUUCACGAAUUAAAGUCCAUCAGCUGGGCUAAGAAGUG-
--...........((--((((.--..((((((((((((((.((....)).)))))))))))....((((((..((((.........))))..))))))...)))...))))))- ( -42.30, z-score =  -4.40, R)
>droAna3.scaffold_12948 28057 112 + 692136
UGUUCUUGGCCGCAGCGUCUCGUUCCUCGCUGCUGCAGCAAGCAGGCUGCCUCUCCAGUCCCUGCCACAUUUCCCUU--ACCAUUUCCAUUCUCAUCACUGGCCGCAGGUGCAG
(((((((((((((((((..........))))))........((((((((......)))..)))))............--.....................))))).))).))). ( -29.70, z-score =  -0.53, R)
>droEre2.scaffold_4690 6385972 109 + 18748788
--UGUCCAACCCCCGCGCUGCG--CCGCCGAGUUGCGGGCUGCAGGUGCUGCCUGCAACUUAAUGUGGAUGCCCCUUCCACGGACUGGAGUCCAUCGGCUGCGCUAAGAAGGG-
--........(((..(...(((--(.((((((((((((((.((....)).))))))))).....(((((.......)))))((((....)))).))))).))))...)..)))- ( -54.20, z-score =  -3.51, R)
>droYak2.chrX 8851041 101 - 21770863
---------CCCUUGU-CUCCG--CCACCGAGUGGCAGGCUGCAGGUGCUGCAUGCAACUUAAUUUUGAUGCCCUCUCCACGGAUUGGAGUCCAACAGCUGCUCUAAGUAGUG-
---------.....(.-((((.--((...(((.((((.(((((((...))))).))..(........).))))..)))...))...)))).).....(((((.....))))).- ( -27.20, z-score =   0.86, R)
>droSec1.super_32 77820 107 - 562834
--UGUCCAACCUCCA--CUUCG--CCGACGAGUUGCAGGCUGCAGGUGCUGCCUGCAACUUAAUUUUGAUGCCCUUUCCAGGGAUUAGAGUCCAUCAGCUGGGCUAAGAAGUG-
--...........((--((((.--.....(((((((((((.((....)).)))))))))))...((((((.((((....))))))))))(((((.....)))))...))))))- ( -42.60, z-score =  -3.16, R)
>droSim1.chrX 11284218 107 - 17042790
--UGUCCAACCUCCA--CUUCG--CCGCCGAGUUGCAGGCUGCAGGUGCUGCCUGCAACUUAAUUUUGAUGCCCUUUCCAGGGAUUAGAGUCCAUCAGCUGGGCUGAGAAGUG-
--...........((--((((.--(.((((((((((((((.((....)).))))))))))).((((((((.((((....))))))))))))..........))).).))))))- ( -45.10, z-score =  -3.35, R)
>consensus
__UGUCCAACCUCCA__CUUCG__CCGCCGAGUUGCAGGCUGCAGGUGCUGCCUGCAACUUAAUUUUGAUGCCCUUUCCACGGAUUAGAGUCCAUCAGCUGGGCUAAGAAGUG_
.................((((........(((((((((((.((....)).))))))))))).........((((.......((((....)))).......))))...))))... (-21.38 = -24.16 +   2.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:44:17 2011