Locus 14052

Sequence ID dm3.chrX
Location 10,851,640 – 10,851,733
Length 93
Max. P 0.825628
window19321 window19322

overview

Window 1

Location 10,851,640 – 10,851,733
Length 93
Sequences 7
Columns 93
Reading direction forward
Mean pairwise identity 78.46
Shannon entropy 0.39761
G+C content 0.48555
Mean single sequence MFE -28.71
Consensus MFE -13.01
Energy contribution -14.49
Covariance contribution 1.47
Combinations/Pair 1.28
Mean z-score -2.40
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.825628
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10851640 93 + 22422827
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAGGAGCGUGCUGGAUCAAAAAGAUGCCAUCACGUUUAUA
..((((...(((((((((...((((..(((((......)))))...)))).....)))))))))((((((.....))).)))..))))..... ( -29.40, z-score =  -2.77, R)
>droSim1.chrX 8405008 93 + 17042790
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAGGAGCGUGCCGGAUCAAAAAGAUGCCAUCACGUUUAUA
..((((...(((((((((...((((..(((((......)))))...)))).....))))))))).(((((.....))).))...))))..... ( -28.70, z-score =  -2.41, R)
>droSec1.super_15 1553958 93 + 1954846
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAGGAGCGUGCUGGAUCAAAAAGAUGCCAUCACGUUUAUA
..((((...(((((((((...((((..(((((......)))))...)))).....)))))))))((((((.....))).)))..))))..... ( -29.40, z-score =  -2.77, R)
>droYak2.chrX 10498250 93 - 21770863
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAAGAGCGUGCUGGAUCAAAAAGAUGCCAUCACGUUUAUA
..((((...(((((((((...((((..(((((......)))))...)))).....)))))))))((((((.....))).)))..))))..... ( -29.40, z-score =  -3.32, R)
>droEre2.scaffold_4690 14469856 93 - 18748788
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAAGAGCGUGCUGGAUCAAGAAGAUGCCAUCACGCUUACA
..((((...(((((((((...((((..(((((......)))))...)))).....)))))))))((((((.....))).)))..))))..... ( -31.70, z-score =  -3.40, R)
>dp4.chrXL_group1e 677227 85 + 12523060
---AGAAUUGCAUGAACUGAAUUCGCUGGUGAACUCUCCAAGUC--GGUCUGAGAUGAUCGUG---GUUGGAGAAGAUGCCAGCGCGUAGAGC
---.(((((.((.....)))))))(((((((...(((((((.((--((((......))))).)---.)))))))...)))))))((.....)) ( -30.20, z-score =  -2.47, R)
>droPer1.super_30 419748 85 - 958394
---AGAAUUGCAUGAACUGAAUUCGCUUGUGAACUCUCCAAGUC--GGUCUGAGAUGAUCGUG---GCUGGAGAAGAUGCCAGCGCGUAGAGC
---.(((((.((.....)))))))(((.(((...((((((.(((--((((......)))))..---))))))))...))).)))((.....)) ( -22.20, z-score =   0.31, R)
>consensus
GUGCGUAUUGCACGUUCUAAAUUCCCUGGCGAACUUUCUUGCCCCCGGAAAAUGAGGAGCGUGCUGGAUCAAAAAGAUGCCAUCACGUUUAUA
.........(((((((((...((((..(((((......)))))...)))).....)))))))))............................. (-13.01 = -14.49 +   1.47)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 10,851,640 – 10,851,733
Length 93
Sequences 7
Columns 93
Reading direction reverse
Mean pairwise identity 78.46
Shannon entropy 0.39761
G+C content 0.48555
Mean single sequence MFE -26.49
Consensus MFE -13.57
Energy contribution -14.19
Covariance contribution 0.62
Combinations/Pair 1.25
Mean z-score -2.00
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.54
SVM RNA-class probability 0.734155
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10851640 93 - 22422827
UAUAAACGUGAUGGCAUCUUUUUGAUCCAGCACGCUCCUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
.......(((.(((.(((.....))))))(((((.((.....(((((((((((......)))).)).)))))....)).)))))....))).. ( -26.80, z-score =  -1.89, R)
>droSim1.chrX 8405008 93 - 17042790
UAUAAACGUGAUGGCAUCUUUUUGAUCCGGCACGCUCCUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
.......(((.(((.(((.....))))))(((((.((.....(((((((((((......)))).)).)))))....)).)))))....))).. ( -25.90, z-score =  -1.18, R)
>droSec1.super_15 1553958 93 - 1954846
UAUAAACGUGAUGGCAUCUUUUUGAUCCAGCACGCUCCUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
.......(((.(((.(((.....))))))(((((.((.....(((((((((((......)))).)).)))))....)).)))))....))).. ( -26.80, z-score =  -1.89, R)
>droYak2.chrX 10498250 93 + 21770863
UAUAAACGUGAUGGCAUCUUUUUGAUCCAGCACGCUCUUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
.......(((.(((.(((.....))))))(((((.(((..(((..(.((((((......)))).)).)..)))..))).)))))....))).. ( -29.40, z-score =  -3.00, R)
>droEre2.scaffold_4690 14469856 93 + 18748788
UGUAAGCGUGAUGGCAUCUUCUUGAUCCAGCACGCUCUUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
.....(((((.(((.(((.....))))))(((((.(((..(((..(.((((((......)))).)).)..)))..))).)))))..))))).. ( -33.40, z-score =  -3.21, R)
>dp4.chrXL_group1e 677227 85 - 12523060
GCUCUACGCGCUGGCAUCUUCUCCAAC---CACGAUCAUCUCAGACC--GACUUGGAGAGUUCACCAGCGAAUUCAGUUCAUGCAAUUCU---
((.....))(((((....((((((((.---..((.((......)).)--)..))))))))....)))))(((((((.....)).))))).--- ( -24.40, z-score =  -2.72, R)
>droPer1.super_30 419748 85 + 958394
GCUCUACGCGCUGGCAUCUUCUCCAGC---CACGAUCAUCUCAGACC--GACUUGGAGAGUUCACAAGCGAAUUCAGUUCAUGCAAUUCU---
((.....))(((......((((((((.---..((.((......)).)--)..))))))))......)))(((((((.....)).))))).--- ( -18.70, z-score =  -0.12, R)
>consensus
UAUAAACGUGAUGGCAUCUUUUUGAUCCAGCACGCUCCUCAUUUUCCGGGGGCAAGAAAGUUCGCCAGGGAAUUUAGAACGUGCAAUACGCAC
......((((...((((.((((...........((((((........))))))....((((((......)))))))))).))))..))))... (-13.57 = -14.19 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:32:40 2011