Locus 15108

Sequence ID dm3.chrX
Location 17,436,015 – 17,436,255
Length 240
Max. P 0.937520
window20817 window20818 window20819

overview

Window 7

Location 17,436,015 – 17,436,135
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.00
Shannon entropy 0.32617
G+C content 0.40833
Mean single sequence MFE -25.65
Consensus MFE -14.91
Energy contribution -16.73
Covariance contribution 1.81
Combinations/Pair 1.09
Mean z-score -2.18
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.73
SVM RNA-class probability 0.799816
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17436015 120 + 22422827
UCUUUUACUUAUAAAUUGCUGGAAUUUUCCGCAGAUUUUCUUCGCACUCAGUCAAGUGUGAAGCGAAUGGCACACCAUUUCCUCCCGCUUCUCUUCUCCCAAGAUUACAGAGACUUGUCU
...............((((.(((....))))))).....(((((((((......))))))))).((((((....)))))).........((((((((....)))....)))))....... ( -24.50, z-score =  -0.98, R)
>droEre2.scaffold_4690 7774961 96 + 18748788
UCUUUC-CUUAUAAAUUGCUCGAACUUUCCGCAGAUUUUUGC-----------------------AAUGCCACAACAUUUUCCCCAUCUUCUCUACUACAAAGAUCACAGAGACUUGUUU
......-.......(((((..(((((......)).)))..))-----------------------))).....((((.((((...(((((..........)))))....))))..)))). (  -7.60, z-score =   0.40, R)
>droSec1.super_17 1281446 120 + 1527944
UCUUUCAUUUAUAAAUUGCUGGAAUUUUCCGCAGAUUUUCUUCACACUCAGUCAAGUGUGAAGCGAAUGGCACACCAUUUCCUUCGUCUUCUCUUCUCCGAAGAUCACAGCGACUUGUCU
..........((((.((((((..((((((.(.(((....(((((((((......))))))))).((((((....))))))..............)))).))))))..)))))).)))).. ( -32.20, z-score =  -3.38, R)
>droSim1.chrX_random 4458620 120 + 5698898
UCUUUCAUUUAUAAAUUGCUGGAAUUUUCCGGAGAUUUUCUUCACACUCAGUCAAGUGUGAAGCGAAUGGCACACCAUUUCCUUCGUCUUCUCUUCUCCGAAGAUCACAGCGACUUGUCU
..........((((.((((((..((((((.(((((....(((((((((......))))))))).((((((....))))))..............)))))))))))..)))))).)))).. ( -38.30, z-score =  -4.77, R)
>consensus
UCUUUCACUUAUAAAUUGCUGGAAUUUUCCGCAGAUUUUCUUCACACUCAGUCAAGUGUGAAGCGAAUGGCACACCAUUUCCUCCGUCUUCUCUUCUCCGAAGAUCACAGAGACUUGUCU
..........((((.((((((((....)))...(((((((((((((((......))))))))..((((((....))))))...................)))))))..))))).)))).. (-14.91 = -16.73 +   1.81)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,436,135 – 17,436,255
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.58
Shannon entropy 0.16684
G+C content 0.45985
Mean single sequence MFE -38.02
Consensus MFE -31.96
Energy contribution -32.44
Covariance contribution 0.48
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.12
SVM RNA-class probability 0.895757
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17436135 120 + 22422827
GCUAAUUGUAGCCUGCGGAGUUGAAUUGCAGGGUUAGAUGGGUUUAUCUAACACCUGUCACUUGAUUGUCAAUCUGACACGCGAUCGAGGGAAGCGUCAUUAAGCAGACUUCAGGUUUCG
.......(.((((((..(((((.....(((((((((((((....)))))))).)))))..(((((((((...........)))))))))....((........)).))))))))))).). ( -35.70, z-score =  -1.24, R)
>droEre2.scaffold_4690 7775057 120 + 18748788
GCUAAUUGUUGCUUGUGGAGUUGGAUUGCCGGGUUGGAUGGUUUUAUCUAACACCUGUCAUUUGAUUGUCAAUCUGACACGCGAUCAAGGGAAGCGUCAUUAAAACGACUUCAGGCUCCG
((........))....((((((.((((((.((((((((((....)))))))).))(((((.(((.....)))..))))).))))))....(((((((.......))).)))).)))))). ( -37.40, z-score =  -2.00, R)
>droYak2.chrX 16064648 119 + 21770863
GCUAAUUGUAGCUCGAGGUGUUGGAUUGCAGGGUUAGAUGGGUUUAUCUAACACCUGUCACUUGAUUGUCAAUCUGACACGCGAUCGCGAGAAGCGUCAUUAAAACGACUUUAGGUGCC-
(((..(((..(.(((..((((..(((((((((((((((((....)))))))).))))((....))....)))))..)))).))))..)))..)))(((........)))..........- ( -38.00, z-score =  -2.17, R)
>droSec1.super_17 1281566 120 + 1527944
GCUAAUUGUAGCCUGAGGAGUUGGAUUGCAGGGUUAGAUGGGUUUAUCUAACACCUGUCACUUGAUUGUCACUCUGACACGCGAUCGAGGGUAGCGUCAUUAAGAAGACUUCAGGUUUCG
.......(.(((((((((.........(((((((((((((....)))))))).)))))..((((((.(((.....)))((((.((.....)).)))).))))))....))))))))).). ( -38.10, z-score =  -1.79, R)
>droSim1.chrX_random 4458740 119 + 5698898
GCUAAUUGUAGCCUGAGGAGUUGGAUUGCAGGGUUAGAUGGGUUUAUCUAACACCUGUCACUUGAUUGUCAAUCUGACACGCGAUCGAGGGUAGCGUCAUUAAGAAGACUUCAGGUUAA-
........((((((((((.((..(((((((((((((((((....)))))))).))))((....))....)))))..))((((.((.....)).))))...........)))))))))).- ( -40.90, z-score =  -3.13, R)
>consensus
GCUAAUUGUAGCCUGAGGAGUUGGAUUGCAGGGUUAGAUGGGUUUAUCUAACACCUGUCACUUGAUUGUCAAUCUGACACGCGAUCGAGGGAAGCGUCAUUAAGAAGACUUCAGGUUCCG
..........((((((((.(((((((((((((((((((((....)))))))).))))((....))....)))))))))((((...(....)..))))...........)))))))).... (-31.96 = -32.44 +   0.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,436,135 – 17,436,255
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.58
Shannon entropy 0.16684
G+C content 0.45985
Mean single sequence MFE -30.71
Consensus MFE -23.68
Energy contribution -23.88
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -2.56
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.41
SVM RNA-class probability 0.937520
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17436135 120 - 22422827
CGAAACCUGAAGUCUGCUUAAUGACGCUUCCCUCGAUCGCGUGUCAGAUUGACAAUCAAGUGACAGGUGUUAGAUAAACCCAUCUAACCCUGCAAUUCAACUCCGCAGGCUACAAUUAGC
.......((.(((((((.......(((((...((((((........)))))).....))))).((((.(((((((......)))))))))))............))))))).))...... ( -33.80, z-score =  -3.21, R)
>droEre2.scaffold_4690 7775057 120 - 18748788
CGGAGCCUGAAGUCGUUUUAAUGACGCUUCCCUUGAUCGCGUGUCAGAUUGACAAUCAAAUGACAGGUGUUAGAUAAAACCAUCCAACCCGGCAAUCCAACUCCACAAGCAACAAUUAGC
.((((...((((.((((.....))))))))....(((.((.(((((..(((.....))).)))))((.(((.(((......))).))))).)).)))...))))................ ( -28.10, z-score =  -1.55, R)
>droYak2.chrX 16064648 119 - 21770863
-GGCACCUAAAGUCGUUUUAAUGACGCUUCUCGCGAUCGCGUGUCAGAUUGACAAUCAAGUGACAGGUGUUAGAUAAACCCAUCUAACCCUGCAAUCCAACACCUCGAGCUACAAUUAGC
-.....((((.(((((....)))))((((...((....))((((..(((((((......))..((((.(((((((......))))))))))))))))..))))...)))).....)))). ( -31.40, z-score =  -2.57, R)
>droSec1.super_17 1281566 120 - 1527944
CGAAACCUGAAGUCUUCUUAAUGACGCUACCCUCGAUCGCGUGUCAGAGUGACAAUCAAGUGACAGGUGUUAGAUAAACCCAUCUAACCCUGCAAUCCAACUCCUCAGGCUACAAUUAGC
.....(((((.(((..(((..((((((.............))))))))).))).......((.((((.(((((((......)))))))))))))..........)))))........... ( -30.82, z-score =  -2.63, R)
>droSim1.chrX_random 4458740 119 - 5698898
-UUAACCUGAAGUCUUCUUAAUGACGCUACCCUCGAUCGCGUGUCAGAUUGACAAUCAAGUGACAGGUGUUAGAUAAACCCAUCUAACCCUGCAAUCCAACUCCUCAGGCUACAAUUAGC
-....(((((.(((.......((((((.............))))))....))).......((.((((.(((((((......)))))))))))))..........)))))........... ( -29.42, z-score =  -2.84, R)
>consensus
CGAAACCUGAAGUCUUCUUAAUGACGCUUCCCUCGAUCGCGUGUCAGAUUGACAAUCAAGUGACAGGUGUUAGAUAAACCCAUCUAACCCUGCAAUCCAACUCCUCAGGCUACAAUUAGC
......((((.(((........)))(((........((((.((((.....)))).....))))((((.(((((((......)))))))))))...............))).....)))). (-23.68 = -23.88 +   0.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:09 2011