Locus 7165

Sequence ID dm3.chr3L
Location 12,631,338 – 12,631,457
Length 119
Max. P 0.997095
window9863 window9864

overview

Window 3

Location 12,631,338 – 12,631,436
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 83.28
Shannon entropy 0.31197
G+C content 0.49078
Mean single sequence MFE -28.87
Consensus MFE -17.84
Energy contribution -19.17
Covariance contribution 1.34
Combinations/Pair 1.12
Mean z-score -2.49
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.939354
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12631338 98 - 24543557
UGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGAGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGGUGCGAACGG
.(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..).((.......)). ( -31.40, z-score =  -2.99, R)
>droSim1.chr3L 12017059 98 - 22553184
UGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGGUGCGAACGG
.(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..).((.......)). ( -33.50, z-score =  -3.78, R)
>droSec1.super_0 4817624 98 - 21120651
UGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGGUGCGAACGG
.(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..).((.......)). ( -33.50, z-score =  -3.78, R)
>droYak2.chr3L 12698119 80 - 24197627
UGUGGAAUGCAAAUUUCUGGAUUUGG------------------GUCUGGGACUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCACGGCGAACGG
.(..((((((((..(((..(((....------------------)))..)))...((((.....))))......))))))))..)...((.....)). ( -23.40, z-score =  -2.25, R)
>dp4.chrXR_group6 3415421 95 - 13314419
UGUGGAAUGCAAAUUUCGGGCCUUGG-UAUGGGUUUGGGAUUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUGAUGCUCGGUGGCAGG--
........((.(((..(((((((...-...)))))))..)))..))(((...((((((((....((((((....))))))))))).)))...))).-- ( -27.80, z-score =  -1.50, R)
>droPer1.super_9 1714373 95 - 3637205
CGUGGAAUGCAAAUUUCGGGUCUUGG-UAUGGGUUUGGGAUUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUGAUGCUCGGUGGCAGG--
........((.(((..(((..((...-...))..)))..)))..))(((...((((((((....((((((....))))))))))).)))...))).-- ( -23.60, z-score =  -0.65, R)
>consensus
UGUGGAAUGCAAAUUUCUGGAUCUGG_UGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGGUGCGAACGG
.(((((((((((...((..(((((((..............)))))))..))....((((.....))))......)))))))))))............. (-17.84 = -19.17 +   1.34)

alignment

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secondary structure

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dotplot

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Window 4

Location 12,631,347 – 12,631,457
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 83.76
Shannon entropy 0.25031
G+C content 0.47371
Mean single sequence MFE -29.84
Consensus MFE -24.00
Energy contribution -24.72
Covariance contribution 0.72
Combinations/Pair 1.13
Mean z-score -3.32
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.04
SVM RNA-class probability 0.997095
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12631347 110 - 24543557
UACUACCCACUACUAUUCGAAUGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGAGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGG
.................(((..(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..)))). ( -32.80, z-score =  -2.68, R)
>droSim1.chr3L 12017068 91 - 22553184
-------------------AAUGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGG
-------------------...(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..).... ( -33.20, z-score =  -5.38, R)
>droSec1.super_0 4817633 91 - 21120651
-------------------AAUGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGG
-------------------...(..((((((((......(((((..(((.(((((....))))).)))..))))).((((.....))))......))))))))..).... ( -33.20, z-score =  -5.38, R)
>dp4.chrXR_group6 3415428 90 - 13314419
-------------------GGUGUGGAAUGCAAAUUUC-GGGCCUUGGUAUGGGUUUGGGAUUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUGAUGCUCGG
-------------------((..((((.....(((..(-((((((......)))))))..)))...))))..)).((((((....((((((....))))))))))))... ( -25.00, z-score =  -1.41, R)
>droPer1.super_9 1714380 90 - 3637205
-------------------GGCGUGGAAUGCAAAUUUC-GGGUCUUGGUAUGGGUUUGGGAUUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUGAUGCUCGG
-------------------(((.((((.....(((..(-((..((......))..)))..)))...)))).))).((((((....((((((....))))))))))))... ( -25.00, z-score =  -1.74, R)
>consensus
___________________AAUGUGGAAUGCAAAUUUCUGGAUCUGGAUGUGGAUUUGGGUCUGGGUCUGGGUCUGGCGUCUUUAACGUAAUUUAUUGCGUUCUGCUCGG
......................(((((((((((......((((((((((.(((((....))))).)))))))))).((((.....))))......))))))))))).... (-24.00 = -24.72 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:42 2011