Locus 11571

Sequence ID dm3.chr3R
Location 22,195,688 – 22,195,782
Length 94
Max. P 0.838765
window15896 window15897

overview

Window 6

Location 22,195,688 – 22,195,782
Length 94
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 90.18
Shannon entropy 0.18922
G+C content 0.51559
Mean single sequence MFE -32.27
Consensus MFE -24.17
Energy contribution -24.70
Covariance contribution 0.53
Combinations/Pair 1.18
Mean z-score -2.23
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.86
SVM RNA-class probability 0.838765
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22195688 94 + 27905053
UUCCCAUCCUCGACCACCC----UCGCUGCCAGUUUUUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
........((((((...((----((((.(((((..(......)..)))))......(((((((...))))))).........))))))....)))))) ( -32.30, z-score =  -2.38, R)
>droAna3.scaffold_13088 78093 96 + 569066
-CCCUUCCCCCCAAAUCCCGCCGUUGGUGGC-GUUUCUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGCGUGGGGAUUUGUCGGG
-.....(((..((((((((..(((...((((-.......(((((.......)))))(((((((...)))))))))))...)))..))))))))..))) ( -35.20, z-score =  -2.59, R)
>droEre2.scaffold_4820 4623181 98 - 10470090
UUCCCCUCCUCGACCACCCACCCUCGCUGCCAGUUUUUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
........((((((.......((((((.(((((..(......)..)))))......(((((((...))))))).........))))))....)))))) ( -30.90, z-score =  -1.58, R)
>droYak2.chr3R 4546556 94 - 28832112
UUCCCAUCCUCGACCAUCC----UCGUUGCCAGUUUUUGUUUGCUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
........((((((.((((----((((.(((((............)))))......(((((((...))))))).........))))))))..)))))) ( -32.80, z-score =  -2.73, R)
>droSec1.super_13 983389 94 + 2104621
UUCCCAUCCUCGACCACCC----UCGCUGCCAGUUUUUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
........((((((...((----((((.(((((..(......)..)))))......(((((((...))))))).........))))))....)))))) ( -32.30, z-score =  -2.38, R)
>droSim1.chr3R 22042433 94 + 27517382
UUCCCAUCCUCGACCACCC----UCGCUGCAAGUUUUUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
........((((((...((----((((.(((((......)))))............(((((((...))))))).........))))))....)))))) ( -30.10, z-score =  -1.74, R)
>consensus
UUCCCAUCCUCGACCACCC____UCGCUGCCAGUUUUUGUUUGUUUUGGUCAUAAAGCUGAGCUGAGCUCAGCGUUAAAUGUGCGGGGAUUUGUCGGG
..((((((((((..(((.......(((((..(((((..((((((((((....)))))).)))).))))))))))......)))))))))).....))) (-24.17 = -24.70 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 22,195,688 – 22,195,782
Length 94
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 90.18
Shannon entropy 0.18922
G+C content 0.51559
Mean single sequence MFE -30.76
Consensus MFE -19.59
Energy contribution -20.59
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.726383
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22195688 94 - 27905053
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAAAAACUGGCAGCGA----GGGUGGUCGAGGAUGGGAA
((((((....((((((.........(((((((...)))))))....((.(((..............)))))))).----)))..)))).))....... ( -31.54, z-score =  -2.84, R)
>droAna3.scaffold_13088 78093 96 - 569066
CCCGACAAAUCCCCACGCAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAGAAAC-GCCACCAACGGCGGGAUUUGGGGGGAAGGG-
(((..((((((((............(((((((...)))))))........................-(((......)))))))))))..))).....- ( -35.20, z-score =  -3.93, R)
>droEre2.scaffold_4820 4623181 98 + 10470090
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAAAAACUGGCAGCGAGGGUGGGUGGUCGAGGAGGGGAA
((((((....((((((.........(((((((...)))))))....((.(((..............)))))))).)))......)))).))....... ( -31.04, z-score =  -1.28, R)
>droYak2.chr3R 4546556 94 + 28832112
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAGCAAACAAAAACUGGCAACGA----GGAUGGUCGAGGAUGGGAA
((((((..((((.((..........(((((((...)))))))....((.(((..............))))).)).----)))).)))).))....... ( -26.24, z-score =  -1.73, R)
>droSec1.super_13 983389 94 - 2104621
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAAAAACUGGCAGCGA----GGGUGGUCGAGGAUGGGAA
((((((....((((((.........(((((((...)))))))....((.(((..............)))))))).----)))..)))).))....... ( -31.54, z-score =  -2.84, R)
>droSim1.chr3R 22042433 94 - 27517382
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAAAAACUUGCAGCGA----GGGUGGUCGAGGAUGGGAA
((((((....((((((.........(((((((...))))))).................(((....)))..))).----)))..)))).))....... ( -29.00, z-score =  -2.29, R)
>consensus
CCCGACAAAUCCCCGCACAUUUAACGCUGAGCUCAGCUCAGCUUUAUGACCAAAACAAACAAAAACUGGCAGCGA____GGGUGGUCGAGGAUGGGAA
((((((....(((............(((((((...)))))))....((.(((..............)))))........)))..)))).))....... (-19.59 = -20.59 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:25 2011