Locus 4945

Sequence ID dm3.chr2R
Location 16,617,844 – 16,617,943
Length 99
Max. P 0.996804
window6797 window6798

overview

Window 7

Location 16,617,844 – 16,617,943
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 76.34
Shannon entropy 0.45949
G+C content 0.48799
Mean single sequence MFE -33.97
Consensus MFE -19.54
Energy contribution -20.62
Covariance contribution 1.08
Combinations/Pair 1.44
Mean z-score -2.59
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.67
SVM RNA-class probability 0.994116
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16617844 99 + 21146708
UCUCCAUCUCCAGAGUGGUUUCCGGUUUAAGGUCCGACAGACUCCGUGUCAAAUUAAGCCUAUGGUCACCGGCAUUGCUGGUGAUAUCUAAUGGAGAUA--
.....(((((((...(((.....(((((((.....((((.......))))...)))))))....(((((((((...)))))))))..))).))))))).-- ( -33.50, z-score =  -2.52, R)
>droEre2.scaffold_4845 10767371 101 + 22589142
UCUCCAUCUCCAGGGUGGUUUCUGGCUUAAGGUCCGCAAGACUCUUUGUCGGAUUAAGCCUUUGGCCACCGGCAUUGGCGGUGAUAUCUGCUGGAGAUCAU
.....((((((..(((((((...((((((..(((((((((....)))).)))))))))))...)))))))......(((((......)))))))))))... ( -42.90, z-score =  -3.40, R)
>droYak2.chr2R 8563912 89 - 21139217
UCUCCAUCUGCAGGGUGGUUUCGGGUUUUAGGUCCGGA------------GGAUUAAGCUUAUGGCCACCGGCAUUGCUGGUGAUAUCUGAUGGAGAUAAU
(((((((((((..(((((((..((((((..(((((...------------)))))))))))..))))))).))).....((......)))))))))).... ( -32.70, z-score =  -2.14, R)
>droSec1.super_1 14170652 99 + 14215200
UCUCCAUUUCCAGAGUGGUUUCCGGUUUAAGGUCCGUCAGACUCCGUGUCAAAUUAAGCCUAUGGUCACCAGCAUUGCUGGUGAUAUCUAAUGGAGAUA--
((((((((.(((....(((((.(((........)))...(((.....))).....)))))..)))((((((((...)))))))).....))))))))..-- ( -33.90, z-score =  -3.48, R)
>droSim1.chr2R 15278231 99 + 19596830
UCUCCAUUUCCAGAGUGGUUUCCGGUUUAAGGUCCGUCAGACUCCGUGUCAAAUUAAGCCUAUGGUCACCAGCAUUGCUGGUGAUAUCUGAUGGAGAUA--
(((((((...((((..(((((.(((........)))...(((.....))).....)))))....(((((((((...))))))))).)))))))))))..-- ( -35.40, z-score =  -3.51, R)
>droAna3.scaffold_13266 15922903 101 - 19884421
UCUCCAUCUCCAACGUGGUGUCCGGCUUGAGCUCUUCCACGCCCCUAAUGCCAUCGGGCUUAUGAUCUCGGGCAUUUCGGGUAAUAUCUAACAGAACUCAA
......(((.....((((.....(((....)))...))))((((..((((((..((((........))))))))))..))))..........)))...... ( -25.40, z-score =  -0.49, R)
>consensus
UCUCCAUCUCCAGAGUGGUUUCCGGUUUAAGGUCCGCCAGACUCCGUGUCAAAUUAAGCCUAUGGUCACCGGCAUUGCUGGUGAUAUCUAAUGGAGAUA__
((((((((...............(((((((.........(((.....)))...)))))))....(((((((((...)))))))))....)))))))).... (-19.54 = -20.62 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,617,844 – 16,617,943
Length 99
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 76.34
Shannon entropy 0.45949
G+C content 0.48799
Mean single sequence MFE -30.89
Consensus MFE -18.00
Energy contribution -18.87
Covariance contribution 0.87
Combinations/Pair 1.50
Mean z-score -2.80
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.99
SVM RNA-class probability 0.996804
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16617844 99 - 21146708
--UAUCUCCAUUAGAUAUCACCAGCAAUGCCGGUGACCAUAGGCUUAAUUUGACACGGAGUCUGUCGGACCUUAAACCGGAAACCACUCUGGAGAUGGAGA
--..((((((((.....(((((.((...)).)))))((((((((((...........)))))))).))........(((((......))))).)))))))) ( -32.60, z-score =  -2.90, R)
>droEre2.scaffold_4845 10767371 101 - 22589142
AUGAUCUCCAGCAGAUAUCACCGCCAAUGCCGGUGGCCAAAGGCUUAAUCCGACAAAGAGUCUUGCGGACCUUAAGCCAGAAACCACCCUGGAGAUGGAGA
.(.((((((((.........(((((......))))).....(((((((((((.(((......)))))))..)))))))..........)))))))).)... ( -35.90, z-score =  -3.30, R)
>droYak2.chr2R 8563912 89 + 21139217
AUUAUCUCCAUCAGAUAUCACCAGCAAUGCCGGUGGCCAUAAGCUUAAUCC------------UCCGGACCUAAAACCCGAAACCACCCUGCAGAUGGAGA
....((((((((.....(((((.((...)).)))))......((.......------------..(((.........)))..........)).)))))))) ( -22.71, z-score =  -2.32, R)
>droSec1.super_1 14170652 99 - 14215200
--UAUCUCCAUUAGAUAUCACCAGCAAUGCUGGUGACCAUAGGCUUAAUUUGACACGGAGUCUGACGGACCUUAAACCGGAAACCACUCUGGAAAUGGAGA
--..((((((((.....((((((((...))))))))((.(((((((...........)))))))..))........(((((......))))).)))))))) ( -34.10, z-score =  -4.29, R)
>droSim1.chr2R 15278231 99 - 19596830
--UAUCUCCAUCAGAUAUCACCAGCAAUGCUGGUGACCAUAGGCUUAAUUUGACACGGAGUCUGACGGACCUUAAACCGGAAACCACUCUGGAAAUGGAGA
--..(((((((......((((((((...))))))))((.(((((((...........)))))))..))........(((((......)))))..))))))) ( -32.60, z-score =  -3.55, R)
>droAna3.scaffold_13266 15922903 101 + 19884421
UUGAGUUCUGUUAGAUAUUACCCGAAAUGCCCGAGAUCAUAAGCCCGAUGGCAUUAGGGGCGUGGAAGAGCUCAAGCCGGACACCACGUUGGAGAUGGAGA
(((((((((......(((..(((..((((((....(((........))))))))).)))..)))..))))))))).(((..(.((.....)).).)))... ( -27.40, z-score =  -0.45, R)
>consensus
__UAUCUCCAUCAGAUAUCACCAGCAAUGCCGGUGACCAUAGGCUUAAUUUGACACGGAGUCUGACGGACCUUAAACCGGAAACCACUCUGGAGAUGGAGA
....((((((((.....(((((.((...)).)))))...(((((((...........)))))))............((((........)))).)))))))) (-18.00 = -18.87 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:39:01 2011