Locus 5741

Sequence ID dm3.chr3L
Location 784,443 – 784,535
Length 92
Max. P 0.969793
window7886 window7887

overview

Window 6

Location 784,443 – 784,535
Length 92
Sequences 8
Columns 93
Reading direction forward
Mean pairwise identity 88.54
Shannon entropy 0.22176
G+C content 0.46500
Mean single sequence MFE -27.64
Consensus MFE -14.20
Energy contribution -14.45
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -3.56
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969793
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 784443 92 + 24543557
CGACGCUAUCUC-AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
.(.(((((((..-..((((((...))))))...))))))))((...(((((((.....))))))))).......................... ( -31.90, z-score =  -4.63, R)
>droPer1.super_29 411760 84 - 1099123
------CGGCUCUAUCUGCUCGUUGGCCGCU-CGAUAGCGCACAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACAAA--AACAAAAAGAAC
------..((.(((((.((.........)).-.))))).)).....(((((((.....)))))))..............--............ ( -19.00, z-score =  -1.59, R)
>dp4.chrXR_group8 4760420 84 - 9212921
------CGGCUCUAUCUGCUCGUUGGCCGCU-CGAUAGCGCACAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACAAA--AACAAAAAGAAC
------..((.(((((.((.........)).-.))))).)).....(((((((.....)))))))..............--............ ( -19.00, z-score =  -1.59, R)
>droAna3.scaffold_13337 11746563 92 + 23293914
CGACCCUAUCUCUAUCUGGCAGUCGGACGGU-CGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAACAAAUUAAGCGCACCAACAAAAAGAAU
(((((((..((((....)).))..))..)))-))...((((.....(((((((.....))))))).........))))............... ( -23.64, z-score =  -2.11, R)
>droEre2.scaffold_4784 797782 92 + 25762168
CGACGCUAUCUC-AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
.(.(((((((..-..((((((...))))))...))))))))((...(((((((.....))))))))).......................... ( -31.90, z-score =  -4.63, R)
>droYak2.chr3L 779042 92 + 24197627
CGACGCUAUCUC-AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
.(.(((((((..-..((((((...))))))...))))))))((...(((((((.....))))))))).......................... ( -31.90, z-score =  -4.63, R)
>droSec1.super_2 805531 92 + 7591821
CGACGCUAUCUC-AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
.(.(((((((..-..((((((...))))))...))))))))((...(((((((.....))))))))).......................... ( -31.90, z-score =  -4.63, R)
>droSim1.chr3L 434915 92 + 22553184
CGACGCUAUCUC-AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
.(.(((((((..-..((((((...))))))...))))))))((...(((((((.....))))))))).......................... ( -31.90, z-score =  -4.63, R)
>consensus
CGACGCUAUCUC_AUGUGGCCGUUGGCCGCUACGAUAGCGCGCAAAUCAGGUGCAUAACACCUGAGCAAAUUAAACACACAAACAAAAAGAAU
......................((((.((((.....))))).))).(((((((.....)))))))............................ (-14.20 = -14.45 +   0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 784,443 – 784,535
Length 92
Sequences 8
Columns 93
Reading direction reverse
Mean pairwise identity 88.54
Shannon entropy 0.22176
G+C content 0.46500
Mean single sequence MFE -29.34
Consensus MFE -17.58
Energy contribution -17.66
Covariance contribution 0.08
Combinations/Pair 1.17
Mean z-score -2.35
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.600748
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 784443 92 - 24543557
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU-GAGAUAGCGUCG
..........................(((((((((.....)))))))...))((((((((...(.((((...)))).)..-..)))))))).. ( -30.40, z-score =  -2.32, R)
>droPer1.super_29 411760 84 + 1099123
GUUCUUUUUGUU--UUUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGUGCGCUAUCG-AGCGGCCAACGAGCAGAUAGAGCCG------
(((((.((((((--(.............(((((((.....))))))).(((..((((....-))))..))).))))))).)))))..------ ( -27.20, z-score =  -2.73, R)
>dp4.chrXR_group8 4760420 84 + 9212921
GUUCUUUUUGUU--UUUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGUGCGCUAUCG-AGCGGCCAACGAGCAGAUAGAGCCG------
(((((.((((((--(.............(((((((.....))))))).(((..((((....-))))..))).))))))).)))))..------ ( -27.20, z-score =  -2.73, R)
>droAna3.scaffold_13337 11746563 92 - 23293914
AUUCUUUUUGUUGGUGCGCUUAAUUUGUUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCG-ACCGUCCGACUGCCAGAUAGAGAUAGGGUCG
..(((((...(((((((((.(((.....(((((((.....))))))).))).))))..(((-......)))..)))))..)))))........ ( -28.30, z-score =  -1.78, R)
>droEre2.scaffold_4784 797782 92 - 25762168
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU-GAGAUAGCGUCG
..........................(((((((((.....)))))))...))((((((((...(.((((...)))).)..-..)))))))).. ( -30.40, z-score =  -2.32, R)
>droYak2.chr3L 779042 92 - 24197627
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU-GAGAUAGCGUCG
..........................(((((((((.....)))))))...))((((((((...(.((((...)))).)..-..)))))))).. ( -30.40, z-score =  -2.32, R)
>droSec1.super_2 805531 92 - 7591821
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU-GAGAUAGCGUCG
..........................(((((((((.....)))))))...))((((((((...(.((((...)))).)..-..)))))))).. ( -30.40, z-score =  -2.32, R)
>droSim1.chr3L 434915 92 - 22553184
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU-GAGAUAGCGUCG
..........................(((((((((.....)))))))...))((((((((...(.((((...)))).)..-..)))))))).. ( -30.40, z-score =  -2.32, R)
>consensus
AUUCUUUUUGUUUGUGUGUUUAAUUUGCUCAGGUGUUAUGCACCUGAUUUGCGCGCUAUCGUAGCGGCCAACGGCCACAU_GAGAUAGCGUCG
........((((.(((((..........(((((((.....))))))).(((.(((((.....)))).))))....)))))...))))...... (-17.58 = -17.66 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:54:11 2011