Locus 4599

Sequence ID dm3.chr2R
Location 14,455,381 – 14,455,488
Length 107
Max. P 0.918078
window6303 window6304

overview

Window 3

Location 14,455,381 – 14,455,488
Length 107
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 90.55
Shannon entropy 0.16694
G+C content 0.59100
Mean single sequence MFE -37.22
Consensus MFE -33.14
Energy contribution -33.34
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -1.77
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.885122
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14455381 107 + 21146708
CCGUCCCCGAGGAUUGCCAAUAGAUGCCCCUAUUUAGCAAGGCCGCAUCCGCGGAAUGCGAUGCUAUCCCCCAUUUGGAGCUGCUGCUCCACUAUGCUCCAUCGUGG-----
.....(((((((((.((.(((((......)))))..(((...((((....))))..)))...)).))))..(((.((((((....))))))..))).....))).))----- ( -32.90, z-score =  -1.01, R)
>droEre2.scaffold_4845 8658110 107 + 22589142
CCGUCCCCGAGGAUGGCCAAUAGAUGCCCCUAUUUAGCAAGGCCGCAGCCGCGGAAUGCGAUGCCAUCCCCCAUUUGGAGCUGCUGCUCCACAAUGCUCCGACGUGG-----
.((((.....(((((((.(((((......)))))..(((...((((....))))..)))...)))))))..((((((((((....)))))).))))....))))...----- ( -40.70, z-score =  -2.36, R)
>droYak2.chr2R 6405090 112 - 21139217
UCGUGCCCGAGGAUGGCCAAUAGAUGCCCCUAUUUAGUAAGGCCGCAUCCGCGGAAUGCGCUGCCAUCCCCCAUUUGGAGCUGCUGCUCCACUAUGUACUAUCCAUCCAGUG
..((((....(((((((.....(((((.(((........)))..))))).(((.....))).)))))))......((((((....))))))....))))............. ( -37.00, z-score =  -1.93, R)
>droSec1.super_1 11923956 107 + 14215200
CCGUCCCCGAGGAUGGCCAAUAAAUGCCCCUAUUUAGCAAGGCCGCAUCCGCGGAAUGCGAUGCCAUCCCCCAUUUGGAGAUGCUGCUCCACUGUGCUCCAUCGCGG-----
((((..(((((((((((...((((((....))))))(((...((((....))))..)))...))))))).....)))).((((..((........))..))))))))----- ( -36.10, z-score =  -1.31, R)
>droSim1.chr2R 13171162 107 + 19596830
CCGUCCCCGAGGAUGGCCAAUAGAUGCCCCUAUUUAGCAAGGCCGCAUCCGCGGAAUGCGAUGCCAUCCCCCAUUUGGAGCUGCUGCUCCACUAUGCUCCAUCGUGG-----
.....((((((((((((.(((((......)))))..(((...((((....))))..)))...)))))))..(((.((((((....))))))..))).....))).))----- ( -39.40, z-score =  -2.23, R)
>consensus
CCGUCCCCGAGGAUGGCCAAUAGAUGCCCCUAUUUAGCAAGGCCGCAUCCGCGGAAUGCGAUGCCAUCCCCCAUUUGGAGCUGCUGCUCCACUAUGCUCCAUCGUGG_____
....((.((((((((((...((((((....))))))(((...((((....))))..)))...)))))))..(((.((((((....))))))..))).....))).))..... (-33.14 = -33.34 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,455,381 – 14,455,488
Length 107
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 90.55
Shannon entropy 0.16694
G+C content 0.59100
Mean single sequence MFE -43.70
Consensus MFE -40.28
Energy contribution -40.88
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.26
SVM RNA-class probability 0.918078
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14455381 107 - 21146708
-----CCACGAUGGAGCAUAGUGGAGCAGCAGCUCCAAAUGGGGGAUAGCAUCGCAUUCCGCGGAUGCGGCCUUGCUAAAUAGGGGCAUCUAUUGGCAAUCCUCGGGGACGG
-----((.(((.(((.(((..((((((....)))))).)))((((...(((((((.....)).)))))..))))(((((.((((....)))))))))..))))))))..... ( -39.20, z-score =  -1.07, R)
>droEre2.scaffold_4845 8658110 107 - 22589142
-----CCACGUCGGAGCAUUGUGGAGCAGCAGCUCCAAAUGGGGGAUGGCAUCGCAUUCCGCGGCUGCGGCCUUGCUAAAUAGGGGCAUCUAUUGGCCAUCCUCGGGGACGG
-----...((((....((((.((((((....))))))))))(((((((((...(((..((((....))))...)))..((((((....)))))).)))))))))...)))). ( -47.80, z-score =  -2.20, R)
>droYak2.chr2R 6405090 112 + 21139217
CACUGGAUGGAUAGUACAUAGUGGAGCAGCAGCUCCAAAUGGGGGAUGGCAGCGCAUUCCGCGGAUGCGGCCUUACUAAAUAGGGGCAUCUAUUGGCCAUCCUCGGGCACGA
.((((......)))).(((..((((((....)))))).)))(((((((((..((((((.....))))))(((((........)))))........)))))))))........ ( -44.20, z-score =  -2.11, R)
>droSec1.super_1 11923956 107 - 14215200
-----CCGCGAUGGAGCACAGUGGAGCAGCAUCUCCAAAUGGGGGAUGGCAUCGCAUUCCGCGGAUGCGGCCUUGCUAAAUAGGGGCAUUUAUUGGCCAUCCUCGGGGACGG
-----((((((((..((........))..(((((((.....))))))).)))))).(((((.((((..((((.((((.......))))......)))))))).)))))..)) ( -42.10, z-score =  -1.19, R)
>droSim1.chr2R 13171162 107 - 19596830
-----CCACGAUGGAGCAUAGUGGAGCAGCAGCUCCAAAUGGGGGAUGGCAUCGCAUUCCGCGGAUGCGGCCUUGCUAAAUAGGGGCAUCUAUUGGCCAUCCUCGGGGACGG
-----((.....))..(((..((((((....)))))).)))(((((((((..((((((.....))))))(((((........)))))........)))))))))(....).. ( -45.20, z-score =  -2.05, R)
>consensus
_____CCACGAUGGAGCAUAGUGGAGCAGCAGCUCCAAAUGGGGGAUGGCAUCGCAUUCCGCGGAUGCGGCCUUGCUAAAUAGGGGCAUCUAUUGGCCAUCCUCGGGGACGG
................((...((((((....))))))..))(((((((((..((((((.....))))))(((((........)))))........)))))))))(....).. (-40.28 = -40.88 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:32:16 2011