Locus 2504

Sequence ID dm3.chr2L
Location 19,572,771 – 19,572,842
Length 71
Max. P 0.957208
window3447 window3448

overview

Window 7

Location 19,572,771 – 19,572,842
Length 71
Sequences 4
Columns 74
Reading direction forward
Mean pairwise identity 80.46
Shannon entropy 0.30800
G+C content 0.39025
Mean single sequence MFE -18.23
Consensus MFE -13.98
Energy contribution -14.97
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.45
SVM RNA-class probability 0.699921
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 19572771 71 + 23011544
---UGUUGUUGUAUACCCGUUACUUGGAGAGUUAAUUGGGUAUACGGUGAUGGGCUCUUAGGCAAAGAAUUUUU
---.((..(((((((((((..((((...))))....)))))))))))..))..(((....)))........... ( -20.50, z-score =  -2.56, R)
>droEre2.scaffold_4845 17872086 71 - 22589142
---UGUAGUUGUAUACCCGUUACUUAAAUAGUUAAUGGGGUAUACGGUGAUGGGCCCUCACACAAAGUAUUUUU
---(((...(((((((((((((((.....)).)))).)))))))))((((.(....)))))))).......... ( -18.00, z-score =  -0.88, R)
>droYak2.chr2R 6069756 63 + 21139217
---UGUAGUUGUAUACCCGUUACUUAAAUAGUUAUUGGGGUAUACGGUG-----CCCCU---CACAGAUUUUUU
---.(((.((((((((((...(((.....))).....))))))))))))-----)....---............ ( -14.70, z-score =  -0.95, R)
>droSec1.super_7 3187090 74 + 3727775
UGUAGUUGUUGUAUACCCGUUACUGGGAGAGUUAAUUGGGUAUACGGUGAUGGGCCCUUAGACAAAGUAUUUUU
.((.((..(((((((((((..(((.....)))....)))))))))))..))..))................... ( -19.70, z-score =  -1.34, R)
>consensus
___UGUAGUUGUAUACCCGUUACUUAAAGAGUUAAUGGGGUAUACGGUGAUGGGCCCUUAGACAAAGAAUUUUU
....((..(((((((((((..(((.....)))....)))))))))))..))....................... (-13.98 = -14.97 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,572,771 – 19,572,842
Length 71
Sequences 4
Columns 74
Reading direction reverse
Mean pairwise identity 80.46
Shannon entropy 0.30800
G+C content 0.39025
Mean single sequence MFE -14.32
Consensus MFE -12.00
Energy contribution -12.25
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.64
SVM RNA-class probability 0.957208
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 19572771 71 - 23011544
AAAAAUUCUUUGCCUAAGAGCCCAUCACCGUAUACCCAAUUAACUCUCCAAGUAACGGGUAUACAACAACA---
.....(((((.....))))).........((((((((.....(((.....)))...)))))))).......--- ( -13.10, z-score =  -3.22, R)
>droEre2.scaffold_4845 17872086 71 + 22589142
AAAAAUACUUUGUGUGAGGGCCCAUCACCGUAUACCCCAUUAACUAUUUAAGUAACGGGUAUACAACUACA---
...........(.(((((....).)))))((((((((.....(((.....)))...)))))))).......--- ( -15.40, z-score =  -1.05, R)
>droYak2.chr2R 6069756 63 - 21139217
AAAAAAUCUGUG---AGGGG-----CACCGUAUACCCCAAUAACUAUUUAAGUAACGGGUAUACAACUACA---
.........(((---.((..-----..))((((((((.....(((.....)))...))))))))...))).--- ( -14.60, z-score =  -1.42, R)
>droSec1.super_7 3187090 74 - 3727775
AAAAAUACUUUGUCUAAGGGCCCAUCACCGUAUACCCAAUUAACUCUCCCAGUAACGGGUAUACAACAACUACA
.........((((....((........))((((((((.....(((.....)))...)))))))).))))..... ( -14.20, z-score =  -1.83, R)
>consensus
AAAAAUACUUUGUCUAAGGGCCCAUCACCGUAUACCCAAUUAACUAUCCAAGUAACGGGUAUACAACAACA___
.................((........))((((((((.....(((.....)))...)))))))).......... (-12.00 = -12.25 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:52:31 2011