Locus 809

Sequence ID dm3.chr2L
Location 5,803,458 – 5,803,559
Length 101
Max. P 0.508739
window1091 window1092

overview

Window 1

Location 5,803,458 – 5,803,559
Length 101
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 58.11
Shannon entropy 0.76260
G+C content 0.66793
Mean single sequence MFE -36.96
Consensus MFE -14.66
Energy contribution -16.36
Covariance contribution 1.70
Combinations/Pair 1.43
Mean z-score -0.66
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 5803458 101 + 23011544
CGCAAACGGAGGCAUGCCAGCGCCGGUGCCCGCACAGGUAUCGGCAUCGGUUCCGGCUGCAGCUCCAGUUUCGACCAC--CAACAACGCCGUCGUUGGCGCCU
((.((((((((.(.(((.((((((((((((......)))))))))..((....))))))))))))).)))))).....--......(((((....)))))... ( -41.20, z-score =  -1.00, R)
>droSim1.chr2L 5602453 101 + 22036055
CGCAAACGGAGGCAUGCCAGCGCCGGUACCCGCACAGGUAUCAGCACCGGUUCCGGCAGCAGCUCCAGUUCCGACCAC--CAACAACGCCGUCGUUGGCGCCU
(((.((((..(((..(((.(.((.((((((......)))))).)).).)))..(((.(((.......)))))).....--.......)))..)))).)))... ( -34.30, z-score =  -0.29, R)
>droSec1.super_5 3882549 101 + 5866729
CGCAAACGGAGGAAUGCCAGCGCCGGUGCCCGCACAGGUAUCAGCACCGGUUCCGGCUGCAGCUCCAGUUCCGACCAC--CAACAACGCCGUAGUUGGCGCCU
.((...(((((((.(((.(((((((((((((.....)).....))))))))....))))))..)))...)))).....--.......((((....)))))).. ( -37.40, z-score =  -0.61, R)
>droAna3.scaffold_12916 11225429 80 + 16180835
--------------------CGCCAACGGCACAGUGAGCG-UGCCACCUGCUACAUCCCCUGCCACCAAUGCUAAUCC--CACGACUGCUGUGGCCGCCGCCG
--------------------.(((...)))...(((.(((-.(((((..((..........((.......))......--.......)).))))))))))).. ( -20.60, z-score =   0.01, R)
>droVir3.scaffold_12963 15910186 99 - 20206255
-ACAGCAGCAGCAAUGGCGG-GCCGAUGCAGCCGCCGGCAAUGGCAGCCG--CCGGCAGCAGUGGCGGCGGCAGCUGCAACAGCAAUGCGAUGGCGAUUGCGG
-...(((((.(((.(((...-.))).))).(((((((.((...((.(((.--..))).))..)).))))))).)))))....(((((((....)).))))).. ( -51.30, z-score =  -1.39, R)
>consensus
CGCAAACGGAGGAAUGCCAGCGCCGGUGCCCGCACAGGUAUCGGCACCGGUUCCGGCAGCAGCUCCAGUUCCGACCAC__CAACAACGCCGUCGUUGGCGCCU
..........((....))...(((((((((......)))))))))...(((.(((((.((.((........................)).)).))))).))). (-14.66 = -16.36 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,803,458 – 5,803,559
Length 101
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 58.11
Shannon entropy 0.76260
G+C content 0.66793
Mean single sequence MFE -42.70
Consensus MFE -16.94
Energy contribution -18.38
Covariance contribution 1.44
Combinations/Pair 1.50
Mean z-score -0.67
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.508739
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 5803458 101 - 23011544
AGGCGCCAACGACGGCGUUGUUG--GUGGUCGAAACUGGAGCUGCAGCCGGAACCGAUGCCGAUACCUGUGCGGGCACCGGCGCUGGCAUGCCUCCGUUUGCG
.((((((((((((...)))))))--)).))).((((.((((..((((((((..(((.((((..((....))..)))).)))..))))).)))))))))))... ( -44.80, z-score =  -0.73, R)
>droSim1.chr2L 5602453 101 - 22036055
AGGCGCCAACGACGGCGUUGUUG--GUGGUCGGAACUGGAGCUGCUGCCGGAACCGGUGCUGAUACCUGUGCGGGUACCGGCGCUGGCAUGCCUCCGUUUGCG
.((((((((((((...)))))))--)).))).((((.((((..((((((((..((((((((..((....))..))))))))..)))))).))))))))))... ( -48.20, z-score =  -1.65, R)
>droSec1.super_5 3882549 101 - 5866729
AGGCGCCAACUACGGCGUUGUUG--GUGGUCGGAACUGGAGCUGCAGCCGGAACCGGUGCUGAUACCUGUGCGGGCACCGGCGCUGGCAUUCCUCCGUUUGCG
.((((((......))))))....--(..(.((((...((((.....(((((..((((((((..((....))..))))))))..))))).)))))))).)..). ( -43.30, z-score =  -0.33, R)
>droAna3.scaffold_12916 11225429 80 - 16180835
CGGCGGCGGCCACAGCAGUCGUG--GGAUUAGCAUUGGUGGCAGGGGAUGUAGCAGGUGGCA-CGCUCACUGUGCCGUUGGCG--------------------
(((((((.((((..((((((...--.)))).))..)))).(((((((.(((.((.....)))-))))).)))))))))))...-------------------- ( -30.40, z-score =  -0.08, R)
>droVir3.scaffold_12963 15910186 99 + 20206255
CCGCAAUCGCCAUCGCAUUGCUGUUGCAGCUGCCGCCGCCACUGCUGCCGG--CGGCUGCCAUUGCCGGCGGCUGCAUCGGC-CCGCCAUUGCUGCUGCUGU-
..(((((.((....)))))))....(((((((((((.((....)).).)))--)))))))......(((((((.(((..((.-...))..))).))))))).- ( -46.80, z-score =  -0.56, R)
>consensus
AGGCGCCAACCACGGCGUUGUUG__GUGGUCGCAACUGGAGCUGCAGCCGGAACCGGUGCCGAUACCUGUGCGGGCACCGGCGCUGGCAUGCCUCCGUUUGCG
..((.(((....((((............))))....))).))....(((((..((((((((..((....))..))))))))..)))))............... (-16.94 = -18.38 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:19:53 2011