Locus 8586

Sequence ID dm3.chr3RHet
Location 1,162,807 – 1,162,908
Length 101
Max. P 0.953950
window11791 window11792

overview

Window 1

Location 1,162,807 – 1,162,908
Length 101
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 54.16
Shannon entropy 0.75989
G+C content 0.51081
Mean single sequence MFE -35.58
Consensus MFE -10.20
Energy contribution -10.00
Covariance contribution -0.20
Combinations/Pair 1.75
Mean z-score -1.90
Structure conservation index 0.29
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.19
SVM RNA-class probability 0.907184
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 1162807 101 + 2517507
AUUGGUCGGCUGUAUUUUUGUAGCUUUGGCAUCUCCCGUUACAGCGCG--GCGGCAGCGUGUGGUCGCU-GUCGCCGAGUGUGGUUCGAAGGAU-AGCACGGAGA------------
....((((((((((....)))))))..))).((((((((....)))((--(((((((((......))))-))))))).((((...((....)).-.)))))))))------------ ( -43.50, z-score =  -2.52, R)
>droSec1.super_64 139763 103 - 179039
AUUGGUCGGCUGUAUUUUUGCAGCUUUGGCAUCUCCCGUUACAGCGCGCGGCGGCAGCGUGUGGUCGCU-GUCGCCGAGUGUGGUUCGAAGGAU-AGCACGGAGA------------
....((((((((((....)))))))..))).(((((.((((..((((.(((((((((((......))))-))))))).))))...((....)))-)))..)))))------------ ( -48.80, z-score =  -3.15, R)
>droAna3.scaffold_13250 984450 92 - 3535662
----------UGUAUGUU-GUCACUUUAAGAAAAGUCGUUUUAGCAGG--GCGACAGUGUAGUGUCGCU-GUCACCGAGUGUGGUUCGGUGGUA-AGGAUAGAAAGA----------
----------....((((-(.((((((....))))).)...))))).(--((((((......)))))))-.((((((((.....))))))))..-............---------- ( -23.70, z-score =  -1.46, R)
>droVir3.scaffold_12958 562607 111 + 3547706
----GUCAGUGGUGGUAUACACACUUGGUGGUGUACACACGUAGUGGA--AUGUUGGCAUUGUAAAAUUAGUCUAAGAACAAAUCUCGUUGAUGCAACACGAUGUCACGCCCAAGGA
----....(((...((((((.(((...))))))))).)))....(((.--.(((.((((((((.......(((...((.......))...))).....))))))))))).))).... ( -25.30, z-score =   1.23, R)
>droMoj3.scaffold_6498 2345717 96 + 3408170
---CAAUAUUUGUAUUUU-GUCGCUUAAGAAG-UACCGUUUUAGCGGG--GCGACAGCGUUGUGUCGCU-GUCGCCGAGUGAGGUUCGAUGGUA-GGCACAAAGA------------
---...........((((-((.(((((.(((.-(.((((....))))(--(((((((((......))))-))))))......).))).....))-))))))))).------------ ( -36.60, z-score =  -3.60, R)
>consensus
____GUCAGCUGUAUUUU_GUCGCUUUGGCAUCUACCGUUAUAGCGGG__GCGACAGCGUGGUGUCGCU_GUCGCCGAGUGUGGUUCGAUGGUA_AGCACGGAGA____________
.........((((.........(((.((((.......)))).))).....(((((((((......)))).))))).......................))))............... (-10.20 = -10.00 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,162,807 – 1,162,908
Length 101
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 54.16
Shannon entropy 0.75989
G+C content 0.51081
Mean single sequence MFE -26.16
Consensus MFE -6.48
Energy contribution -6.28
Covariance contribution -0.20
Combinations/Pair 1.67
Mean z-score -2.37
Structure conservation index 0.25
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.60
SVM RNA-class probability 0.953950
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 1162807 101 - 2517507
------------UCUCCGUGCU-AUCCUUCGAACCACACUCGGCGAC-AGCGACCACACGCUGCCGC--CGCGCUGUAACGGGAGAUGCCAAAGCUACAAAAAUACAGCCGACCAAU
------------....((.(((-(((..(((....((((.(((((.(-((((......))))).)))--)).).)))..)))..)))((....))...........)))))...... ( -27.80, z-score =  -1.62, R)
>droSec1.super_64 139763 103 + 179039
------------UCUCCGUGCU-AUCCUUCGAACCACACUCGGCGAC-AGCGACCACACGCUGCCGCCGCGCGCUGUAACGGGAGAUGCCAAAGCUGCAAAAAUACAGCCGACCAAU
------------(((((((((.-.......((.......))((((.(-((((......))))).))))))))(......).))))).......((((........))))........ ( -30.80, z-score =  -1.37, R)
>droAna3.scaffold_13250 984450 92 + 3535662
----------UCUUUCUAUCCU-UACCACCGAACCACACUCGGUGAC-AGCGACACUACACUGUCGC--CCUGCUAAAACGACUUUUCUUAAAGUGAC-AACAUACA----------
----------............-...((((((.......))))))..-.((((((......))))))--............(((((....)))))...-........---------- ( -18.60, z-score =  -3.63, R)
>droVir3.scaffold_12958 562607 111 - 3547706
UCCUUGGGCGUGACAUCGUGUUGCAUCAACGAGAUUUGUUCUUAGACUAAUUUUACAAUGCCAACAU--UCCACUACGUGUGUACACCACCAAGUGUGUAUACCACCACUGAC----
((..((((((((.....(((((((((....((((((.(((....))).))))))...))).))))))--.....)))))(((((((((.....).))))))))..)))..)).---- ( -26.20, z-score =  -0.75, R)
>droMoj3.scaffold_6498 2345717 96 - 3408170
------------UCUUUGUGCC-UACCAUCGAACCUCACUCGGCGAC-AGCGACACAACGCUGUCGC--CCCGCUAAAACGGUA-CUUCUUAAGCGAC-AAAAUACAAAUAUUG---
------------..(((((((.-..................((((((-((((......)))))))))--)(((......)))..-........)).))-)))............--- ( -27.40, z-score =  -4.46, R)
>consensus
____________UCUCCGUGCU_AACCAUCGAACCACACUCGGCGAC_AGCGACACAACGCUGCCGC__CCCGCUAAAACGGGAGAUCCCAAAGCGAC_AAAAUACAACCGAC____
.........................................((((....(((((........)))))....)))).......................................... ( -6.48 =  -6.28 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:48:20 2011