Locus 2175

Sequence ID dm3.chr2L
Location 16,769,453 – 16,769,608
Length 155
Max. P 0.844847
window3004

overview

Window 4

Location 16,769,453 – 16,769,608
Length 155
Sequences 15
Columns 176
Reading direction forward
Mean pairwise identity 84.87
Shannon entropy 0.31761
G+C content 0.43048
Mean single sequence MFE -35.86
Consensus MFE -21.42
Energy contribution -20.91
Covariance contribution -0.51
Combinations/Pair 1.35
Mean z-score -2.23
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844847
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16769453 155 + 23011544
---------------------AACAGACACGAGACUUAAAGAAAGAUCUGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGU
---------------------............(((((.....(((((.(((...(((.((........((.....))........((((.((((((......)))))))))).))..)))((((((.(((........)))))))))...........))).)))))...))))) ( -34.00, z-score =  -2.94, R)
>droSim1.chr2L 16470418 155 + 22036055
---------------------UACAGACACGAGACUUAAAGAAAGAUCUGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGU
---------------------............(((((.....(((((.(((...(((.((........((.....))........((((.((((((......)))))))))).))..)))((((((.(((........)))))))))...........))).)))))...))))) ( -34.00, z-score =  -2.94, R)
>droSec1.super_7 416250 155 + 3727775
---------------------UACAGACACGAGACUUAAAGAAAGAUCUGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGU
---------------------............(((((.....(((((.(((...(((.((........((.....))........((((.((((((......)))))))))).))..)))((((((.(((........)))))))))...........))).)))))...))))) ( -34.00, z-score =  -2.94, R)
>droEre2.scaffold_4845 19840182 155 + 22589142
---------------------UACAGACACGAGACUUAAAGAAAGAUCUGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGU
---------------------............(((((.....(((((.(((...(((.((........((.....))........((((.((((((......)))))))))).))..)))((((((.(((........)))))))))...........))).)))))...))))) ( -34.00, z-score =  -2.94, R)
>droYak2.chr2R 16806657 155 - 21139217
---------------------UACAGACACGAGACUUAAAGAAAGAUCUGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGU
---------------------............(((((.....(((((.(((...(((.((........((.....))........((((.((((((......)))))))))).))..)))((((((.(((........)))))))))...........))).)))))...))))) ( -34.00, z-score =  -2.94, R)
>droAna3.scaffold_12916 7329023 155 + 16180835
---------------------UAUAGACACGAGACUUCAAGAAAGAUCAGCUCCAGCAAGUGAACCCUCCAAAAUACGAAAAAGCUGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUACGUAAGU
---------------------.........(((..((((.((....)).((....))...))))..))).....((((.....(.(((((.((((((......))))))))))).)((((.((((((.(((........)))))))))...((......))..))))..))))... ( -32.40, z-score =  -1.63, R)
>dp4.chr4_group3 8680518 154 - 11692001
----------------------ACAGUCCCGAGACUUCAAGAAAGAUCAGCUGCAGCAGGUGAACCCUCCAAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACCACAAGCUCAUCUAUGUAAGU
----------------------..((((....)))).......((((.(((((((.(.((....))....................((((.((((((......))))))))))...).)))((((((.(((........)))))))))...........)))).))))........ ( -35.30, z-score =  -1.63, R)
>droPer1.super_1 5784682 154 - 10282868
----------------------ACAGUCCCGAGACUUCAAGAAAGAUCAGCUGCAGCAGGUGAACCCUCCAAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACCACAAGCUCAUCUAUGUAAGU
----------------------..((((....)))).......((((.(((((((.(.((....))....................((((.((((((......))))))))))...).)))((((((.(((........)))))))))...........)))).))))........ ( -35.30, z-score =  -1.63, R)
>droWil1.scaffold_180764 1126774 155 + 3949147
---------------------AAUAGACAAGAGACUUCAAGAAAGAUCAGCUCCAGCAAGUGAACCCUCCAAAAUACGAAAAAGCCGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUAUGUAAGU
---------------------.(((((...(((..((((.((....)).((....))...))))..))).............(((.((((.((((((......))))))))))........((((((.(((........)))))))))............)))..)))))...... ( -32.50, z-score =  -1.73, R)
>droVir3.scaffold_12963 10116263 154 + 20206255
----------------------CUAGACGAAAGACUUCAAGAAAGAUCAGCUCCAGCAGGUGAACCCUCCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUAUUACAACAAGCUCAUCUAUGUAAGU
----------------------.....(....)((((((....((((.((((.((((.((....))...((.....)).....))))(((.((((((......)))))))))...(..((((((.((........))..))))))..)...........)))).)))).)).)))) ( -37.80, z-score =  -1.83, R)
>droMoj3.scaffold_6500 2796548 154 + 32352404
----------------------CUAGACGAAAGACUUCAAGAAAGAUCAGCUCCAGCAGGUGAACCCACCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACCACAAGCUCAUCUAUGUAAGU
----------------------.....(....)((((((....((((.((((...(((((((....)))).............(.(((((.((((((......))))))))))).)..)))((((((.(((........)))))))))...........)))).)))).)).)))) ( -39.60, z-score =  -2.46, R)
>droGri2.scaffold_15252 13250343 153 + 17193109
-----------------------CAGACGAAAGACUUCAAGAAAGAUCUACUGUCGCAGGUGAACCCACCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACAACAAGCUCAUCUAUGUAAGU
-----------------------..((((..((((((.....))).)))..))))(((((((....)))).......((...((((((((.((((((......))))))))))..(..((((((.((........))..))))))..)...........))))..))..))).... ( -39.10, z-score =  -2.51, R)
>anoGam1.chr3R 50150604 176 + 53272125
AACGUACGUCCGUUACGUGAGUACAGACCAAGGACUUCAAGAAGGACUUGGUGUCCCAGGUCAACCCACCGAAAUACGAGAAAUGCGAGGAUAUGUCCAACUUGACAUAUCUUAACGAUGCCUCUGUACUCCAUAACUUGAGACAGAGAUACUACGCUAAGCUUAUCUACGUAAGU
..((((..((.(((((....)))..((((..((((.(((((.....))))).))))..)))).....)).))..))))......(((((((((((((......))))))))))........((((((.(((........)))))))))......)))...((((((....)))))) ( -54.90, z-score =  -3.53, R)
>apiMel3.GroupUn 664400 143 + 399230636
--------------------------------GACUUCAAAAAGGACCAAUUGCAACAAGUAAACCCACCGAAAUAUGAGAAAUGCGAGGAUAUGUCGAAUUUAACUUAUCUCAACGAUGCUUCGGUCCUGCACAAUUUGAAGCAACGUUACUACGCCAAACUUAUUUACGUAAG-
--------------------------------(.(((((((.((((((..((((.....))))................(((...((.(((((.((........)).)))))...))....)))))))))......))))))))..(((....))).....(((((....)))))- ( -23.10, z-score =   0.10, R)
>triCas2.ChLG8 11595093 155 - 15773733
---------------------AACAGGAGAAGAACUUCAAGAAGGAACAAGUGGGCCAGGUCAACCCGCCCAAGUACGAAAAAUGCGAGGAUAUGUCCAACUUGACAUACCUCAACGACGCUUCCGUAUUGCAUAAUCUCAAGCAAAGAUACUAUGCUAAACUUAUUUAUGUAAGU
---------------------.....((((....(((....))).......(((((..((....)).)))))..........((((((((.((((((......)))))))))).(((.......)))...))))..)))).((((.((...)).))))..((((((....)))))) ( -37.90, z-score =  -1.97, R)
>consensus
______________________ACAGACACGAGACUUCAAGAAAGAUCAGCUCCAGCAAGUGAACCCCCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUACGUAAGU
..........................................................................((((........((((.((((((......))))))))))........((((((.(((........))))))))).....................))))... (-21.42 = -20.91 +  -0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:46:20 2011