Locus 8360

Sequence ID dm3.chr3L
Location 22,224,924 – 22,225,026
Length 102
Max. P 0.995351
window11483 window11484

overview

Window 3

Location 22,224,924 – 22,225,016
Length 92
Sequences 12
Columns 107
Reading direction reverse
Mean pairwise identity 86.05
Shannon entropy 0.29558
G+C content 0.36219
Mean single sequence MFE -20.58
Consensus MFE -18.34
Energy contribution -18.59
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.66
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.79
SVM RNA-class probability 0.995351
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22224924 92 - 24543557
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCGGGUC---------------
.(((((((((((.(((......))).))))))))))).................((((((..........))))))................--------------- ( -20.00, z-score =  -2.34, R)
>droPer1.super_45 445058 107 + 618639
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUACACAAGCCAAACGAACAGAGGCAAGGUC
.(((((((((((.(((......))).)))))))))))....(((((........((((((..........))))))........(((...........)))))))). ( -25.00, z-score =  -3.82, R)
>dp4.chrXR_group8 6309092 107 - 9212921
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUACACAAGCCAAACGAACAGAGGCAAGGUC
.(((((((((((.(((......))).)))))))))))....(((((........((((((..........))))))........(((...........)))))))). ( -25.00, z-score =  -3.82, R)
>droAna3.scaffold_13337 21386224 105 - 23293914
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAACAAACCGAAUUUCCUUACACACAAGUCAAGUCGCAGCCGGUGCCG--
.(((((((((((.(((......))).)))))))))))...................((.....((((......(((((......)).))).......)))).)).-- ( -21.02, z-score =  -1.30, R)
>droEre2.scaffold_4784 21895598 92 - 25762168
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUCUACACAAGCCGGGUG---------------
.(((((((((((.(((......))).))))))))))).................((((((..........))))))...(((.......)))--------------- ( -19.70, z-score =  -1.89, R)
>droYak2.chr3L 22611565 92 - 24197627
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCGGGUC---------------
.(((((((((((.(((......))).))))))))))).................((((((..........))))))................--------------- ( -20.00, z-score =  -2.34, R)
>droSec1.super_11 2155492 92 - 2888827
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCGGGUC---------------
.(((((((((((.(((......))).))))))))))).................((((((..........))))))................--------------- ( -20.00, z-score =  -2.34, R)
>droSim1.chr3L_random 943614 92 - 1049610
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCGGGUC---------------
.(((((((((((.(((......))).))))))))))).................((((((..........))))))................--------------- ( -20.00, z-score =  -2.34, R)
>droVir3.scaffold_13049 14791841 89 - 25233164
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGUGGAAUAAAGUGAAUUUCCUUUUACACAAGAGCG------------------
.(((((((((((.(((......))).)))))))))))..((((((((.((.......)).)))))))).....(((((....)))))..------------------ ( -21.70, z-score =  -3.21, R)
>droMoj3.scaffold_6680 19573797 89 - 24764193
AGGUGAUUUGGUUAUGCAGCAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGAAAUAAACUGAAUUUCCUUAUUCACGAGAGCG------------------
.(((((((((((.(((......))).))))))))))).....((((.((....((.(((((.......))))))).....)).))))..------------------ ( -18.10, z-score =  -2.21, R)
>droGri2.scaffold_15110 6634524 89 + 24565398
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACCUUAGUCAACAGAGGAAUAAACUGAAUUUCCUUAUACACAAUGCCC------------------
.(((((((((((.(((......))).))))))))))).................((((((..........)))))).............------------------ ( -20.00, z-score =  -2.89, R)
>droWil1.scaffold_180698 150946 85 - 11422946
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGAAAUAAACCAAAUUUCCUUAUACACAAG----------------------
.(((((((((((.(((......))).)))))))))))..........((....((.(((((.......)))))))...)).....---------------------- ( -16.40, z-score =  -3.46, R)
>consensus
AGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCGGGUC_______________
.(((((((((((.(((......))).))))))))))).................((((((..........))))))............................... (-18.34 = -18.59 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 22,224,936 – 22,225,026
Length 90
Sequences 12
Columns 113
Reading direction reverse
Mean pairwise identity 85.77
Shannon entropy 0.29195
G+C content 0.35866
Mean single sequence MFE -23.26
Consensus MFE -18.34
Energy contribution -18.59
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.27
SVM RNA-class probability 0.987133
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22224936 90 - 24543557
-----------------------UGCGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUAC
-----------------------...........(((((((((((.(((......))).))))))))))).................((((((..........)))))).... ( -20.00, z-score =  -2.66, R)
>droPer1.super_45 445085 108 + 618639
----UCUGUGGCAGUGCC-ACUGUGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUAC
----((((((((...)))-((((.((((..(((.(((((((((((.(((......))).)))))))))))))).))))))))..)))))((((..........))))...... ( -28.20, z-score =  -2.59, R)
>dp4.chrXR_group8 6309119 108 - 9212921
----UCUGUGGCAGUGCC-ACUGUGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUAC
----((((((((...)))-((((.((((..(((.(((((((((((.(((......))).)))))))))))))).))))))))..)))))((((..........))))...... ( -28.20, z-score =  -2.59, R)
>droAna3.scaffold_13337 21386249 105 - 23293914
-----CUUUGGC--UGCC-ACUGCCAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAACAAACCGAAUUUCCUUACAC
-----...((((--....-...))))((((....(((((((((((.(((......))).))))))))))).....((((.(....)))))))))................... ( -25.20, z-score =  -2.42, R)
>droEre2.scaffold_4784 21895610 92 - 25762168
---------------------UGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUCUAC
---------------------.(.(((((((...(((((((((((.(((......))).))))))))))).....((((.(....).)))).......))))))).)...... ( -21.10, z-score =  -2.61, R)
>droYak2.chr3L 22611577 92 - 24197627
---------------------UGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUAC
---------------------.(((....)))..(((((((((((.(((......))).))))))))))).................((((((..........)))))).... ( -21.20, z-score =  -2.82, R)
>droSec1.super_11 2155504 92 - 2888827
---------------------UGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUAC
---------------------.(((....)))..(((((((((((.(((......))).))))))))))).................((((((..........)))))).... ( -21.20, z-score =  -2.82, R)
>droSim1.chr3L_random 943626 92 - 1049610
---------------------UGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUAC
---------------------.(((....)))..(((((((((((.(((......))).))))))))))).................((((((..........)))))).... ( -21.20, z-score =  -2.82, R)
>droVir3.scaffold_13049 14791850 94 - 25233164
-------------------GUUGCGACUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGUGGAAUAAAGUGAAUUUCCUUUUAC
-------------------...(((....)))..(((((((((((.(((......))).)))))))))))..((((((((.((.......)).))))))))............ ( -22.60, z-score =  -2.60, R)
>droMoj3.scaffold_6680 19573806 113 - 24764193
UAGCUGACUGUCAACUGCGACUGCGACUUCGUUAGGUGAUUUGGUUAUGCAGCAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGAAAUAAACUGAAUUUCCUUAUUC
..(.((((((((......))).(((....)))..(((((((((((.(((......))).))))))))))).........))))).)((.(((((.......)))))))..... ( -24.40, z-score =  -1.42, R)
>droGri2.scaffold_15110 6634533 111 + 24565398
--GUCACGUGGUUGUGCCAACUUCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACCUUAGUCAACAGAGGAAUAAACUGAAUUUCCUUAUAC
--....((.(((((...))))).))((((((((.(((((((((((.(((......))).))))))))))).....((((.(....).))))....))).)))))......... ( -25.80, z-score =  -1.68, R)
>droWil1.scaffold_180698 150951 92 - 11422946
---------------------UGCGACUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGAAAUAAACCAAAUUUCCUUAUAC
---------------------...((((..((..(((((((((((.(((......))).)))))))))))....))...))))...((.(((((.......)))))))..... ( -20.00, z-score =  -3.38, R)
>consensus
_____________________UGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUAC
..................................(((((((((((.(((......))).))))))))))).................((((((..........)))))).... (-18.34 = -18.59 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:44:10 2011