Locus 10025

Sequence ID dm3.chr3R
Location 10,675,016 – 10,675,122
Length 106
Max. P 0.996375
window13777 window13778

overview

Window 7

Location 10,675,016 – 10,675,122
Length 106
Sequences 8
Columns 107
Reading direction forward
Mean pairwise identity 78.97
Shannon entropy 0.40031
G+C content 0.40570
Mean single sequence MFE -24.65
Consensus MFE -12.49
Energy contribution -11.79
Covariance contribution -0.70
Combinations/Pair 1.31
Mean z-score -2.69
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.87
SVM RNA-class probability 0.972548
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10675016 106 + 27905053
UACUGGCCCC-AGUCAGAUACGAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUUUAGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUAGCUAACAU
..(((((...-.))))).((((.((.....)).)))).......................(((((.((...((((((((....)))))))).....)).)))))... ( -25.30, z-score =  -2.65, R)
>droPer1.super_0 1573986 83 + 11822988
----------------------GUAUCCACUCACGUAACCGAGAUAG--ACAAUUCAAUUUUAGUCAGCUUAUGGCCAUUGUUAUGGCUGUUAUUGCUGACUUACAU
----------------------(((....(((........)))....--.............(((((((..((((((((....))))))))....)))))))))).. ( -23.00, z-score =  -3.23, R)
>dp4.chr2 7750839 83 + 30794189
----------------------GUAUCCACUCACGUAACCGAGAUAG--ACAAUUCAAUUUUAGUCAGCUUAUGGCCAUUGUUAUGGCUGUUAUUGCUGACUUACAU
----------------------(((....(((........)))....--.............(((((((..((((((((....))))))))....)))))))))).. ( -23.00, z-score =  -3.23, R)
>droAna3.scaffold_13340 13674674 98 - 23697760
-GCCCGGCCC-GGU-------CAGAUCUACUCACGUCCACCGGAUAGAUACAAUUCAAUUUUACUCAGCUUAUGUCUAUUGUUAUGGCCAUUAUGACUGACUUACAU
-....(((((-(((-------..(((........))).))))((((((((......................)))))))).....)))).................. ( -16.95, z-score =   0.22, R)
>droEre2.scaffold_4770 10209673 98 + 17746568
UACUGGGUCC-AGU-------GAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUU-AGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUAGCUAACAU
..((((((..-.((-------(((.....)))))..)).))))................((-(((.((...((((((((....)))))))).....)).)))))... ( -30.40, z-score =  -3.91, R)
>droYak2.chr3R 13078920 100 - 28832112
UACUAGCCCCCAGU-------GAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUUUAGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUGGCUAACAU
..(((.......((-------(((.....)))))..........))).............((((((((...((((((((....)))))))).....))))))))... ( -29.93, z-score =  -4.35, R)
>droSec1.super_0 9860323 106 - 21120651
UACUGGCCUC-AGUAAGAUACGAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUUUAGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUAGCUAACAU
..((((.(((-.(((...)))))).(((......)))..)))).................(((((.((...((((((((....)))))))).....)).)))))... ( -24.30, z-score =  -2.20, R)
>droSim1.chr3R 16729455 106 - 27517382
UACUGGCCUC-AGUAAGAUACGAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUUUAGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUAGCUAACAU
..((((.(((-.(((...)))))).(((......)))..)))).................(((((.((...((((((((....)))))))).....)).)))))... ( -24.30, z-score =  -2.20, R)
>consensus
UACUGGCCCC_AGU_______GAGAUACACUCACGUACACCAGAUAGAGACAAUUCAAUUUUAGCCAGCUUAUGGCCAUUGUUAUGGCCAUUAUAUCUAGCUAACAU
..............................................................(((.((...((((((((....)))))))).....)).)))..... (-12.49 = -11.79 +  -0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,675,016 – 10,675,122
Length 106
Sequences 8
Columns 107
Reading direction reverse
Mean pairwise identity 78.97
Shannon entropy 0.40031
G+C content 0.40570
Mean single sequence MFE -30.43
Consensus MFE -20.73
Energy contribution -21.32
Covariance contribution 0.59
Combinations/Pair 1.14
Mean z-score -2.79
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.92
SVM RNA-class probability 0.996375
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10675016 106 - 27905053
AUGUUAGCUAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCUAAAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUCGUAUCUGACU-GGGGCCAGUA
...((((((((...(.((((((((....)))))))).).))))))))......((((.(((((..(((.(((((.((.....)).))))))))..)-)))).)))). ( -35.40, z-score =  -3.00, R)
>droPer1.super_0 1573986 83 - 11822988
AUGUAAGUCAGCAAUAACAGCCAUAACAAUGGCCAUAAGCUGACUAAAAUUGAAUUGU--CUAUCUCGGUUACGUGAGUGGAUAC----------------------
.....(((((((.......(((((....))))).....)))))))..........(((--(((((.((....)).)).)))))).---------------------- ( -23.20, z-score =  -2.90, R)
>dp4.chr2 7750839 83 - 30794189
AUGUAAGUCAGCAAUAACAGCCAUAACAAUGGCCAUAAGCUGACUAAAAUUGAAUUGU--CUAUCUCGGUUACGUGAGUGGAUAC----------------------
.....(((((((.......(((((....))))).....)))))))..........(((--(((((.((....)).)).)))))).---------------------- ( -23.20, z-score =  -2.90, R)
>droAna3.scaffold_13340 13674674 98 + 23697760
AUGUAAGUCAGUCAUAAUGGCCAUAACAAUAGACAUAAGCUGAGUAAAAUUGAAUUGUAUCUAUCCGGUGGACGUGAGUAGAUCUG-------ACC-GGGCCGGGC-
..((..(((((((.......((((....(((((.((((..(((......)))..)))).)))))...))))((....)).)).)))-------)).-..)).....- ( -19.60, z-score =   0.79, R)
>droEre2.scaffold_4770 10209673 98 - 17746568
AUGUUAGCUAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCU-AAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUC-------ACU-GGACCCAGUA
...((((((((...(.((((((((....)))))))).).))))))-))................((((.((..(((((.....)))-------)).-..)))))).. ( -34.50, z-score =  -3.70, R)
>droYak2.chr3R 13078920 100 + 28832112
AUGUUAGCCAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCUAAAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUC-------ACUGGGGGCUAGUA
...((((((((...(.((((((((....)))))))).).)))))))).........(((((((...(((((((....)))))))..-------..)))))))..... ( -38.70, z-score =  -4.26, R)
>droSec1.super_0 9860323 106 + 21120651
AUGUUAGCUAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCUAAAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUCGUAUCUUACU-GAGGCCAGUA
...((((((((...(.((((((((....)))))))).).)))))))).((((....(((((.....((.(((((.((.....)).)))))))....-))))))))). ( -34.40, z-score =  -3.19, R)
>droSim1.chr3R 16729455 106 + 27517382
AUGUUAGCUAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCUAAAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUCGUAUCUUACU-GAGGCCAGUA
...((((((((...(.((((((((....)))))))).).)))))))).((((....(((((.....((.(((((.((.....)).)))))))....-))))))))). ( -34.40, z-score =  -3.19, R)
>consensus
AUGUUAGCCAGAUAUAAUGGCCAUAACAAUGGCCAUAAGCUGGCUAAAAUUGAAUUGUCUCUAUCUGGUGUACGUGAGUGUAUCUC_______ACU_GGGGCCAGUA
.....((((((...(.((((((((....)))))))).).)))))).....................(((((((....)))))))....................... (-20.73 = -21.32 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:15:57 2011