Locus 11807

Sequence ID dm3.chr3R
Location 23,949,788 – 23,949,891
Length 103
Max. P 0.912047
window16230 window16231

overview

Window 0

Location 23,949,788 – 23,949,891
Length 103
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 69.76
Shannon entropy 0.56194
G+C content 0.44596
Mean single sequence MFE -27.66
Consensus MFE -13.19
Energy contribution -14.28
Covariance contribution 1.09
Combinations/Pair 1.38
Mean z-score -1.50
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.93
SVM RNA-class probability 0.855513
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23949788 103 + 27905053
------UGUCUGUGGCGAUUGGAACAAGUGGAAAACUCCAGAAGCUAGUCGAGUUUUCCAC---UCUUCCUGAACAGGCGCUAUAAAUUUUCCGCUGUUCGCUUUCAAUUUG
------....((.(((....((((..((((((((((((..((......)))))))))))))---).)))).((((((.((..(......)..)))))))))))..))..... ( -31.60, z-score =  -2.59, R)
>droEre2.scaffold_4820 6379104 101 - 10470090
------UGUCUGUGGCGAUUGGAACAAGUGGAAAACUGCAGAAGCUCGUUGAGUUUUUCAC---UCU--CUCAACAGGAGCUAUAAAUUUUCCGCUGUUCGCCUUCAAUUUG
------....((.(((((.....(((.((((((((.......(((((((((((........---...--))))))..))))).....))))))))))))))))..))..... ( -29.40, z-score =  -1.89, R)
>droYak2.chr3R 6286308 106 - 28832112
------UGUCUGUGGCGAUUGGAGCAAGUGGAAAACUCCAGUAGCUAGUUGAGUUUUCCAACUGUCUUUCUCAACAGGCGCUAUAAAUUUUCCGCUGUUCGCUUUCAAUUUG
------.((.....))((..((((((.((((((((....(((.(((.((((((................)))))).)))))).....))))))))))))).)..))...... ( -28.79, z-score =  -1.54, R)
>droSec1.super_22 568639 93 + 1066717
------UGUCUGUGGCGAUUGGAACAAGUGGAAAACUCCAGAAGCUAGUCGAGUUUUCCAC---UCUUUCUCAACAGGCGCUAUAAAUUUUCCGCUGUUUGC----------
------....(((((((.((((((..((((((((((((..((......)))))))))))))---)..))).)))....)))))))........((.....))---------- ( -28.70, z-score =  -2.38, R)
>droSim1.chr3R 23649784 103 + 27517382
------UGUCUGUGGCGAUUGGAACAAGUGGAAAACUCCAGAAGCUAGUCGAUUUUUCCAC---UCUUUCUCAACAGGCGCUAUAAAUUUUCCGCUGUUCGCUUUCAAUUUG
------....((.(((((((((((..(((((((((.((..((......)))).))))))))---)..))).)))..((((..(......)..))))..)))))..))..... ( -23.70, z-score =  -0.76, R)
>droGri2.scaffold_14830 4395063 104 + 6267026
UGCAAUGGUUCAAGUCGACCAACGCCGUCGCGA--CCAUUUAUUUUGGCAGACUGUGUCAAUGCUCAUACACAGAAGUUGGC-UGGACUCCUUACUCUUUACUGCUG-----
.(((..(((...((((.((((((((((......--..........))))...((((((..........))))))..))))).-).))))....)))......)))..----- ( -23.79, z-score =   0.16, R)
>consensus
______UGUCUGUGGCGAUUGGAACAAGUGGAAAACUCCAGAAGCUAGUCGAGUUUUCCAC___UCUUUCUCAACAGGCGCUAUAAAUUUUCCGCUGUUCGCUUUCAAUUUG
..........(((((((.(((......(((((((((((............))))))))))).............))).)))))))........................... (-13.19 = -14.28 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 23,949,788 – 23,949,891
Length 103
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 69.76
Shannon entropy 0.56194
G+C content 0.44596
Mean single sequence MFE -28.11
Consensus MFE -12.60
Energy contribution -14.52
Covariance contribution 1.92
Combinations/Pair 1.29
Mean z-score -1.79
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.912047
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23949788 103 - 27905053
CAAAUUGAAAGCGAACAGCGGAAAAUUUAUAGCGCCUGUUCAGGAAGA---GUGGAAAACUCGACUAGCUUCUGGAGUUUUCCACUUGUUCCAAUCGCCACAGACA------
..........((((((((((............)).)))))).((((((---(((((((((((.(........).))))))))))))).))))....))........------ ( -33.90, z-score =  -3.38, R)
>droEre2.scaffold_4820 6379104 101 + 10470090
CAAAUUGAAGGCGAACAGCGGAAAAUUUAUAGCUCCUGUUGAG--AGA---GUGAAAAACUCAACGAGCUUCUGCAGUUUUCCACUUGUUCCAAUCGCCACAGACA------
.........(((((((((.((((((((...(((((..((((((--...---........))))))))))).....)))))))).).))).....))))).......------ ( -29.20, z-score =  -2.47, R)
>droYak2.chr3R 6286308 106 + 28832112
CAAAUUGAAAGCGAACAGCGGAAAAUUUAUAGCGCCUGUUGAGAAAGACAGUUGGAAAACUCAACUAGCUACUGGAGUUUUCCACUUGCUCCAAUCGCCACAGACA------
..........((((..((((((((((((.((((....((((((.....(....).....))))))..))))...)))))))))....)))....))))........------ ( -25.50, z-score =  -1.25, R)
>droSec1.super_22 568639 93 - 1066717
----------GCAAACAGCGGAAAAUUUAUAGCGCCUGUUGAGAAAGA---GUGGAAAACUCGACUAGCUUCUGGAGUUUUCCACUUGUUCCAAUCGCCACAGACA------
----------((.....))............(((...((((.(((.((---(((((((((((.(........).))))))))))))).))))))))))........------ ( -28.00, z-score =  -2.47, R)
>droSim1.chr3R 23649784 103 - 27517382
CAAAUUGAAAGCGAACAGCGGAAAAUUUAUAGCGCCUGUUGAGAAAGA---GUGGAAAAAUCGACUAGCUUCUGGAGUUUUCCACUUGUUCCAAUCGCCACAGACA------
..........((((.((((((..............)))))).(((.((---((((((((.((.(........).)).)))))))))).)))...))))........------ ( -25.14, z-score =  -1.09, R)
>droGri2.scaffold_14830 4395063 104 - 6267026
-----CAGCAGUAAAGAGUAAGGAGUCCA-GCCAACUUCUGUGUAUGAGCAUUGACACAGUCUGCCAAAAUAAAUGG--UCGCGACGGCGUUGGUCGACUUGAACCAUUGCA
-----..(((((......((((..(.(((-(((......(((((..........)))))((((((((.......)))--.)).))))))..))).)..))))....))))). ( -26.90, z-score =  -0.06, R)
>consensus
CAAAUUGAAAGCGAACAGCGGAAAAUUUAUAGCGCCUGUUGAGAAAGA___GUGGAAAACUCGACUAGCUUCUGGAGUUUUCCACUUGUUCCAAUCGCCACAGACA______
..........((((.((((((..............))))))..........(((((((((((............))))))))))).........)))).............. (-12.60 = -14.52 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:50:04 2011