Locus 11147

Sequence ID	dm3.chr3R
Location	18,997,388 – 18,997,481
Length	93
Max. P	0.997719

overview

Window 7

Location	18,997,388 – 18,997,481
Length	93
Sequences	7
Columns	114
Reading direction	forward
Mean pairwise identity	68.23
Shannon entropy	0.57885
G+C content	0.42503
Mean single sequence MFE	-26.30
Consensus MFE	-17.11
Energy contribution	-18.49
Covariance contribution	1.37
Combinations/Pair	1.26
Mean z-score	-2.09
Structure conservation index	0.65
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	3.16
SVM RNA-class probability	0.997719
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18997388 93 + 27905053
UAAGUUAAUUAAAAACGUGUUAACUGCUCGGCGGCCGGCCGCUGU-GGCUUACACUC---------AUUUUUUUUUUU-----------GAUUCUGGCCAAAUGCCAGAAUCGA
................((((.....(((((((((....)))))).-)))..))))..---------..........((-----------(((((((((.....))))))))))) ( -32.90, z-score =  -4.01, R)
>droSim1.chr3R 18809674 91 + 27517382
UAAGUUAAUUAAAAACGUGUUAACUGCUCGGCGGCCGGCCGCUGUUGGCUUACACUC---------AUUUUUUUUU--------------AUUCUGGCAUUUGGCCAGAAUCAA
................((((.....(((((((((....))))))..)))..))))..---------..........--------------((((((((.....))))))))... ( -27.50, z-score =  -2.66, R)
>droSec1.super_0 19361206 83 + 21120651
UAAGUUAAUUAAAAACGUGUUAACUGCUCGGCGGCCGGCCGCUGUUGGCUUACACUC---------AUU----------------------UUCUGGCAUUUGGCCAGAAUCGA
................((((.....(((((((((....))))))..)))..))))..---------...----------------------(((((((.....))))))).... ( -26.90, z-score =  -2.21, R)
>droYak2.chr3R 19866102 98 + 28832112
UAAGUUAAUUACAAACGUGUUAACUGCUCGGCGGCCGGCCGCUGA-GGCUUACACUC---------AUUUUUUUUUUUCUGAA------AAUUCUGGCCAAAUGCCAGAAGCGA
..(((((((.((....))))))))).((((((((....)))))))-)(((.......---------((((((........)))------)))((((((.....))))))))).. ( -31.70, z-score =  -2.86, R)
>droEre2.scaffold_4820 1402733 90 - 10470090
UAAGUUAAUUAGAAACGUGUUAACUGCUUGGCGGCCGGCCGCUAA-GGCUUACACUC---------AUUUUGUGCGC--------------UUCUGGCCAAAUGCCAGAACCGA
..(((((((.........))))))).((((((((....)))))))-).....(((..---------.....)))((.--------------(((((((.....))))))).)). ( -30.50, z-score =  -2.04, R)
>droAna3.scaffold_13340 15298222 74 - 23697760
UAAGUUAAUUAAAAACGUGUUAACUGUUCGCCCGCCG-----------CUUCGACAA---------AUUUGU------------------AUUUUGGCCCAAAGCCAAAAGC--
..(((((((.........)))))))(((.((.....)-----------)...)))..---------......------------------.(((((((.....)))))))..-- ( -11.70, z-score =  -0.09, R)
>droWil1.scaffold_181130 8596566 114 + 16660200
UAACUUAAUUAAAAACGUGUUAAAUGCUCAACCGGCAGAAUUCUCAAUCUUUAUCUUUAUGUGGAUAUUUUUUGAGUUUAGUAGUGUUAGCUUUUGGUUUUUGGCCAGUAGCCA
((((...((((((...........((((.....)))).....(((((....(((((......)))))....)))))))))))...))))(((.(((((.....))))).))).. ( -22.90, z-score =  -0.78, R)
>consensus
UAAGUUAAUUAAAAACGUGUUAACUGCUCGGCGGCCGGCCGCUGU_GGCUUACACUC_________AUUUUUUUUU______________AUUCUGGCCAAAGGCCAGAAGCGA
..(((((((.........)))))))(((((((((....))))))..)))..........................................(((((((.....))))))).... (-17.11 = -18.49 +   1.37)

alignment

secondary structure

dotplot

Window 8

Location	18,997,388 – 18,997,481
Length	93
Sequences	7
Columns	114
Reading direction	reverse
Mean pairwise identity	68.23
Shannon entropy	0.57885
G+C content	0.42503
Mean single sequence MFE	-22.99
Consensus MFE	-13.63
Energy contribution	-14.96
Covariance contribution	1.33
Combinations/Pair	1.22
Mean z-score	-1.33
Structure conservation index	0.59
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.62
SVM RNA-class probability	0.955523
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18997388 93 - 27905053
UCGAUUCUGGCAUUUGGCCAGAAUC-----------AAAAAAAAAAAU---------GAGUGUAAGCC-ACAGCGGCCGGCCGCCGAGCAGUUAACACGUUUUUAAUUAACUUA
..(((((((((.....)))))))))-----------......((((((---------(.((....((.-.(.((((....)))).).)).....)).))))))).......... ( -28.50, z-score =  -2.92, R)
>droSim1.chr3R 18809674 91 - 27517382
UUGAUUCUGGCCAAAUGCCAGAAU--------------AAAAAAAAAU---------GAGUGUAAGCCAACAGCGGCCGGCCGCCGAGCAGUUAACACGUUUUUAAUUAACUUA
...((((((((.....))))))))--------------...(((((..---------..((((.(((...(.((((....)))).)....))).)))).))))).......... ( -24.10, z-score =  -2.04, R)
>droSec1.super_0 19361206 83 - 21120651
UCGAUUCUGGCCAAAUGCCAGAA----------------------AAU---------GAGUGUAAGCCAACAGCGGCCGGCCGCCGAGCAGUUAACACGUUUUUAAUUAACUUA
....(((((((.....)))))))----------------------...---------..((((.(((...(.((((....)))).)....))).))))................ ( -22.60, z-score =  -1.46, R)
>droYak2.chr3R 19866102 98 - 28832112
UCGCUUCUGGCAUUUGGCCAGAAUU------UUCAGAAAAAAAAAAAU---------GAGUGUAAGCC-UCAGCGGCCGGCCGCCGAGCAGUUAACACGUUUGUAAUUAACUUA
....(((((((.....)))))))..------.................---------..((((.((((-((.((((....)))).)))..))).))))................ ( -27.20, z-score =  -1.38, R)
>droEre2.scaffold_4820 1402733 90 + 10470090
UCGGUUCUGGCAUUUGGCCAGAA--------------GCGCACAAAAU---------GAGUGUAAGCC-UUAGCGGCCGGCCGCCAAGCAGUUAACACGUUUCUAAUUAACUUA
.((.(((((((.....)))))))--------------.))........---------..((((.((((-((.((((....)))).)))..))).))))................ ( -28.70, z-score =  -1.56, R)
>droAna3.scaffold_13340 15298222 74 + 23697760
--GCUUUUGGCUUUGGGCCAAAAU------------------ACAAAU---------UUGUCGAAG-----------CGGCGGGCGAACAGUUAACACGUUUUUAAUUAACUUA
--..(((((((.....))))))).------------------......---------.....((((-----------((...(((.....)))....))))))........... ( -13.90, z-score =   0.16, R)
>droWil1.scaffold_181130 8596566 114 - 16660200
UGGCUACUGGCCAAAAACCAAAAGCUAACACUACUAAACUCAAAAAAUAUCCACAUAAAGAUAAAGAUUGAGAAUUCUGCCGGUUGAGCAUUUAACACGUUUUUAAUUAAGUUA
..(((((((((...........((......))......(((((....((((........))))....)))))......))))))..)))......................... ( -15.90, z-score =  -0.13, R)
>consensus
UCGAUUCUGGCAUUAGGCCAGAAU______________AAAAAAAAAU_________GAGUGUAAGCC_ACAGCGGCCGGCCGCCGAGCAGUUAACACGUUUUUAAUUAACUUA
....(((((((.....)))))))....................................((((.(((.....((((....))))......))).))))................ (-13.63 = -14.96 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:37:18 2011