Locus 8213

Sequence ID dm3.chr3L
Location 21,052,788 – 21,052,928
Length 140
Max. P 0.997785
window11289 window11290

overview

Window 9

Location 21,052,788 – 21,052,899
Length 111
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 73.48
Shannon entropy 0.52127
G+C content 0.34897
Mean single sequence MFE -24.77
Consensus MFE -14.40
Energy contribution -15.30
Covariance contribution 0.90
Combinations/Pair 1.44
Mean z-score -2.59
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.18
SVM RNA-class probability 0.997785
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21052788 111 - 24543557
UUAAAAUAGCUUUAUGAACCAUUUAAUUCACUUGAAGUGCUUACGAGAAUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAACCCCCUUUACACCAGACCUUA
........(((((.((((.(((......((((((((((((...........))))))))))))((......))))).)))).)))))........................ ( -22.40, z-score =  -2.74, R)
>droEre2.scaffold_4784 20740138 110 - 25762168
UAAAAAUAUCUUUAUGAACCAUUUAAAUCACUUAAGCUGCGUACAAGUGCUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAG-CCCCUUUACAACUGGCAUUA
......(((((((.((((.(((......((((((((.((((((....))).))).))))))))((......))))).))))))))))).(-((...........))).... ( -24.60, z-score =  -1.90, R)
>droYak2.chr3L 4722318 110 + 24197627
UUAAAUUAUCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACAAGUGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUGAA-CCGCUUUACAGCUGUCUUUA
.....((((((((.((((.(((......((((((((((((..((....)).))))))))))))((......))))).))))))))))))(-(.(((....))).))..... ( -27.00, z-score =  -2.58, R)
>droSec1.super_11 941296 110 - 2888827
UUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUUAUUCAAAAGGUAAA-CCCCCUUACAACAAGCCUUA
........((((..((((..........((((((((((((..((....)).))))))))))))((......))....)))).((((....-...)))).....)))).... ( -24.30, z-score =  -2.97, R)
>droSim1.chr3L 20406872 111 - 22553184
UUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAACCCCCUUUACAGCACGCCUUA
........(((...((((.(((......((((((((((((..((....)).))))))))))))((......))))).))))(((((.......)))))..)))........ ( -27.00, z-score =  -3.37, R)
>droVir3.scaffold_13049 9945572 89 + 25233164
-------------AUUUAAUACUCAA-UUGUUUUGAGUA-UUACGA--UCUGAGCUUUGAGCGUGACAGAAGGACUUAUUGACAGA-----GCUGAUUGCAGCUUUCGACA
-------------...((((((((((-.....)))))))-)))(((--((((..(..(((((.(......).).))))..).))))-----((((....))))..)))... ( -23.30, z-score =  -1.98, R)
>consensus
UUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAA_CCCCUUUACAGCAGGCCUUA
.........((((.((((.(((((....((((((((((((...........))))))))))))........))))).)))).))))......................... (-14.40 = -15.30 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,052,826 – 21,052,928
Length 102
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 72.56
Shannon entropy 0.50945
G+C content 0.33810
Mean single sequence MFE -22.87
Consensus MFE -12.63
Energy contribution -12.52
Covariance contribution -0.10
Combinations/Pair 1.58
Mean z-score -1.82
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.62
SVM RNA-class probability 0.955257
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21052826 102 - 24543557
AUGUGAGACACCAU---AAGUUCUGAGUGCUUUUAAAAUAGCUUUAUGAACCAUUUAAUUCACUUGAAGUGCUUACGAGAAUUGCAUUUUAAGUGCCAACAAAGG
.((((......)))---).((((((((.(((........))))))).)))).........((((((((((((...........)))))))))))).......... ( -21.80, z-score =  -1.47, R)
>droEre2.scaffold_4784 20740175 88 - 25762168
-----------------AAGUUCUAAGUGCUUUAAAAAUAUCUUUAUGAACCAUUUAAAUCACUUAAGCUGCGUACAAGUGCUGCAUUUUAAGUGCCAACAAAGG
-----------------..(((.((((((.((((.(((....))).)))).))))))...((((((((.((((((....))).))).))))))))..)))..... ( -16.30, z-score =  -0.84, R)
>droYak2.chr3L 4722355 105 + 24197627
AUGUGAGACACAAUAAGAAGUUCUAAGUGCUUUUAAAUUAUCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACAAGUGUUGCAUUUUAAGUGCCAACAAAGG
.((((((.(((....((.....))(((((..(((((((..((.....))...))))))).)))))...)))))))))..((((((((.....))).))))).... ( -22.20, z-score =  -1.36, R)
>droSec1.super_11 941333 100 - 2888827
AUGUGAG--CUCAU---AAGUUCUGAGUGCUUUUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGG
.(((..(--(....---..((((((((.(((........))))))).))))..........(((((((((((..((....)).)))))))))))))..))).... ( -25.90, z-score =  -2.20, R)
>droSim1.chr3L 20406910 100 - 22553184
AUGUAAG--CUCAU---AAGUUCUGAGUGCUUUUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGG
.(((..(--(....---..((((((((.(((........))))))).))))..........(((((((((((..((....)).)))))))))))))..))).... ( -24.90, z-score =  -2.10, R)
>droVir3.scaffold_13049 9945605 91 + 25233164
---------AUAAUAUGAAAAGCUAAA-GCUUUGAGCUGUUGCGUAUUUAAUACUCAA-UUGUUUUGAGUA-UUACGAU--CUGAGCUUUGAGCGUGACAGAAGG
---------.........(((((....-)))))...((((..(((...((((((((((-.....)))))))-)))(((.--.......))).)))..)))).... ( -26.10, z-score =  -2.97, R)
>consensus
AUGUGAG__AUCAU___AAGUUCUAAGUGCUUUUAAAAUAGCUUUAUGAACCAUUUAAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGG
...................((((.(((..............)))...)))).........((((((((((((...........)))))))))))).......... (-12.63 = -12.52 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:41:26 2011