Locus 15149

Sequence ID dm3.chrX
Location 17,605,607 – 17,605,723
Length 116
Max. P 0.899512
window20876 window20877

overview

Window 6

Location 17,605,607 – 17,605,723
Length 116
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 87.93
Shannon entropy 0.20768
G+C content 0.34443
Mean single sequence MFE -23.36
Consensus MFE -15.80
Energy contribution -15.60
Covariance contribution -0.20
Combinations/Pair 1.17
Mean z-score -2.59
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.15
SVM RNA-class probability 0.899512
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17605607 116 + 22422827
AUAAUGGUACCCAAAAGUGCCCACCGUCGGAAAA-CAAAUGUUGCGAUUAGAACCGCAACUCAAAGUAAACAAAUAGAUCUAAUCUAAUUUACUAUUAGGUACCAUUAAAUACAAUU
.((((((((((.....((..((......))...)-)....((((((........))))))....((((((....(((((...))))).))))))....))))))))))......... ( -27.90, z-score =  -4.54, R)
>droSim1.chrX 3667254 114 - 17042790
AUAAAGGUACCCACGAGUGCCCACCGUCGGAAAA-CAAAUGUAUU--UUCUAAUCGCAACUCAAAGUAAACAAAUAGCUCUAAUCUAAUUUACUACUAGGUACCAUUAGAUACAAUU
.....((((((...((((((.....((..(((((-........))--)))..)).)).))))..((((((....(((.......))).))))))....))))))............. ( -19.60, z-score =  -1.69, R)
>droSec1.super_17 1451214 114 + 1527944
AUAAAGGUACCCAAGAGUGCCCACCGUCGGAAAA-CAAAUGUAUU--UUCUAAUCGCAACUCAAAGUAAACAAAUAGCUCUAAUCUAAUUUGCUACUAGGUACCAUUAGAUACAAUU
.....((((((...((((((.....((..(((((-........))--)))..)).)).))))............((((.............))))...))))))............. ( -20.62, z-score =  -1.74, R)
>droYak2.chrX 16233441 114 + 21770863
AUAAUGGUGCCCAAGAGUACCCACCGUCGAGAAA-CAAAUGUAUU--UUCUAAUCGCAACUCAAAGUAAGCAAAUGGUUGUAAUCUAAUUUACUAUUAGGUACCAUUAGAUACAAAC
.((((((((((.((.((((.........((((((-(....)).))--))).....((((((....(....)....)))))).........)))).)).))))))))))......... ( -23.70, z-score =  -2.07, R)
>droEre2.scaffold_4690 7940724 111 + 18748788
AUAAUGGUACCCAAGAGUACC----GUCGAAAAAGCGAAUGUAUU--UUCUAAUCGCAACUCAAAGUAAGCAAAUGGCUGUAAUCUAAUUUACUAUUAGGUACCAUUAGAUACAAAU
.((((((((((...((((..(----(..(((((.((....)).))--)))....))..))))......(((.....)))((((......)))).....))))))))))......... ( -25.00, z-score =  -2.93, R)
>consensus
AUAAUGGUACCCAAGAGUGCCCACCGUCGGAAAA_CAAAUGUAUU__UUCUAAUCGCAACUCAAAGUAAACAAAUAGCUCUAAUCUAAUUUACUAUUAGGUACCAUUAGAUACAAUU
.((((((((((...((((........................................))))..((((((....(((.......))).))))))....))))))))))......... (-15.80 = -15.60 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,605,607 – 17,605,723
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.93
Shannon entropy 0.20768
G+C content 0.34443
Mean single sequence MFE -29.51
Consensus MFE -19.56
Energy contribution -20.52
Covariance contribution 0.96
Combinations/Pair 1.17
Mean z-score -2.56
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.95
SVM RNA-class probability 0.860384
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17605607 116 - 22422827
AAUUGUAUUUAAUGGUACCUAAUAGUAAAUUAGAUUAGAUCUAUUUGUUUACUUUGAGUUGCGGUUCUAAUCGCAACAUUUG-UUUUCCGACGGUGGGCACUUUUGGGUACCAUUAU
.........(((((((((((((.(((....(((((...)))))...(((((((....((((((((....))))))))....(-((....))))))))))))).))))))))))))). ( -37.70, z-score =  -5.14, R)
>droSim1.chrX 3667254 114 + 17042790
AAUUGUAUCUAAUGGUACCUAGUAGUAAAUUAGAUUAGAGCUAUUUGUUUACUUUGAGUUGCGAUUAGAA--AAUACAUUUG-UUUUCCGACGGUGGGCACUCGUGGGUACCUUUAU
.........(((.((((((((..(((((((.((((.......)))))))))))..(((((.((.(..(((--((((....))-)))))..)...)).).)))).)))))))).))). ( -24.60, z-score =  -0.47, R)
>droSec1.super_17 1451214 114 - 1527944
AAUUGUAUCUAAUGGUACCUAGUAGCAAAUUAGAUUAGAGCUAUUUGUUUACUUUGAGUUGCGAUUAGAA--AAUACAUUUG-UUUUCCGACGGUGGGCACUCUUGGGUACCUUUAU
....((((((((.(((.((((.(.((((.(((((...((((.....))))..))))).))))(.(..(((--((((....))-)))))..))).)))).))).))))))))...... ( -26.70, z-score =  -1.22, R)
>droYak2.chrX 16233441 114 - 21770863
GUUUGUAUCUAAUGGUACCUAAUAGUAAAUUAGAUUACAACCAUUUGCUUACUUUGAGUUGCGAUUAGAA--AAUACAUUUG-UUUCUCGACGGUGGGUACUCUUGGGCACCAUUAU
.........(((((((.(((((..((((......)))).......(((((((((((((..((((......--.......)))-)..))))).))))))))...))))).))))))). ( -28.92, z-score =  -2.34, R)
>droEre2.scaffold_4690 7940724 111 - 18748788
AUUUGUAUCUAAUGGUACCUAAUAGUAAAUUAGAUUACAGCCAUUUGCUUACUUUGAGUUGCGAUUAGAA--AAUACAUUCGCUUUUUCGAC----GGUACUCUUGGGUACCAUUAU
.........(((((((((((((.((((...........(((.....)))..(.(((((..((((......--.......))))...))))).----).)))).))))))))))))). ( -29.62, z-score =  -3.61, R)
>consensus
AAUUGUAUCUAAUGGUACCUAAUAGUAAAUUAGAUUAGAGCUAUUUGUUUACUUUGAGUUGCGAUUAGAA__AAUACAUUUG_UUUUCCGACGGUGGGCACUCUUGGGUACCAUUAU
.........(((((((((((((.(((.....((((.......))))(((((((....((((.((...(((........)))....)).)))))))))))))).))))))))))))). (-19.56 = -20.52 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:58 2011