Locus 15655

Sequence ID dm3.chrX
Location 20,238,022 – 20,238,139
Length 117
Max. P 0.783377
window21579 window21580

overview

Window 9

Location 20,238,022 – 20,238,139
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 74.36
Shannon entropy 0.36738
G+C content 0.58856
Mean single sequence MFE -36.67
Consensus MFE -27.38
Energy contribution -27.50
Covariance contribution 0.12
Combinations/Pair 1.15
Mean z-score -1.07
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.553028
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20238022 117 + 22422827
CGGCUGUCAGGUGUCGCCGCACUCCGACUCAAAGUUAUGUGUUAUCAUUCCGCCGAGGUCGGCGUUGACUGGCUCCACGUGGGCCGCCAGUACCUUCCAAAGGCAUAACACUUCAAA
.....(((.(((((....)))))..))).....(((((((.((.......(((((....)))))...(((((((((....)))..))))))........)).)))))))........ ( -36.20, z-score =  -0.32, R)
>droSec1.super_8 2425137 116 + 3762037
CGGCUGUCAGGUGUCGCCGCACUCCGACUCAAAGUUAUGUGUUAUCAUUCCGCCG-GGUCGGCGUUGACUGGCUCCACGUGAGCCGCCAGUACCCCCCAAAGGUACUACACUUCAUC
.(((.((((.(((..((((.((.(((((((...(..(((......)))..)...)-)))))).))....))))..))).))).).)))((((((.......)))))).......... ( -40.90, z-score =  -1.99, R)
>droEre2.scaffold_4690 10310687 91 + 18748788
CGGCUGUCAGGUGUCGCCGCGCUCCGGCUCAAAGUUAUGUGUUAUCAUUCCGCCGGGCCCGGCAUGGAGUAGCUCCAUGUGAGCCCUCAUC--------------------------
.((((..........((((.((.(((((.....(..(((......)))..)))))))).))))((((((...))))))...))))......-------------------------- ( -32.90, z-score =  -0.91, R)
>consensus
CGGCUGUCAGGUGUCGCCGCACUCCGACUCAAAGUUAUGUGUUAUCAUUCCGCCG_GGUCGGCGUUGACUGGCUCCACGUGAGCCGCCAGUACC__CCAAAGG_A__ACACUUCA__
.((((..((.(((..(((((((...(((.....)))..))))..(((...(((((....))))).)))..)))..))).))))))................................ (-27.38 = -27.50 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,238,022 – 20,238,139
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 74.36
Shannon entropy 0.36738
G+C content 0.58856
Mean single sequence MFE -39.47
Consensus MFE -26.13
Energy contribution -27.80
Covariance contribution 1.67
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.783377
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20238022 117 - 22422827
UUUGAAGUGUUAUGCCUUUGGAAGGUACUGGCGGCCCACGUGGAGCCAGUCAACGCCGACCUCGGCGGAAUGAUAACACAUAACUUUGAGUCGGAGUGCGGCGACACCUGACAGCCG
......(((((((((((.....))))((((((..((.....)).))))))...(((((....))))).....)))))))..........(((((.(((......))))))))..... ( -40.60, z-score =  -1.15, R)
>droSec1.super_8 2425137 116 - 3762037
GAUGAAGUGUAGUACCUUUGGGGGGUACUGGCGGCUCACGUGGAGCCAGUCAACGCCGACC-CGGCGGAAUGAUAACACAUAACUUUGAGUCGGAGUGCGGCGACACCUGACAGCCG
..........(((((((.....)))))))((((((((.....))))).((((.((((((((-((((.......................))))).)).))))).....)))).))). ( -43.50, z-score =  -1.43, R)
>droEre2.scaffold_4690 10310687 91 - 18748788
--------------------------GAUGAGGGCUCACAUGGAGCUACUCCAUGCCGGGCCCGGCGGAAUGAUAACACAUAACUUUGAGCCGGAGCGCGGCGACACCUGACAGCCG
--------------------------.....((((((.(((((((...)))))))..))))))((((..(((......)))..).....((((.....))))...........))). ( -34.30, z-score =  -2.41, R)
>consensus
__UGAAGUGU__U_CCUUUGG__GGUACUGGCGGCUCACGUGGAGCCAGUCAACGCCGACC_CGGCGGAAUGAUAACACAUAACUUUGAGUCGGAGUGCGGCGACACCUGACAGCCG
............(((((.....))))).....((((((.(((..(((.((((.(((((....)))))...))))........((((((...))))))..)))..))).)))..))). (-26.13 = -27.80 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:03:28 2011