Locus 15755

Sequence ID dm3.chrX
Location 20,822,935 – 20,822,987
Length 52
Max. P 0.914613
window21711 window21712

overview

Window 1

Location 20,822,935 – 20,822,987
Length 52
Sequences 6
Columns 64
Reading direction forward
Mean pairwise identity 81.31
Shannon entropy 0.31436
G+C content 0.41066
Mean single sequence MFE -13.75
Consensus MFE -10.36
Energy contribution -10.17
Covariance contribution -0.19
Combinations/Pair 1.31
Mean z-score -1.91
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.24
SVM RNA-class probability 0.914613
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20822935 52 + 22422827
CCAAGCCAUCAUCUAGUUUGUA-UUGGGAUAACGCCCAAUCAGGCAAAUUGAA-----------
........(((....(((((.(-(((((......)))))))))))....))).----------- ( -13.70, z-score =  -2.14, R)
>droSim1.chrX 15991622 52 + 17042790
CCAGGCAAUCAUCUAGUUUGUA-UUGGGAUAACGCCCAAUCAGGCAAAUUGAA-----------
........(((....(((((.(-(((((......)))))))))))....))).----------- ( -13.70, z-score =  -1.89, R)
>droSec1.super_8 3096671 52 + 3762037
CCAGGCAAUCAUCUAGUUUGUA-UUGGGAUAACGCCCAAUCAGGCAAAUUGAA-----------
........(((....(((((.(-(((((......)))))))))))....))).----------- ( -13.70, z-score =  -1.89, R)
>droYak2.chrX 20037566 52 + 21770863
CUAGGCAAUCAUCUAGUUUGUA-UUGGGAUAACGCCCAAUCAGGCAAAUUGAA-----------
........(((....(((((.(-(((((......)))))))))))....))).----------- ( -13.70, z-score =  -2.15, R)
>droEre2.scaffold_4690 17402015 52 + 18748788
CUAAGCAAUCAUCUAGUUUGUA-UUGGGAUAACGCCCAAUCAGGCAAAUUGAA-----------
........(((....(((((.(-(((((......)))))))))))....))).----------- ( -13.70, z-score =  -2.56, R)
>droAna3.scaffold_13334 158973 64 - 1562580
UUUGGCAAUUAUAGCGUUUGUUCUUCGGAUAAUGCUCCAUCAGGUAGAUGGUAGAUGGAGUUUG
...(((.......(((((...((....)).)))))((((((............))))))))).. ( -14.00, z-score =  -0.81, R)
>consensus
CCAGGCAAUCAUCUAGUUUGUA_UUGGGAUAACGCCCAAUCAGGCAAAUUGAA___________
.............((((((((..(((((......)))))....))))))))............. (-10.36 = -10.17 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,822,935 – 20,822,987
Length 52
Sequences 6
Columns 64
Reading direction reverse
Mean pairwise identity 81.31
Shannon entropy 0.31436
G+C content 0.41066
Mean single sequence MFE -9.13
Consensus MFE -8.03
Energy contribution -7.51
Covariance contribution -0.53
Combinations/Pair 1.36
Mean z-score -0.76
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.506106
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20822935 52 - 22422827
-----------UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA-UACAAACUAGAUGAUGGCUUGG
-----------........(((((((((((......)))))-).))..(.....)..))).... (  -9.40, z-score =  -0.11, R)
>droSim1.chrX 15991622 52 - 17042790
-----------UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA-UACAAACUAGAUGAUUGCCUGG
-----------..............(..(((((((((....-.........))))).))))..) (  -9.02, z-score =  -0.26, R)
>droSec1.super_8 3096671 52 - 3762037
-----------UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA-UACAAACUAGAUGAUUGCCUGG
-----------..............(..(((((((((....-.........))))).))))..) (  -9.02, z-score =  -0.26, R)
>droYak2.chrX 20037566 52 - 21770863
-----------UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA-UACAAACUAGAUGAUUGCCUAG
-----------...............(((((((((((....-.........))))).)))))). (  -9.32, z-score =  -0.98, R)
>droEre2.scaffold_4690 17402015 52 - 18748788
-----------UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA-UACAAACUAGAUGAUUGCUUAG
-----------.(((.((((..((((((((......)))))-).))...)))))))........ (  -7.80, z-score =  -0.35, R)
>droAna3.scaffold_13334 158973 64 + 1562580
CAAACUCCAUCUACCAUCUACCUGAUGGAGCAUUAUCCGAAGAACAAACGCUAUAAUUGCCAAA
....(((((((............)))))))...................((.......)).... ( -10.20, z-score =  -2.58, R)
>consensus
___________UUCAAUUUGCCUGAUUGGGCGUUAUCCCAA_UACAAACUAGAUGAUUGCCUAG
.............(((((.....)))))(((((((((..............)))))).)))... ( -8.03 =  -7.51 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:17 2011