Locus 4060

Sequence ID dm3.chr2R
Location 10,062,291 – 10,062,394
Length 103
Max. P 0.990145
window5561 window5562

overview

Window 1

Location 10,062,291 – 10,062,394
Length 103
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 92.32
Shannon entropy 0.14893
G+C content 0.51458
Mean single sequence MFE -34.38
Consensus MFE -28.43
Energy contribution -29.68
Covariance contribution 1.25
Combinations/Pair 1.07
Mean z-score -2.52
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.959241
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10062291 103 + 21146708
ACUCGCUCGUCUCACCAACACUCGCUG-CUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGCGACA
..((((((((.((((......(((.((-(.....))).)))(((((((((((.....(((.....)))....)))))))))))....))))...)))))))).. ( -37.90, z-score =  -3.51, R)
>droSim1.chr2R 8831763 103 + 19596830
ACUCGCUCGCCUCACCAACACUCGCUG-CUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGCGACA
..(((((((..((((......(((.((-(.....))).)))(((((((((((.....(((.....)))....)))))))))))....))))....))))))).. ( -36.10, z-score =  -2.95, R)
>droSec1.super_1 7569926 103 + 14215200
ACUCGCUCGCCUCACCAACACUCGCUG-CUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGCGACA
..(((((((..((((......(((.((-(.....))).)))(((((((((((.....(((.....)))....)))))))))))....))))....))))))).. ( -36.10, z-score =  -2.95, R)
>droYak2.chr2R 9998467 103 + 21139217
ACUCGCUCGCCUCACCAACACUCGCUG-UUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGUGACU
..(((((((((............((((-....))))..((..((((((....))))))..))...))).((((((((((...))))))))))....)))))).. ( -34.30, z-score =  -2.48, R)
>droEre2.scaffold_4845 6813435 103 - 22589142
ACUCGCUCGUCUCACCAACACUCGCUG-CUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGCGACU
..((((((((.((((......(((.((-(.....))).)))(((((((((((.....(((.....)))....)))))))))))....))))...)))))))).. ( -37.90, z-score =  -3.67, R)
>droAna3.scaffold_13266 14025761 101 - 19884421
ACUCGCUCG-CUCACCAACACUCGCUGGUUUUUCGAACCCCACUGUGUAUGUAUACGGCCCGAGAGGUAUUCACGU--ACGGUAUACGUGGAUAAAGAAGAACG
.........-.................(((((((........((((((....)))))).((....))(((((((((--(.....))))))))))..))))))). ( -24.00, z-score =   0.43, R)
>consensus
ACUCGCUCGCCUCACCAACACUCGCUG_CUUUCGGCAACGAACUGUGUAUGUAUACGGCCCGAAUGGCAUUCACGUAUACGGUAUACGUGGAAAACGAGCGACA
..(((((((..((((................(((....)))(((((((((((.....(((.....)))....)))))))))))....))))....))))))).. (-28.43 = -29.68 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 10,062,291 – 10,062,394
Length 103
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 92.32
Shannon entropy 0.14893
G+C content 0.51458
Mean single sequence MFE -39.48
Consensus MFE -31.89
Energy contribution -33.78
Covariance contribution 1.89
Combinations/Pair 1.08
Mean z-score -3.16
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.40
SVM RNA-class probability 0.990145
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10062291 103 - 21146708
UGUCGCUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAG-CAGCGAGUGUUGGUGAGACGAGCGAGU
..((((((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.(....)-))))))))))))).))))))))))).. ( -43.20, z-score =  -4.25, R)
>droSim1.chr2R 8831763 103 - 19596830
UGUCGCUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAG-CAGCGAGUGUUGGUGAGGCGAGCGAGU
..((((((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.(....)-))))))))))))).))))))))))).. ( -42.70, z-score =  -3.73, R)
>droSec1.super_1 7569926 103 - 14215200
UGUCGCUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAG-CAGCGAGUGUUGGUGAGGCGAGCGAGU
..((((((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.(....)-))))))))))))).))))))))))).. ( -42.70, z-score =  -3.73, R)
>droYak2.chr2R 9998467 103 - 21139217
AGUCACUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAA-CAGCGAGUGUUGGUGAGGCGAGCGAGU
..((.(((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.......-))))))))))))).)))))))).)).. ( -33.30, z-score =  -1.53, R)
>droEre2.scaffold_4845 6813435 103 + 22589142
AGUCGCUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAG-CAGCGAGUGUUGGUGAGACGAGCGAGU
..((((((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.(....)-))))))))))))).))))))))))).. ( -43.20, z-score =  -4.46, R)
>droAna3.scaffold_13266 14025761 101 + 19884421
CGUUCUUCUUUAUCCACGUAUACCGU--ACGUGAAUACCUCUCGGGCCGUAUACAUACACAGUGGGGUUCGAAAAACCAGCGAGUGUUGGUGAG-CGAGCGAGU
(((((.....(((.(((((((...))--))))).))).((((((((((.(((.........))).)))))))...((((((....)))))))))-.)))))... ( -31.80, z-score =  -1.23, R)
>consensus
UGUCGCUCGUUUUCCACGUAUACCGUAUACGUGAAUGCCAUUCGGGCCGUAUACAUACACAGUUCGUUGCCGAAAG_CAGCGAGUGUUGGUGAGGCGAGCGAGU
..((((((((((((((.((((...(((((((.....(((.....))))))))))))))(((.(((((((.(....).))))))))))))).))))))))))).. (-31.89 = -33.78 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:21:57 2011