Locus 7127

Sequence ID dm3.chr3L
Location 12,399,323 – 12,399,488
Length 165
Max. P 0.798740
window9813 window9814

overview

Window 3

Location 12,399,323 – 12,399,432
Length 109
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 94.80
Shannon entropy 0.08781
G+C content 0.41570
Mean single sequence MFE -26.13
Consensus MFE -23.28
Energy contribution -23.24
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.798740
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12399323 109 - 24543557
GUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCACAUUCAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUAUCUUGCUCCGCUAAAUAGAUAAACAACAAAUCAC
(((((((((((.((((((.......)).-)))).)))))))).((((((.((.....((((......)))).........))))))))...................))) ( -25.94, z-score =  -1.51, R)
>droEre2.scaffold_4784 12394137 106 - 25762168
GUGUGAAUGUGACAAACACGCAGAAUGA-UUUGGCACAUCUAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUAUCUUGCUCCGCUAAAUAGAUA---AACAAAUCAC
(((((...........)))))....(((-((((....(((((.((((((.((.....((((......)))).........))))))))...))))).---..))))))). ( -28.04, z-score =  -2.78, R)
>droYak2.chr3L 12455001 107 - 24197627
GUGUGAAUGUGACAAACACGCAGAAUGAUUUUUGCACGCCUAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUUUCUUGCUCCGCUAAAUAGAUA---AACAAAUCAC
((((....(((.....)))((((((....))))))))))....(((((((((((((....)))))))..(((....)))...)))))).....(((.---.....))).. ( -25.10, z-score =  -1.54, R)
>droSec1.super_0 4583260 106 - 21120651
GUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCACAUUUAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUAUCUUGCUCCGCUAAAUAGAUA---AACAAAUCAC
(((((..((...))..)))))....(((-((((....(((((.((((((.((.....((((......)))).........))))))))...))))).---..))))))). ( -25.54, z-score =  -1.64, R)
>droSim1.chr3L 11780189 106 - 22553184
GUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCACAUUCAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUAUCUUGCUCCGCUAAAUAGAUA---AACAAAUCAC
...((((((((.((((((.......)).-)))).)))))))).((((((.((.....((((......)))).........)))))))).....(((.---.....))).. ( -26.04, z-score =  -1.56, R)
>consensus
GUGUGAAUGUGACAGACACGCCGAAUGA_UUUGGCACAUUUAAAGCGGAUGUUUUCACCGGGAAACACUGGAUAUAUCUUGCUCCGCUAAAUAGAUA___AACAAAUCAC
..((((..(((.....)))((((((....))))))........(((((((((((((....)))))))..(((....)))...))))))..................)))) (-23.28 = -23.24 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 12,399,396 – 12,399,488
Length 92
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 81.33
Shannon entropy 0.30862
G+C content 0.46279
Mean single sequence MFE -26.92
Consensus MFE -18.30
Energy contribution -18.34
Covariance contribution 0.04
Combinations/Pair 1.17
Mean z-score -1.88
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.788336
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12399396 92 - 24543557
-------AUUACCAGAGGCUAGAACUCGCAUUCCGCGAAGAGACUUCUCGAAAUUGUCA----CCGUGUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCAC
-------..........((((((.....(((((.(((..(((....)))....((((((----(.((......)))))))))...))).))))).-)))))).. ( -25.50, z-score =  -1.33, R)
>droEre2.scaffold_4784 12394207 96 - 25762168
AUUAUUUGCCACCAGAGGUUA-AACUCACAUUCCGCGAAGAGUCUUCUCGAAAUUGU------CCCCGUGUGAAUGUGACAAACACGCAGAAUGA-UUUGGCAC
......(((((...(((....-..))).(((((.(((..(((....)))....((((------(..(((....))).)))))...))).))))).-..))))). ( -27.50, z-score =  -2.60, R)
>droYak2.chr3L 12455071 98 - 24197627
AUUAUUUUCCGCCAGAGGUUAAAAUUCACAUUCUGCGAAGAGAUUGCUCGAAAUUGU------CACUGUGUGAAUGUGACAAACACGCAGAAUGAUUUUUGCAC
..........((..(((.......))).(((((((((..(((....)))....((((------(((.........)))))))...)))))))))......)).. ( -26.80, z-score =  -2.21, R)
>droSec1.super_0 4583330 92 - 21120651
-------AUUACCAGAGGUUAGAACUCGCAUUCCGC---GAGACUUCUCGAAAUUGUCA-CCACCGUGUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCAC
-------....(.((((((.....(((((.....))---))))))))).)...((((((-((((.....)))...)))))))....(((((....-.))))).. ( -26.20, z-score =  -1.61, R)
>droSim1.chr3L 11780259 96 - 22553184
-------AUUACCAGAGGUUAGAACUCGCAUUCCGCGAGGAGACUUCUCGAAAUUGUCACCCUCCGUGUGUGAAUGUGACAGACACGCCGAAUGA-UUUGGCAC
-------....(.(((((((....(((((.....)))))..))))))).)...(((((((..(((....).))..)))))))....(((((....-.))))).. ( -28.60, z-score =  -1.64, R)
>consensus
_______AUUACCAGAGGUUAGAACUCGCAUUCCGCGAAGAGACUUCUCGAAAUUGUCA____CCGUGUGUGAAUGUGACAGACACGCCGAAUGA_UUUGGCAC
.........................((((((((((((..(((....)))((.....))........)))).)))))))).......((((((....)))))).. (-18.30 = -18.34 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:00 2011