Locus 10463

Sequence ID dm3.chr3R
Location 13,934,711 – 13,934,802
Length 91
Max. P 0.999091
window14394 window14395

overview

Window 4

Location 13,934,711 – 13,934,802
Length 91
Sequences 11
Columns 107
Reading direction forward
Mean pairwise identity 74.08
Shannon entropy 0.55203
G+C content 0.51487
Mean single sequence MFE -30.37
Consensus MFE -26.35
Energy contribution -25.77
Covariance contribution -0.58
Combinations/Pair 1.55
Mean z-score -1.49
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.37
SVM RNA-class probability 0.989556
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13934711 91 + 27905053
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCACAUUAAGUUUUUUUUA---------------
(((((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).))).............--------------- ( -31.30, z-score =  -2.26, R)
>droSim1.chr3R 19966254 93 - 27517382
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCACAUUAAAUAUUUUUUAUA-------------
(((((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).)))...............------------- ( -31.30, z-score =  -2.18, R)
>droSec1.super_12 1891792 93 - 2123299
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCACAUUAAAUAUUUUUUAUA-------------
(((((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).)))...............------------- ( -31.30, z-score =  -2.18, R)
>droYak2.chr3R 2531568 89 + 28832112
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCACAUUGAUUAUUUUU-----------------
(((((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).)))...........----------------- ( -31.30, z-score =  -1.99, R)
>droEre2.scaffold_4770 10045657 91 - 17746568
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCACAUUCAAUUUUUUUAA---------------
(((((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).))).............--------------- ( -31.30, z-score =  -2.20, R)
>droAna3.scaffold_13340 11907605 91 - 23697760
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCAUGGUAGCUUUUUUUGU---------------
...((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).................--------------- ( -30.40, z-score =  -1.00, R)
>dp4.chr3 4494340 91 - 19779522
GCGGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUU-CCCGGCCGACGCACACGUAAUAUUUUUCC---------------
(((((((((((........(((((((...(((........))).)))))))((((.......-))))))))))))...)))...........--------------- ( -30.20, z-score =  -1.28, R)
>droPer1.super_4 3766385 91 + 7162766
GCGGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUU-CCCGGCCGACGCACACGUCAUAUUUUUCC---------------
...((((((((........(((((((...(((........))).)))))))((((.......-)))))))))))).................--------------- ( -30.00, z-score =  -1.17, R)
>droWil1.scaffold_181096 7897525 89 - 12416693
---GCAUCGGUGGUUCAGAGGU-AGAAUGCUCGCCCGCCAAGCGGGCGGCCCGGGUUCGAUU-CCCGGCCGAUGCAAACGAGGUUUUUUUUUUC-------------
---(((((((..((((......-.))))((.(((((((...)))))))))(((((.......-))))))))))))...................------------- ( -37.90, z-score =  -1.95, R)
>droMoj3.scaffold_6540 20815791 99 - 34148556
AUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU-CCCGGCCGACGCAUUGUACUUUUUUGCACUUUUUCUG-------
...((((((((........(((((((...(((........))).)))))))((((.......-))))))))))))..((((......)))).........------- ( -31.00, z-score =  -1.49, R)
>anoGam1.chr2L 4572244 105 - 48795086
--GAAAUCUUCCUUGUGUGAUUCACGACGCUUGGCACGAGACCAUCUUACCUGGUUUGAAAGACUCAGUUAUUUUAGGGUAUAAUUACAUCGAUAGGGCGAUCUUAC
--...(((.((((.((((((((....((.((((((...((((((.......))))))((.....)).))))....)).))..))))))))....)))).)))..... ( -18.10, z-score =   1.31, R)
>consensus
GUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUU_CCCGGCCGACGCACAUUAAAUUUUUUUUA_______________
...((((((((........(((((((.....(((.......))))))))))((((........))))))))))))................................ (-26.35 = -25.77 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,934,711 – 13,934,802
Length 91
Sequences 11
Columns 107
Reading direction reverse
Mean pairwise identity 74.08
Shannon entropy 0.55203
G+C content 0.51487
Mean single sequence MFE -29.53
Consensus MFE -23.06
Energy contribution -22.95
Covariance contribution -0.12
Combinations/Pair 1.37
Mean z-score -2.54
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.64
SVM RNA-class probability 0.999091
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13934711 91 - 27905053
---------------UAAAAAAAACUUAAUGUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
---------------..............((.((((((((((((-.......)))))..........(((..((((....))))..)))........))))))))). ( -29.20, z-score =  -3.08, R)
>droSim1.chr3R 19966254 93 + 27517382
-------------UAUAAAAAAUAUUUAAUGUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
-------------................((.((((((((((((-.......)))))..........(((..((((....))))..)))........))))))))). ( -29.20, z-score =  -2.89, R)
>droSec1.super_12 1891792 93 + 2123299
-------------UAUAAAAAAUAUUUAAUGUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
-------------................((.((((((((((((-.......)))))..........(((..((((....))))..)))........))))))))). ( -29.20, z-score =  -2.89, R)
>droYak2.chr3R 2531568 89 - 28832112
-----------------AAAAAUAAUCAAUGUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
-----------------............((.((((((((((((-.......)))))..........(((..((((....))))..)))........))))))))). ( -29.20, z-score =  -2.79, R)
>droEre2.scaffold_4770 10045657 91 + 17746568
---------------UUAAAAAAAUUGAAUGUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
---------------..............((.((((((((((((-.......)))))..........(((..((((....))))..)))........))))))))). ( -29.20, z-score =  -2.70, R)
>droAna3.scaffold_13340 11907605 91 + 23697760
---------------ACAAAAAAAGCUACCAUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
---------------.................((((((((((((-.......)))))..........(((..((((....))))..)))........)))))))... ( -28.10, z-score =  -2.45, R)
>dp4.chr3 4494340 91 + 19779522
---------------GGAAAAAUAUUACGUGUGCGUCGGCCGGG-AAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCCGC
---------------.............(((.((((((((((((-.......)))))..........(((..((((....))))..)))........)))))))))) ( -31.80, z-score =  -2.72, R)
>droPer1.super_4 3766385 91 - 7162766
---------------GGAAAAAUAUGACGUGUGCGUCGGCCGGG-AAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCCGC
---------------.............(((.((((((((((((-.......)))))..........(((..((((....))))..)))........)))))))))) ( -31.80, z-score =  -2.60, R)
>droWil1.scaffold_181096 7897525 89 + 12416693
-------------GAAAAAAAAAACCUCGUUUGCAUCGGCCGGG-AAUCGAACCCGGGCCGCCCGCUUGGCGGGCGAGCAUUCU-ACCUCUGAACCACCGAUGC---
-------------...................((((((((((((-.......)))))(((((((((...))))))).)).....-............)))))))--- ( -37.10, z-score =  -3.16, R)
>droMoj3.scaffold_6540 20815791 99 + 34148556
-------CAGAAAAAGUGCAAAAAAGUACAAUGCGUCGGCCGGG-AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAU
-------........((((......))))...((((((((((((-.......)))))..........(((..((((....))))..)))........)))))))... ( -31.80, z-score =  -2.88, R)
>anoGam1.chr2L 4572244 105 + 48795086
GUAAGAUCGCCCUAUCGAUGUAAUUAUACCCUAAAAUAACUGAGUCUUUCAAACCAGGUAAGAUGGUCUCGUGCCAAGCGUCGUGAAUCACACAAGGAAGAUUUC--
...(((((..(((...(((((..................(((.((.......)))))......((((.....)))).)))))(((.....))).)))..))))).-- ( -18.20, z-score =   0.25, R)
>consensus
_______________UAAAAAAAAUUUAAUGUGCGUCGGCCGGG_AAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCAC
................................((((((((((((........)))))..........(((..((((....))))..)))........)))))))... (-23.06 = -22.95 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:30 2011