Locus 8281

Sequence ID dm3.chr3L
Location 21,646,060 – 21,646,154
Length 94
Max. P 0.973932
window11380 window11381

overview

Window 0

Location 21,646,060 – 21,646,152
Length 92
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 67.68
Shannon entropy 0.58003
G+C content 0.46628
Mean single sequence MFE -28.60
Consensus MFE -11.80
Energy contribution -12.44
Covariance contribution 0.64
Combinations/Pair 1.44
Mean z-score -1.91
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.912078
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21646060 92 + 24543557
AGUUACGUGGAUUUGACAGCGUG-CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCUAGUGAACCGACUAU-------GCCGAUAGGUGGCGUUAUUUCC
........(((..((((.(....-)((((((((((.((((((((((..(((...))))))).))).....)-------)).))))))))))))))..))) ( -31.20, z-score =  -1.58, R)
>droAna3.scaffold_13337 3970899 99 + 23293914
AAUUGUAUUCCUUUAAAGACCUGAGGUCAUCUAGUUAUUACAUACUUUAAUUUAAUGAAGAUGCCUAUUAGAAUGCCAUUCAAAAAGUGAAAGUCUUCC-
...............(((((....(((..((((((.....(((.(((((......))))))))...))))))..))).((((.....)))).)))))..- ( -15.70, z-score =  -0.81, R)
>droEre2.scaffold_4784 21302628 88 + 25762168
AGCUGCAUGGAUUUGACAGCG-----CCAUCUGUCUGUAGGUUACUCAAGCAGUGCUGGUGAACCGGCUAU-------GCCGAUAGAUGGCACUAUUUCA
.((((((......)).))))(-----(((((((((((.((....)))).(((..(((((....)))))..)-------)).))))))))))......... ( -37.70, z-score =  -3.70, R)
>droYak2.chr3L 5331090 91 - 24197627
AGAUACAUUUAUUUAACAGCGUG-CGCCACCUGGCCGUAGGUUACACAAGCAGAGCUGGUGUACCGGCUU--------UCCAAUAGGUGGCAUUAUUUCA
.......................-.(((((((((((...))).......(.((((((((....)))))))--------).)..))))))))......... ( -26.80, z-score =  -1.28, R)
>droSec1.super_11 1565982 89 + 2888827
AGUUACAUGGAUUUGACAGCA---CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCCUGUGAACCGACUA--------GCCGAUAGGUGGCGUUAUUUCC
........(((..((.....(---(((((((((((.((((((.((((...)))))))))).....(....--------..)))))))))))))))..))) ( -30.10, z-score =  -2.05, R)
>droSim1.chr3L 20988750 89 + 22553184
AGUUACAUGGAUUUGACAGCA---CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCCUGUGAACCGACUA--------GCCGAUAGGUGGCGUUAUUUCC
........(((..((.....(---(((((((((((.((((((.((((...)))))))))).....(....--------..)))))))))))))))..))) ( -30.10, z-score =  -2.05, R)
>consensus
AGUUACAUGGAUUUGACAGCG___CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCUAGUGAACCGACUA________GCCGAUAGGUGGCAUUAUUUCC
.........................((((((((((.((.((((......((...)).....)))).............)).))))))))))......... (-11.80 = -12.44 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 21,646,062 – 21,646,154
Length 92
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 67.33
Shannon entropy 0.58653
G+C content 0.45804
Mean single sequence MFE -29.20
Consensus MFE -11.80
Energy contribution -12.44
Covariance contribution 0.64
Combinations/Pair 1.44
Mean z-score -2.29
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.90
SVM RNA-class probability 0.973932
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21646062 92 + 24543557
UUACGUGGAUUUGACAGCGUG-CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCUAGUGAACCGACUAU-------GCCGAUAGGUGGCGUUAUUUCCAA
.....((((..((((.(....-)((((((((((.((((((((((..(((...))))))).))).....)-------)).))))))))))))))..)))). ( -33.80, z-score =  -2.50, R)
>droAna3.scaffold_13337 3970901 97 + 23293914
UUGUAUUCCUUUAAAGACCUGAGGUCAUCUAGUUAUUACAUACUUUAAUUUAAUGAAGAUGCCUAUUAGAAUGCCAUUCAAAAAGUGAAAGUCUUCC---
.............(((((....(((..((((((.....(((.(((((......))))))))...))))))..))).((((.....)))).)))))..--- ( -15.70, z-score =  -0.85, R)
>droEre2.scaffold_4784 21302630 88 + 25762168
CUGCAUGGAUUUGACAGCG-----CCAUCUGUCUGUAGGUUACUCAAGCAGUGCUGGUGAACCGGCUAU-------GCCGAUAGAUGGCACUAUUUCAAA
.........(((((.((.(-----(((((((((((.((....)))).(((..(((((....)))))..)-------)).)))))))))).))...))))) ( -33.30, z-score =  -2.91, R)
>droYak2.chr3L 5331092 91 - 24197627
AUACAUUUAUUUAACAGCGUG-CGCCACCUGGCCGUAGGUUACACAAGCAGAGCUGGUGUACCGGCUU--------UCCAAUAGGUGGCAUUAUUUCAAA
.....................-.(((((((((((...))).......(.((((((((....)))))))--------).)..))))))))........... ( -26.80, z-score =  -1.38, R)
>droSec1.super_11 1565984 89 + 2888827
UUACAUGGAUUUGACAGCA---CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCCUGUGAACCGACUA--------GCCGAUAGGUGGCGUUAUUUCCAA
.....((((..((.....(---(((((((((((.((((((.((((...)))))))))).....(....--------..)))))))))))))))..)))). ( -32.80, z-score =  -3.06, R)
>droSim1.chr3L 20988752 89 + 22553184
UUACAUGGAUUUGACAGCA---CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCCUGUGAACCGACUA--------GCCGAUAGGUGGCGUUAUUUCCAA
.....((((..((.....(---(((((((((((.((((((.((((...)))))))))).....(....--------..)))))))))))))))..)))). ( -32.80, z-score =  -3.06, R)
>consensus
UUACAUGGAUUUGACAGCG___CGCCAUCUGUCUGCAGGUUACUGAAGCAGUGCUAGUGAACCGACUA________GCCGAUAGGUGGCAUUAUUUCCAA
.......................((((((((((.((.((((......((...)).....)))).............)).))))))))))........... (-11.80 = -12.44 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:42:44 2011