Locus 390

Sequence ID 3R_DroMel_CAF1
Location 1,464,973 – 1,465,096
Length 123
Max. P 0.735813
window644 window645

overview

Window 4

Location 1,464,973 – 1,465,079
Length 106
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -26.03
Consensus MFE -22.08
Energy contribution -22.50
Covariance contribution 0.42
Combinations/Pair 1.00
Mean z-score -1.44
Structure conservation index 0.85
SVM decision value -0.05
SVM RNA-class probability 0.506624
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1464973 106 + 27905053
CAGC-------UUGCCCUGCUGCUGCUCUUCUAUCUCUAGA-------GUCUAGACGACAUUCUUUGUUAUCUCCGUGUAAUCAUACACAACGGAUGUACAUACUUAUUAUAUGCGGCUU
.(((-------.......)))(((((...((((....))))-------(((((((..(((.....)))..)))..(((((....)))))...)))).................))))).. ( -22.40)
>DroSec_CAF1 37492 117 + 1
CAGCAUUCAGCUUGCCCUGCUGCUGCUCUUCUAUCUCUAGAGUCUAGAGUCUAGACGACAUUCUUUGUUAUCUCCGUGUAAGCAUACACAGCGGAUGUACAUACAU---AUAUGCGGCUU
.((((..((((.......)))).))))..((((.((((((...))))))..)))).((((.....))))....(((((((....))))).(((.((((....))))---...)))))... ( -28.40)
>DroSim_CAF1 35777 108 + 1
CAGCAU---------CCUGCUGCUGCUCUUCUACCUCUAGAGUCUAGAGUCUAGACGACAUUCUUUGUUAUCUCCGUGUAAGCAUACACAUCGGAUGUACAUACAU---AUAUGCGGCUU
.(((..---------...)))(((((((.((((.((((((...))))))..)))).)).......((((((((..(((((....)))))...))))).))).....---....))))).. ( -27.30)
>consensus
CAGCAU_____UUGCCCUGCUGCUGCUCUUCUAUCUCUAGAGUCUAGAGUCUAGACGACAUUCUUUGUUAUCUCCGUGUAAGCAUACACAACGGAUGUACAUACAU___AUAUGCGGCUU
.((((............))))(((((.........((((((.(....).))))))..........((((((((..(((((....)))))...))))).)))............))))).. (-22.08 = -22.50 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,465,006 – 1,465,096
Length 90
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 89.93
Mean single sequence MFE -22.83
Consensus MFE -19.27
Energy contribution -19.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.84
SVM decision value 0.44
SVM RNA-class probability 0.735813
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1465006 90 - 27905053
AUAAUUAGUACGAGUCUAAGCCGCAUAUAAUAAGUAUGUACAUCCGUUGUGUAUGAUUACACGGAGAUAACAAAGAAUGUCGUCUAGAC-------U
............((((((..(.((((((.....))))))...(((((.(((......))))))))((((........)))))..)))))-------) ( -20.60)
>DroSec_CAF1 37532 94 - 1
AUAAUUAGUACAAGUCUAAGCCGCAUAU---AUGUAUGUACAUCCGCUGUGUAUGCUUACACGGAGAUAACAAAGAAUGUCGUCUAGACUCUAGACU
......(((...((((((..(.((((..---.(((.(((...((((.((((......)))))))).))))))....)))).)..))))))....))) ( -22.20)
>DroSim_CAF1 35808 94 - 1
AUAAUUAGUACGAGUCUAAGCCGCAUAU---AUGUAUGUACAUCCGAUGUGUAUGCUUACACGGAGAUAACAAAGAAUGUCGUCUAGACUCUAGACU
......(((..(((((((..(.((((..---.(((.(((...((((.((((......)))))))).))))))....)))).)..)))))))...))) ( -25.70)
>consensus
AUAAUUAGUACGAGUCUAAGCCGCAUAU___AUGUAUGUACAUCCGAUGUGUAUGCUUACACGGAGAUAACAAAGAAUGUCGUCUAGACUCUAGACU
.............(((((..(.((((((.....))))))...((((.((((......))))))))((((........)))))..)))))........ (-19.27 = -19.27 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:05 2006