Locus 5337

Sequence ID 3R_DroMel_CAF1
Location 14,000,268 – 14,000,360
Length 92
Max. P 0.978001
window8700 window8701

overview

Window 0

Location 14,000,268 – 14,000,360
Length 92
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 93.05
Mean single sequence MFE -40.15
Consensus MFE -34.20
Energy contribution -34.33
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.85
SVM decision value 0.22
SVM RNA-class probability 0.641234
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14000268 92 + 27905053
UGAGCGCGGCCGCGGCCAUAAAGAACAUACUGAAUGCCACCAAGAGUGUGGGUACUAGUGCUGCGGCGGCG---GCAGCAGCGGCGGCCACCUCC
.(((.(.((((((.((............((((....(((((....).))))....))))(((((.......---))))).)).)))))).)))). ( -36.30)
>DroEre_CAF1 262962 92 + 1
UGAGCGCGGCCGCGGCCAUAAAGAACAUACUGAAUGCCACCAAGAGUGUGGGUACCAGUGCUGCGGCGGCG---GCAGCAGCGGCGGCCACCUCC
.(((.(.((((((.((............((((....(((((....).))))....))))(((((.......---))))).)).)))))).)))). ( -38.10)
>DroYak_CAF1 287122 92 + 1
UGAGCGCGGCCGCGGCCAUAAAGAACAUACUGAAUGCCACCAAGAGUGUGGGUACCAGUGCUGCGGCGGCG---GCAGCAGCGGCGGCCACCUCC
.(((.(.((((((.((............((((....(((((....).))))....))))(((((.......---))))).)).)))))).)))). ( -38.10)
>DroAna_CAF1 261214 95 + 1
UGAGCGCGGCCGCGGCCAUUAAGAACAUACUGAAUGCCACCAAAAGUGUGGGCAACAGUGCUGCAGCGGCUGCUGCAGCAGCGGCGGCGGCCACC
.......((((((.(((...........((((..((((..((....))..)))).))))((((((((....))))))))...))).))))))... ( -48.10)
>consensus
UGAGCGCGGCCGCGGCCAUAAAGAACAUACUGAAUGCCACCAAGAGUGUGGGUACCAGUGCUGCGGCGGCG___GCAGCAGCGGCGGCCACCUCC
.(((.(.((((((.((............((((..((((..((....))..)))).))))(((((..........))))).)).)))))).)))). (-34.20 = -34.33 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,000,268 – 14,000,360
Length 92
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 93.05
Mean single sequence MFE -44.50
Consensus MFE -38.64
Energy contribution -39.45
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -2.70
Structure conservation index 0.87
SVM decision value 1.80
SVM RNA-class probability 0.978001
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14000268 92 - 27905053
GGAGGUGGCCGCCGCUGCUGC---CGCCGCCGCAGCACUAGUACCCACACUCUUGGUGGCAUUCAGUAUGUUCUUUAUGGCCGCGGCCGCGCUCA
.(((((((((((.((((((((---.......)))))(((.....((((.(....))))).....)))...........))).)))))))).))). ( -39.10)
>DroEre_CAF1 262962 92 - 1
GGAGGUGGCCGCCGCUGCUGC---CGCCGCCGCAGCACUGGUACCCACACUCUUGGUGGCAUUCAGUAUGUUCUUUAUGGCCGCGGCCGCGCUCA
.(((((((((((.((((((((---.......)))))(((((...((((.(....)))))...)))))...........))).)))))))).))). ( -43.90)
>DroYak_CAF1 287122 92 - 1
GGAGGUGGCCGCCGCUGCUGC---CGCCGCCGCAGCACUGGUACCCACACUCUUGGUGGCAUUCAGUAUGUUCUUUAUGGCCGCGGCCGCGCUCA
.(((((((((((.((((((((---.......)))))(((((...((((.(....)))))...)))))...........))).)))))))).))). ( -43.90)
>DroAna_CAF1 261214 95 - 1
GGUGGCCGCCGCCGCUGCUGCAGCAGCCGCUGCAGCACUGUUGCCCACACUUUUGGUGGCAUUCAGUAUGUUCUUAAUGGCCGCGGCCGCGCUCA
.((((((((.((((..((((((((....))))))))((((.((((.((.(....)))))))..))))..........)))).))))))))..... ( -51.10)
>consensus
GGAGGUGGCCGCCGCUGCUGC___CGCCGCCGCAGCACUGGUACCCACACUCUUGGUGGCAUUCAGUAUGUUCUUUAUGGCCGCGGCCGCGCUCA
.(((((((((((.((((((((..........)))))(((((...((((.(....)))))...)))))...........))).)))))))).))). (-38.64 = -39.45 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:18 2006