Locus 819

Sequence ID 2R_DroMel_CAF1
Location 3,864,917 – 3,865,040
Length 123
Max. P 0.937468
window1431 window1432

overview

Window 1

Location 3,864,917 – 3,865,013
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 95.31
Mean single sequence MFE -31.93
Consensus MFE -29.73
Energy contribution -29.60
Covariance contribution -0.13
Combinations/Pair 1.13
Mean z-score -2.06
Structure conservation index 0.93
SVM decision value 1.26
SVM RNA-class probability 0.937468
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3864917 96 + 20766785
CUGUUGGUUUUGGCAUUUAUUUUGCGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUCCCCGAGAGAGGAGCGAGUCUCGCUUUUCGA
......((((((((..........(((.......)))))))))))..(((((((((.((((.(((((.(....).))))).))))..))))))))) ( -36.60)
>DroSec_CAF1 120678 96 + 1
CUGUUGGUUUUGGCAUUUAUUUUGCGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUUCCCGAGAGAGGAGCGAGUCGCGCUUUUCGA
......((((((((..........(((.......)))))))))))..((((((((((((((.(((((.(....).))))).))))).))))))))) ( -34.30)
>DroEre_CAF1 121839 96 + 1
CUGUUGGUUUUGGCAUUUAUUUUGCGCUUCUUUUGCGGCCGAAAAGCUCGAAAAGUUGGCUAGGUUCCCGAGAGAGGAGCGAGUCUCGCUUUUUGA
..((...(((((((..........(((.......)))))))))).))(((((((((.((((..((((((....).))))).))))..))))))))) ( -29.80)
>DroYak_CAF1 118948 96 + 1
CUGUUGGUUUUGGCAUUUAUUUUGCGCUUCUUUUGUGGCCAAAAUGCUCGAAAAGUUGGCUAGGUCCCCGAGAGAGGAACGAGUCUCGCUUUUUGA
......((((((((..........(((.......)))))))))))..(((((((((.((((...(((.(....).)))...))))..))))))))) ( -27.00)
>consensus
CUGUUGGUUUUGGCAUUUAUUUUGCGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUCCCCGAGAGAGGAGCGAGUCUCGCUUUUCGA
......((((((((..........(((.......)))))))))))..(((((((((.((((.(((((.(....).))))).))))..))))))))) (-29.73 = -29.60 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,864,941 – 3,865,040
Length 99
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 94.28
Mean single sequence MFE -36.50
Consensus MFE -33.89
Energy contribution -33.32
Covariance contribution -0.56
Combinations/Pair 1.16
Mean z-score -1.75
Structure conservation index 0.93
SVM decision value 0.84
SVM RNA-class probability 0.864902
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3864941 99 + 20766785
CGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUCCCCGAGAGAGGAGCGAGUCUCGCUUUUCGACUGUCGGAUUGGCCGGAUCGUUUCGCA
.((........(((((((..((((((((((((.((((.(((((.(....).))))).))))..)))))))))..).))..)))))))((.....)))). ( -41.50)
>DroSec_CAF1 120702 99 + 1
CGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUUCCCGAGAGAGGAGCGAGUCGCGCUUUUCGACUGUCGGAUUGGCCGGAUCGUUUCGCA
.((........(((((((..(((((((((((((((((.(((((.(....).))))).))))).)))))))))..).))..)))))))((.....)))). ( -39.20)
>DroEre_CAF1 121863 99 + 1
CGCUUCUUUUGCGGCCGAAAAGCUCGAAAAGUUGGCUAGGUUCCCGAGAGAGGAGCGAGUCUCGCUUUUUGACUGUCGAAUUGGCCGGAUCGUUUCGCA
.((........(((((((..((.(((((((((.((((..((((((....).))))).))))..)))))))))))......)))))))((.....)))). ( -35.70)
>DroYak_CAF1 118972 99 + 1
CGCUUCUUUUGUGGCCAAAAUGCUCGAAAAGUUGGCUAGGUCCCCGAGAGAGGAACGAGUCUCGCUUUUUGACUGUCGAAUUGGUCGGAUCGUUUCGCA
.((.(((((((.((((.....((.(((....)))))..)).)).)))))))(((((((.(((.(((.((((.....))))..))).)))))))))))). ( -29.60)
>consensus
CGCUUCUUUUGCGGCCAAAAUGCUCGAAAAGUUGGCUAGCUCCCCGAGAGAGGAGCGAGUCUCGCUUUUCGACUGUCGAAUUGGCCGGAUCGUUUCGCA
.((........(((((((...(((((((((((.((((.(((((.(....).))))).))))..)))))))))..))....)))))))((.....)))). (-33.89 = -33.32 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:11 2006