Locus 8454

Sequence ID 3R_DroMel_CAF1
Location 22,549,703 – 22,549,795
Length 92
Max. P 0.816448
window13604

overview

Window 4

Location 22,549,703 – 22,549,795
Length 92
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 80.03
Mean single sequence MFE -31.00
Consensus MFE -18.07
Energy contribution -17.88
Covariance contribution -0.19
Combinations/Pair 1.35
Mean z-score -2.17
Structure conservation index 0.58
SVM decision value 0.67
SVM RNA-class probability 0.816448
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22549703 92 - 27905053
-AGAGAUAGAAUAGAGGCUGCCGGCAAUUGCAUUCCAGGC-------GGAUUGCACCAGC---CAAUUGGCGAGGGCCUAAAAUACCUUGCC--AUUUGCAUGCA
-...............(((((.(((...((((.(((....-------))).))))...))---)...((((((((..........)))))))--)...))).)). ( -32.20)
>DroPse_CAF1 5865 98 - 1
GAGAGCUGCUAGAUAA---GCACGCAAUUGUAUUCUAGGCAGGCAGCAGAUUGCACCAGAUUGCAAUUGGCAAA---CCAAA-UGGUUUCGCGGAUACCCAUGCA
....((((((.....)---)))..((((((((.(((.((...((((....)))).))))).))))))))(((((---((...-.))))).))((....))..)). ( -27.80)
>DroSec_CAF1 5700 92 - 1
-AGAGAUAGAAUAGAGGCUGCCGGCAAUUGCAUUCCAGGC-------GGAUUGCACCAGC---CAAUUGGCGGGGGCCUAAAAUACCUUGCC--AUUUGCAUGCA
-...............(((((.(((...((((.(((....-------))).))))...))---)...((((((((..........)))))))--)...))).)). ( -31.40)
>DroSim_CAF1 5703 92 - 1
-AGAGAUAGAAUAGAGGCUGCCGGCAAUUGCAUUCCAGGC-------GGAUUGCACCAGC---CAAUUGGCGGGGGCCUAAAAUACCUUGCC--AUUUGCAUGCA
-...............(((((.(((...((((.(((....-------))).))))...))---)...((((((((..........)))))))--)...))).)). ( -31.40)
>DroEre_CAF1 5796 86 - 1
-AGAGAU-----AGAGGCUGCCGGCGAUUGCAUUCCAGGC-------GGAUUGCACCAGC---CAAUUGGCUGGGG-CUAAAAUACCUAGCC--AUUUGCAUGCA
-......-----....(((((.(((...((((.(((....-------))).))))...))---)...((((((((.-........)))))))--)...))).)). ( -33.80)
>DroYak_CAF1 5805 86 - 1
-AGAGAU-----AGAGGCUGCCGGCAAUUGCAUUCAAAGC-------GGAUUGCACCAGC---CAAUUGGCGGGGG-CUAAAAUACCUUGCC--AUUUGCAUGCA
-......-----...(((((...((((((((.......))-------.))))))..))))---)...((((((((.-........)))))))--).......... ( -29.40)
>consensus
_AGAGAUAGAAUAGAGGCUGCCGGCAAUUGCAUUCCAGGC_______GGAUUGCACCAGC___CAAUUGGCGGGGG_CUAAAAUACCUUGCC__AUUUGCAUGCA
...................((..((((.((((.(((...........))).)))).............(((((((..........)))))))....))))..)). (-18.07 = -17.88 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:45 2006