Locus 1463

Sequence ID 2R_DroMel_CAF1
Location 5,590,004 – 5,590,121
Length 117
Max. P 0.712615
window2494

overview

Window 4

Location 5,590,004 – 5,590,121
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.47
Mean single sequence MFE -42.53
Consensus MFE -29.56
Energy contribution -30.50
Covariance contribution 0.94
Combinations/Pair 1.10
Mean z-score -2.03
Structure conservation index 0.70
SVM decision value 0.38
SVM RNA-class probability 0.712615
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5590004 117 + 20766785
ACAAAGUAAACAGCGCAGGCGCCCUUAAGUAUGCCGCGCAUCCUCGCCACGUGAGCGAGGGAGACGGUGCCAAU-CCGUUGUCCCUCUUG--CUCGCCUGCCUGCUCGAACGUGAGAAAU
............((((.((((..(....)..))))))))...(((((....((((((((((((((((.......-))))).))))))..(--(......))..)))))...))))).... ( -44.60)
>DroSec_CAF1 10819 117 + 1
ACAAAGUAAACAGCGCAGGCGCCCUUAAGUAUACCGCGCAUCCUCGCCACGUGAGCGAGGGAGAUGGUGCCAAC-ACAUUGUACCUCUUG--CUCGCCUGCCUGCUCGAACGUGAGAAAU
..........(((.((((((...............(((......))).....(((((((((..(..(((.....-.)))..)..))))))--))))))))))))((((....)))).... ( -39.10)
>DroSim_CAF1 8240 117 + 1
ACAAAGUAAACAGCGCAGGCGCCCUUAAGUAUACCGCGCAUCCUCGCCACGUGAGCGAGGGAGAUGGUGCCAAC-ACAUUGUACCUCUUG--CUCGCUUGCCUGCUCGAACGUGAGAAAU
............(.((((((...............(((......)))...(((((((((((..(..(((.....-.)))..)..))))))--)))))..)))))).)...(....).... ( -39.10)
>DroEre_CAF1 8557 120 + 1
ACAAAGUAAACAGCGCAGGCGCCCUUAAGUAUACCGCUCAUCCUCGCCACGCGUGCGAGGAAGACGGGGCCAACUUCGUUGUCCCUCUCCCUCUCGCACGCGUACCCGUUGCUGAGAAAU
..........((((((.((((......(((.....)))......))))((((((((((((..((.((((.((((...)))).)))).))..))))))))))))....).)))))...... ( -47.30)
>consensus
ACAAAGUAAACAGCGCAGGCGCCCUUAAGUAUACCGCGCAUCCUCGCCACGUGAGCGAGGGAGACGGUGCCAAC_ACAUUGUACCUCUUG__CUCGCCUGCCUGCUCGAACGUGAGAAAU
..........(((.(((((((...................((((((((....).)))))))(((.(((((..........))))))))......))))))))))((((....)))).... (-29.56 = -30.50 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:27 2006