Locus 9839

Sequence ID 3R_DroMel_CAF1
Location 26,185,677 – 26,185,779
Length 102
Max. P 0.587804
window15710

overview

Window 0

Location 26,185,677 – 26,185,779
Length 102
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 81.21
Mean single sequence MFE -32.48
Consensus MFE -24.89
Energy contribution -24.83
Covariance contribution -0.05
Combinations/Pair 1.16
Mean z-score -1.26
Structure conservation index 0.77
SVM decision value 0.11
SVM RNA-class probability 0.587804
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26185677 102 + 27905053
CCUCCUU-------ACAUUUCCAGGUUAAAUACGAGGGACGCACUCUCUACUUGACCUGUGUUUGCAUGAGCUGCCUGGACGGAACCUCCAGCAGCCGGGCCAUCAACU
.......-------.......((((((((.((.(((((.....))))))).))))))))((...((.((.(((((.((((.(....)))))))))))).))...))... ( -32.50)
>DroVir_CAF1 232518 105 + 1
--CUUUCAU--ACCCUCCUUCCAGGUCAAAUACGAGGGACGCAUGCUCUACUUGACCUGUGUGUGCAUGAGCUGCCUGGAUGGCACCUCCAGCAGUCGUGUCAUCAGCU
--.......--..........((((((((.((.(((.(.....).))))).)))))))).(((.((((((.((((.((((.(....))))))))))))))))))..... ( -32.10)
>DroPse_CAF1 180232 97 + 1
CC------------UCCCUUGCAGGUCAAAUACGAGGGACGCACGCUCUACUUGACCUCUGUGUGCAUGAGCUGCCUGGACGGAACCUCCAGCAGUCGCCUCAUCAGCU
..------------(((((((...........))))))).((((((..............))))))(((((((((.((((.(....)))))))))....)))))..... ( -30.44)
>DroGri_CAF1 217111 106 + 1
CCACCUUUC--UCU-GCCUUGCAGGUUAAGCACGAGGGACGCAUGCUUUACUUGACCUGUGUGUGCAUGAGCUGCCUGGAUGGCACCUCCAGCAGUCGUGUCAUCAGCU
.........--...-((...((((((((((...((((........)))).))))))))))(((.((((((.((((.((((.(....))))))))))))))))))..)). ( -33.80)
>DroMoj_CAF1 241136 105 + 1
--UUCUUGU--UCUCCCAUUCCAGGUCAAAUACGAGGGACGCAUGCUCUAUUUGACCUGCGUAUGCAUGAGCUGCCUGGAUGGCACCUCCAGCUGUCGUGUCAUCAGCU
--.....((--((...(((.((((((((((((.(((.(.....).)))))))))))))).).)))...)))).((...((((((((..(.....)..)))))))).)). ( -35.60)
>DroPer_CAF1 182148 106 + 1
CCUCUCUCCCC---UCCCUUGCAGGUCAAAUACGAGGGACGCACGCUCUACUUGACCUCUGUGUGCAUGAGCUGCCUGGACGGAACCUCCAGCAGUCGCCUCAUCAGCU
...........---(((((((...........))))))).((((((..............))))))(((((((((.((((.(....)))))))))....)))))..... ( -30.44)
>consensus
CCUCCUU_______CCCCUUCCAGGUCAAAUACGAGGGACGCACGCUCUACUUGACCUGUGUGUGCAUGAGCUGCCUGGACGGAACCUCCAGCAGUCGUGUCAUCAGCU
.....................((((((((.((.(((.(.....).))))).)))))))).((.((.(((((((((.((((.(....))))))))))....)))))))). (-24.89 = -24.83 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:18 2006