Locus 5005

Sequence ID 2R_DroMel_CAF1
Location 16,304,090 – 16,304,188
Length 98
Max. P 0.965799
window8012

overview

Window 2

Location 16,304,090 – 16,304,188
Length 98
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 76.25
Mean single sequence MFE -20.91
Consensus MFE -8.74
Energy contribution -8.38
Covariance contribution -0.36
Combinations/Pair 1.31
Mean z-score -2.71
Structure conservation index 0.42
SVM decision value 1.59
SVM RNA-class probability 0.965799
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16304090 98 - 20766785
--------CCUUUAAUUUUGACACACCCC--------CCACCCAAUCGCCA-G--GAUAUUCAACUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC-GGCCACAUU
--------.....................--------..........(((.-(--((((....(((((........)))))...)))))((((...........))))-)))...... ( -19.50)
>DroSec_CAF1 7558 96 - 1
--------CCUUUAAUUUUGCCA--CCCC--------UCAUCCCAUCGCCA-G--GAUAUUCAACUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC-GGCCACAUU
--------...............--....--------..........(((.-(--((((....(((((........)))))...)))))((((...........))))-)))...... ( -19.50)
>DroSim_CAF1 6881 91 - 1
--------CCUUUAAUUUUGCCA--CCCC-------------CCAUCGCCA-G--GAUAUUCAACUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC-GGCCACAUU
--------...............--....-------------.....(((.-(--((((....(((((........)))))...)))))((((...........))))-)))...... ( -19.50)
>DroEre_CAF1 6402 96 - 1
UGAACGGCCCUUUAAUUU------------------GCCACCCCAUCGGCA-G--GAUAUUCAGCUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC-GGCCACAUU
.....((((........(------------------(((........))))-(--((((....(((((........)))))...)))))((((...........))))-))))..... ( -27.90)
>DroYak_CAF1 7076 112 - 1
UGAACGGCCCUUUAAUUUUGGUA--CCUCCCCGCCCGCCCCGCAAACGCCA-G--GAUAUUCAACUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC-GGCCACAUU
.....((((....((((..(((.--.(((...((.......))........-(--((((....(((((........)))))...))))))))...)))..))))....-))))..... ( -26.60)
>DroAna_CAF1 7770 92 - 1
--------CCUUUAAAUUUGGC-----------------CUUCCAUUGUUGAGGCAAUAUCCCGCUGAUAUUUAAUUCUCUGUUUAUUCUAGAUG-CUUUGAUUUCUCCAGUCACAUU
--------..........((((-----------------........((..((((((((((.....))))).......((((.......))))))-)))..)).......)))).... ( -12.46)
>consensus
________CCUUUAAUUUUGCCA__CCCC________CCACCCCAUCGCCA_G__GAUAUUCAACUGAUACUUAAUUCAGUAUUUAUCCGAGAUGACUUUGAUUUCUC_GGCCACAUU
...............................................(((.....((((....(((((........)))))...)))).((((...........)))).)))...... ( -8.74 =  -8.38 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:16 2006