Locus 7869

Sequence ID X_DroMel_CAF1
Location 19,600,909 – 19,601,021
Length 112
Max. P 0.564934
window12910 window12911

overview

Window 0

Location 19,600,909 – 19,601,021
Length 112
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 76.96
Mean single sequence MFE -21.23
Consensus MFE -10.41
Energy contribution -14.29
Covariance contribution 3.88
Combinations/Pair 1.04
Mean z-score -2.13
Structure conservation index 0.49
SVM decision value -0.05
SVM RNA-class probability 0.510144
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19600909 112 + 22224390
CAAAUACCAAUGCACGCACA--CACAACAUACACGAAAUAUCAUUGUAUACAAUGGACAAUGAUUUCGAUAUUUUUA--AACCAUUAUCUGUGUGCUUUUUUUGUUUUUUGGUG-GA
....((((((.(((.(((((--((..........(((..((((((((.........)))))))))))((((......--......)))))))))))......)))...))))))-.. ( -24.50)
>DroSec_CAF1 7246 113 + 1
CAAAUACCAAUGCACGCACACACACAACAUAUACCCAAAAUCAUUGUUUGCAAUCGACAAUGAUUUCGAUAUUUUUA--AACCAUUAUCUGUGUGCUUUUCCUAUU-UUUGGUG-GA
....((((((.(((((((...................(((((((((((.......))))))))))).((((......--......)))))))))))..........-.))))))-.. ( -24.10)
>DroSim_CAF1 7173 113 + 1
CAAAUACCAAUGCACGCACACACACAACAUAUACGAAAAAUCAUUGUUUGCAGUCGACAAUGAUUUCGAUAUUUUUA--AACCAUUAUCUGUGUGCUUUUCCUAUU-UUUGGUG-GA
....((((((.(((((((...................(((((((((((.......))))))))))).((((......--......)))))))))))..........-.))))))-.. ( -24.10)
>DroAna_CAF1 8983 105 + 1
CAAAUACACAUGCACGCACACUCAG-ACAUACACAAUACACAAUUAAUUA-AUUG------GAUUAAAACAUUUUCAUUAAAUAUUC-UUGUGUGAUAUUCG--AU-UUUGGUGCCA
...........((((.((.(.((..-(..(((((((....(((((....)-))))------((...........))...........-)))))))...)..)--).-).)))))).. ( -12.20)
>consensus
CAAAUACCAAUGCACGCACACACACAACAUACACGAAAAAUCAUUGUUUACAAUCGACAAUGAUUUCGAUAUUUUUA__AACCAUUAUCUGUGUGCUUUUCCUAUU_UUUGGUG_GA
....((((((.(((((((...................(((((((((((.......))))))))))).((((..............)))))))))))............))))))... (-10.41 = -14.29 +   3.88)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,600,909 – 19,601,021
Length 112
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 76.96
Mean single sequence MFE -26.93
Consensus MFE -12.88
Energy contribution -15.38
Covariance contribution 2.50
Combinations/Pair 1.17
Mean z-score -2.24
Structure conservation index 0.48
SVM decision value 0.06
SVM RNA-class probability 0.564934
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19600909 112 - 22224390
UC-CACCAAAAAACAAAAAAAGCACACAGAUAAUGGUU--UAAAAAUAUCGAAAUCAUUGUCCAUUGUAUACAAUGAUAUUUCGUGUAUGUUGUG--UGUGCGUGCAUUGGUAUUUG
..-.(((((...((.......(((((((((((((((((--(..........))))))))))).....((((((.(((....)))))))))...))--)))))))...)))))..... ( -27.91)
>DroSec_CAF1 7246 113 - 1
UC-CACCAAA-AAUAGGAAAAGCACACAGAUAAUGGUU--UAAAAAUAUCGAAAUCAUUGUCGAUUGCAAACAAUGAUUUUGGGUAUAUGUUGUGUGUGUGCGUGCAUUGGUAUUUG
..-.(((((.-.....(....(((((((.((((((...--((......(((((((((((((.........))))))))))))).))..)))))).)))))))...).)))))..... ( -30.30)
>DroSim_CAF1 7173 113 - 1
UC-CACCAAA-AAUAGGAAAAGCACACAGAUAAUGGUU--UAAAAAUAUCGAAAUCAUUGUCGACUGCAAACAAUGAUUUUUCGUAUAUGUUGUGUGUGUGCGUGCAUUGGUAUUUG
..-.(((((.-.....(....(((((((.((((((((.--.......)))(((((((((((.........)))))))))))........))))).)))))))...).)))))..... ( -27.70)
>DroAna_CAF1 8983 105 - 1
UGGCACCAAA-AU--CGAAUAUCACACAA-GAAUAUUUAAUGAAAAUGUUUUAAUC------CAAU-UAAUUAAUUGUGUAUUGUGUAUGU-CUGAGUGUGCGUGCAUGUGUAUUUG
..((((((..-.(--((.((((.((((((-((((((((.....))))))))).(..------((((-(....)))))..)..)))))))))-.)))...)).))))........... ( -21.80)
>consensus
UC_CACCAAA_AAUAGGAAAAGCACACAGAUAAUGGUU__UAAAAAUAUCGAAAUCAUUGUCCAUUGCAAACAAUGAUUUUUCGUAUAUGUUGUGUGUGUGCGUGCAUUGGUAUUUG
.....................(((((((.((((((((..........)))(((((((((((.........)))))))))))........))))).)))))))((((....))))... (-12.88 = -15.38 +   2.50)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:35 2006