Locus 8422

Sequence ID 3L_DroMel_CAF1
Location 22,128,886 – 22,129,006
Length 120
Max. P 0.900290
window13774 window13775

overview

Window 4

Location 22,128,886 – 22,129,006
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.98
Mean single sequence MFE -29.77
Consensus MFE -25.82
Energy contribution -25.68
Covariance contribution -0.14
Combinations/Pair 1.12
Mean z-score -1.92
Structure conservation index 0.87
SVM decision value 1.01
SVM RNA-class probability 0.900290
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22128886 120 + 23771897
UUUGGACCGGGGUUUCACCGCCCUCAUAGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
...(((..(((((......)))))...((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...)))))).))).... ( -31.30)
>DroSec_CAF1 114695 120 + 1
UUUGGACCGGGGUUUCGCCGCCCUCAUGGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
...(((..(((((......)))))...((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...)))))).))).... ( -31.30)
>DroSim_CAF1 122794 120 + 1
UUUGGACCGGGGUUUCGCCGCCCUCAUGGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
...(((..(((((......)))))...((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...)))))).))).... ( -31.30)
>DroEre_CAF1 113588 115 + 1
-----GUUAGGGUUUCGCCGCCCUCAUAGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
-----((.(((((......))))).))((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...))))))........ ( -28.40)
>DroYak_CAF1 162317 120 + 1
UUGAAACUGGAGUUUCGCCGCCCUCAUAGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
..(((((....)))))...((......((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...))))))....)).. ( -28.20)
>DroAna_CAF1 132051 114 + 1
------UCGGAUUUUUCCAGCCCUCGUAGCAAUUGUGCCGGGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUUCGCAG
------..(((.(((((.(((((..(((.(....)))).)))))...))))).)))((((((((.((..(((........)))..)).))))))))............(((.....))). ( -28.10)
>consensus
UUUGGACCGGGGUUUCGCCGCCCUCAUAGCAAUUGUACUGAGCUUUUGAAGGCUCCUUGAAAACCUAUUGGAGCUAUAAAUCCUUUGUGUUUUCAAUUUUUAUUUUAUUGCUCUCCGCAG
........(((((......)))))...((((((.(((..((((((....)))))).((((((((.((..(((........)))..)).))))))))....)))...))))))........ (-25.82 = -25.68 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 5

Location 22,128,886 – 22,129,006
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.98
Mean single sequence MFE -28.83
Consensus MFE -23.22
Energy contribution -23.47
Covariance contribution 0.25
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.81
SVM decision value 0.13
SVM RNA-class probability 0.597431
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22128886 120 - 23771897
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCUAUGAGGGCGGUGAAACCCCGGUCCAAA
....(((.((((((..........((((((((.....(((........))).....)))))))).((((........))))......))))))....(((.(......))))..)))... ( -29.60)
>DroSec_CAF1 114695 120 - 1
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCCAUGAGGGCGGCGAAACCCCGGUCCAAA
....((((.(((((..........((((((((.....(((........))).....)))))))).((((........))))......))))))....(((.(......))))..)))... ( -28.30)
>DroSim_CAF1 122794 120 - 1
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCCAUGAGGGCGGCGAAACCCCGGUCCAAA
....((((.(((((..........((((((((.....(((........))).....)))))))).((((........))))......))))))....(((.(......))))..)))... ( -28.30)
>DroEre_CAF1 113588 115 - 1
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCUAUGAGGGCGGCGAAACCCUAAC-----
....((...((.............((((((((.....(((........))).....))))))))...(((((((..(((...........))).))))))).))....)).....----- ( -26.00)
>DroYak_CAF1 162317 120 - 1
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCUAUGAGGGCGGCGAAACUCCAGUUUCAA
....((((.((.............((((((((.....(((........))).....))))))))...(((((((..(((...........))).))))))).))....))))........ ( -30.80)
>DroAna_CAF1 132051 114 - 1
CUGCGAAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCCCGGCACAAUUGCUACGAGGGCUGGAAAAAUCCGA------
.(((.....)))............((((((((.....(((........))).....))))))))(((...(((...(((((((((....))))....))))).)))...)))..------ ( -30.00)
>consensus
CUGCGGAGAGCAAUAAAAUAAAAAUUGAAAACACAAAGGAUUUAUAGCUCCAAUAGGUUUUCAAGGAGCCUUCAAAAGCUCAGUACAAUUGCUAUGAGGGCGGCGAAACCCCGGUCCAAA
.(((.....)))............((((((((.....(((........))).....))))))))((.(((((((...((...........))..)))))))((.....))))........ (-23.22 = -23.47 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:59 2006