Locus 6433

Sequence ID 2L_DroMel_CAF1
Location 18,082,453 – 18,082,613
Length 160
Max. P 0.595383
window10267 window10268

overview

Window 7

Location 18,082,453 – 18,082,573
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 99.58
Mean single sequence MFE -29.74
Consensus MFE -29.93
Energy contribution -29.74
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 1.01
SVM decision value 0.12
SVM RNA-class probability 0.595383
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18082453 120 - 22407834
CAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACGAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUGGUGCAUAUAAAUUAGUCGCUUAUAAUAUUCUUUUGGCAUU
((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))((((.....))))...........(((..............)))... ( -30.04)
>DroSec_CAF1 289798 120 - 1
CAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUGGUGCAUAUAAAUUAGUCGCUUAUAAUAUUCUUUUGGCAUU
((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))((((.....))))...........(((..............)))... ( -29.64)
>DroSim_CAF1 291788 120 - 1
CAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUGGUGCAUAUAAAUUAGUCGCUUAUAAUAUUCUUUUGGCAUU
((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))((((.....))))...........(((..............)))... ( -29.64)
>DroYak_CAF1 307207 120 - 1
CAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUGGUGCAUAUAAAUUAGUCGCUUAUAAUAUUCUUUUGGCAUU
((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))((((.....))))...........(((..............)))... ( -29.64)
>consensus
CAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUGGUGCAUAUAAAUUAGUCGCUUAUAAUAUUCUUUUGGCAUU
((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))((((.....))))...........(((..............)))... (-29.93 = -29.74 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,082,493 – 18,082,613
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 99.17
Mean single sequence MFE -30.30
Consensus MFE -30.49
Energy contribution -30.30
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 1.01
SVM decision value 0.10
SVM RNA-class probability 0.582442
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18082493 120 - 22407834
UGGCCGACACAUACUGGCAGUCAUAUAAUUUUCAUAUUUUCAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACGAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUG
..((((........))))((.(((................((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))))))).. ( -30.60)
>DroSec_CAF1 289838 120 - 1
UGGCCGAAACAUACUGGCAGUCAUAUAAUUUUCAUAUUUUCAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUG
..((((........))))((.(((................((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))))))).. ( -30.20)
>DroSim_CAF1 291828 120 - 1
UGGCCGACACAUACUGGCAGUCAUAUAAUUUUCAUAUUUUCAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUG
..((((........))))((.(((................((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))))))).. ( -30.20)
>DroYak_CAF1 307247 120 - 1
UGGCCGACACAUACUGGCAGUCAUAUAAUUUUCAUAUUUUCAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUG
..((((........))))((.(((................((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))))))).. ( -30.20)
>consensus
UGGCCGACACAUACUGGCAGUCAUAUAAUUUUCAUAUUUUCAUACAUUGUUUAACUUGUUCCUUCGCCCUUUUCGUGGGCCACAAACAAUGUGUGUGCAAAACGUAAGUUUGCGUGCUUG
..((((........))))((.(((................((((((((((((.....(......)((((.......))))...)))))))))))).(((((.(....))))))))))).. (-30.49 = -30.30 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:59 2006