Locus 7224

Sequence ID 2L_DroMel_CAF1
Location 20,256,621 – 20,256,781
Length 160
Max. P 0.678569
window11559 window11560

overview

Window 9

Location 20,256,621 – 20,256,741
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -36.60
Consensus MFE -34.03
Energy contribution -34.37
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.93
SVM decision value 0.30
SVM RNA-class probability 0.678569
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20256621 120 - 22407834
CCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUAUACUUACGUGUGCGUGUUAGUAUCUGUGUAACGGUGUAUCUGUGUUGCUGUGCAUCU
...........((((...((((((((((.(((..(...(((((((((......)))))))))...)))).)))))))))).))))..........(((((((..(.....).))))))). ( -34.20)
>DroSec_CAF1 18248 120 - 1
CCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGUUAGUAUCUGUGUAGCGGUGUAUCUGUGUAGCUGUGCAUCG
...........((((...((((((((((.(((...(((.((((((((......)))))))))))..))).)))))))))).))))..((..((((.(..(....)..).))))..))... ( -37.80)
>DroSim_CAF1 16684 120 - 1
CCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGUUAGUAUCUGUGUAGCGGUGUAUCUGUGUAGCUGUGCAUCU
...........((((...((((((((((.(((...(((.((((((((......)))))))))))..))).)))))))))).))))..((..((((.(..(....)..).))))..))... ( -37.80)
>consensus
CCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGUUAGUAUCUGUGUAGCGGUGUAUCUGUGUAGCUGUGCAUCU
...........((((...((((((((((.(((...(((.((((((((......)))))))))))..))).)))))))))).))))..........(((((((..(.....).))))))). (-34.03 = -34.37 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 20,256,661 – 20,256,781
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -35.77
Consensus MFE -34.11
Energy contribution -33.89
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.47
Structure conservation index 0.95
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20256661 120 - 22407834
CACCGCUACCGCCCGCCCGCCCUUCUCCAUCGGCGGCCCUCCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUAUACUUACGUGUGCGUGU
((((((.((((((.(((((((..........))))).........(((((........)))))........)).))))(((((((((......)))))))))........))))).))). ( -36.70)
>DroSec_CAF1 18288 120 - 1
CACCGCUACCGCCCGUCCGCCCUUCUCCAUCGGCGGCCUUCCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGU
(((.((....))..(.(((((..........))))).)........))).........((((((((((.(((...(((.((((((((......)))))))))))..))).)))))))))) ( -35.70)
>DroSim_CAF1 16724 120 - 1
CACCGCUACCGACCGUCCGCCCUUCUCCAUCGGCGGCCUUCCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGU
...(((....((..(.(((((..........))))))..)).....))).........((((((((((.(((...(((.((((((((......)))))))))))..))).)))))))))) ( -34.90)
>consensus
CACCGCUACCGCCCGUCCGCCCUUCUCCAUCGGCGGCCUUCCCUUCGUGUUUACUUUUGCACGCACAUUUAGCCGGCGGCAGUUAGAUUCAUUUUUGGCUGUGUACUUACGUGUGCGUGU
.(((((.((((.(((((.(((..........)))(((........(((((........)))))........))))))))((((((((......))))))))........)).))))).)) (-34.11 = -33.89 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:50 2006