Locus 7216

Sequence ID 2L_DroMel_CAF1
Location 20,252,648 – 20,252,808
Length 160
Max. P 0.781108
window11538 window11539

overview

Window 8

Location 20,252,648 – 20,252,768
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -37.33
Consensus MFE -37.42
Energy contribution -37.20
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.67
Structure conservation index 1.00
SVM decision value 0.56
SVM RNA-class probability 0.781108
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252648 120 - 22407834
GGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAGGCUAAUGUGUCAGGACGGGCCCUAUCCCUAUUGUAGCCAC
.(((((((((....)))))))))........(((((((((...((((....(((....))).))))...))))))))).(((((....((....))(((......))).....))))).. ( -36.50)
>DroSec_CAF1 14176 120 - 1
GGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAGGCUAAUGUGCCAGGUCGGGCCCUAUCCCUAUUGUAGCCAC
.(((((((((....))))))))).(.((((((((((((((...((((....(((....))).))))...))))))))).(((......))).....(((......)))....)))))).. ( -39.00)
>DroSim_CAF1 12609 120 - 1
GGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAGGCUAAUGUGUCAGGACGGGCCCUAUCCCUAUUGUAGCCAC
.(((((((((....)))))))))........(((((((((...((((....(((....))).))))...))))))))).(((((....((....))(((......))).....))))).. ( -36.50)
>consensus
GGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAGGCUAAUGUGUCAGGACGGGCCCUAUCCCUAUUGUAGCCAC
.(((((((((....))))))))).(.((((((((((((((...((((....(((....))).))))...))))))))).(((......))).....(((......)))....)))))).. (-37.42 = -37.20 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,252,688 – 20,252,808
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.39
Mean single sequence MFE -34.20
Consensus MFE -29.00
Energy contribution -29.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.85
SVM decision value 0.05
SVM RNA-class probability 0.560567
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252688 120 - 22407834
GCACGGGGCUCCUGACCAAAUCCCCCACCCCACCCACUUGGGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAG
....(..((((.................((((......))))((((((((....))))))))..))))..)(((((((((...((((....(((....))).))))...))))))))).. ( -35.80)
>DroSec_CAF1 14216 113 - 1
GCA-GGGGCUCCAGCCCAAAUCC------CCACCCACUUGGGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAG
...-.((((....)))).....(------(((......))))((((((((....)))))))).........(((((((((...((((....(((....))).))))...))))))))).. ( -37.30)
>DroSim_CAF1 12649 101 - 1
-------------GCCCAAAUCC------CCACCCACUUGGGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAG
-------------.........(------(((......))))((((((((....)))))))).........(((((((((...((((....(((....))).))))...))))))))).. ( -29.50)
>consensus
GCA_GGGGCUCC_GCCCAAAUCC______CCACCCACUUGGGGGCGAUAAAAUUUUGUUGCCUAGAGUUACGCUCAACGAUUGUGUUCAUUGACUUUGGUCUAACGAUUUUGUUGAGUAG
................................(((....)))((((((((....)))))))).........(((((((((...((((....(((....))).))))...))))))))).. (-29.00 = -29.00 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:32 2006