Locus 2722

Sequence ID 2R_DroMel_CAF1
Location 9,543,400 – 9,543,511
Length 111
Max. P 0.984322
window4513 window4514

overview

Window 3

Location 9,543,400 – 9,543,511
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -31.24
Consensus MFE -31.24
Energy contribution -31.24
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 1.00
SVM decision value 1.60
SVM RNA-class probability 0.966509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9543400 111 + 20766785
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). ( -31.24)
>DroSec_CAF1 20138 111 + 1
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). ( -31.24)
>DroSim_CAF1 20513 111 + 1
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). ( -31.24)
>DroEre_CAF1 22242 111 + 1
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). ( -31.24)
>DroYak_CAF1 21339 111 + 1
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). ( -31.24)
>consensus
UCGAGUUGGAUUGGCCACAGUGUGCCGGCCAAAUUGGAAGCCUUUGGUUCCACUUUGCGAAAACUUUUAAAUUCGCUUAACCAAAUUGACAGCUUUAGGGCCAUUUCAACA
....((((((.(((((.((((.((.....)).))))(((((..(..(((.......(((((..........))))).......)))..)..)))))..))))).)))))). (-31.24 = -31.24 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 9,543,400 – 9,543,511
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -31.80
Consensus MFE -31.80
Energy contribution -31.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 1.00
SVM decision value 1.97
SVM RNA-class probability 0.984322
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9543400 111 - 20766785
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... ( -31.80)
>DroSec_CAF1 20138 111 - 1
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... ( -31.80)
>DroSim_CAF1 20513 111 - 1
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... ( -31.80)
>DroEre_CAF1 22242 111 - 1
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... ( -31.80)
>DroYak_CAF1 21339 111 - 1
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... ( -31.80)
>consensus
UGUUGAAAUGGCCCUAAAGCUGUCAAUUUGGUUAAGCGAAUUUAAAAGUUUUCGCAAAGUGGAACCAAAGGCUUCCAAUUUGGCCGGCACACUGUGGCCAAUCCAACUCGA
.((((...(((((....((.((((..(((((((..(((((..........))))).......)))))))((((........))))))))..))..)))))...)))).... (-31.80 = -31.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:51 2006