Locus 9464

Sequence ID 3R_DroMel_CAF1
Location 25,053,506 – 25,053,623
Length 117
Max. P 0.877359
window15158 window15159

overview

Window 8

Location 25,053,506 – 25,053,623
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.80
Mean single sequence MFE -39.47
Consensus MFE -30.27
Energy contribution -31.47
Covariance contribution 1.20
Combinations/Pair 1.03
Mean z-score -2.97
Structure conservation index 0.77
SVM decision value 0.90
SVM RNA-class probability 0.877359
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25053506 117 + 27905053
UCGUUUGCAGUUGGUAGC---UCGUUGCUAGUUGGUCAACAGCAGCGAGCCAAGUACACCGGCAUAAAUGGCUCAAAAGCGUGUUAAUAGCAAAUAGCAAAGUAGCAGCUGAAAACGAAC
((((((.((((((.((((---(.((((((.(((....)))))))))((((((..((........))..))))))...))).(((((........)))))...)).)))))).)))))).. ( -39.30)
>DroSim_CAF1 7706 110 + 1
UCGUUUGCAGUUGGUAGC---UCGUUGCUAGUUGGCCAACAGCAGCGAGCCAAGUACACCGGCAUAAAUGGCUCAAAAGCGUGUUAAUAG-------CAAAGUGGCAGCUGAAAACGAAC
((((((.((((((...((---((((((((.(((....)))))))))))))......(((..((((.(((((((....))).)))).)).)-------)...))).)))))).)))))).. ( -39.70)
>DroYak_CAF1 7701 120 + 1
UCGUUUGCAGUUUGUAGCGUCUAGCGGCUAGUUGGCCAACAGCACCGAGCCAAGUACACCGGUAUAAAUGGCUCAAAAGCGUGUUAAUAGCAAAUAGCCAAGUGGCAGCUGAAUACGAAC
.........(((((((...((.(((.((((.(((((..........((((((.((((....))))...))))))....((.........)).....))))).)))).))))).))))))) ( -39.40)
>consensus
UCGUUUGCAGUUGGUAGC___UCGUUGCUAGUUGGCCAACAGCAGCGAGCCAAGUACACCGGCAUAAAUGGCUCAAAAGCGUGUUAAUAGCAAAUAGCAAAGUGGCAGCUGAAAACGAAC
((((((.((((((.((((.....((((((.(((....)))))))))((((((..((........))..))))))....)).........((.....))....)).)))))).)))))).. (-30.27 = -31.47 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 25,053,506 – 25,053,623
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.80
Mean single sequence MFE -34.67
Consensus MFE -28.47
Energy contribution -29.70
Covariance contribution 1.23
Combinations/Pair 1.10
Mean z-score -2.05
Structure conservation index 0.82
SVM decision value 0.28
SVM RNA-class probability 0.665785
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25053506 117 - 27905053
GUUCGUUUUCAGCUGCUACUUUGCUAUUUGCUAUUAACACGCUUUUGAGCCAUUUAUGCCGGUGUACUUGGCUCGCUGCUGUUGACCAACUAGCAACGA---GCUACCAACUGCAAACGA
..((((((.(((..(((.(.((((((.(((...((((((.((...(((((((..((((....))))..)))))))..)))))))).))).)))))).))---))......))).)))))) ( -37.20)
>DroSim_CAF1 7706 110 - 1
GUUCGUUUUCAGCUGCCACUUUG-------CUAUUAACACGCUUUUGAGCCAUUUAUGCCGGUGUACUUGGCUCGCUGCUGUUGGCCAACUAGCAACGA---GCUACCAACUGCAAACGA
..((((((.(((.((.((((..(-------(...(((...(((....)))...))).)).))))....(((((((.(((((((....))).)))).)))---)))).)).))).)))))) ( -31.40)
>DroYak_CAF1 7701 120 - 1
GUUCGUAUUCAGCUGCCACUUGGCUAUUUGCUAUUAACACGCUUUUGAGCCAUUUAUACCGGUGUACUUGGCUCGGUGCUGUUGGCCAACUAGCCGCUAGACGCUACAAACUGCAAACGA
..((((..(((((.((...(((((((..........(((.((..((((((((..((((....))))..)))))))).))))))))))))...)).))).)).((........))..)))) ( -35.40)
>consensus
GUUCGUUUUCAGCUGCCACUUUGCUAUUUGCUAUUAACACGCUUUUGAGCCAUUUAUGCCGGUGUACUUGGCUCGCUGCUGUUGGCCAACUAGCAACGA___GCUACCAACUGCAAACGA
..((((((.(((..((....((((((.(((...((((((.((...(((((((..((((....))))..)))))))..)))))))).))).))))))......))......))).)))))) (-28.47 = -29.70 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:16 2006