Locus 4329

Sequence ID X_DroMel_CAF1
Location 11,398,180 – 11,398,318
Length 138
Max. P 0.591835
window7109 window7110

overview

Window 9

Location 11,398,180 – 11,398,287
Length 107
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 92.83
Mean single sequence MFE -37.84
Consensus MFE -35.16
Energy contribution -35.76
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.11
Structure conservation index 0.93
SVM decision value 0.12
SVM RNA-class probability 0.591835
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11398180 107 - 22224390
------GA---GGUGGUGUCGUAUUAGUGGUCGUAGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAAGCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
------.(---(.(((.(((......(((.(.(((...((((((((.(....).)))))))).)))).)))((...((((((..(((....)))..))))))..)))))))).)). ( -33.90)
>DroSec_CAF1 51361 107 - 1
------GA---UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAACCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
------..---.(..((((((.(((..((((((((((....)))))))).(((((((....))).)))).))..))))...(((((...))))))))))..)(((((...))))). ( -34.80)
>DroSim_CAF1 22704 107 - 1
------GA---UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAAGCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
------..---......((((.((((((.((((((((....)))))))).(((((((....))).)))).......((((((..(((....)))..)))))).)))))).)))).. ( -38.50)
>DroEre_CAF1 57601 116 - 1
GAGGCGGAGGAGGGUGCGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAAGCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
.((.(((.....(.(((((.((((((((.((((((((....)))))))).)))))....)))))))).).(((...((((((..(((....)))..))))))..)))..))).)). ( -42.20)
>DroYak_CAF1 56969 110 - 1
------GAGGGUGAUGCGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAAGCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
------..((((..(((((.((((((((.((((((((....)))))))).)))))....))))))))...(((...((((((..(((....)))..))))))..)))))))..... ( -39.80)
>consensus
______GA___UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAAGCGAUGAAAGAAACUUUUGGCAUUGCGGCUGGCCCGGCUG
.................((((.((((((.((((((((....)))))))).(((((((....))).)))).......((((((..(((....)))..)))))).)))))).)))).. (-35.16 = -35.76 +   0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,398,220 – 11,398,318
Length 98
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 88.12
Mean single sequence MFE -37.74
Consensus MFE -29.14
Energy contribution -29.74
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.77
SVM decision value -0.01
SVM RNA-class probability 0.529499
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11398220 98 - 22224390
GCCUUCUGCCAGUGGGCGCUGGUCGGGGGAG---------------GA---GGUGGUGUCGUAUUAGUGGUCGUAGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
.(((((.((((((....)))))).)))))..---------------..---.(((.(((.((((((.((((.((.((((...)))).)).)))).))).)))..))).)))..... ( -32.40)
>DroSec_CAF1 51401 98 - 1
GCCUUCUGCCAGUGGGCGGUGGUCGGGGGAG---------------GA---UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
.(((((.((((.(....).)))).)))))..---------------..---((((.((.(((((((((.((((((((....)))))))).))))......))))))).)))).... ( -37.30)
>DroSim_CAF1 22744 98 - 1
GCCUUCUGCCAGUGGGCGGUGGUUGGGGGAG---------------GA---UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
.(((((.((((.(....).)))).)))))..---------------..---((((.((.(((((((((.((((((((....)))))))).))))......))))))).)))).... ( -37.30)
>DroEre_CAF1 57641 116 - 1
UCCUUCUGCCAGUGGGCGGUGGUCGGGGGAGGCGGAGGCGGAGGCGGAGGAGGGUGCGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
((((.(((((.....((..(.(((......))).)..))...)))))))))..((((..(((((((((.((((((((....)))))))).))))......)))))..))))..... ( -42.60)
>DroYak_CAF1 57009 101 - 1
UCCUUCUGCCAGUGGGCGGUGGUCGGGGGAG---------------GAGGGUGAUGCGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
.((((((.((....(((....)))..)).))---------------))))(((.(((((.((((((((.((((((((....)))))))).)))))....)))))))).)))..... ( -39.10)
>consensus
GCCUUCUGCCAGUGGGCGGUGGUCGGGGGAG_______________GA___UGUGGUGUCGUGUUAGUGGUCGUGGUGGUAGCCAUGGCAGCUGGUGGUUACAUGCAGCACAGAAA
.(((((.((((.(....).)))).)))))..........................((((.((..((((.((((((((....)))))))).))))(((....))))).))))..... (-29.14 = -29.74 +   0.60)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:14 2006