Locus 1557

Sequence ID 2R_DroMel_CAF1
Location 5,893,926 – 5,894,078
Length 152
Max. P 0.940245
window2614 window2615

overview

Window 4

Location 5,893,926 – 5,894,045
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 97.14
Mean single sequence MFE -39.48
Consensus MFE -34.58
Energy contribution -34.98
Covariance contribution 0.40
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.88
SVM decision value 0.83
SVM RNA-class probability 0.860978
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5893926 119 - 20766785
GUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGGCCGCCAUAAACAAGCGUUAAUUGCACUUUGAGGUUGCAC
((..(((((((((.(((....(((.....(((.(((((((.((.((.((.(....).)))))).))))))))))))).))))))))))))...))......((((((....)).)))). ( -39.80)
>DroSec_CAF1 30180 119 - 1
GUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCCCAGUGAAUUGAGGCUGGGCCGCCAUAAACAAGCGUUAAUUGCACUUUGAGGUUGCAC
((..(((((((((.(((....(((.....(((.(((((((........((((........))))))))))))))))).))))))))))))...))......((((((....)).)))). ( -36.90)
>DroSim_CAF1 28940 119 - 1
GUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGGCCGCCAUAAACAAGCGUUAAUUGCACUUUGAGGUUGCAC
((..(((((((((.(((....(((.....(((.(((((((.((.((.((.(....).)))))).))))))))))))).))))))))))))...))......((((((....)).)))). ( -39.80)
>DroEre_CAF1 28237 119 - 1
GUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUUACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGGCCGCCAUAAACAAGCGUUAAUUGCACUUUGAGGUUGCAC
((..(((((((((.(((....(((.....(((.(((((((.((.((.((.(....).)))))).))))))))))))).))))))))))))...))......((((((....)).)))). ( -37.60)
>DroYak_CAF1 28271 119 - 1
GUGAUUUGCGGCGAGCCGCAAAUCUGAAGCUCGAAUUUACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGGCAGCCAUAAACAAGCGUUAAUUGCACUGUGAAGUUGCAC
..(((((((((....)))))))))...((((((..........))))))..(..((...((((((((((((((.(((.(...........).))).)))))).)))))))).))..).. ( -43.30)
>consensus
GUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGGCCGCCAUAAACAAGCGUUAAUUGCACUUUGAGGUUGCAC
((..(((((((((.(((....(((.....(((.(((((((.((.((.((.(....).)))))).))))))))))))).))))))))))))...))......((((((....)).)))). (-34.58 = -34.98 +   0.40)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,893,965 – 5,894,078
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 95.93
Mean single sequence MFE -36.82
Consensus MFE -33.56
Energy contribution -33.24
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -1.51
Structure conservation index 0.91
SVM decision value 1.29
SVM RNA-class probability 0.940245
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5893965 113 - 20766785
CUGCUCGGCGUGAAUUUAAUUACAGCCCCAUAAGUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGG
...((((((.............((((..((....)).(((((((....)))))))))))...(((.(((((((.((.((.((.(....).)))))).)))))))))))))))) ( -36.90)
>DroSec_CAF1 30219 113 - 1
CUGCUCGGCGUGAAUUUAAUUACAGCCCCAUAAGUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCCCAGUGAAUUGAGGCUGGG
(.((((((((((((((..(((.((((..((....)).(((((((....))))))))))).)).)..))))))).))))))).)(....)....((((((........)))))) ( -40.50)
>DroSim_CAF1 28979 113 - 1
CUGCUCGGCGUGAAUUUAAUUACAGCCCCAUAAGUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGG
...((((((.............((((..((....)).(((((((....)))))))))))...(((.(((((((.((.((.((.(....).)))))).)))))))))))))))) ( -36.90)
>DroEre_CAF1 28276 113 - 1
CUGCUCGGUAUGAAUUUAAUUGCAGCUCCAUAAGUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUUACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGG
...((((((.(.((((((.(((((((((..........((((((....))))))((((((((......))).)))))))))).(....).....)))))))))).).)))))) ( -33.40)
>DroYak_CAF1 28310 113 - 1
CUGCUUGGCAUGAAUUUAAUUACAGCUCCAUAAGUGAUUUGCGGCGAGCCGCAAAUCUGAAGCUCGAAUUUACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGG
...((..((.(.((((((....((((((.......(((((((((....)))))))))...((((.(......))))))))))).((((....))))..)))))).).))..)) ( -36.40)
>consensus
CUGCUCGGCGUGAAUUUAAUUACAGCCCCAUAAGUGAUUUGUGGCGAGCCGCAAAGCUGAAACUCGAAUUCACAGCUGAGUUGGGUGACGAAUCGCAGUGAAUUGAGGCUGGG
...((((((.............((((..((....)).(((((((....)))))))))))...(((.(((((((.((.((.((.(....).)))))).)))))))))))))))) (-33.56 = -33.24 +  -0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:28 2006