Locus 6063

Sequence ID 3R_DroMel_CAF1
Location 15,931,052 – 15,931,159
Length 107
Max. P 0.962164
window9890 window9891

overview

Window 0

Location 15,931,052 – 15,931,159
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.03
Mean single sequence MFE -33.30
Consensus MFE -28.74
Energy contribution -29.05
Covariance contribution 0.31
Combinations/Pair 1.07
Mean z-score -2.30
Structure conservation index 0.86
SVM decision value 1.54
SVM RNA-class probability 0.962164
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15931052 107 + 27905053
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACACCGGCAAACAGGAUUGCACAUUUCUUUUAUUCAGUAAUCAUUUGCGGCACUUUAUUGAAUUCCGAG---CGGCAGCGG----------
...((((((((.........((((((((......(.....)..((((((................)))))).))))))))......(((.....))).---)))))))).---------- ( -29.79)
>DroSec_CAF1 60663 110 + 1
AAAUGCUGCCGGAUGCACAAGCUGCAAAAAUACCGGCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUCAUUUGCGGCACUUUAUUGAAUUCCGAGCAGCGGCAGCGG----------
...((((((((..(((....((((((((....((........))((((((...........)))))).....))))))))......(((.....)))))).)))))))).---------- ( -36.40)
>DroSim_CAF1 38149 110 + 1
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACACCGGCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUCAUUUGCGGCACUUUAUUGAAUUCCGAGCAGCGGCAGCGG----------
...((((((((..(((....((((((((....((........))((((((...........)))))).....))))))))......(((.....)))))).)))))))).---------- ( -36.40)
>DroEre_CAF1 37566 107 + 1
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACACCGGCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUUAUUUGCGGCACUUUAUUGAAUUCCGAG---CGGCAGCGG----------
...((((((((.........((((((((....((........))((((((...........)))))).....))))))))......(((.....))).---)))))))).---------- ( -32.10)
>DroYak_CAF1 50587 106 + 1
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACAACGCCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUUAUUUGCGGCACUUUAUUGAAUU-CGAG---CGGCAGCAG----------
...((((((((.........((((((((.......((.....))((((((...........)))))).....))))))))......(((....-))).---)))))))).---------- ( -32.40)
>DroAna_CAF1 31980 117 + 1
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACACCGUCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUCAUUUGCGGCACUUUAUUGAAUUCCAUG---CGGAAGCAGUAGCAGUGGA
...((((((.(((.......((((((((....((........))((((((...........)))))).....)))))))).(......)...))).((---(....)))))))))..... ( -32.70)
>consensus
AAAUGCUGCCGGAUGCACAAGCUGCAAAAACACCGGCAAACAGGAUUGCACAUUUCUUUUAUGCAGUAAUCAUUUGCGGCACUUUAUUGAAUUCCGAG___CGGCAGCGG__________
...((((((((.........((((((((....((........))((((((...........)))))).....))))))))......(((.....)))....))))))))........... (-28.74 = -29.05 +   0.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,931,052 – 15,931,159
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.03
Mean single sequence MFE -32.91
Consensus MFE -28.74
Energy contribution -29.02
Covariance contribution 0.28
Combinations/Pair 1.03
Mean z-score -2.02
Structure conservation index 0.87
SVM decision value 1.30
SVM RNA-class probability 0.939581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15931052 107 - 27905053
----------CCGCUGCCG---CUCGGAAUUCAAUAAAGUGCCGCAAAUGAUUACUGAAUAAAAGAAAUGUGCAAUCCUGUUUGCCGGUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
----------..(((((((---.............((((..((((((((((((.(................).))))..))))).)))..))))((((.....))))..))))))).... ( -28.59)
>DroSec_CAF1 60663 110 - 1
----------CCGCUGCCGCUGCUCGGAAUUCAAUAAAGUGCCGCAAAUGAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGCCGGUAUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
----------..(((((((.(((.(((..(.(((..((((((((((((((((...((((((.......)))))))))..))))).))))))))))).)..))).)))..))))))).... ( -37.80)
>DroSim_CAF1 38149 110 - 1
----------CCGCUGCCGCUGCUCGGAAUUCAAUAAAGUGCCGCAAAUGAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGCCGGUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
----------..(((((((.(((.(((..(.(((..(((..(((((((((((...((((((.......)))))))))..))))).)))..)))))).)..))).)))..))))))).... ( -36.40)
>DroEre_CAF1 37566 107 - 1
----------CCGCUGCCG---CUCGGAAUUCAAUAAAGUGCCGCAAAUAAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGCCGGUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
----------..(((((((---.............((((..(((((((((.....((((((.......))))))....)))))).)))..))))((((.....))))..))))))).... ( -34.70)
>DroYak_CAF1 50587 106 - 1
----------CUGCUGCCG---CUCG-AAUUCAAUAAAGUGCCGCAAAUAAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGGCGUUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
----------.((((((((---...(-....)......((((((((((((.....((((((.......))))))....))))).))(((((....)))))..).)))).))))))))... ( -29.40)
>DroAna_CAF1 31980 117 - 1
UCCACUGCUACUGCUUCCG---CAUGGAAUUCAAUAAAGUGCCGCAAAUGAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGACGGUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
....(((((..(((....)---)).(((.......((((..(((((((((((...((((((.......)))))))))..))))).)))..))))((((.....))))))))))))..... ( -30.60)
>consensus
__________CCGCUGCCG___CUCGGAAUUCAAUAAAGUGCCGCAAAUGAUUACUGCAUAAAAGAAAUGUGCAAUCCUGUUUGCCGGUGUUUUUGCAGCUUGUGCAUCCGGCAGCAUUU
............(((((((................((((..(((((((((.....((((((.......))))))....)))))).)))..))))((((.....))))..))))))).... (-28.74 = -29.02 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:44 2006