Locus 6811

Sequence ID 3R_DroMel_CAF1
Location 18,024,972 – 18,025,089
Length 117
Max. P 0.734804
window11059 window11060

overview

Window 9

Location 18,024,972 – 18,025,075
Length 103
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 82.64
Mean single sequence MFE -27.52
Consensus MFE -20.46
Energy contribution -20.85
Covariance contribution 0.39
Combinations/Pair 1.12
Mean z-score -1.72
Structure conservation index 0.74
SVM decision value 0.29
SVM RNA-class probability 0.668945
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18024972 103 + 27905053
A---CCUCCACACAUGG-G------UUAAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGCGCAUGUUCAUUGAAAUUGUGGCAAG
.---...(((((...((-(------(..(((((((((((((((....))))))))))...)))))....))))(((((..(..((....))..)...)))))..))))).... ( -28.50)
>DroVir_CAF1 78092 92 + 1
-------------ACUG--------GUUAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGCGCAUGUUCAUUGAAUUUGUUGCAAG
-------------....--------...........(((((((....)))))))((((((((((((..((......(((((((....)))).))))).))))))))))))... ( -23.60)
>DroPse_CAF1 86977 94 + 1
--------------UGG-G----CCUUAAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGAGCAUGUUCAUUGAAAUUGUGGCAAC
--------------...-(----((.(((...(((((((((((....)))))))))))..(((.(((((((.(.........).))))))).)))........))).)))... ( -27.80)
>DroWil_CAF1 73756 109 + 1
UGUAGUGGACC---AGG-GAUAGCUCUUAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGCGCAUGUUCAUUGAAAUUGUUGCCGG
..((((((((.---..(-((.(((...((((((((((((((((....))))))))))...))))))...))).)))...((((....)))).))))))))............. ( -30.90)
>DroMoj_CAF1 86214 92 + 1
-------------GCUGCU------GUUAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGCGCAUGUUCAUUGAAUUUGUAGCU--
-------------(((((.------.((((..(((((((((((....)))))))))))..................(((((((....)))).)))..))))....))))).-- ( -26.50)
>DroPer_CAF1 85153 94 + 1
--------------GGG-G----CCUUAAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGAGCAUGUUCAUUGAAAUUGUGGCAAC
--------------...-(----((.(((...(((((((((((....)))))))))))...............(((((.(((((....)))))....))))).))).)))... ( -27.80)
>consensus
______________CGG_G______UUAAAAUUUAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGCGCAUGUUCAUUGAAAUUGUGGCAAG
................................(((((((((((....))))))))))).....(((((.....(((((.(((((....)))))....))))).....))))). (-20.46 = -20.85 +   0.39)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,024,995 – 18,025,089
Length 94
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 81.38
Mean single sequence MFE -28.52
Consensus MFE -19.05
Energy contribution -19.30
Covariance contribution 0.25
Combinations/Pair 1.16
Mean z-score -1.86
Structure conservation index 0.67
SVM decision value 0.43
SVM RNA-class probability 0.734804
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18024995 94 + 27905053
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGCGCAUGUUCAUUGAAAUUGUGGCAAGA-------GAGG-UGGUGAAUG
((((((((((....))))))))))........(((..((((((.......(((.((((..(((...)))..)))))))...-------))))-.))..))). ( -27.80)
>DroVir_CAF1 78104 85 + 1
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGCGCAUGUUCAUUGAAUUUGUUGCAAGC-------CAGC----------
((((((((((....))))))))))........((((((..(((((.(((((....)))))....)))))......))))))-------....---------- ( -24.60)
>DroPse_CAF1 86991 95 + 1
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGAGCAUGUUCAUUGAAAUUGUGGCAACA-------CACAGAGACACAGA
((((((((((....)))))))))).....(((((...((((((((..(..((....))..)...)))))..((((....))-------))..)))..))))) ( -30.00)
>DroWil_CAF1 73785 100 + 1
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGCGCAUGUUCAUUGAAAUUGUUGCCGGUUUGCUGUCAGC-AGGCAAA-G
((((((((((....)))))))))).........((((((.(((((..(..((....))..)...)))))..(((((.(((....))).))))-)))))))-. ( -31.40)
>DroMoj_CAF1 86228 83 + 1
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGCGCGCGCAUGUUCAUUGAAUUUGUAGCU--G-------CAGC----------
((((((((((....)))))))))).....................(((((.((..(((.((((...)))).))).)))--)-------))).---------- ( -23.50)
>DroAna_CAF1 64620 91 + 1
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCCUCAACUGUGUGCGCGCAUGUUCACUGAGGUUGUGGCAGC----------GG-GGGUGGGCG
((((((((((....))))))))))........(((..((((((((((..(((.((....)).)))...))))).......----------))-)))..))). ( -33.81)
>consensus
UAUGCGCUGUUCAAACGGCGCGUAAUAAAUUUGUUUGCUCUUCAACUGUGUGCGCGCAUGUUCAUUGAAAUUGUGGCAAGA_______CAGC__GG___A_G
((((((((((....))))))))))......(((((.....(((((.(((((....)))))....))))).....)))))....................... (-19.05 = -19.30 +   0.25)

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 12:30:34 2006