Locus 7033

Sequence ID 2L_DroMel_CAF1
Location 19,633,853 – 19,634,001
Length 148
Max. P 0.894344
window11219 window11220 window11221

overview

Window 9

Location 19,633,853 – 19,633,946
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 89.46
Mean single sequence MFE -23.22
Consensus MFE -19.09
Energy contribution -19.53
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.63
Structure conservation index 0.82
SVM decision value 0.98
SVM RNA-class probability 0.894344
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19633853 93 - 22407834
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAACCAAAAUCACUAAAGCCCAAGGAGAUUCCCAAAUUGAAGGAGAUUUCAGAAGGACU
...(.((((((((.((....)).)))))))).).................((((....(((((..((........))..)))))....)).)) ( -23.70)
>DroSec_CAF1 77195 93 - 1
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAACCAAAAUCACCAAAGCCCAAGGAGAUUCCCAAAUUGAAGGAGAUUUCAGAAGGACU
...(.((((((((.((....)).)))))))).).................((((....(((((..((........))..)))))....)).)) ( -23.70)
>DroSim_CAF1 54593 93 - 1
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAACCAAAAUCACCAAAGCCCAAGGAGAUUCCCAAAUUGAAGGAGAUUUCAGAAGGACU
...(.((((((((.((....)).)))))))).).................((((....(((((..((........))..)))))....)).)) ( -23.70)
>DroEre_CAF1 53244 93 - 1
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAGAAACCAAAAUCACCAAAGCCCAAGGAUAUCCCCAAAUUGAAGGAGAUUUCAGAAAGGUU
..((.((((((((.((....)).)))))))).))................((((....((.(((.((........)).))).)).....)))) ( -25.50)
>DroYak_CAF1 53077 93 - 1
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAGAAACCAAAAGCAUCAAAGCCCAAGGAUAUUCCCAAAUUGAAGGAGAUUUCAGAAAGAUU
..((.((((((((.((....)).)))))))).))...((....((......))....))...........((((((....))))))....... ( -22.40)
>DroAna_CAF1 55063 84 - 1
AACUGUCCGGGCACUUGCCAAAUUGCCAGGAGAAAAACCA---------AAGCCUAAAUAGAUCCCCAAAUUGAAGGAGAUUUUUUAAGGUUC
...(.(((.((((.((....)).)))).))).).......---------.(((((.((.(((((.((........)).))))).)).))))). ( -20.30)
>consensus
AACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAACCAAAAUCACCAAAGCCCAAGGAGAUUCCCAAAUUGAAGGAGAUUUCAGAAGGACU
...(.((((((((.((....)).)))))))).).........................((((((.((........)).))))))......... (-19.09 = -19.53 +   0.45)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,633,909 – 19,634,001
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 84.64
Mean single sequence MFE -24.65
Consensus MFE -20.59
Energy contribution -20.18
Covariance contribution -0.41
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.84
SVM decision value 0.61
SVM RNA-class probability 0.798940
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19633909 92 + 22407834
UUUUUCUCCUGGCAAUUUGGCAAGUGCCAGGACAGUUUAUGAAAUUGCCAGGUUGUCUGCAGGACAUGCCCUCUUUCCUGUCGUCAUCAUUG
.......((((((((((((((....)))....((.....))))))))))))).((.(.((((((...........)))))).).))...... ( -28.60)
>DroSim_CAF1 54649 92 + 1
UUUUUCUCCUGGCAAUUUGGCAAGUGCCAGGACAGUUUAUGAAAUUGCCAGGUUGUCUGCAGGACAUGCCUUCUUUCCUGUCGUCAUCAUUG
.......((((((((((((((....)))....((.....))))))))))))).((.(.((((((...........)))))).).))...... ( -28.60)
>DroEre_CAF1 53300 92 + 1
UUUCUCUCCUGGCAAUUUGGCAAGUGCCAGGACAGUUUAUGAAAUUGCCAGGUUGUCUACAGAACAUUCCUUCUUUCUUGUCGUCAUCAUUG
.......((((((((((((((....)))....((.....))))))))))))).((.(.((((((..........))).))).).))...... ( -22.20)
>DroWil_CAF1 84170 82 + 1
UCCUUCAUUUGGCAAUUUGGCAAGUGUCUGCACAGUUUAUGAAAUUGCCAGGUUGUCUACAGAAA------UAUUCCAUGUCGUCGUU----
...(((....(((((((((((((...((............))..)))))))))))))....))).------.................---- ( -19.60)
>DroYak_CAF1 53133 92 + 1
UUUCUCUCCUGGCAAUUUGGCAAGUGCCAGGACAGUUUAUGAAAUUGCCAGGUUGUCUACAGAGCAUUCCUUCUCUCUUGUCGUCAUCAUUG
.......((((((((((((((....)))....((.....))))))))))))).((.(.((((((..........))).))).).))...... ( -23.70)
>DroAna_CAF1 55110 90 + 1
UUUUUCUCCUGGCAAUUUGGCAAGUGCCCGGACAGUUUAUGAAAUUGCCAGGUUGUCCGCAGAAAAUUCCUUU--UUGUGUCAUCAUGAUUG
.......((((((((((((((....)))....((.....))))))))))))).....((((((((.....)))--)))))............ ( -25.20)
>consensus
UUUUUCUCCUGGCAAUUUGGCAAGUGCCAGGACAGUUUAUGAAAUUGCCAGGUUGUCUACAGAACAUUCCUUCUUUCCUGUCGUCAUCAUUG
.......((((((((((((((....)))....((.....))))))))))))).((.(.((((...............)))).).))...... (-20.59 = -20.18 +  -0.41)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,633,909 – 19,634,001
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 84.64
Mean single sequence MFE -21.72
Consensus MFE -16.94
Energy contribution -17.13
Covariance contribution 0.19
Combinations/Pair 1.06
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value -0.04
SVM RNA-class probability 0.515641
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19633909 92 - 22407834
CAAUGAUGACGACAGGAAAGAGGGCAUGUCCUGCAGACAACCUGGCAAUUUCAUAAACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAA
......((.(..(((((..(....)...)))))..).)).((((((((((.............((((....))))))))))))))....... ( -25.61)
>DroSim_CAF1 54649 92 - 1
CAAUGAUGACGACAGGAAAGAAGGCAUGUCCUGCAGACAACCUGGCAAUUUCAUAAACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAA
......((.(..(((((..(....)...)))))..).)).((((((((((.............((((....))))))))))))))....... ( -25.61)
>DroEre_CAF1 53300 92 - 1
CAAUGAUGACGACAAGAAAGAAGGAAUGUUCUGUAGACAACCUGGCAAUUUCAUAAACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAGAAA
...............((((..(((..((((.....)))).))).....)))).....((.((((((((.((....)).)))))))).))... ( -23.40)
>DroWil_CAF1 84170 82 - 1
----AACGACGACAUGGAAUA------UUUCUGUAGACAACCUGGCAAUUUCAUAAACUGUGCAGACACUUGCCAAAUUGCCAAAUGAAGGA
----.........(((((...------..)))))........((((((((........((.((((....))))))))))))))......... ( -11.90)
>DroYak_CAF1 53133 92 - 1
CAAUGAUGACGACAAGAGAGAAGGAAUGCUCUGUAGACAACCUGGCAAUUUCAUAAACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAGAAA
......................((((((((..((.....))..))).))))).....((.((((((((.((....)).)))))))).))... ( -23.60)
>DroAna_CAF1 55110 90 - 1
CAAUCAUGAUGACACAA--AAAGGAAUUUUCUGCGGACAACCUGGCAAUUUCAUAAACUGUCCGGGCACUUGCCAAAUUGCCAGGAGAAAAA
.................--.......((((((........(((((((((((......(.....)(((....)))))))))))))))))))). ( -20.20)
>consensus
CAAUGAUGACGACAAGAAAGAAGGAAUGUUCUGCAGACAACCUGGCAAUUUCAUAAACUGUCCUGGCACUUGCCAAAUUGCCAGGAGAAAAA
........................................(((((((((((....((.(((....))).))...)))))))))))....... (-16.94 = -17.13 +   0.19)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:46 2006