Locus 73

Sequence ID 4_DroMel_CAF1
Location 560,912 – 561,029
Length 117
Max. P 0.976079
window118 window119

overview

Window 8

Location 560,912 – 561,029
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 92.88
Mean single sequence MFE -21.09
Consensus MFE -20.49
Energy contribution -19.86
Covariance contribution -0.63
Combinations/Pair 1.12
Mean z-score -2.02
Structure conservation index 0.97
SVM decision value 1.76
SVM RNA-class probability 0.976079
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 560912 117 + 1281640
GUGUGUUCGGAAAUACUCAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCACUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((.((.....)).))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -20.66)
>DroSec_CAF1 8591 117 + 1
GUGUGUUCGGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((..(.....)..))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -21.36)
>DroSim_CAF1 11442 117 + 1
GUGUGUUCCGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((..(.....)..))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -18.66)
>DroEre_CAF1 13782 117 + 1
GUGUGUUGAGUAAUACUAAACACAUUUUGCCCAGUUGUAUGUUCUUAGUUUCUUCAUUGAAAUAAUAUUCACUAUACAACAACAAAUGUUUCUUAUAUUCAGUAUAAGUAAACAAAA
(((((((.((.....)).)))))))........(((((((((.....(((((......))))).......)).)))))))......((((((((((((...))))))).)))))... ( -23.70)
>consensus
GUGUGUUCGGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((.((.....)).))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... (-20.49 = -19.86 +  -0.63) 

alignment

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secondary structure

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dotplot

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Window 9

Location 560,912 – 561,029
Length 117
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 92.88
Mean single sequence MFE -23.32
Consensus MFE -19.01
Energy contribution -18.70
Covariance contribution -0.31
Combinations/Pair 1.05
Mean z-score -1.65
Structure conservation index 0.82
SVM decision value 0.16
SVM RNA-class probability 0.611263
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 560912 117 - 1281640
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAGUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUGAGUAUUUCCGAACACAC
...(((((....(((((.((((((.....((((((..((.((((.....)))).))..))))))...........(((((....)))))....)))))).)))))....)))))... ( -22.20)
>DroSec_CAF1 8591 117 - 1
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCCGAACACAC
...(((((....((((((((((((.....((.(((..((.((((.....)))).))..))).))...........(((((....)))))....))))))))))))....)))))... ( -22.90)
>DroSim_CAF1 11442 117 - 1
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCGGAACACAC
...(((((....((((((((((((.....((.(((..((.((((.....)))).))..))).))...........(((((....)))))....))))))))))))....)))))... ( -24.00)
>DroEre_CAF1 13782 117 - 1
UUUUGUUUACUUAUACUGAAUAUAAGAAACAUUUGUUGUUGUAUAGUGAAUAUUAUUUCAAUGAAGAAACUAAGAACAUACAACUGGGCAAAAUGUGUUUAGUAUUACUCAACACAC
...(((((.((((((.....)))))))))))(((((.(((((((.((.....(((((((......)))).)))..)))))))))...))))).((((((.((.....)).)))))). ( -24.20)
>consensus
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCCGAACACAC
...(((((.((((((.....)))))))))))(((((.(((.((((.(.....(((((((......)))).))).).)))).)))...))))).((((((..(.....)..)))))). (-19.01 = -18.70 +  -0.31) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:40 2006