Locus 2548

Sequence ID X_DroMel_CAF1
Location 6,827,001 – 6,827,105
Length 104
Max. P 0.967557
window4158 window4159

overview

Window 8

Location 6,827,001 – 6,827,105
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 96.15
Mean single sequence MFE -28.20
Consensus MFE -25.79
Energy contribution -25.57
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.23
Structure conservation index 0.91
SVM decision value 0.82
SVM RNA-class probability 0.857842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6827001 104 + 22224390
UCCAAGCCGUGCUCUCUCGCUGCGCUCGCAGCGAAACAGCUGGCUAUGAAACUUCAAUUACUAGCAUGCGUAAGCAUUUUUGAUUUUACGUUUUUAAUGAAAAA
..(((((((.(((.(.(((((((....))))))).).)))))))).))....((((.(((..(((((((....))))....(......))))..)))))))... ( -30.10)
>DroSec_CAF1 7237 103 + 1
UCCAAGCUGUGCUCUCUCGCUGCGCUUGCAGCGAAACAGCUGGCUAUGAAACCUCAAUUACUAGCAUGCGUAAGCAUUUUUGAUUUUACGUUUUUAAUGAAG-C
....((((((......(((((((....))))))).)))))).(((((((....))).....))))((((....))))............(((((....))))-) ( -27.50)
>DroSim_CAF1 7250 104 + 1
UCCAAGCUGUGCUCUCUCGCUGCGCUUGCAGCGAAACAGCUGGCUAUGAAACCUCAAUUACUAGCAUGCGUAAGCAUUUUUGAUUUUACGUUUUUAAUGAAAAC
....((((((......(((((((....))))))).)))))).(((((((....))).....))))((((....))))............((((((...)))))) ( -27.00)
>consensus
UCCAAGCUGUGCUCUCUCGCUGCGCUUGCAGCGAAACAGCUGGCUAUGAAACCUCAAUUACUAGCAUGCGUAAGCAUUUUUGAUUUUACGUUUUUAAUGAAAAC
..(((((((.(((.(.(((((((....))))))).).)))))))).)).........(((.(((...((((((.((....))...))))))..))).))).... (-25.79 = -25.57 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 6,827,001 – 6,827,105
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 96.15
Mean single sequence MFE -32.03
Consensus MFE -29.72
Energy contribution -29.83
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.86
Structure conservation index 0.93
SVM decision value 1.61
SVM RNA-class probability 0.967557
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6827001 104 - 22224390
UUUUUCAUUAAAAACGUAAAAUCAAAAAUGCUUACGCAUGCUAGUAAUUGAAGUUUCAUAGCCAGCUGUUUCGCUGCGAGCGCAGCGAGAGAGCACGGCUUGGA
..(((((........(......)....((((....)))).........))))).((((.((((.(((.(((((((((....))))))))).)))..)))))))) ( -31.30)
>DroSec_CAF1 7237 103 - 1
G-CUUCAUUAAAAACGUAAAAUCAAAAAUGCUUACGCAUGCUAGUAAUUGAGGUUUCAUAGCCAGCUGUUUCGCUGCAAGCGCAGCGAGAGAGCACAGCUUGGA
.-...................((((..((((....))))(((.((......((((....)))).(((.(((((((((....))))))))).)))))))))))). ( -31.80)
>DroSim_CAF1 7250 104 - 1
GUUUUCAUUAAAAACGUAAAAUCAAAAAUGCUUACGCAUGCUAGUAAUUGAGGUUUCAUAGCCAGCUGUUUCGCUGCAAGCGCAGCGAGAGAGCACAGCUUGGA
(((((.....)))))......((((..((((....))))(((.((......((((....)))).(((.(((((((((....))))))))).)))))))))))). ( -33.00)
>consensus
GUUUUCAUUAAAAACGUAAAAUCAAAAAUGCUUACGCAUGCUAGUAAUUGAGGUUUCAUAGCCAGCUGUUUCGCUGCAAGCGCAGCGAGAGAGCACAGCUUGGA
.....................((((..((((....))))(((.((......((((....)))).(((.(((((((((....))))))))).)))))))))))). (-29.72 = -29.83 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:24 2006