Locus 4683

Sequence ID 3R_DroMel_CAF1
Location 12,336,341 – 12,336,489
Length 148
Max. P 0.999666
window7691 window7692

overview

Window 1

Location 12,336,341 – 12,336,449
Length 108
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 95.43
Mean single sequence MFE -28.78
Consensus MFE -27.42
Energy contribution -27.66
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.03
Structure conservation index 0.95
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12336341 108 + 27905053
GCUGUUUGCCAUCAUC-----AUUUCAUGUUUUUAUUUGCCACGACCGAACCGGACCAGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
((.....)).......-----...............(((((((((((((((((((((.((((((.((........))))))))...))))))))))).)...))))).)))). ( -27.30)
>DroSec_CAF1 5179 112 + 1
GCUGU-UGCCAUCAUCGUUUCAUUUCAUGUUUUUAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
...((-(((.....((((..((...............))..))))..(((((((((((((((((.((........))))))))..)))))))))))((((....))))))))) ( -30.76)
>DroSim_CAF1 4421 113 + 1
GCUGUUUGCCAUCAUCAUUUCAUUUCAUGUUUUUAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
((.....))...........................((((((((((((((((((((((((((((.((........))))))))..)))))))))))).)...))))).)))). ( -29.60)
>DroEre_CAF1 4564 108 + 1
GCUGUUUGCCAUCAUC-----AUUUCAUGUUUUUAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
((.....)).......-----...............((((((((((((((((((((((((((((.((........))))))))..)))))))))))).)...))))).)))). ( -29.60)
>DroYak_CAF1 645 108 + 1
GCUGUUGGCCAUCAUC-----AUUUCAUGUUUUUAUUUGCCACUACCGAACCGGACUCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
.....((((.......-----.................))))..((((((((.((...((((((.((........)))))))))).))))))))(((((((....))))))). ( -26.66)
>consensus
GCUGUUUGCCAUCAUC_____AUUUCAUGUUUUUAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAAC
((.....))...........................((((((((((((((((((((((((((((.((........))))))))..)))))))))))).)...))))).)))). (-27.42 = -27.66 +   0.24)

alignment

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secondary structure

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dotplot

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Window 2

Location 12,336,369 – 12,336,489
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.50
Mean single sequence MFE -35.08
Consensus MFE -34.68
Energy contribution -34.84
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -2.48
Structure conservation index 0.99
SVM decision value 3.86
SVM RNA-class probability 0.999666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12336369 120 + 27905053
UAUUUGCCACGACCGAACCGGACCAGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUACCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....(((((..(((...)))....)))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... ( -34.22)
>DroSec_CAF1 5211 120 + 1
UAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUGCCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....((((((.(((...)))...))))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... ( -36.12)
>DroSim_CAF1 4454 120 + 1
UAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUGCCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....((((((.(((...)))...))))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... ( -36.12)
>DroEre_CAF1 4592 120 + 1
UAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUACCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....((((((.(((...)))...))))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... ( -35.82)
>DroYak_CAF1 673 120 + 1
UAUUUGCCACUACCGAACCGGACUCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUACCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....(((((..(((...)))....)))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... ( -33.12)
>consensus
UAUUUGCCACGACCGAACCGGACCCGUGGCCAUGUUCUUAUUCGGGUUAUUUGGGUUUGGUUUGCGCAUUUGUGCGUAACGAAUAAAUUUACCCAUAUAAAUAAGGACAAUAAUCCCUUU
.....((((((.(((...)))...))))))..((((((((((.((((.......(((((...((((((....)))))).)))))......)))).....))))))))))........... (-34.68 = -34.84 +   0.16)

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 11:36:23 2006