Locus 493

Sequence ID 3R_DroMel_CAF1
Location 1,866,717 – 1,866,823
Length 106
Max. P 0.667882
window795 window796

overview

Window 5

Location 1,866,717 – 1,866,823
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 79.75
Mean single sequence MFE -27.47
Consensus MFE -16.26
Energy contribution -18.32
Covariance contribution 2.06
Combinations/Pair 1.04
Mean z-score -1.67
Structure conservation index 0.59
SVM decision value 0.11
SVM RNA-class probability 0.590350
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1866717 106 + 27905053
ACACUAGUCAAUACAGACUGGUUACCUAAGUGGGUUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAGAGCACACAGCCCGCUGGAAGCGCCCUCAAUGAUAU
..(((((((......)))))))..((..(((.((((((((...)))))))).......(((((..(((....)))...)))))))))).................. ( -27.70)
>DroSec_CAF1 24845 106 + 1
ACACUAGUCAAUACAGACUGGUUACCUAAGUGGGUUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAGAGCACACAGCCCGCGGGGAACGCCCACGGUGAAAU
...((((((......))))))(((((...((((((...(((((......((((.....(((((..(((....)))...)))))))))))))))))))))))))... ( -35.30)
>DroSim_CAF1 25370 106 + 1
ACACUAGUCAAUACAGACUGGUUACCUAAGUGGGUUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAGAGCACACAGCCCGCUGGGAACGCCCUCGGUGAUAU
...((((((......))))))(((((..(((.((((((((...)))))))).......(((((..(((....)))...))))))))(((....)))..)))))... ( -34.10)
>DroEre_CAF1 25184 106 + 1
ACACUAGUCAAUACAGACAUGUUCCCUAAGUGGGCUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAGAGCACACAGCCCGCUGGAAACGCCCUGGGCAACAU
......(((......)))((((((((.....((((.......................(((((..(((....)))...)))))...(....))))).))).))))) ( -31.20)
>DroYak_CAF1 24652 85 + 1
ACACUAGUCAAUACAGACAGGCUACCUAAACGAGUUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAUAGCACUCAGGC---------------------GAU
...((.(((......)))))((......((((.(((((((...)))))))))))..(((((....(((....))))))))))---------------------... ( -18.10)
>DroAna_CAF1 16560 93 + 1
ACACGAGUCAAUAUGGACUAGUUGCCAAACUGGGUUAAGUUUUAUUUAACUGUCAAGCGGGCUAAUGCAAGAGCACACAAGCCU-AGGAAAUGC------------
..((.((((......)))).)).......(((((((.((((......)))).....((..((....))....)).....)))))-)).......------------ ( -18.40)
>consensus
ACACUAGUCAAUACAGACUGGUUACCUAAGUGGGUUAAGUUUUAUUUAACCGUUAACUGGGCUAAUGCAAGAGCACACAGCCCGCUGGAAACGCCCUCGGUGAUAU
..(((((((......)))))))..((......((((((((...)))))))).......(((((..(((....)))...)))))...)).................. (-16.26 = -18.32 +   2.06) 

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 6

Location 1,866,717 – 1,866,823
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 79.75
Mean single sequence MFE -27.95
Consensus MFE -18.29
Energy contribution -18.77
Covariance contribution 0.48
Combinations/Pair 1.18
Mean z-score -1.50
Structure conservation index 0.65
SVM decision value 0.28
SVM RNA-class probability 0.667882
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1866717 106 - 27905053
AUAUCAUUGAGGGCGCUUCCAGCGGGCUGUGUGCUCUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAACCCACUUAGGUAACCAGUCUGUAUUGACUAGUGU
.((((..(((((((((.....))((((((.((((....)))))))))).)))...((((((.......))))))..))))))))((.((((......)))).)).. ( -29.80)
>DroSec_CAF1 24845 106 - 1
AUUUCACCGUGGGCGUUCCCCGCGGGCUGUGUGCUCUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAACCCACUUAGGUAACCAGUCUGUAUUGACUAGUGU
.....((((((((.....)))))((((((.((((....)))))))))).......((((((.......))))))......))).((.((((......)))).)).. ( -34.80)
>DroSim_CAF1 25370 106 - 1
AUAUCACCGAGGGCGUUCCCAGCGGGCUGUGUGCUCUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAACCCACUUAGGUAACCAGUCUGUAUUGACUAGUGU
.....(((..(((....)))(((((((((.((((....)))))))))).)))...((((((.......))))))......))).((.((((......)))).)).. ( -30.80)
>DroEre_CAF1 25184 106 - 1
AUGUUGCCCAGGGCGUUUCCAGCGGGCUGUGUGCUCUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAGCCCACUUAGGGAACAUGUCUGUAUUGACUAGUGU
(((((.(((.(((((((...(((((((((.((((....)))))))))).))))))((((......))))..)))).....))))))))(((......)))...... ( -33.30)
>DroYak_CAF1 24652 85 - 1
AUC---------------------GCCUGAGUGCUAUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAACUCGUUUAGGUAGCCUGUCUGUAUUGACUAGUGU
...---------------------((((((((((....))))).........(((((((((.......))))).))))))))).((..(((......)))..)).. ( -18.40)
>DroAna_CAF1 16560 93 - 1
------------GCAUUUCCU-AGGCUUGUGUGCUCUUGCAUUAGCCCGCUUGACAGUUAAAUAAAACUUAACCCAGUUUGGCAACUAGUCCAUAUUGACUCGUGU
------------.........-.((((...((((....)))).)))).(((.(((.(((((.......)))))...))).))).((.((((......)))).)).. ( -20.60)
>consensus
AUAUCACCGAGGGCGUUUCCAGCGGGCUGUGUGCUCUUGCAUUAGCCCAGUUAACGGUUAAAUAAAACUUAACCCACUUAGGUAACCAGUCUGUAUUGACUAGUGU
.......................((((((.((((....)))))))))).......((((((.......))))))..........((.((((......)))).)).. (-18.29 = -18.77 +   0.48) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:32 2006