Locus 5203

Sequence ID 2R_DroMel_CAF1
Location 16,924,560 – 16,924,656
Length 96
Max. P 0.972678
window8315 window8316

overview

Window 5

Location 16,924,560 – 16,924,656
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 91.60
Mean single sequence MFE -23.51
Consensus MFE -19.48
Energy contribution -19.37
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -2.37
Structure conservation index 0.83
SVM decision value 0.83
SVM RNA-class probability 0.861710
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16924560 96 + 20766785
AGAGACGUAGAUUAU-----GAAGGAGCGAGCCAAAGUGCUCGCUCGUGCCAAAAUAACGAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.(((((........(-----((((((((((((......))))))))((.........))..........))))).......)))))............... ( -24.56)
>DroSec_CAF1 22157 96 + 1
AGAGACGUAGAUUAC-----GAAGGAGCGAGCCAAUGUGCUCGCUCGUGCCAAAAUAACCAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.((((((((...)))-----((((((((((((......))))))))((..................)).))))........)))))............... ( -23.37)
>DroSim_CAF1 22213 96 + 1
AGAGACGUAGAUUAC-----GAAGGAGCGAGCCAAUGUGCUCGCUCGUGCCAAAAUAACCAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.((((((((...)))-----((((((((((((......))))))))((..................)).))))........)))))............... ( -23.37)
>DroEre_CAF1 22561 96 + 1
AGAGACGUAGAUUAU-----GAAGGAGCGAGCCAAUGUGCUCGCUCGUGCCAAAAUAACCAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.(((((........(-----((((((((((((......))))))))((..................)).))))).......)))))............... ( -23.83)
>DroYak_CAF1 22921 96 + 1
AGAGACGUAGAUUAU-----GAAGGAGCGAGCCACAGUGCUCGCUCGUGCCAAAAUAACCAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.(((((........(-----((((((((((((......))))))))((..................)).))))).......)))))............... ( -23.83)
>DroAna_CAF1 24125 100 + 1
AGAAACGUAGAUAUUCAGGAGGAGGAGCGAGCCAGGACGCCCGCUCGAGCCAAAA-AAUCAACCGACCACUUCACCAGAAUGUUUUAAACUGACACCAAAA
........((((((((.((.(((((((((.((......)).)))))((.......-..)).........)))).)).))))))))................ ( -22.10)
>consensus
AGAGACGUAGAUUAU_____GAAGGAGCGAGCCAAUGUGCUCGCUCGUGCCAAAAUAACCAACCGAACACUUCACCAGAAAGUUUCAAACUGACACCAAAA
.(((((..................((((((((......))))))))........................(((....))).)))))............... (-19.48 = -19.37 +  -0.11)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,924,560 – 16,924,656
Length 96
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 91.60
Mean single sequence MFE -28.55
Consensus MFE -25.94
Energy contribution -26.47
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.91
SVM decision value 1.70
SVM RNA-class probability 0.972678
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16924560 96 - 20766785
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUCGUUAUUUUGGCACGAGCGAGCACUUUGGCUCGCUCCUUC-----AUAAUCUACGUCUCU
.....(((((((..(((......((((........))))....)))..)))))))((((((((......))))))))....-----............... ( -27.80)
>DroSec_CAF1 22157 96 - 1
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUGGUUAUUUUGGCACGAGCGAGCACAUUGGCUCGCUCCUUC-----GUAAUCUACGUCUCU
.....(((((((.....((((..((((........))))..))))...)))))))((((((((......))))))))...(-----(((...))))..... ( -29.80)
>DroSim_CAF1 22213 96 - 1
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUGGUUAUUUUGGCACGAGCGAGCACAUUGGCUCGCUCCUUC-----GUAAUCUACGUCUCU
.....(((((((.....((((..((((........))))..))))...)))))))((((((((......))))))))...(-----(((...))))..... ( -29.80)
>DroEre_CAF1 22561 96 - 1
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUGGUUAUUUUGGCACGAGCGAGCACAUUGGCUCGCUCCUUC-----AUAAUCUACGUCUCU
.....(((((((.....((((..((((........))))..))))...)))))))((((((((......))))))))....-----............... ( -29.40)
>DroYak_CAF1 22921 96 - 1
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUGGUUAUUUUGGCACGAGCGAGCACUGUGGCUCGCUCCUUC-----AUAAUCUACGUCUCU
.....(((((((.....((((..((((........))))..))))...)))))))((((((((......))))))))....-----............... ( -29.40)
>DroAna_CAF1 24125 100 - 1
UUUUGGUGUCAGUUUAAAACAUUCUGGUGAAGUGGUCGGUUGAUU-UUUUGGCUCGAGCGGGCGUCCUGGCUCGCUCCUCCUCCUGAAUAUCUACGUUUCU
....((((((((.............(((.(((..(((....))).-.))).))).((((((((......))))))))......))).)))))......... ( -25.10)
>consensus
UUUUGGUGUCAGUUUGAAACUUUCUGGUGAAGUGUUCGGUUGGUUAUUUUGGCACGAGCGAGCACAUUGGCUCGCUCCUUC_____AUAAUCUACGUCUCU
.....(((((((.....((((..((((........))))..))))...)))))))((((((((......))))))))........................ (-25.94 = -26.47 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:04 2006