Locus 6017

Sequence ID 3L_DroMel_CAF1
Location 16,054,655 – 16,054,815
Length 160
Max. P 0.995432
window9623 window9624 window9625

overview

Window 3

Location 16,054,655 – 16,054,775
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.75
Mean single sequence MFE -31.60
Consensus MFE -27.08
Energy contribution -28.20
Covariance contribution 1.12
Combinations/Pair 1.03
Mean z-score -2.38
Structure conservation index 0.86
SVM decision value 2.58
SVM RNA-class probability 0.995432
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16054655 120 + 23771897
CAUGUGGUGAACAACAUUCCUCUCGUAUUUACCAGACAGCAGCGGCUCAUAACCAAUUAUAUGCUGUUUGCCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAU
....(((((((..((.........)).)))))))(((...((((((..((((....))))..))))))((((((......)))))))))(((((((...........)))))))...... ( -28.90)
>DroSec_CAF1 4681 120 + 1
CAUGUGGUGAACCACAUUCCUAUCGUAUUUACCAGACAGCAGCGGCUCAUAACCAAUUAUGUGCUGUUUACCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAU
.((((((....)))))).................(((...((((((.(((((....))))).))))))((((((......)))))))))(((((((...........)))))))...... ( -36.00)
>DroSim_CAF1 3195 120 + 1
CAUGUGGUGAACCACAUUCCUUUCGUAUUUACCAGACAGCAGCGGCUCAUAACCAAUUAUGUGCUGUUUACCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAU
.((((((....)))))).................(((...((((((.(((((....))))).))))))((((((......)))))))))(((((((...........)))))))...... ( -36.00)
>DroEre_CAF1 3792 120 + 1
CAUGUGGUGAACAACAUUCGUAUUGUAUUUACCAGACAGCAGAGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGGAGUCGAACUAUUUUACACCAGUAUAGUGUAUCCAU
....(((((((..(((.......))).)))))))(((.((((((((.(((((....))))).))).)))))(((......)))...))).........(((((.......)))))..... ( -27.00)
>DroYak_CAF1 3712 120 + 1
CAUGUGGUGAACAACAUUCGUAUUGUAUUUACCAGACAGCAGAGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGGAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAU
..(.(((((((..(((.......))).))))))).)..((((((((.(((((....))))).))).)))))(((......)))(((...(((((((...........))))))).))).. ( -30.10)
>consensus
CAUGUGGUGAACAACAUUCCUAUCGUAUUUACCAGACAGCAGCGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAU
....(((((((..((.........)).)))))))(((...((((((.(((((....))))).))))))((((((......)))))))))(((((((...........)))))))...... (-27.08 = -28.20 +   1.12)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,054,695 – 16,054,815
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.50
Mean single sequence MFE -27.70
Consensus MFE -25.50
Energy contribution -26.06
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -1.46
Structure conservation index 0.92
SVM decision value 1.26
SVM RNA-class probability 0.937640
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16054695 120 + 23771897
AGCGGCUCAUAACCAAUUAUAUGCUGUUUGCCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAUUGACCGAUCAAUUGUUACGUUGUUCACAGUUAUGUCCCAU
...((..((((((((((....(((...(((((((......)))))))..)))......(((((.......)))))...))))...((.((((......)))).))...))))))..)).. ( -26.80)
>DroSec_CAF1 4721 120 + 1
AGCGGCUCAUAACCAAUUAUGUGCUGUUUACCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAUUGAUCGAUCAAUUGUUACGUUGUUCACAGUUAUGUCCCAU
...((..((((((.......((((...(((((((......)))))))..))))............(.((((((((.(.(((((....))))).).)))))))).)...))))))..)).. ( -29.90)
>DroSim_CAF1 3235 120 + 1
AGCGGCUCAUAACCAAUUAUGUGCUGUUUACCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAUUGACCGAUCAAUUGUUACGUUGUUCACAGUUAUGUCCCAU
...((..((((((((((...((((...(((((((......)))))))..)))).....(((((.......)))))...))))...((.((((......)))).))...))))))..)).. ( -29.90)
>DroEre_CAF1 3832 120 + 1
AGAGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGGAGUCGAACUAUUUUACACCAGUAUAGUGUAUCCAUUGACUGCUCAAUUGUUACGUUGUUCACAGUUAUGUCCCAC
...((..((((((......((.((.....))))((.(((..((((((((((.......(((((.......)))))....)))))).))))...)))))..........))))))..)).. ( -25.20)
>DroYak_CAF1 3752 120 + 1
AGAGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGGAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAUUGACUUCUCAAUUGUUACGUUGUUUACAGUUAUGUCCCAU
...((..((((((.......((((...((.((((......)))).))..))))............((((((((((.(.(((((....))))).).))))))))..)).))))))..)).. ( -26.70)
>consensus
AGCGGCUCAUAACCAAUUAUGUGCUGUUUGCCAGUUAACUCUGGUAGUCGCACUAUUUUACACCAGUAUAGUGUAUCCAUUGACCGAUCAAUUGUUACGUUGUUCACAGUUAUGUCCCAU
...((..((((((.......((((...(((((((......)))))))..))))............(.((((((((.(.(((((....))))).).)))))))).)...))))))..)).. (-25.50 = -26.06 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,054,695 – 16,054,815
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.50
Mean single sequence MFE -28.32
Consensus MFE -26.32
Energy contribution -26.36
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.29
Structure conservation index 0.93
SVM decision value 0.77
SVM RNA-class probability 0.845873
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16054695 120 - 23771897
AUGGGACAUAACUGUGAACAACGUAACAAUUGAUCGGUCAAUGGAUACACUAUACUGGUGUAAAAUAGUGCGACUACCAGAGUUAACUGGCAAACAGCAUAUAAUUGGUUAUGAGCCGCU
..((..((((((((....))......((((((.............((((((.....)))))).....((((.....((((......))))......)))).))))))))))))..))... ( -26.20)
>DroSec_CAF1 4721 120 - 1
AUGGGACAUAACUGUGAACAACGUAACAAUUGAUCGAUCAAUGGAUACACUAUACUGGUGUAAAAUAGUGCGACUACCAGAGUUAACUGGUAAACAGCACAUAAUUGGUUAUGAGCCGCU
..((..((((((((....))......((((((.............((((((.....)))))).....((((...((((((......))))))....)))).))))))))))))..))... ( -31.60)
>DroSim_CAF1 3235 120 - 1
AUGGGACAUAACUGUGAACAACGUAACAAUUGAUCGGUCAAUGGAUACACUAUACUGGUGUAAAAUAGUGCGACUACCAGAGUUAACUGGUAAACAGCACAUAAUUGGUUAUGAGCCGCU
..((..((((((((....))......((((((.............((((((.....)))))).....((((...((((((......))))))....)))).))))))))))))..))... ( -31.60)
>DroEre_CAF1 3832 120 - 1
GUGGGACAUAACUGUGAACAACGUAACAAUUGAGCAGUCAAUGGAUACACUAUACUGGUGUAAAAUAGUUCGACUCCCAGAGUUAACUGGCAAACAGCACAUAAUUGGUUAUGAGCCUCU
(.((..((((((((....))......((((((.(((((((((...((((((.....)))))).....))).)))).((((......))))......))...))))))))))))..)).). ( -25.60)
>DroYak_CAF1 3752 120 - 1
AUGGGACAUAACUGUAAACAACGUAACAAUUGAGAAGUCAAUGGAUACACUAUACUGGUGUAAAAUAGUGCGACUCCCAGAGUUAACUGGCAAACAGCACAUAAUUGGUUAUGAGCCUCU
..(((.((((((((....))......((((((.............((((((.....)))))).....((((.....((((......))))......)))).))))))))))))..))).. ( -26.60)
>consensus
AUGGGACAUAACUGUGAACAACGUAACAAUUGAUCGGUCAAUGGAUACACUAUACUGGUGUAAAAUAGUGCGACUACCAGAGUUAACUGGCAAACAGCACAUAAUUGGUUAUGAGCCGCU
..((..((((((((....))......((((((.............((((((.....)))))).....((((.....((((......))))......)))).))))))))))))..))... (-26.32 = -26.36 +   0.04)

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 12:06:54 2006