Locus 5214

Sequence ID 2L_DroMel_CAF1
Location 14,742,071 – 14,742,209
Length 138
Max. P 0.991745
window8300 window8301 window8302

overview

Window 0

Location 14,742,071 – 14,742,181
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.26
Mean single sequence MFE -26.32
Consensus MFE -22.67
Energy contribution -22.83
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.50
Structure conservation index 0.86
SVM decision value 1.37
SVM RNA-class probability 0.947343
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14742071 110 + 22407834
-------UGGAGGA--CGU-UGUAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCGAGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
-------....(.(--(((-(((....))))))).).(((((((.((((....))))....)))))))((((......)))).((((((((((.((........))...)))))))))). ( -29.00)
>DroVir_CAF1 14883 91 + 1
-------------------------GAGCAAUGUGCAGCCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAG
-------------------------..((((.((.((....(((.((((....)))))))....))))))))....----...((((((((((.((........))...)))))))))). ( -20.70)
>DroPse_CAF1 20018 108 + 1
-------UGAAGGAGCAGC-AGCAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
-------.......((.((-((((.(.....).)))((((((((.((((....))))....)))))))))))..))----...((((((((((.((........))...)))))))))). ( -26.60)
>DroEre_CAF1 6487 110 + 1
-------UGGAGGA--CGA-UGUAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCGAGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
-------....(.(--((.-(((....))).))).).(((((((.((((....))))....)))))))((((......)))).((((((((((.((........))...)))))))))). ( -25.00)
>DroAna_CAF1 27564 118 + 1
AGUGGCCGGGAAGA--UGUAAGUAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCAGGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
.((.(((.......--(((........)))...(((((((((((.((((....))))....))))))).)))))))..))...((((((((((.((........))...)))))))))). ( -30.00)
>DroPer_CAF1 19860 108 + 1
-------UGAAGGAGCAGC-AGCAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
-------.......((.((-((((.(.....).)))((((((((.((((....))))....)))))))))))..))----...((((((((((.((........))...)))))))))). ( -26.60)
>consensus
_______UGGAGGA__AGC_AGUAGAAACAAUGUGCAGUCAUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC____GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAA
...............................(.(((((((((((.((((....))))....))))))).)))).)........((((((((((.((........))...)))))))))). (-22.67 = -22.83 +   0.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,742,071 – 14,742,181
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.26
Mean single sequence MFE -22.98
Consensus MFE -21.42
Energy contribution -21.28
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -2.45
Structure conservation index 0.93
SVM decision value 2.29
SVM RNA-class probability 0.991745
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14742071 110 - 22407834
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUCGCUCGCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUACA-ACG--UCCUCCA-------
.((((((((((...((........)).))))))))))...........(((.((((((....(((.(....).))).)))))))))((.((((....)))-).)--)......------- ( -22.30)
>DroVir_CAF1 14883 91 - 1
CUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUC----GCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGGCUGCACAUUGCUC-------------------------
.((((((((((...((........)).))))))))))...----((.((((.((((((....(((.(....).))).))))))))))....))..------------------------- ( -21.50)
>DroPse_CAF1 20018 108 - 1
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUC----GCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUGCU-GCUGCUCCUUCA-------
.((((((((((...((........)).))))))))))...----((..((((((((((....(((.(....).))).)))))))(((.........))))-)).)).......------- ( -23.40)
>DroEre_CAF1 6487 110 - 1
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUCGCUCGCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUACA-UCG--UCCUCCA-------
.((((((((((...((........)).))))))))))..........((((.((((((....(((.(....).))).)))))))))).............-...--.......------- ( -21.40)
>DroAna_CAF1 27564 118 - 1
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUCGCCUGCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUACUUACA--UCUUCCCGGCCACU
.((((((((((...((........)).))))))))))...(((....((((.((((((....(((.(....).))).))))))))))...(((........)))--.......))).... ( -25.90)
>DroPer_CAF1 19860 108 - 1
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUC----GCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUGCU-GCUGCUCCUUCA-------
.((((((((((...((........)).))))))))))...----((..((((((((((....(((.(....).))).)))))))(((.........))))-)).)).......------- ( -23.40)
>consensus
UUGCAAUUUAUUUUUGUUGCUUAUCAUAUAAAUUGCACUC____GCCUGCAAGUCAUUAUUUGGCACAUUUGCGCUCAAUGACUGCACAUUGUUUCUACU_ACG__UCCUCCA_______
.((((((((((...((........)).))))))))))..........((((.((((((....(((.(....).))).))))))))))................................. (-21.42 = -21.28 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,742,101 – 14,742,209
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.99
Mean single sequence MFE -22.89
Consensus MFE -20.22
Energy contribution -20.08
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.85
Structure conservation index 0.88
SVM decision value 0.97
SVM RNA-class probability 0.892565
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14742101 108 + 22407834
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCGAGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUCAUUUUACUUAAAUGCAGUGCA------------
.(((.((((....)))))))......((((((......))))))(((((((((.((........))...)))))))))..(((...(((((.....)))))...))).------------ ( -26.60)
>DroVir_CAF1 14898 102 + 1
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAGGCAAUUCAUUUUACUUAAAUGCAGCA--------------
.(((((...(((((((((........(((((....)----))))(((((((((.((........))...))))))))).))))...)))))..)))))........-------------- ( -21.60)
>DroPse_CAF1 20050 116 + 1
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUCAUUUUACUUAAACGCAGUGCCCACCACCCAAAA
..((.((((...((((......(((((.((((....----...((((((((((.((........))...)))))))))).)))).))))).........)))))))).)).......... ( -20.76)
>DroSec_CAF1 6628 108 + 1
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCGAGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUUAUUUUACUUAAAUGCAGUGCA------------
.....((((...(((((((.((((((((((((......)))))).))..)))).))....)).)))(((((((((((....)))))))))))...........)))).------------ ( -24.90)
>DroAna_CAF1 27602 108 + 1
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGCAGGCGAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUCAUUUUACUUAAGUGCAGUUCA------------
.(((.((((....)))))))......((((((......))))))(((((((((.((........))...)))))))))..(.(((((((((.....))))).))))).------------ ( -22.70)
>DroPer_CAF1 19892 116 + 1
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC----GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUCAUUUUACUUAAACGCAGUGCCCACCACCCAAAA
..((.((((...((((......(((((.((((....----...((((((((((.((........))...)))))))))).)))).))))).........)))))))).)).......... ( -20.76)
>consensus
AUUGAGCGCAAAUGUGCCAAAUAAUGACUUGCAGGC____GAGUGCAAUUUAUAUGAUAAGCAACAAAAAUAAAUUGCAAGCAAUUCAUUUUACUUAAAUGCAGUGCA____________
.(((.((((....)))))))..(((((.((((..((......))(((((((((.((........))...)))))))))..)))).))))).............................. (-20.22 = -20.08 +  -0.14)

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 11:38:50 2006