Locus 3261

Sequence ID 3L_DroMel_CAF1
Location 9,545,710 – 9,545,848
Length 138
Max. P 0.801602
window5068 window5069 window5070

overview

Window 8

Location 9,545,710 – 9,545,817
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 92.62
Mean single sequence MFE -22.04
Consensus MFE -18.22
Energy contribution -18.22
Covariance contribution 0.00
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.62
SVM RNA-class probability 0.801602
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9545710 107 + 23771897
CGUGUAAAGCAAAUGUUAAACAUGAAUGUGUGUAAGGGAAUAUGUGCAAGGGGUUACUGAAAUGUACUUUUCACAUUUCAUAAUUUAUUACUACACACUAAAAAUUC
.(((((..(((.(((((..((((......)))).....))))).)))...((((((.((((((((.......)))))))))))))).....)))))........... ( -21.30)
>DroSec_CAF1 54708 107 + 1
AGUGUAAAGCAAAUGUUAAACAUGAAAGUGUGUAAGUGAAUAUGUGCAUGGGGUUACUGAAAUGUACUUUUCACAUUUCAUAAUUUAUUACUACACAUUAAAAAUUC
.(((((..(((.(((((..((((....)))).......))))).)))...((((((.((((((((.......)))))))))))))).....)))))........... ( -23.00)
>DroSim_CAF1 56807 107 + 1
AGUGUAAAGCAAAUGUUAAACAUGAAAGUGUGUAAGUGAAUAUGUGCAUGGGGUUACUGAAAUGUACUUUUCACAUUUCAUAAUUUAUUACUACACAUUAAAAAUUC
.(((((..(((.(((((..((((....)))).......))))).)))...((((((.((((((((.......)))))))))))))).....)))))........... ( -23.00)
>DroEre_CAF1 55018 107 + 1
AGUGUAAAGCAAAUGUUGAACAUGAAAGUGUGUGUGUGAAUAUGUACAAGGGGUUACUGAAAUGCACUUUCCACAUUUCAUAAUUUAUUACUGUACAUUCAAAAUUC
((((((.((.((((..(((((((....))))(((((.(((..((((...((.....))....))))..)))))))).)))..))))....)).))))))........ ( -18.40)
>DroYak_CAF1 58166 107 + 1
AGUGUAAAGCAUAUGUUAAACAUGCAGGUGUGUAAGUGAAUAUGUGCAAGGGGUUAGUGAAAUGUUCUUUUCACAUUUCAUAAUUUAUUACUAUACAUUAAAAAUUC
((((((..(((((((((..((.((((....)))).)).)))))))))...((((((.((((((((.......)))))))))))))).......))))))........ ( -24.50)
>consensus
AGUGUAAAGCAAAUGUUAAACAUGAAAGUGUGUAAGUGAAUAUGUGCAAGGGGUUACUGAAAUGUACUUUUCACAUUUCAUAAUUUAUUACUACACAUUAAAAAUUC
.(((((..(((.(((((..((((......)))).....))))).)))...((((((.((((((((.......)))))))))))))).....)))))........... (-18.22 = -18.22 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,545,710 – 9,545,817
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 92.62
Mean single sequence MFE -16.89
Consensus MFE -13.99
Energy contribution -13.67
Covariance contribution -0.32
Combinations/Pair 1.20
Mean z-score -1.31
Structure conservation index 0.83
SVM decision value 0.04
SVM RNA-class probability 0.553011
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9545710 107 - 23771897
GAAUUUUUAGUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCUUGCACAUAUUCCCUUACACACAUUCAUGUUUAACAUUUGCUUUACACG
.........((((((((..........(((((((((.....)))))))))((((....))))..........))))))))........................... ( -19.10)
>DroSec_CAF1 54708 107 - 1
GAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCAUGCACAUAUUCACUUACACACUUUCAUGUUUAACAUUUGCUUUACACU
((((.....(((((((...........(((((((((.....))))))))).........)))))))))))..................................... ( -16.05)
>DroSim_CAF1 56807 107 - 1
GAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCAUGCACAUAUUCACUUACACACUUUCAUGUUUAACAUUUGCUUUACACU
((((.....(((((((...........(((((((((.....))))))))).........)))))))))))..................................... ( -16.05)
>DroEre_CAF1 55018 107 - 1
GAAUUUUGAAUGUACAGUAAUAAAUUAUGAAAUGUGGAAAGUGCAUUUCAGUAACCCCUUGUACAUAUUCACACACACACUUUCAUGUUCAACAUUUGCUUUACACU
..........((((.(((((.....((((((((((((((.(((((..............)))))...))).)))).....)))))))........))))).)))).. ( -17.66)
>DroYak_CAF1 58166 107 - 1
GAAUUUUUAAUGUAUAGUAAUAAAUUAUGAAAUGUGAAAAGAACAUUUCACUAACCCCUUGCACAUAUUCACUUACACACCUGCAUGUUUAACAUAUGCUUUACACU
..........((((..((((....(((((((((((.......)))))))).)))....))))....................((((((.....))))))..)))).. ( -15.60)
>consensus
GAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCUUGCACAUAUUCACUUACACACUUUCAUGUUUAACAUUUGCUUUACACU
((((.....(((((((...........(((((((((.....))))))))).........)))))))))))..................................... (-13.99 = -13.67 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,545,739 – 9,545,848
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 89.82
Mean single sequence MFE -24.03
Consensus MFE -17.47
Energy contribution -17.07
Covariance contribution -0.40
Combinations/Pair 1.23
Mean z-score -1.75
Structure conservation index 0.73
SVM decision value 0.08
SVM RNA-class probability 0.575914
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9545739 109 - 23771897
AGCUUUCGGUGCUAACACCUCGUUGUGAGUGGAAUUUUUAGUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCUUGCACAUAUUCCCUUACAC
.......((((....))))....((((((.(((((.....((((((((..........(((((((((.....)))))))))........))))))))))))))))))). ( -30.57)
>DroSec_CAF1 54737 109 - 1
AGCUUUCGCUGCUAACACCUCUUUGUGGGUGGAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCAUGCACAUAUUCACUUACAC
(((.......)))..........((((((((((.......(((((((...........(((((((((.....))))))))).........))))))).)))))))))). ( -25.25)
>DroSim_CAF1 56836 102 - 1
AGCUUUCG-------CACCUCGUUGUGGGUGGAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCAUGCACAUAUUCACUUACAC
.((....)-------).......((((((((((.......(((((((...........(((((((((.....))))))))).........))))))).)))))))))). ( -24.55)
>DroEre_CAF1 55047 109 - 1
AGCUUUCGUAACUAACACCUCGUUGUGGGCGGAAUUUUGAAUGUACAGUAAUAAAUUAUGAAAUGUGGAAAGUGCAUUUCAGUAACCCCUUGUACAUAUUCACACACAC
...((((((...((((.....))))...))))))...(((((((((((..........((((((((.......))))))))........))))))))..)))....... ( -21.37)
>DroYak_CAF1 58195 109 - 1
AGCUUUCGCAACUAACACCUCGUUGUGGGCGGAAUUUUUAAUGUAUAGUAAUAAAUUAUGAAAUGUGAAAAGAACAUUUCACUAACCCCUUGCACAUAUUCACUUACAC
.((...((((((.........))))))((.((......((((.(((....))).))))((((((((.......))))))))....))))..))................ ( -18.40)
>consensus
AGCUUUCGCAACUAACACCUCGUUGUGGGUGGAAUUUUUAAUGUGUAGUAAUAAAUUAUGAAAUGUGAAAAGUACAUUUCAGUAACCCCUUGCACAUAUUCACUUACAC
.......................((((((..((((.....(((((((...........(((((((((.....))))))))).........))))))))))).)))))). (-17.47 = -17.07 +  -0.40)

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 10:53:16 2006