Locus 6406

Sequence ID X_DroMel_CAF1
Location 16,065,745 – 16,065,859
Length 114
Max. P 0.999954
window10462 window10463

overview

Window 2

Location 16,065,745 – 16,065,859
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.19
Mean single sequence MFE -36.24
Consensus MFE -33.76
Energy contribution -34.08
Covariance contribution 0.32
Combinations/Pair 1.03
Mean z-score -2.10
Structure conservation index 0.93
SVM decision value 3.37
SVM RNA-class probability 0.999089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16065745 114 + 22224390
ACUCGACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCACGGAUCCCCAGACCGCAAGUUAAACGAA------
..(((....((((((((((..(((((.....)))))..........((((((((.....)))).))))(((((.........))))).)))))))))).(....).....))).------ ( -39.00)
>DroSec_CAF1 11531 114 + 1
ACUCGACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCAGGGAUCCCCAGACCGCAAGUUUAACGAG------
.((((....((((((((((..(((((.....)))))..........((((((((.....)))).)))).((((.........))))..)))))))))).(....).....))))------ ( -37.60)
>DroSim_CAF1 9423 114 + 1
ACUCGACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCAGGGAUCCCCAGACCGCAAGUUCAACGAA------
..(((....((((((((((..(((((.....)))))..........((((((((.....)))).)))).((((.........))))..)))))))))).(....).....))).------ ( -35.40)
>DroEre_CAF1 11753 120 + 1
ACUCUACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCAUGGAUCCCCAGACCGCAAGUUCGACGAAAUUUCA
.........((((((((((..(((((.....)))))..........((((((((.....)))).))))(((((.........))))).)))))))))).(....)............... ( -34.60)
>DroYak_CAF1 7873 114 + 1
ACUCUACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCAUGGAUCCCCAGACCGCAAGUUUGACGAA------
.........((((((((((..(((((.....)))))..........((((((((.....)))).))))(((((.........))))).)))))))))).(....).........------ ( -34.60)
>consensus
ACUCGACUAUCUGGGGAUUAUUUGUGUGGUUUACAGUUUUUAAUUAUGCACCGCGACAUGCGGAUGCAGUGGUAUUAUAAUGGCCAGGGAUCCCCAGACCGCAAGUUCAACGAA______
.........((((((((((..(((((.....)))))..........((((((((.....)))).))))(((((.........))))).)))))))))).(....)............... (-33.76 = -34.08 +   0.32)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,065,745 – 16,065,859
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.19
Mean single sequence MFE -33.32
Consensus MFE -31.58
Energy contribution -31.98
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.73
Structure conservation index 0.95
SVM decision value 4.82
SVM RNA-class probability 0.999954
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16065745 114 - 22224390
------UUCGUUUAACUUGCGGUCUGGGGAUCCGUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUCGAGU
------........((((((.((((((((((..((((...........))))((((.((((.....))))))))............................)))))))))).).))))) ( -36.80)
>DroSec_CAF1 11531 114 - 1
------CUCGUUAAACUUGCGGUCUGGGGAUCCCUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUCGAGU
------........((((((.((((((((((...(((...........))).((((.((((.....))))))))............................)))))))))).).))))) ( -33.20)
>DroSim_CAF1 9423 114 - 1
------UUCGUUGAACUUGCGGUCUGGGGAUCCCUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUCGAGU
------........((((((.((((((((((...(((...........))).((((.((((.....))))))))............................)))))))))).).))))) ( -33.20)
>DroEre_CAF1 11753 120 - 1
UGAAAUUUCGUCGAACUUGCGGUCUGGGGAUCCAUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUAGAGU
..............((((((.((((((((((...(((...........))).((((.((((.....))))))))............................)))))))))).))).))) ( -31.70)
>DroYak_CAF1 7873 114 - 1
------UUCGUCAAACUUGCGGUCUGGGGAUCCAUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUAGAGU
------........((((((.((((((((((...(((...........))).((((.((((.....))))))))............................)))))))))).))).))) ( -31.70)
>consensus
______UUCGUUAAACUUGCGGUCUGGGGAUCCAUGGCCAUUAUAAUACCACUGCAUCCGCAUGUCGCGGUGCAUAAUUAAAAACUGUAAACCACACAAAUAAUCCCCAGAUAGUCGAGU
..............(((((..((((((((((...(((...........))).((((.((((.....))))))))............................))))))))))...))))) (-31.58 = -31.98 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:00 2006