Locus 6036

Sequence ID 2L_DroMel_CAF1
Location 17,002,410 – 17,002,524
Length 114
Max. P 0.715040
window9582 window9583

overview

Window 2

Location 17,002,410 – 17,002,524
Length 114
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -21.72
Consensus MFE -16.60
Energy contribution -16.85
Covariance contribution 0.25
Combinations/Pair 1.03
Mean z-score -2.06
Structure conservation index 0.76
SVM decision value 0.39
SVM RNA-class probability 0.715040
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17002410 114 + 22407834
CUUUGGCAAUUAAUUGUUUAAUUUCGUUAUUUAAAAUUAAUGAUAUGUUUUUCAUAUGUCAUUGCACAUUUGUGCACUUAUUUUAUAUAAAUACAUGCCCGGUAUAUAUCCGUU
....(((((((((....)))))....((((.((((((.((((((((((.....))))))))))((((....))))....)))))).)))).....))))(((.......))).. ( -22.90)
>DroSim_CAF1 111517 114 + 1
CUUUGGCAAUUAAUUGUUUAAUUUGGUUAUUUAAAAUUAAUGAUAUGUUUUUCAUAUGUCAUUGCACAUUUGUGCACUUAUUUUAUAUAAAUACAUGCCCGGUAUAUAUCCGUU
....(((((((((....))))).((.((((.((((((.((((((((((.....))))))))))((((....))))....)))))).))))...))))))(((.......))).. ( -23.60)
>DroEre_CAF1 112131 114 + 1
CUUUGGCAAUUAAUUGUUUAAUUUGGUUAUUUAAAAUUAAUGAUAUGUUUUUCAUAUGUCAUUGCACAUUCGUGCACUUAUUUUAUAUAAAUACAUGUCCGGUAUAUAUCCGUU
....(((((((((....))))).((.((((.((((((.((((((((((.....))))))))))((((....))))....)))))).))))...))))))(((.......))).. ( -20.60)
>DroAna_CAF1 101182 112 + 1
CUUUGGCAAUUAAUUGUUUAAUUUUGUUAUUUAAAAUUAAUGAUAUGUUUUUCAUAUGUCAUUGCACAUCUGUACGUGUAUUUUAUAUAAAUUCGCAUCAGGUACA--UGCGUU
.....((((........(((((((((.....)))))))))((((((((.....))))))))))))..(((((...(((.((((.....)))).)))..)))))...--...... ( -19.80)
>consensus
CUUUGGCAAUUAAUUGUUUAAUUUGGUUAUUUAAAAUUAAUGAUAUGUUUUUCAUAUGUCAUUGCACAUUUGUGCACUUAUUUUAUAUAAAUACAUGCCCGGUAUAUAUCCGUU
....(((((((((....))))))...((((.((((((.((((((((((.....))))))))))((((....))))....)))))).))))......)))............... (-16.60 = -16.85 +   0.25)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,002,410 – 17,002,524
Length 114
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 92.11
Mean single sequence MFE -18.05
Consensus MFE -13.00
Energy contribution -13.12
Covariance contribution 0.12
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.72
SVM decision value 0.02
SVM RNA-class probability 0.541457
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17002410 114 - 22407834
AACGGAUAUAUACCGGGCAUGUAUUUAUAUAAAAUAAGUGCACAAAUGUGCAAUGACAUAUGAAAAACAUAUCAUUAAUUUUAAAUAACGAAAUUAAACAAUUAAUUGCCAAAG
..(((.......)))(((((((.(((((((........(((((....))))).....)))))))..))))....((((((((.......))))))))..........))).... ( -20.62)
>DroSim_CAF1 111517 114 - 1
AACGGAUAUAUACCGGGCAUGUAUUUAUAUAAAAUAAGUGCACAAAUGUGCAAUGACAUAUGAAAAACAUAUCAUUAAUUUUAAAUAACCAAAUUAAACAAUUAAUUGCCAAAG
..(((.......)))(((......((((.((((((....((((....))))(((((..((((.....))))))))).)))))).))))...((((((....))))))))).... ( -20.10)
>DroEre_CAF1 112131 114 - 1
AACGGAUAUAUACCGGACAUGUAUUUAUAUAAAAUAAGUGCACGAAUGUGCAAUGACAUAUGAAAAACAUAUCAUUAAUUUUAAAUAACCAAAUUAAACAAUUAAUUGCCAAAG
..(((.......)))..(.(((((((((.....))))))))).)..((.(((((...(((((.....)))))..(((((((.........))))))).......)))))))... ( -15.90)
>DroAna_CAF1 101182 112 - 1
AACGCA--UGUACCUGAUGCGAAUUUAUAUAAAAUACACGUACAGAUGUGCAAUGACAUAUGAAAAACAUAUCAUUAAUUUUAAAUAACAAAAUUAAACAAUUAAUUGCCAAAG
..((((--(.......)))))...((((.((((((....((((....))))(((((..((((.....))))))))).)))))).))))...((((((....))))))....... ( -15.60)
>consensus
AACGGAUAUAUACCGGACAUGUAUUUAUAUAAAAUAAGUGCACAAAUGUGCAAUGACAUAUGAAAAACAUAUCAUUAAUUUUAAAUAACCAAAUUAAACAAUUAAUUGCCAAAG
...............(((......((((.((((((....((((....))))(((((..((((.....))))))))).)))))).))))...((((((....))))))))).... (-13.00 = -13.12 +   0.12)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:22 2006