Locus 979

Sequence ID 3L_DroMel_CAF1
Location 2,924,562 – 2,924,722
Length 160
Max. P 0.999916
window1508 window1509 window1510 window1511

overview

Window 8

Location 2,924,562 – 2,924,682
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.06
Mean single sequence MFE -43.77
Consensus MFE -41.67
Energy contribution -41.53
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -2.61
Structure conservation index 0.95
SVM decision value 4.37
SVM RNA-class probability 0.999884
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2924562 120 + 23771897
UUGUUUCGUUAUUUCUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGUCGGGUGGUGCAGGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((...((((.(((....)))...)))).)).((((.(((((((((((((((((.....(((((((.((....))))))))))))))))))).))........))))).)))). ( -42.60)
>DroVir_CAF1 204802 120 + 1
UUGUUUCGUUAUUUUUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((.((((((((((....).))))))))))).((((.((((((..(((((...(((.(((((.((((.(..........).))))))))).))).)))))..)))))).)))). ( -44.50)
>DroGri_CAF1 185029 120 + 1
UUGUUUCGUUAUUUUUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((.((((((((((....).))))))))))).((((.((((((..(((((...(((.(((((.((((.(..........).))))))))).))).)))))..)))))).)))). ( -44.50)
>DroWil_CAF1 153883 120 + 1
UUGUUUCGCUAUUUCUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((.(((..(((((....).))))..))))).((((.((((((..(((((...(((.(((((.((((.(..........).))))))))).))).)))))..)))))).)))). ( -43.90)
>DroMoj_CAF1 199013 120 + 1
UUGUUUCGUUAUUUUUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((.((((((((((....).))))))))))).((((.((((((..(((((...(((.(((((.((((.(..........).))))))))).))).)))))..)))))).)))). ( -44.50)
>DroAna_CAF1 147744 120 + 1
UUGUCUCGUUAUUUCUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGUCGGGUGGUGCAGGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((...((((.(((....)))...)))).)).((((.(((((((((((((((((.....(((((((.((....))))))))))))))))))).))........))))).)))). ( -42.60)
>consensus
UUGUUUCGUUAUUUCUAUUGGAAACGAAUAAGAAUGCAACGGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUC
.......((.((((.(((((....).)))).)))))).((((.(((((((((((((((((.....(((((((.........))))))))))))))))).))........))))).)))). (-41.67 = -41.53 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,924,562 – 2,924,682
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.06
Mean single sequence MFE -39.85
Consensus MFE -38.36
Energy contribution -38.42
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -2.46
Structure conservation index 0.96
SVM decision value 4.37
SVM RNA-class probability 0.999883
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2924562 120 - 23771897
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACCUGCACCACCCGACGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAGAAAUAACGAAACAA
((((((((((.((.(((((..(((((...(((.....))).....))))).......(.....)))))).)).))))))))))............(((((...((....))..))))).. ( -38.00)
>DroVir_CAF1 204802 120 - 1
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAAAAAUAACGAAACAA
((((((((((........(((.((((((((((.....))).......(((.((....)).))))))))))))))))))))))).........((((((............)))))).... ( -40.20)
>DroGri_CAF1 185029 120 - 1
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAAAAAUAACGAAACAA
((((((((((........(((.((((((((((.....))).......(((.((....)).))))))))))))))))))))))).........((((((............)))))).... ( -40.20)
>DroWil_CAF1 153883 120 - 1
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAGAAAUAGCGAAACAA
((((((((((........(((.((((((((((.((.(((((.....))))).))....)))))..))))))))))))))))))............(((((...((....))..))))).. ( -42.40)
>DroMoj_CAF1 199013 120 - 1
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAAAAAUAACGAAACAA
((((((((((........(((.((((((((((.....))).......(((.((....)).))))))))))))))))))))))).........((((((............)))))).... ( -40.20)
>DroAna_CAF1 147744 120 - 1
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACCUGCACCACCCGACGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAGAAAUAACGAGACAA
((((((((((.((.(((((..(((((...(((.....))).....))))).......(.....)))))).)).))))))))))............(((((...((....))..))))).. ( -38.10)
>consensus
GACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCCGUUGCAUUCUUAUUCGUUUCCAAUAAAAAUAACGAAACAA
((((((((((........(((.((((((((((.....))).......(((.((....)).))))))))))))))))))))))).........((((((............)))))).... (-38.36 = -38.42 +   0.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,924,602 – 2,924,722
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.83
Mean single sequence MFE -50.78
Consensus MFE -49.93
Energy contribution -50.10
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.98
SVM decision value 4.53
SVM RNA-class probability 0.999916
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2924602 120 + 23771897
GGACCAGUUCCAGGAUGUGCGUCGGGUGGUGCAGGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.((....))))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... ( -51.10)
>DroVir_CAF1 204842 120 + 1
GGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.........))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... ( -50.60)
>DroGri_CAF1 185069 120 + 1
GGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.........))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... ( -50.60)
>DroWil_CAF1 153923 120 + 1
GGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.........))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... ( -50.60)
>DroMoj_CAF1 199053 120 + 1
GGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.........))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... ( -50.60)
>DroAna_CAF1 147784 120 + 1
GGACCAGUUCCAGGAUGUGCGUCGGGUGGUGCAGGUCUUUCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGCUAGGCUUUACGCUGCGUAA
.(((..((((((((((((((.....(((((((.((....))))))))))))))))))).))))......((.(((((((......))))))).)).)))((..(((.....))))).... ( -51.20)
>consensus
GGACCAGUUCCAGGAUGUGCGCCGGGUGGUGCAAGUAUUCCGCAUCAUGCGCAUCCUGCGAAUCCUUAAGCUGGCCCGUCACUCAACGGGCCUGCAGUCGUUAGGCUUUACGCUGCGUAA
(((....(((((((((((((.....(((((((.........))))))))))))))))).)))))).......(((((((......))))))).((((.(((........))))))).... (-49.93 = -50.10 +   0.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,924,602 – 2,924,722
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -46.42
Consensus MFE -45.82
Energy contribution -46.02
Covariance contribution 0.19
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.99
SVM decision value 3.46
SVM RNA-class probability 0.999242
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2924602 120 - 23771897
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACCUGCACCACCCGACGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.(((((((.((.((.((((.......)))).))......)).)))))))))....)))) ( -43.50)
>DroVir_CAF1 204842 120 - 1
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.((((((((((.....))).......(((.((....)).))))))))))))....)))) ( -47.70)
>DroGri_CAF1 185069 120 - 1
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.((((((((((.....))).......(((.((....)).))))))))))))....)))) ( -47.70)
>DroWil_CAF1 153923 120 - 1
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.((((((((((.((.(((((.....))))).))....)))))..)))))))....)))) ( -48.10)
>DroMoj_CAF1 199053 120 - 1
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGGAAUACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.((((((((((.....))).......(((.((....)).))))))))))))....)))) ( -47.70)
>DroAna_CAF1 147784 120 - 1
UUACGCAGCGUAAAGCCUAGCGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACCUGCACCACCCGACGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.(((((((.((.((.((((.......)))).))......)).)))))))))....)))) ( -43.80)
>consensus
UUACGCAGCGUAAAGCCUAACGACUGCAGGCCCGUUGAGUGACGGGCCAGCUUAAGGAUUCGCAGGAUGCGCAUGAUGCGAAAGACUUGCACCACCCGGCGCACAUCCUGGAACUGGUCC
....(((((((........))).)))).((((((((....)))))))).......((((((.((((((((((.....))).......(((.((....)).))))))))))))....)))) (-45.82 = -46.02 +   0.19)

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 09:55:58 2006