Locus 4132

Sequence ID 3L_DroMel_CAF1
Location 12,078,967 – 12,079,063
Length 96
Max. P 0.998393
window6420 window6421

overview

Window 0

Location 12,078,967 – 12,079,063
Length 96
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 96.00
Mean single sequence MFE -15.51
Consensus MFE -14.84
Energy contribution -14.48
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.85
Structure conservation index 0.96
SVM decision value 3.09
SVM RNA-class probability 0.998393
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12078967 96 + 23771897
GCGGCCCACA--CACAAUCUUUCAUUAUAACUAAUGAACGUUUCGCGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
(((((.....--..(((((.(((((((....)))))))((.....))..).))))..((((((.......)))))).............))))).... ( -16.80)
>DroSec_CAF1 36528 96 + 1
UAUGCCCACA--CACAAUCUUUCAUUAUAACUAAUGAACGUUUCGCGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
..........--........(((((((....)))))))......((((((..(((.(((((((.......)))))).....).)))..)))))).... ( -15.00)
>DroSim_CAF1 38298 96 + 1
UAUGCCCACA--CACAAUCUUUCAUUAUAACUAAUGAACGUUUCGCGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
..........--........(((((((....)))))))......((((((..(((.(((((((.......)))))).....).)))..)))))).... ( -15.00)
>DroEre_CAF1 38981 96 + 1
GUGGCCCACA--CACAAUCUUUCAUUAUAACUAAUGAACGUUUCGUGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
(((((((((.--......(.(((((((....))))))).)....)))).........((((((.......)))))).............))))).... ( -16.50)
>DroYak_CAF1 37292 98 + 1
CUGGCCCACACACACAAUCUUUCAUUAUAACUAAUGAACGUUUCGUGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
....................(((((((....)))))))......((((((..(((.(((((((.......)))))).....).)))..)))))).... ( -13.10)
>DroAna_CAF1 35694 96 + 1
GAGGCCCACA--CACAAUAUUUCAUUAUAACUAAUGAACGUUUCGCGGCACAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
(((((.....--........(((((((....))))))).)))))((((((..(((.(((((((.......)))))).....).)))..)))))).... ( -16.64)
>consensus
GAGGCCCACA__CACAAUCUUUCAUUAUAACUAAUGAACGUUUCGCGGCGCAUUGACAAUUAAUCAAAAUUUAAUUAAAUAGACAAAAUGCCGCAUUA
....................(((((((....)))))))......((((((..(((.(((((((.......)))))).....).)))..)))))).... (-14.84 = -14.48 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,078,967 – 12,079,063
Length 96
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 96.00
Mean single sequence MFE -23.98
Consensus MFE -20.65
Energy contribution -20.98
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.86
SVM decision value 1.49
SVM RNA-class probability 0.958232
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12078967 96 - 23771897
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCGCGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUG--UGUGGGCCGC
....(((((...(((.(...(((((((.....)))))))..).)))..((((((((....(((((((....)))))))...)))))--.))).))))) ( -25.90)
>DroSec_CAF1 36528 96 - 1
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCGCGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUG--UGUGGGCAUA
...((((((...(((.(...(((((((.....)))))))..).)))...))))))....((((((....((((((.....))))))--.))))))... ( -23.00)
>DroSim_CAF1 38298 96 - 1
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCGCGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUG--UGUGGGCAUA
...((((((...(((.(...(((((((.....)))))))..).)))...))))))....((((((....((((((.....))))))--.))))))... ( -23.00)
>DroEre_CAF1 38981 96 - 1
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCACGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUG--UGUGGGCCAC
......(((...(((.(...(((((((.....)))))))..).)))..((((((((....(((((((....)))))))...)))))--.))).))).. ( -22.50)
>DroYak_CAF1 37292 98 - 1
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCACGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUGUGUGUGGGCCAG
......(((...(((.(...(((((((.....)))))))..).))).(((((((((....(((((((....)))))))...))))).))))..))).. ( -23.90)
>DroAna_CAF1 35694 96 - 1
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGUGCCGCGAAACGUUCAUUAGUUAUAAUGAAAUAUUGUG--UGUGGGCCUC
...((((((((.(((.(...(((((((.....)))))))..).))).))))))))....((((((....(((((((...)))))))--.))))))... ( -25.60)
>consensus
UAAUGCGGCAUUUUGUCUAUUUAAUUAAAUUUUGAUUAAUUGUCAAUGCGCCGCGAAACGUUCAUUAGUUAUAAUGAAAGAUUGUG__UGUGGGCCUC
...((((((...(((.(...(((((((.....)))))))..).)))...))))))....((((((....((((((.....))))))...))))))... (-20.65 = -20.98 +   0.33)

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 11:15:10 2006