Locus 1081

Sequence ID 2R_DroMel_CAF1
Location 4,373,846 – 4,373,978
Length 132
Max. P 0.996814
window1910 window1911 window1912

overview

Window 0

Location 4,373,846 – 4,373,944
Length 98
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 78.17
Mean single sequence MFE -19.43
Consensus MFE -17.14
Energy contribution -16.93
Covariance contribution -0.21
Combinations/Pair 1.32
Mean z-score -2.20
Structure conservation index 0.88
SVM decision value 2.75
SVM RNA-class probability 0.996814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4373846 98 - 20766785
UAAAGGACAAGUGUAUGAUUCGUGUAUGUACAUACUUGCAUAUGUUCUGUAACAGCGAUUUUAAUAA-AUUGUAACUCGAUCAAUAAAAAUUGUAUAAC
...((((((.(((((......((((....))))...))))).))))))......((((((((.((..-((((.....))))..)).))))))))..... ( -17.30)
>DroSec_CAF1 44521 86 - 1
UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCACAUGUUCUAUAACAGCAAUUUUAAUAA-AUUAUAACUCGAUCAAUAG------------
...((((((((((((.((.(((((....))))).))))))))))))))...................-...................------------ ( -20.70)
>DroSim_CAF1 44769 87 - 1
UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCGCAUGUUCUAUAACAGCAAUUUUAAUAAUAUUAUAACUCGAUCAAUAG------------
...((((((((((((.((.(((((....))))).)))))))))))))).......................................------------ ( -20.30)
>consensus
UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCACAUGUUCUAUAACAGCAAUUUUAAUAA_AUUAUAACUCGAUCAAUAG____________
...((((((((((((.((.(((((....))))).))))))))))))))................................................... (-17.14 = -16.93 +  -0.21)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,373,873 – 4,373,978
Length 105
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 79.22
Mean single sequence MFE -16.92
Consensus MFE -12.83
Energy contribution -12.83
Covariance contribution 0.01
Combinations/Pair 1.14
Mean z-score -1.55
Structure conservation index 0.76
SVM decision value 0.45
SVM RNA-class probability 0.742269
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4373873 105 + 20766785
CAAU-UUAUUAAAAUCGCUGUUACAGAACAUAUGCAAGUAUGUACAUACACGAAUCAUACACUUGUCCUUUAAAAGCUAUAAAGUGGUUUUAGUACUCAUACGCUC
....-.(((((((((((((.(((.((.......((((((.(((.............))).))))))..........)).))))))))))))))))........... ( -15.95)
>DroSec_CAF1 44536 96 + 1
UAAU-UUAUUAAAAUUGCUGUUAUAGAACAUGUGCAACUACAUGCAUACAUAUUGUAUACACACGUCCUUUA---------AAGUGAUUUUAGUACUCAUCCAGAC
....-.(((((((((..((.(((.((.((.((((((......)))((((.....))))..))).)).)).))---------)))..)))))))))........... ( -18.10)
>DroSim_CAF1 44784 97 + 1
UAAUAUUAUUAAAAUUGCUGUUAUAGAACAUGCGCAACUACAUGCAUACAUAUUGUAUACACACGUCCUUUA---------AAGUGAUUUUAGUACUCAUCCAGAC
......(((((((((..((.(((.((.((....(((......)))((((.....))))......)).)).))---------)))..)))))))))........... ( -16.70)
>consensus
UAAU_UUAUUAAAAUUGCUGUUAUAGAACAUGUGCAACUACAUGCAUACAUAUUGUAUACACACGUCCUUUA_________AAGUGAUUUUAGUACUCAUCCAGAC
......((((((((((((((((....))).((((((......))))))..................................)))))))))))))........... (-12.83 = -12.83 +   0.01)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,373,873 – 4,373,978
Length 105
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 79.22
Mean single sequence MFE -22.17
Consensus MFE -17.14
Energy contribution -16.93
Covariance contribution -0.21
Combinations/Pair 1.32
Mean z-score -1.89
Structure conservation index 0.77
SVM decision value 1.22
SVM RNA-class probability 0.932346
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4373873 105 - 20766785
GAGCGUAUGAGUACUAAAACCACUUUAUAGCUUUUAAAGGACAAGUGUAUGAUUCGUGUAUGUACAUACUUGCAUAUGUUCUGUAACAGCGAUUUUAAUAA-AUUG
(((((((((.............(((((.......)))))..(((((((...((........))..))))))))))))))))........((((((....))-)))) ( -18.50)
>DroSec_CAF1 44536 96 - 1
GUCUGGAUGAGUACUAAAAUCACUU---------UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCACAUGUUCUAUAACAGCAAUUUUAAUAA-AUUA
.....(((...((.((((((..(((---------((.((((((((((((.((.(((((....))))).)))))))))))))).))).))..)))))).)).-))). ( -24.30)
>DroSim_CAF1 44784 97 - 1
GUCUGGAUGAGUACUAAAAUCACUU---------UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCGCAUGUUCUAUAACAGCAAUUUUAAUAAUAUUA
.....((((..((.((((((..(((---------((.((((((((((((.((.(((((....))))).)))))))))))))).))).))..)))))).)).)))). ( -23.70)
>consensus
GUCUGGAUGAGUACUAAAAUCACUU_________UAAAGGACGUGUGUAUACAAUAUGUAUGCAUGUAGUUGCACAUGUUCUAUAACAGCAAUUUUAAUAA_AUUA
.....................................((((((((((((.((.(((((....))))).))))))))))))))........................ (-17.14 = -16.93 +  -0.21)

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 09:55:59 2006