Locus 114

Sequence ID 2R_DroMel_CAF1
Location 1,364,276 – 1,364,427
Length 151
Max. P 0.978627
window245 window246 window247 window248

overview

Window 5

Location 1,364,276 – 1,364,387
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 93.95
Mean single sequence MFE -28.20
Consensus MFE -24.34
Energy contribution -24.84
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.73
Structure conservation index 0.86
SVM decision value 1.62
SVM RNA-class probability 0.967774
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1364276 111 + 20766785
GAAUAGAAUCCGUUCGUUUUGUUUCUUUUUUGCGUGCCAAAUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAG
((((.......))))((((((.....((.((((((((.((((..((....))..))))))))......((((((((......)))))))))))).)).....))))))... ( -28.40)
>DroSec_CAF1 245 111 + 1
GACUAGAAUCCGUUCGUUUUGUUUCUUUUUUGCGUGCCAAAUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAG
..((((..((((.((((.............(((((((.((((..((....))..))))))))......((((((((......))))))))))))))).....)))).)))) ( -29.51)
>DroEre_CAF1 907 106 + 1
-----GAAUCCGUUCGUUUUGUUUCAUUUUUGCGUGCCAAAUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAG
-----......((((..............((((((((.((((..((....))..))))))))......((((((((......))))))))))))(((....)))))))... ( -28.40)
>DroYak_CAF1 544 106 + 1
-----CAAUCCGUUCGUUUUGUUUCAUUUUUGCUUGCCAAAUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGGAAGGUUUUUUCGGAACUAG
-----...............(((((......((((.((..((((((((.((.......))))))))))((((((((......)))))))))).))))......)))))... ( -26.50)
>consensus
_____GAAUCCGUUCGUUUUGUUUCAUUUUUGCGUGCCAAAUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAG
...............((((((........((((((((.((((..((....))..))))))))......((((((((......))))))))))))........))))))... (-24.34 = -24.84 +   0.50)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,364,276 – 1,364,387
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 93.95
Mean single sequence MFE -24.93
Consensus MFE -21.52
Energy contribution -21.77
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.96
Structure conservation index 0.86
SVM decision value 1.73
SVM RNA-class probability 0.974210
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1364276 111 - 20766785
CUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAUUUGGCACGCAAAAAAGAAACAAAACGAACGGAUUCUAUUC
.(((.((((.....(((((((((((((((......))))))))((((((((............))))))))...)).(........)......))))).))))..)))... ( -25.20)
>DroSec_CAF1 245 111 - 1
CUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAUUUGGCACGCAAAAAAGAAACAAAACGAACGGAUUCUAGUC
((((.((((.....(((((((((((((((......))))))))((((((((............))))))))...)).(........)......))))).))))..)))).. ( -27.70)
>DroEre_CAF1 907 106 - 1
CUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAUUUGGCACGCAAAAAUGAAACAAAACGAACGGAUUC-----
...(((((((....)))((((((((((((......))))))))((((((((............)))))))).......))))..............))))......----- ( -24.60)
>DroYak_CAF1 544 106 - 1
CUAGUUCCGAAAAAACCUUCCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAUUUGGCAAGCAAAAAUGAAACAAAACGAACGGAUUG-----
.....((((.......(((((((((((((......))))))))((((((((............))))))))..)).)))((....))............))))...----- ( -22.20)
>consensus
CUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAUUUGGCACGCAAAAAAGAAACAAAACGAACGGAUUC_____
.....((((........((((((((((((......))))))))((((((((............)))))))).......))))........(.....)..))))........ (-21.52 = -21.77 +   0.25)

alignment

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secondary structure

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Window 7

Location 1,364,316 – 1,364,427
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 97.15
Mean single sequence MFE -34.60
Consensus MFE -30.90
Energy contribution -31.15
Covariance contribution 0.25
Combinations/Pair 1.03
Mean z-score -3.09
Structure conservation index 0.89
SVM decision value 1.27
SVM RNA-class probability 0.938024
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1364316 111 + 20766785
AUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAGCUGGGAGGAAAGUAAUUCCUGCUCGCAGUUUGCUGAAGCA
((((((((.((.......))))))))))((((((((......))))))))((..(((....)))(((((.((.((.(((((.....))))).)).)))))))......)). ( -36.00)
>DroSec_CAF1 285 111 + 1
AUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAGCUGGGAGGAAAGUAAUUCCUGCUCGCAGUUUGCUGAAGCA
((((((((.((.......))))))))))((((((((......))))))))((..(((....)))(((((.((.((.(((((.....))))).)).)))))))......)). ( -36.00)
>DroEre_CAF1 942 111 + 1
AUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAGCUGGGAAGAAAGUAAUUCUUGCUCGCAGUUUGCUGAAGCA
((((((((.((.......))))))))))((((((((......))))))))((..(((....)))(((((.((.((.(((((.....))))).)).)))))))......)). ( -33.60)
>DroYak_CAF1 579 111 + 1
AUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGGAAGGUUUUUUCGGAACUAGCUGGGAAAAAAGUAAUUCCUGCUCGCAGUUUGCUGAAGCA
((((((((.((.......))))))))))((((((((......))))))))((((..((((..(((......)))..))))......)))).(((..(((....))).))). ( -32.80)
>consensus
AUUGAAAUUGUUUGAUUUGCAUUUCAAUGAGUGCAACAUUUCUUGCACUCGCAACGAUUUUUCGGAACUAGCUGGGAAGAAAGUAAUUCCUGCUCGCAGUUUGCUGAAGCA
((((((((.((.......))))))))))((((((((......)))))))).........((((((.(((.((.((.(((((.....))))).)).)))))...)))))).. (-30.90 = -31.15 +   0.25)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,364,316 – 1,364,427
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 97.15
Mean single sequence MFE -29.12
Consensus MFE -27.62
Energy contribution -27.88
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -3.13
Structure conservation index 0.95
SVM decision value 1.82
SVM RNA-class probability 0.978627
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1364316 111 - 20766785
UGCUUCAGCAAACUGCGAGCAGGAAUUACUUUCCUCCCAGCUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAU
((((((((....))).)))))((((.....)))).........((..(((....)))..))((((((((......))))))))((((((((............)))))))) ( -29.90)
>DroSec_CAF1 285 111 - 1
UGCUUCAGCAAACUGCGAGCAGGAAUUACUUUCCUCCCAGCUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAU
((((((((....))).)))))((((.....)))).........((..(((....)))..))((((((((......))))))))((((((((............)))))))) ( -29.90)
>DroEre_CAF1 942 111 - 1
UGCUUCAGCAAACUGCGAGCAAGAAUUACUUUCUUCCCAGCUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAU
.(((((((....))).))))(((((.....)))))........((..(((....)))..))((((((((......))))))))((((((((............)))))))) ( -27.40)
>DroYak_CAF1 579 111 - 1
UGCUUCAGCAAACUGCGAGCAGGAAUUACUUUUUUCCCAGCUAGUUCCGAAAAAACCUUCCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAU
((((((((....))).)))))(((((((((........)).))))))).............((((((((......))))))))((((((((............)))))))) ( -29.30)
>consensus
UGCUUCAGCAAACUGCGAGCAGGAAUUACUUUCCUCCCAGCUAGUUCCGAAAAAUCGUUGCGAGUGCAAGAAAUGUUGCACUCAUUGAAAUGCAAAUCAAACAAUUUCAAU
((((((((....))).)))))(((((((((........)).))))))).............((((((((......))))))))((((((((............)))))))) (-27.62 = -27.88 +   0.25)

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 09:27:46 2006