Locus 8531

Sequence ID 3L_DroMel_CAF1
Location 22,314,986 – 22,315,143
Length 157
Max. P 0.981716
window13977 window13978 window13979 window13980

overview

Window 7

Location 22,314,986 – 22,315,103
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.97
Mean single sequence MFE -38.92
Consensus MFE -33.79
Energy contribution -34.60
Covariance contribution 0.81
Combinations/Pair 1.10
Mean z-score -2.83
Structure conservation index 0.87
SVM decision value 1.89
SVM RNA-class probability 0.981716
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22314986 117 + 23771897
AUCCAUUACUGUUACAUCGCUGGAACCCAGCGAAGACGAAGUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAUUGAAAUGGAAUGGGUAGA---GAAUGGGUUU
(((((((..((((...(((((((...))))))).)))).......(((..............((((((((.....))))))))(((((((.......))))))).))---)))))))).. ( -40.20)
>DroSec_CAF1 73672 120 + 1
AUCCAUUACUGUUUCAUCGCUGGAACCCAGCGAAGGCGAAAUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAACGGAAUGGGUAGAGGAGAAUGGGUUU
(((((((.(((((((((((((((...))))))).(((((.......))..............((((((((.....)))))))))))...)))))))))))))))................ ( -42.90)
>DroEre_CAF1 72025 117 + 1
AUCCAUUACUGUUUCAUCGCUGGAACCCAGCGAAGGCGAAAUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAAUGGAAUGGGUAGA---GAAUGGGUUU
(((((((.(((((((((((((((...))))))).(((((.......))..............((((((((.....)))))))))))...)))))))))))))))...---.......... ( -40.40)
>DroYak_CAF1 52139 117 + 1
AUCCAUUACUGUUUCAUCGCUUGAAUCCAGCGAAGGUGAAAUUGCCUCAACAACUGUCAUUUUGACAGCUGGCUCAGCUGUCAGCCCAAUAAAAGGGACUGGGUAGA---GAAUUGGUUU
..(((......((((((((((.((..(((((((.(((......)))))......((((.....))))))))).)))))...((((((.......))).)))))).))---))..)))... ( -32.20)
>consensus
AUCCAUUACUGUUUCAUCGCUGGAACCCAGCGAAGGCGAAAUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAAUGGAAUGGGUAGA___GAAUGGGUUU
(((((((.(((((((((((((((...))))))).((((((((.((..........)).)))))(((((((.....))))))).)))...)))))))))))))))................ (-33.79 = -34.60 +   0.81)

alignment

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secondary structure

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Window 8

Location 22,314,986 – 22,315,103
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.97
Mean single sequence MFE -38.10
Consensus MFE -31.64
Energy contribution -32.33
Covariance contribution 0.69
Combinations/Pair 1.05
Mean z-score -2.63
Structure conservation index 0.83
SVM decision value 1.37
SVM RNA-class probability 0.946753
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22314986 117 - 23771897
AAACCCAUUC---UCUACCCAUUCCAUUUCAAUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAACUUCGUCUUCGCUGGGUUCCAGCGAUGUAACAGUAAUGGAU
....(((((.---((..((((((.......))))))..))..(((((((.(((((((.....))))))))))((((...))))....(((((((...))))))).....))))))))).. ( -36.40)
>DroSec_CAF1 73672 120 - 1
AAACCCAUUCUCCUCUACCCAUUCCGUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAUUUCGCCUUCGCUGGGUUCCAGCGAUGAAACAGUAAUGGAU
..................((((((.((((((((..((((..((((.(((((((((((.....)))))))...(((((......))))))))).)))).)))))))))))).).))))).. ( -41.90)
>DroEre_CAF1 72025 117 - 1
AAACCCAUUC---UCUACCCAUUCCAUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAUUUCGCCUUCGCUGGGUUCCAGCGAUGAAACAGUAAUGGAU
..........---.....((((((..(((((((..((((..((((.(((((((((((.....)))))))...(((((......))))))))).)))).)))))))))))..).))))).. ( -38.40)
>DroYak_CAF1 52139 117 - 1
AAACCAAUUC---UCUACCCAGUCCCUUUUAUUGGGCUGACAGCUGAGCCAGCUGUCAAAAUGACAGUUGUUGAGGCAAUUUCACCUUCGCUGGAUUCAAGCGAUGAAACAGUAAUGGAU
...(((....---......((((((........))))))...((((.((((((((((.....))))))).....)))..(((((...(((((.......))))))))))))))..))).. ( -35.70)
>consensus
AAACCCAUUC___UCUACCCAUUCCAUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAUUUCGCCUUCGCUGGGUUCCAGCGAUGAAACAGUAAUGGAU
....(((((....((..((((((.......))))))..))..(((((((.(((((((.....)))))))))).(((........)))(((((((...))))))).....))))))))).. (-31.64 = -32.33 +   0.69)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,315,026 – 22,315,143
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.17
Mean single sequence MFE -32.45
Consensus MFE -23.63
Energy contribution -24.19
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.552217
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22315026 117 + 23771897
GUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAUUGAAAUGGAAUGGGUAGA---GAAUGGGUUUGAGGAUGAGGAGCGAAAGAAACCGGCAACACAAAGAGCGA
(((.((((((..(((..(((((((((((((.....))))))).(((((((.......)))))))..)---)))))))))))))).((.((..(....)...))(....).))...))).. ( -36.00)
>DroSec_CAF1 73712 120 + 1
AUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAACGGAAUGGGUAGAGGAGAAUGGGUUUGAGGAUGAGGAGCGAAAGAAACCGGCAACACAAAGAGCGA
....((((((..(((..(((((((((((((.....))))))).(((((...........))))).....)))))))))))))))....((..(....)...))(....)........... ( -32.40)
>DroEre_CAF1 72065 116 + 1
AUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAAUGGAAUGGGUAGA---GAAUGGGUUUGGG-AUGAGGAGUAAAGGGAACCGGCAAAACAAAGAGGGA
....((((........((((((((((((((.....))))))).(((((...........)))))..)---)))))).((((..-.((.((...........))..))...)))))))).. ( -29.10)
>DroYak_CAF1 52179 117 + 1
AUUGCCUCAACAACUGUCAUUUUGACAGCUGGCUCAGCUGUCAGCCCAAUAAAAGGGACUGGGUAGA---GAAUUGGUUUGAGAACGAGCAGUACAAGAAACCGGCAAAACAAAGAAGGA
.(((((....(((.(.((....(((((((((...)))))))))(((((...........))))).))---.).)))(((((....))))).............)))))............ ( -32.30)
>consensus
AUUACCUCAACAACUGUCAUUUUGACAGCUCGCUCAGCUGUCAGCCCAAUGAAAUGGAAUGGGUAGA___GAAUGGGUUUGAGGAUGAGGAGCAAAAGAAACCGGCAAAACAAAGAGCGA
....((((......((((....((((((((.....))))))))(((((...........)))))...........(((((..................))))))))).......)))).. (-23.63 = -24.19 +   0.56)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,315,026 – 22,315,143
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.17
Mean single sequence MFE -28.41
Consensus MFE -23.08
Energy contribution -23.52
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -1.35
Structure conservation index 0.81
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22315026 117 - 23771897
UCGCUCUUUGUGUUGCCGGUUUCUUUCGCUCCUCAUCCUCAAACCCAUUC---UCUACCCAUUCCAUUUCAAUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAC
...........((((((........((((((.......(((..((((((.---.................)))))).))).....))))))((((((.....))))))......)))))) ( -28.47)
>DroSec_CAF1 73712 120 - 1
UCGCUCUUUGUGUUGCCGGUUUCUUUCGCUCCUCAUCCUCAAACCCAUUCUCCUCUACCCAUUCCGUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAU
.(((.....)))(((((........((((((.......(((..((((.........................)))).))).....))))))((((((.....))))))......))))). ( -26.21)
>DroEre_CAF1 72065 116 - 1
UCCCUCUUUGUUUUGCCGGUUCCCUUUACUCCUCAU-CCCAAACCCAUUC---UCUACCCAUUCCAUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAU
..((((...((((((.((((((.(((..((..(((.-(((((........---..................))))).))).))..))).)))))).))))))(((....))))))).... ( -26.37)
>DroYak_CAF1 52179 117 - 1
UCCUUCUUUGUUUUGCCGGUUUCUUGUACUGCUCGUUCUCAAACCAAUUC---UCUACCCAGUCCCUUUUAUUGGGCUGACAGCUGAGCCAGCUGUCAAAAUGACAGUUGUUGAGGCAAU
............(((((.............(((((((.(((..(((((..---.................)))))..))).))).))))((((((((.....))))))))....))))). ( -32.61)
>consensus
UCCCUCUUUGUGUUGCCGGUUUCUUUCACUCCUCAUCCUCAAACCCAUUC___UCUACCCAUUCCAUUUCAUUGGGCUGACAGCUGAGCGAGCUGUCAAAAUGACAGUUGUUGAGGUAAU
............((((((((((..................)))))............((((((.......)))))).((((((((.....))))))))................))))). (-23.08 = -23.52 +   0.44)

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 13:18:16 2006