Locus 3694

Sequence ID X_DroMel_CAF1
Location 9,844,624 – 9,844,757
Length 133
Max. P 0.917050
window6048 window6049 window6050

overview

Window 8

Location 9,844,624 – 9,844,726
Length 102
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 89.07
Mean single sequence MFE -23.20
Consensus MFE -19.51
Energy contribution -20.82
Covariance contribution 1.31
Combinations/Pair 1.03
Mean z-score -1.55
Structure conservation index 0.84
SVM decision value 0.32
SVM RNA-class probability 0.688436
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9844624 102 - 22224390
GGAUAUAUGUUUUAACUUUAUUCAUU-UUCUAGGGGCCUAAAACCCUGGGCUAAAAGUGUCUGAGUGGAUUGUUAUAUAUAUAUAUAGCAUUACGUAUAUGGA
..((((((((....((((....((((-((((((((........)))))))....)))))...))))....((((((((....))))))))..))))))))... ( -25.40)
>DroSec_CAF1 6128 98 - 1
GGAUAUAUGUUUUAACUUUAUUCAUUUUUCUAGGGUCCUA-AACCCUGGGCUAAAAGUGUCUGAGUGGAUUAUUAUAG----AUAUAGCAUUACGUAUAUGGA
..((((((((...................(((((((....-.)))))))(((....(((((((((((...)))).)))----)))))))...))))))))... ( -21.80)
>DroSim_CAF1 6386 98 - 1
GGAUAUAUGUUUCAACUUUAUUCAUUUUUCUAGGGGCCUA-AACCCUGGGCUAAAAGUGUCUGAGUGGAUUGUUAUAG----AUAUAGCAUUACGUAUAUGGA
..((((((((.((.((((....(((((((((((((.....-..)))))))...))))))...)))).)).((((((..----..))))))..))))))))... ( -25.10)
>DroEre_CAF1 6285 93 - 1
GCAUUUAUGUUU---CUUUAUGCAUU-UUCUAGGGGCCUAAAACCCUGGGCUAAAAGUGUCUGAGUGGAUUGCUAUAA----AUAUUGCAUUACGC--AUGGA
...(((((((..---..(((.(((((-((((((((........)))))))....)))))).)))((((..(((.....----.....)))))))))--))))) ( -20.50)
>consensus
GGAUAUAUGUUUUAACUUUAUUCAUU_UUCUAGGGGCCUA_AACCCUGGGCUAAAAGUGUCUGAGUGGAUUGUUAUAG____AUAUAGCAUUACGUAUAUGGA
..((((((((......((((((((.....((((((........))))))((.....))...)))))))).(((((((......)))))))..))))))))... (-19.51 = -20.82 +   1.31)

alignment

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secondary structure

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Window 9

Location 9,844,659 – 9,844,757
Length 98
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 94.76
Mean single sequence MFE -20.70
Consensus MFE -17.90
Energy contribution -18.64
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.86
SVM decision value 0.35
SVM RNA-class probability 0.699817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9844659 98 + 22224390
CCACUCAGACACUUUUAGCCCAGGGUUUUAGGCCCCUAGAA-AAUGAAUAAAGUUAAAACAUAUAUCCCUGUUUAUAUGAAAGUGUAUUGAAUUUGAAU
....(((((((((((((...(((((((((((....))))))-..........((....))......)))))......))))))))).))))........ ( -21.90)
>DroSec_CAF1 6159 98 + 1
CCACUCAGACACUUUUAGCCCAGGGUU-UAGGACCCUAGAAAAAUGAAUAAAGUUAAAACAUAUAUCCCUGUUUAUAUGAAAGUGUAUUGAAUUUGAAU
....(((((((((((((...(((((((-(((....)))))............((....))......)))))......))))))))).))))........ ( -21.00)
>DroSim_CAF1 6417 98 + 1
CCACUCAGACACUUUUAGCCCAGGGUU-UAGGCCCCUAGAAAAAUGAAUAAAGUUGAAACAUAUAUCCCUGUUUAUAUGAAAGUGUAUUGAAUUUGAAU
....(((((((((((((...(((((((-(((....)))))............((....))......)))))......))))))))).))))........ ( -21.00)
>DroEre_CAF1 6314 95 + 1
CCACUCAGACACUUUUAGCCCAGGGUUUUAGGCCCCUAGAA-AAUGCAUAAAG---AAACAUAAAUGCCUGUUUAUAUGAAAGUGUAUUGAAUUUGAAU
....(((((((((((((...((((.((((((....))))))-.(((.......---...))).....))))......))))))))).))))........ ( -18.90)
>consensus
CCACUCAGACACUUUUAGCCCAGGGUU_UAGGCCCCUAGAA_AAUGAAUAAAGUUAAAACAUAUAUCCCUGUUUAUAUGAAAGUGUAUUGAAUUUGAAU
....(((((((((((((...(((((((((((....))))))..(((.............)))....)))))......))))))))).))))........ (-17.90 = -18.64 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,844,659 – 9,844,757
Length 98
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 94.76
Mean single sequence MFE -22.00
Consensus MFE -21.10
Energy contribution -20.98
Covariance contribution -0.13
Combinations/Pair 1.04
Mean z-score -1.84
Structure conservation index 0.96
SVM decision value 1.11
SVM RNA-class probability 0.917050
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9844659 98 - 22224390
AUUCAAAUUCAAUACACUUUCAUAUAAACAGGGAUAUAUGUUUUAACUUUAUUCAUU-UUCUAGGGGCCUAAAACCCUGGGCUAAAAGUGUCUGAGUGG
......(((((..(((((((((((((........)))))).................-.(((((((........)))))))...))))))).))))).. ( -21.60)
>DroSec_CAF1 6159 98 - 1
AUUCAAAUUCAAUACACUUUCAUAUAAACAGGGAUAUAUGUUUUAACUUUAUUCAUUUUUCUAGGGUCCUA-AACCCUGGGCUAAAAGUGUCUGAGUGG
......(((((..(((((((((((((........))))))...................((((((((....-.))))))))...))))))).))))).. ( -21.60)
>DroSim_CAF1 6417 98 - 1
AUUCAAAUUCAAUACACUUUCAUAUAAACAGGGAUAUAUGUUUCAACUUUAUUCAUUUUUCUAGGGGCCUA-AACCCUGGGCUAAAAGUGUCUGAGUGG
......(((((..(((((((((((((........))))))...................(((((((.....-..)))))))...))))))).))))).. ( -21.30)
>DroEre_CAF1 6314 95 - 1
AUUCAAAUUCAAUACACUUUCAUAUAAACAGGCAUUUAUGUUU---CUUUAUGCAUU-UUCUAGGGGCCUAAAACCCUGGGCUAAAAGUGUCUGAGUGG
......(((((..(((((((..((((((.(((((....)))))---.))))))....-.(((((((........)))))))...))))))).))))).. ( -23.50)
>consensus
AUUCAAAUUCAAUACACUUUCAUAUAAACAGGGAUAUAUGUUUUAACUUUAUUCAUU_UUCUAGGGGCCUA_AACCCUGGGCUAAAAGUGUCUGAGUGG
......(((((..(((((((...........(((((...(......)..))))).....(((((((........)))))))...))))))).))))).. (-21.10 = -20.98 +  -0.13)

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 11:05:50 2006