Locus 6503

Sequence ID X_DroMel_CAF1
Location 16,307,563 – 16,307,816
Length 253
Max. P 0.997059
window10620 window10621 window10622

overview

Window 0

Location 16,307,563 – 16,307,683
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -20.40
Consensus MFE -20.40
Energy contribution -20.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.86
Structure conservation index 1.00
SVM decision value 0.75
SVM RNA-class probability 0.841344
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16307563 120 - 22224390
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>DroEre_CAF1 9775 120 - 1
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>DroWil_CAF1 12738 120 - 1
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>DroYak_CAF1 9085 120 - 1
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>DroMoj_CAF1 11504 120 - 1
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>DroAna_CAF1 9579 120 - 1
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. ( -20.40)
>consensus
ACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUUCAUGACAGAAGAUCAGAAAAAGUACUAUAAUGCUAUGAAA
....(((...((((((((((.((((((...)))))).)))))))))).........((((.((((.((....))....(((.((((....).))))))......))))..)))).))).. (-20.40 = -20.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,307,603 – 16,307,723
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 99.50
Mean single sequence MFE -24.40
Consensus MFE -24.40
Energy contribution -24.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 1.00
SVM decision value 2.79
SVM RNA-class probability 0.997059
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16307603 120 - 22224390
UUUAUAUUUCGUAUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>DroVir_CAF1 10968 120 - 1
UUUAUAUUUCGUGUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>DroGri_CAF1 11508 120 - 1
UUUAUAUUUCGUGUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>DroYak_CAF1 9125 120 - 1
UUUAUAUUUCGUAUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>DroMoj_CAF1 11544 120 - 1
UUUAUAUUUCGUGUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>DroAna_CAF1 9619 120 - 1
UUUAUAUUUCGUAUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). ( -24.40)
>consensus
UUUAUAUUUCGUAUUCUUCAUCAUAUUUGGAUCAUUUUUCACACUCAAUCUGUUCAUUGGUGUUAUCAUUGAUAAUUUUAAUGAGCAAAAGAAAAAAGCAGGUGGAUCAUUAGAAAUGUU
...(((((((......((((((.....((((......)))).........((((((((((.((((((...)))))).)))))))))).............))))))......))))))). (-24.40 = -24.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,307,723 – 16,307,816
Length 93
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 82.80
Mean single sequence MFE -26.03
Consensus MFE -20.32
Energy contribution -20.93
Covariance contribution 0.61
Combinations/Pair 1.04
Mean z-score -1.73
Structure conservation index 0.78
SVM decision value 0.36
SVM RNA-class probability 0.704763
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16307723 93 + 22224390
UACAUGUAGAUGUUCGUUUCACGAAUUGGUUGCUUGUCCACCUGUUAUCGAUCAUU---------UGGCCAG-----UUCGAAGUCAAUCGAUAGCAGCAGGAAUUG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((..((---------(((....-----.)))))....)))))))))))..))).... ( -26.60)
>DroVir_CAF1 11088 79 + 1
UACAUGUAGAUGUUCGUUUCACGAAUCGGCUGCUUGUCCACCUG-UAUCGAU-AA------CGAUA-GCGAU-----AACGA----UAUCGAUAUCA----------
.(((.((((..(((((.....)))))...)))).)))......(-(((((((-(.------((.((-....)-----).)).----)))))))))..---------- ( -20.30)
>DroSec_CAF1 9448 93 + 1
UACAUGUAGAUGUUCGUUUCACGAAUUGGUUGCUUGUCCACCUGUUAUCGAUCAUU---------UGGCCAG-----UUCGAAGUCAAUCGAUAGCAGCAGGAAUCG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((..((---------(((....-----.)))))....)))))))))))..))).... ( -26.60)
>DroEre_CAF1 9935 93 + 1
UACAUGUAGAUGUUCGUUUCACGAAUUGGUUGCUUGUCCACCUGUUAUCGAUCAUU---------UGGCCAG-----UUCGAAGUCAAUCGAUAGCAGCAGGAAUCG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((..((---------(((....-----.)))))....)))))))))))..))).... ( -26.60)
>DroYak_CAF1 9245 93 + 1
UACAUGUAGAUGUUCGUUUCACGAAUUGGUUGCUUGUCCACCUGUUAUCGAUCAUU---------UGGCCAG-----UUCGAAGUCAAUCGAUAGCAGCAGGAAUCG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((..((---------(((....-----.)))))....)))))))))))..))).... ( -26.60)
>DroAna_CAF1 9739 103 + 1
UACAUGUAGAUGUUCGUUUCACGAAUUGGCUGCUUGUCCACCUGUUAUCGAUAAUUUAUUGCGAUUGGCCAGAUGAUUUUGA----GAUCGAUAGCAGCAGGAAUCG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((........((.....))((((....)))).----.)))))))))))..))).... ( -29.50)
>consensus
UACAUGUAGAUGUUCGUUUCACGAAUUGGUUGCUUGUCCACCUGUUAUCGAUCAUU_________UGGCCAG_____UUCGAAGUCAAUCGAUAGCAGCAGGAAUCG
..((.((((..(((((.....)))))...)))).))(((..(((((((((((...................................)))))))))))..))).... (-20.32 = -20.93 +   0.61)

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 12:15:28 2006