Locus 4344

Sequence ID X_DroMel_CAF1
Location 11,424,994 – 11,425,125
Length 131
Max. P 0.988963
window7135 window7136 window7137 window7138

overview

Window 5

Location 11,424,994 – 11,425,085
Length 91
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -26.83
Consensus MFE -24.41
Energy contribution -23.97
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -4.21
Structure conservation index 0.91
SVM decision value 1.76
SVM RNA-class probability 0.975821
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11424994 91 + 22224390
GCAAGAGUAACGAUUUCCGCAUAGUCGAAAAUGUUUAAGUUGAAUUGUCUUACGGACAGUGAGAUGAGUACGACUAUUUGGAAAUCACAAA
...........((((((((.(((((((..(((......)))...(..((((((.....))))))..)...))))))).))))))))..... ( -28.10)
>DroEre_CAF1 5682 88 + 1
ACA--AGUAACGAUUUCCACACAGUCGA-AAUGUUUAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAA
...--......((((((((.(.(((((.-(((......)))...(..((((((.....))))))..)...))))).).))))))))..... ( -24.60)
>DroYak_CAF1 5694 88 + 1
ACA--AGUAACGAUUUCCGAACAGUCGA-AAUGUUGAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAA
...--......((((((((((.(((((.-(((......)))...(..((((((.....))))))..)...))))).))))))))))..... ( -27.80)
>consensus
ACA__AGUAACGAUUUCCGCACAGUCGA_AAUGUUUAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAA
...........((((((((.(.(((((..(((......)))...(..((((((.....))))))..)...))))).).))))))))..... (-24.41 = -23.97 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,424,994 – 11,425,085
Length 91
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -21.11
Consensus MFE -19.76
Energy contribution -19.87
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -3.06
Structure conservation index 0.94
SVM decision value 2.00
SVM RNA-class probability 0.985277
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11424994 91 - 22224390
UUUGUGAUUUCCAAAUAGUCGUACUCAUCUCACUGUCCGUAAGACAAUUCAACUUAAACAUUUUCGACUAUGCGGAAAUCGUUACUCUUGC
.....(((((((..(((((((............((((.....))))..................)))))))..)))))))........... ( -18.31)
>DroEre_CAF1 5682 88 - 1
UUUGUGAUUUCCAAAUAGUCGUACUCAUCUUACUGUCCGUAAGACAAUUCAACUUAAACAUU-UCGACUGUGUGGAAAUCGUUACU--UGU
.....((((((((.(((((((......((((((.....))))))..................-.))))))).))))))))......--... ( -22.81)
>DroYak_CAF1 5694 88 - 1
UUUGUGAUUUCCAAAUAGUCGUACUCAUCUUACUGUCCGUAAGACAAUUCAACUUCAACAUU-UCGACUGUUCGGAAAUCGUUACU--UGU
.....(((((((.((((((((......((((((.....))))))..................-.)))))))).)))))))......--... ( -22.21)
>consensus
UUUGUGAUUUCCAAAUAGUCGUACUCAUCUUACUGUCCGUAAGACAAUUCAACUUAAACAUU_UCGACUGUGCGGAAAUCGUUACU__UGU
.....(((((((..(((((((......((((((.....))))))....................)))))))..)))))))........... (-19.76 = -19.87 +   0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,425,005 – 11,425,125
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.20
Mean single sequence MFE -31.67
Consensus MFE -27.51
Energy contribution -26.08
Covariance contribution -1.44
Combinations/Pair 1.34
Mean z-score -2.31
Structure conservation index 0.87
SVM decision value 2.14
SVM RNA-class probability 0.988963
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11425005 120 + 22224390
GAUUUCCGCAUAGUCGAAAAUGUUUAAGUUGAAUUGUCUUACGGACAGUGAGAUGAGUACGACUAUUUGGAAAUCACAAACGAAUUGUUUUCAUGGUUGACGCGCUUGUCAAGCUACAAA
((((((((.(((((((..(((......)))...(..((((((.....))))))..)...))))))).))))))))......(((.....)))..(.((((((....)))))).)...... ( -34.40)
>DroEre_CAF1 5691 119 + 1
GAUUUCCACACAGUCGA-AAUGUUUAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAACGAAUUGUUUUCAUGGUUGACACGCUUGCCAAGCUGCAAA
((((((((.(.(((((.-(((......)))...(..((((((.....))))))..)...))))).).)))))))).........((((...(.((((..........)))).)..)))). ( -29.20)
>DroYak_CAF1 5703 119 + 1
GAUUUCCGAACAGUCGA-AAUGUUGAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAACGAAUUGUUUUCAUGAUUGACACGCUUGUCAAGCUGCAAA
((((((((((.(((((.-(((......)))...(..((((((.....))))))..)...))))).))))))))))......(((.....))).((.((((((....))))))....)).. ( -33.50)
>DroAna_CAF1 6535 116 + 1
GGCUUUCUCUCAAUCAA-AAUGAUAAAUUUUAUUCGUCUUACGGAUAGUGAGAAAAAUAAGAUUGAUUGAAAAUCAU---UGAAAUGUUUUCUGGUAUGACACGGAUGUCGUGCUGUGAA
(..((((..((((((((-(((.....)))))(((..((((((.....))))))..)))..))))))..))))..)..---.........(((((((((((((....)))))))))).))) ( -29.60)
>consensus
GAUUUCCGCACAGUCGA_AAUGUUUAAGUUGAAUUGUCUUACGGACAGUAAGAUGAGUACGACUAUUUGGAAAUCACAAACGAAUUGUUUUCAUGGUUGACACGCUUGUCAAGCUGCAAA
((((((((.(((((((......(((.....)))(..((((((.....))))))..)...))))))).))))))))......(((.....)))..(.((((((....)))))).)...... (-27.51 = -26.08 +  -1.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,425,005 – 11,425,125
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.20
Mean single sequence MFE -23.96
Consensus MFE -20.22
Energy contribution -19.22
Covariance contribution -1.00
Combinations/Pair 1.31
Mean z-score -1.51
Structure conservation index 0.84
SVM decision value 0.38
SVM RNA-class probability 0.712777
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11425005 120 - 22224390
UUUGUAGCUUGACAAGCGCGUCAACCAUGAAAACAAUUCGUUUGUGAUUUCCAAAUAGUCGUACUCAUCUCACUGUCCGUAAGACAAUUCAACUUAAACAUUUUCGACUAUGCGGAAAUC
((..(.(.(((((......)))))).)..)).((((.....))))(((((((..(((((((............((((.....))))..................)))))))..))))))) ( -22.51)
>DroEre_CAF1 5691 119 - 1
UUUGCAGCUUGGCAAGCGUGUCAACCAUGAAAACAAUUCGUUUGUGAUUUCCAAAUAGUCGUACUCAUCUUACUGUCCGUAAGACAAUUCAACUUAAACAUU-UCGACUGUGUGGAAAUC
...........(((((((..(((....)))........)))))))((((((((.(((((((......((((((.....))))))..................-.))))))).)))))))) ( -27.51)
>DroYak_CAF1 5703 119 - 1
UUUGCAGCUUGACAAGCGUGUCAAUCAUGAAAACAAUUCGUUUGUGAUUUCCAAAUAGUCGUACUCAUCUUACUGUCCGUAAGACAAUUCAACUUCAACAUU-UCGACUGUUCGGAAAUC
...((((.((((((....)))))).)(((((.....))))).)))(((((((.((((((((......((((((.....))))))..................-.)))))))).))))))) ( -27.31)
>DroAna_CAF1 6535 116 - 1
UUCACAGCACGACAUCCGUGUCAUACCAGAAAACAUUUCA---AUGAUUUUCAAUCAAUCUUAUUUUUCUCACUAUCCGUAAGACGAAUAAAAUUUAUCAUU-UUGAUUGAGAGAAAGCC
.(((..(((((.....))))).......(((.....))).---.)))(((((((((((..((((((.(((.((.....)).))).))))))...........-)))))))))))...... ( -18.52)
>consensus
UUUGCAGCUUGACAAGCGUGUCAACCAUGAAAACAAUUCGUUUGUGAUUUCCAAAUAGUCGUACUCAUCUCACUGUCCGUAAGACAAUUCAACUUAAACAUU_UCGACUGUGCGGAAAUC
......(.(((((......))))).)...................(((((((..(((((((......((((((.....))))))....................)))))))..))))))) (-20.22 = -19.22 +  -1.00)

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 11:22:40 2006