Locus 4182

Sequence ID 3L_DroMel_CAF1
Location 12,215,447 – 12,215,538
Length 91
Max. P 0.878055
window6487 window6488

overview

Window 7

Location 12,215,447 – 12,215,538
Length 91
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -17.67
Consensus MFE -14.10
Energy contribution -13.97
Covariance contribution -0.14
Combinations/Pair 1.19
Mean z-score -1.99
Structure conservation index 0.80
SVM decision value 0.90
SVM RNA-class probability 0.878055
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12215447 91 + 23771897
----GUUUACUACGAAAAUAUUUACAUUGCUGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGGCCUUUAUGCCUUAUGCCGUCGUUUU
----....((.(((((((((((((((((....(((.......)))...)))))))..))))))))...(((......))).......)).))... ( -17.90)
>DroVir_CAF1 32437 80 + 1
----GUUUACAGCGAAAAUAUUUACACUGCAGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGGCUUUUAUGUUGG-----------CC
----.........(((((((((((((.(((((.........)))))....)))))..))))))))...((((........))-----------)) ( -18.40)
>DroWil_CAF1 34453 87 + 1
----GUUUACAACGAAAAUAUUUACAUUGCUGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGAGUUUUAUUUUUCAUACUCA----UC
----.........(((((((((((((((....(((.......)))...)))))))..))))))))..(((((............)))))----.. ( -17.30)
>DroYak_CAF1 29959 87 + 1
----GUUUACUACGAAAAUAUUUACAUUGCUGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGGCCUUUAUGCCUUAUGCCGU----CU
----.........(((((((((((((((....(((.......)))...)))))))..))))))))...(((......))).........----.. ( -17.40)
>DroMoj_CAF1 25228 80 + 1
----GUUUACAGCAAAAAUAUUUACACUGCAGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGGCUUUUAUGCCAA-----------CC
----..........((((((((((((.(((((.........)))))....)))))..)))))))..(((((......)))))-----------.. ( -16.50)
>DroAna_CAF1 25526 84 + 1
GUGUGCUCGCAGCGAAAAUAUUUACAUUGCUGGCAUAAAAACUGCACAAAUGUGAUUAUAUUUUCAUUGGGUUUUAUGCCUU-----------CC
(((((..(.(((.(((((((((((((((....(((.......)))...)))))))..)))))))).))).)...)))))...-----------.. ( -18.50)
>consensus
____GUUUACAACGAAAAUAUUUACAUUGCUGGCAUAAAAACUGCAUAAAUGUGAUUAUAUUUUCAUUGGCUUUUAUGCCUU___________CC
.............(((((((((((((((....(((.......)))...)))))))..))))))))...(((......)))............... (-14.10 = -13.97 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,215,447 – 12,215,538
Length 91
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 81.27
Mean single sequence MFE -15.78
Consensus MFE -12.57
Energy contribution -13.13
Covariance contribution 0.56
Combinations/Pair 1.27
Mean z-score -1.46
Structure conservation index 0.80
SVM decision value 0.37
SVM RNA-class probability 0.709038
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12215447 91 - 23771897
AAAACGACGGCAUAAGGCAUAAAGGCCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCAGCAAUGUAAAUAUUUUCGUAGUAAAC----
...((((..((((..(((((((((((..(((((............)))))...)))))))))))....))))........)))).......---- ( -16.30)
>DroVir_CAF1 32437 80 - 1
GG-----------CCAACAUAAAAGCCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCUGCAGUGUAAAUAUUUUCGCUGUAAAC----
((-----------(..........)))...((((((((...(((.....(((((.........))))))))...)))))))).........---- ( -15.30)
>DroWil_CAF1 34453 87 - 1
GA----UGAGUAUGAAAAAUAAAACUCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCAGCAAUGUAAAUAUUUUCGUUGUAAAC----
..----.((((.(........).))))(((((((((((....(((((...(((.......)))....)))))..)))))))))))......---- ( -14.50)
>DroYak_CAF1 29959 87 - 1
AG----ACGGCAUAAGGCAUAAAGGCCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCAGCAAUGUAAAUAUUUUCGUAGUAAAC----
..----...((....(((......))).((((((((((....(((((...(((.......)))....)))))..)))))))))).))....---- ( -16.10)
>DroMoj_CAF1 25228 80 - 1
GG-----------UUGGCAUAAAAGCCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCUGCAGUGUAAAUAUUUUUGCUGUAAAC----
..-----------..(((((((((((..(((((............)))))...)))))))))))(((((((..........)))))))...---- ( -19.10)
>DroAna_CAF1 25526 84 - 1
GG-----------AAGGCAUAAAACCCAAUGAAAAUAUAAUCACAUUUGUGCAGUUUUUAUGCCAGCAAUGUAAAUAUUUUCGCUGCGAGCACAC
..-----------..(((((((((....((....)).....(((....)))....))))))))).(((.((..........)).)))........ ( -13.40)
>consensus
GG___________AAGGCAUAAAAGCCAAUGAAAAUAUAAUCACAUUUAUGCAGUUUUUAUGCCAGCAAUGUAAAUAUUUUCGCUGUAAAC____
...............(((((((((((..(((((............)))))...))))))))))).((((((..........))))))........ (-12.57 = -13.13 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:16 2006