Locus 3567

Sequence ID 3L_DroMel_CAF1
Location 10,463,586 – 10,463,697
Length 111
Max. P 0.964753
window5561 window5562

overview

Window 1

Location 10,463,586 – 10,463,677
Length 91
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 89.13
Mean single sequence MFE -20.74
Consensus MFE -16.31
Energy contribution -16.25
Covariance contribution -0.06
Combinations/Pair 1.05
Mean z-score -2.77
Structure conservation index 0.79
SVM decision value 0.49
SVM RNA-class probability 0.757196
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10463586 91 + 23771897
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUAUAUA
...............(((((.((((.......((((((((((....))))))))))............)))------).)))))............. ( -20.91)
>DroSec_CAF1 335284 87 + 1
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUA----
...............(((((.((((.......((((((((((....))))))))))............)))------).))))).........---- ( -20.91)
>DroSim_CAF1 352233 87 + 1
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUA----
...............(((((.((((.......((((((((((....))))))))))............)))------).))))).........---- ( -20.91)
>DroEre_CAF1 348884 86 + 1
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACUUAAAUAC------CACCAUACCAUAUAU-----
...............(((((.((((.......((((((((((....))))))))))............)))------).)))))........----- ( -20.91)
>DroYak_CAF1 349624 90 + 1
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUACUCGUACCACC--ACCACAUAU-----
..............((((((.(((........((((((((((....))))))))))....(((..........)))..)))--.))))))..----- ( -24.20)
>DroAna_CAF1 340728 84 + 1
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGAAAAUGUUGUCAACACUAAUACUGAAAGAG------CCCCCC--CACAGAC-----
...............(((((.((.........(((((((((......)))))))))......((.....))------...)))--))))...----- ( -16.60)
>consensus
UGGCAAAACUUUAAAUGUGGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC______CACCAUACCAUAUAU_____
..((...((.......)).))((((.((....((((((((((....)))))))))).)).))))................................. (-16.31 = -16.25 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,463,604 – 10,463,697
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 79.54
Mean single sequence MFE -19.22
Consensus MFE -14.10
Energy contribution -14.05
Covariance contribution -0.05
Combinations/Pair 1.06
Mean z-score -2.70
Structure conservation index 0.73
SVM decision value 1.57
SVM RNA-class probability 0.964753
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10463604 93 + 23771897
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUAUAUAUUUGUAUGUAGACACAUACG
((.((((.......((((((((((....))))))))))............)))------).))...(((((((((......)))))))))......... ( -25.71)
>DroSec_CAF1 335302 73 + 1
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUA--------------------UACG
((.((((.......((((((((((....))))))))))............)))------).))............--------------------.... ( -17.81)
>DroSim_CAF1 352251 73 + 1
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC------CACCAUACUAUAUAUA--------------------UACG
((.((((.......((((((((((....))))))))))............)))------).))............--------------------.... ( -17.81)
>DroEre_CAF1 348902 81 + 1
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACUUAAAUAC------CACCAUACCAUAUAU------------GUGGACACAUACG
((.((((.......((((((((((....))))))))))............)))------).))...((((....------------))))......... ( -21.11)
>DroYak_CAF1 349642 85 + 1
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUACUCGUACCACC--ACCACAUAU------------GUAGACACAUACG
((.((((.(((...((((((((((....))))))))))...((......))..))))))).))--......(((------------((....))))).. ( -20.70)
>DroAna_CAF1 340746 74 + 1
GGCGGUAAUGAAAUUGUUGGCAGAAAAUGUUGUCAACACUAAUACUGAAAGAG------CCCCCC--CACAGAC----------------ACACAUAC-
((.(((........(((((((((......)))))))))((.........)).)------))))..--.......----------------........- ( -12.20)
>consensus
GGCGGUAAUGAAAUUGUUGGCAGCAAAUGUUGUCAACACUAAUACCUAAAUAC______CACCAUACCAUAUAU________________ACACAUACG
...((((.((....((((((((((....)))))))))).)).))))..................................................... (-14.10 = -14.05 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:09 2006