Locus 5253

Sequence ID 2L_DroMel_CAF1
Location 14,814,729 – 14,814,827
Length 98
Max. P 0.772447
window8363 window8364

overview

Window 3

Location 14,814,729 – 14,814,827
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.35
Mean single sequence MFE -27.77
Consensus MFE -16.83
Energy contribution -17.00
Covariance contribution 0.17
Combinations/Pair 1.14
Mean z-score -2.67
Structure conservation index 0.61
SVM decision value 0.20
SVM RNA-class probability 0.630320
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14814729 98 + 22407834
CAAUGGGAAACUCGAAAUAAGCCAAGCAAACAGAAAUAAGCGAGGUGGAAAAAACAACGGCC--CCGUUGACUAAUUAGG-GGCAUUAGUCAACAGUGGCA-------------------
....((....))........((((.................(.(((.(.........).)))--.)((((((((((....-...))))))))))..)))).------------------- ( -22.90)
>DroSec_CAF1 56218 98 + 1
CAAUGGGAAACUCGAAAUAAUCCAAGCAAACAGAAAUAACCGGGGUGGAAAAAACAACGGCC--CCGUUGACUAAUUAGG-GGCAUUAGUCAACAGUGGCA-------------------
....((....)).............((..............(((((.(.........).)))--))((((((((((....-...))))))))))....)).------------------- ( -25.60)
>DroSim_CAF1 56778 98 + 1
CAAUGGGAAACUCGAAAUAAGCCAAGCAAACAGAAAUAAGCGGGGUGGAAAAAACAACGGCC--CCGUUGACUAAUUAGG-GGCAUUAGUCAACAGUGGCA-------------------
....((....))........((((.................(((((.(.........).)))--))((((((((((....-...))))))))))..)))).------------------- ( -29.80)
>DroEre_CAF1 52014 98 + 1
CAAUGGGAAACUCGAAAUAAGCCAAGCAAACAGAAAUUAGCGGGGUGGAAAAAACAAUGGCC--CCGUUGACUAAUUAGG-GGCAUUAGUCAACAGUGGCA-------------------
....((....))........((((.................(((((.(.........).)))--))((((((((((....-...))))))))))..)))).------------------- ( -27.90)
>DroYak_CAF1 53628 98 + 1
CAAUGGGAAACUCGAAAUAAGCCAAGCAAACAGAAAUAAGCGGGGUGGAAAAAACAACGGCC--CCGUUGACUAAUUAGG-GGCAUUAGUCAACAGUGGCA-------------------
....((....))........((((.................(((((.(.........).)))--))((((((((((....-...))))))))))..)))).------------------- ( -29.80)
>DroAna_CAF1 51749 117 + 1
CAAUGGGAAGCACGAAAUGAACCCAGCAGAAA-AAACAAUGAGGGUGAAAAA--CAGCCACUGGGCUUUGACUAAUUAGAAGGCAUUAGUCAAAACAGGCUCUGUCCGGUCCCGGCCCGG
...((((...((.....))..)))).......-.........((.((.....--)).)).((((((((((((((((........)))))))))....((..((....))..))))))))) ( -30.60)
>consensus
CAAUGGGAAACUCGAAAUAAGCCAAGCAAACAGAAAUAAGCGGGGUGGAAAAAACAACGGCC__CCGUUGACUAAUUAGG_GGCAUUAGUCAACAGUGGCA___________________
...(((....).))......((((................((..((.......))..)).......((((((((((........))))))))))..)))).................... (-16.83 = -17.00 +   0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,814,729 – 14,814,827
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.35
Mean single sequence MFE -26.85
Consensus MFE -19.56
Energy contribution -19.07
Covariance contribution -0.50
Combinations/Pair 1.20
Mean z-score -2.38
Structure conservation index 0.73
SVM decision value 0.53
SVM RNA-class probability 0.772447
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14814729 98 - 22407834
-------------------UGCCACUGUUGACUAAUGCC-CCUAAUUAGUCAACGG--GGCCGUUGUUUUUUCCACCUCGCUUAUUUCUGUUUGCUUGGCUUAUUUCGAGUUUCCCAUUG
-------------------.(((.((((((((((((...-....))))))))))))--)))..............((..((..((....))..))..))..................... ( -24.60)
>DroSec_CAF1 56218 98 - 1
-------------------UGCCACUGUUGACUAAUGCC-CCUAAUUAGUCAACGG--GGCCGUUGUUUUUUCCACCCCGGUUAUUUCUGUUUGCUUGGAUUAUUUCGAGUUUCCCAUUG
-------------------.(((.((((((((((((...-....))))))))))))--))).................(((......)))...(((((((....)))))))......... ( -27.10)
>DroSim_CAF1 56778 98 - 1
-------------------UGCCACUGUUGACUAAUGCC-CCUAAUUAGUCAACGG--GGCCGUUGUUUUUUCCACCCCGCUUAUUUCUGUUUGCUUGGCUUAUUUCGAGUUUCCCAUUG
-------------------.((((..((((((((((...-....))))))))))((--((...............))))((..((....))..)).)))).................... ( -24.86)
>DroEre_CAF1 52014 98 - 1
-------------------UGCCACUGUUGACUAAUGCC-CCUAAUUAGUCAACGG--GGCCAUUGUUUUUUCCACCCCGCUAAUUUCUGUUUGCUUGGCUUAUUUCGAGUUUCCCAUUG
-------------------.((((..((((((((((...-....))))))))))((--((...............))))((.(((....))).)).)))).................... ( -24.96)
>DroYak_CAF1 53628 98 - 1
-------------------UGCCACUGUUGACUAAUGCC-CCUAAUUAGUCAACGG--GGCCGUUGUUUUUUCCACCCCGCUUAUUUCUGUUUGCUUGGCUUAUUUCGAGUUUCCCAUUG
-------------------.((((..((((((((((...-....))))))))))((--((...............))))((..((....))..)).)))).................... ( -24.86)
>DroAna_CAF1 51749 117 - 1
CCGGGCCGGGACCGGACAGAGCCUGUUUUGACUAAUGCCUUCUAAUUAGUCAAAGCCCAGUGGCUG--UUUUUCACCCUCAUUGUUU-UUUCUGCUGGGUUCAUUUCGUGCUUCCCAUUG
..(((..(((..((((..((((((((((((((((((........)))))))))))).((((((..(--(.....))..))))))...-........))))))..))))..)))))).... ( -34.70)
>consensus
___________________UGCCACUGUUGACUAAUGCC_CCUAAUUAGUCAACGG__GGCCGUUGUUUUUUCCACCCCGCUUAUUUCUGUUUGCUUGGCUUAUUUCGAGUUUCCCAUUG
....................((..((((((((((((........))))))))))))...))................................((((((......))))))......... (-19.56 = -19.07 +  -0.50)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:50 2006