Locus 4983

Sequence ID 2L_DroMel_CAF1
Location 14,367,673 – 14,367,781
Length 108
Max. P 0.997757
window7907 window7908

overview

Window 7

Location 14,367,673 – 14,367,781
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.37
Mean single sequence MFE -22.64
Consensus MFE -22.22
Energy contribution -22.22
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.98
SVM decision value 1.10
SVM RNA-class probability 0.915700
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14367673 108 + 22407834
------------UGGCCAACUUCAGUCGGUCAGACAUGCAAAUUUUUUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
------------.((((.((....)).))))(((((((((((....))).)))))))).....(((..(((((((((........((((......)))).....)))))))))...))). ( -22.52)
>DroSec_CAF1 15734 107 + 1
------------UGGCCAACUUCAGUCGGUCAGACAUGCAAAUUU-UUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
------------.((((.((....)).))))((((((((.((...-.)).)))))))).....(((..(((((((((........((((......)))).....)))))))))...))). ( -22.22)
>DroSim_CAF1 17837 107 + 1
------------UGGCCAACUUCAGUCGGUCAGACAUGCAAAUUU-UUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
------------.((((.((....)).))))((((((((.((...-.)).)))))))).....(((..(((((((((........((((......)))).....)))))))))...))). ( -22.22)
>DroEre_CAF1 16804 107 + 1
------------UGGCCAACUUCAGUCGGUCAGACAUGCAAAUUU-UUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
------------.((((.((....)).))))((((((((.((...-.)).)))))))).....(((..(((((((((........((((......)))).....)))))))))...))). ( -22.22)
>DroYak_CAF1 17187 119 + 1
CCCAUAGUGCGUUGGCCAACUUCAGUCGGUCAGACAUGCAAAUUU-UUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
........(((((((((.((....)).))))((((((((.((...-.)).)))))))))))))(((..(((((((((........((((......)))).....)))))))))...))). ( -24.02)
>consensus
____________UGGCCAACUUCAGUCGGUCAGACAUGCAAAUUU_UUUGGUGUGUCUAAUGUUAGUUGUUUGUUAGUUUUUUAUGCAAAUUUUCUUGUUUCACUUGACAAAUUGUCUGU
.............((((.((....)).))))((((((((.((.....)).)))))))).....(((..(((((((((........((((......)))).....)))))))))...))). (-22.22 = -22.22 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,367,673 – 14,367,781
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.37
Mean single sequence MFE -16.92
Consensus MFE -16.60
Energy contribution -16.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.98
SVM decision value 2.92
SVM RNA-class probability 0.997757
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14367673 108 - 22407834
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAAAAAAUUUGCAUGUCUGACCGACUGAAGUUGGCCA------------
.((((((.((((((((((...........))))).)))))..............(((....)))....................)))))).(((((....)))))...------------ ( -16.60)
>DroSec_CAF1 15734 107 - 1
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAA-AAAUUUGCAUGUCUGACCGACUGAAGUUGGCCA------------
.((((((.((((((((((...........))))).)))))..............(((....)))..........-.........)))))).(((((....)))))...------------ ( -16.60)
>DroSim_CAF1 17837 107 - 1
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAA-AAAUUUGCAUGUCUGACCGACUGAAGUUGGCCA------------
.((((((.((((((((((...........))))).)))))..............(((....)))..........-.........)))))).(((((....)))))...------------ ( -16.60)
>DroEre_CAF1 16804 107 - 1
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAA-AAAUUUGCAUGUCUGACCGACUGAAGUUGGCCA------------
.((((((.((((((((((...........))))).)))))..............(((....)))..........-.........)))))).(((((....)))))...------------ ( -16.60)
>DroYak_CAF1 17187 119 - 1
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAA-AAAUUUGCAUGUCUGACCGACUGAAGUUGGCCAACGCACUAUGGG
.((((((.((((((((((...........))))).)))))..............(((....)))..........-.........)))))).(((((....)))))(((........))). ( -18.20)
>consensus
ACAGACAAUUUGUCAAGUGAAACAAGAAAAUUUGCAUAAAAAACUAACAAACAACUAACAUUAGACACACCAAA_AAAUUUGCAUGUCUGACCGACUGAAGUUGGCCA____________
.((((((.((((((((((...........))))).)))))..............(((....)))....................)))))).(((((....)))))............... (-16.60 = -16.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:40 2006