Locus 7051

Sequence ID 2L_DroMel_CAF1
Location 19,714,791 – 19,714,886
Length 95
Max. P 0.783687
window11247 window11248

overview

Window 7

Location 19,714,791 – 19,714,886
Length 95
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 84.70
Mean single sequence MFE -28.34
Consensus MFE -20.24
Energy contribution -20.64
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.71
SVM decision value 0.45
SVM RNA-class probability 0.739283
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19714791 95 + 22407834
CUGUCUGUGCCACGCCACUUAUUGCGGCUCAGACGGUUGCAAUGAAGAAGACAAGCCACAAAGUUAUUUUGAAACUGUGCGUAGUUUGUAGUUUG-----------
(((((((.(((.((........)).))).))))))).........(((..((((((.((..((((.......))))....)).))))))..))).----------- ( -24.80)
>DroSec_CAF1 4016 92 + 1
CUGUCUGUGCCACGCCACUUAUUGUGGCACAGACGGUUGCAAUGAAG---AAAAGCCGCAAAGUUAUUUUGAAAUUGUGCGUAGUUUGUAGUUUG-----------
((((((((((((((........))))))))))))))...........---..((((((((.((((.......)))).))))..))))........----------- ( -29.60)
>DroSim_CAF1 4049 86 + 1
CUGUCUGUGCCACGCCACUUAUUGUGGCACAGACGGUUGCAAUGAAG---ACAAGCCGCAAAGUUAUUU------UGUGCGUAGUUUGUUGCUUG-----------
((((((((((((((........))))))))))))))..(((((..((---((..(((((((((...)))------)))).)).)))))))))...----------- ( -34.50)
>DroEre_CAF1 4005 101 + 1
--GUCUGUGCCACGCCACUUAUUGUGGCUCAGACGGUUGCAAUGAAG---ACAAGCCACAAAGUUAUUUUGGAGCUGUUCGUAGUUUCUAGUUUGUCUAAAAGUUG
--(((((.((((((........)))))).))))).....((((..((---((((((....(((....)))(((((((....)))))))..))))))))....)))) ( -30.80)
>DroYak_CAF1 4232 90 + 1
--GUCUGUGCAACGCCACUUAUUGUGGCUCAGACGGUUGCCAUGAAG---ACAAGCCACAAAGUUAUUUUGGAACUGUACGUAGUUUGUAGUUUG-----------
--.((((.((((((((((.....))))).(....)))))))).))..---((((((.((..((((.......))))....)).))))))......----------- ( -22.00)
>consensus
CUGUCUGUGCCACGCCACUUAUUGUGGCUCAGACGGUUGCAAUGAAG___ACAAGCCACAAAGUUAUUUUGAAACUGUGCGUAGUUUGUAGUUUG___________
..(((((.((((((........)))))).))))).................(((((.(((((.((((.............))))))))).)))))........... (-20.24 = -20.64 +   0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,714,791 – 19,714,886
Length 95
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 84.70
Mean single sequence MFE -23.89
Consensus MFE -15.94
Energy contribution -16.82
Covariance contribution 0.88
Combinations/Pair 1.15
Mean z-score -2.17
Structure conservation index 0.67
SVM decision value 0.57
SVM RNA-class probability 0.783687
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19714791 95 - 22407834
-----------CAAACUACAAACUACGCACAGUUUCAAAAUAACUUUGUGGCUUGUCUUCUUCAUUGCAACCGUCUGAGCCGCAAUAAGUGGCGUGGCACAGACAG
-----------..............((((.((((.......)))).))))((.((.......))..))....(((((.(((((..........))))).))))).. ( -23.00)
>DroSec_CAF1 4016 92 - 1
-----------CAAACUACAAACUACGCACAAUUUCAAAAUAACUUUGCGGCUUUU---CUUCAUUGCAACCGUCUGUGCCACAAUAAGUGGCGUGGCACAGACAG
-----------..............((((.................))))((....---.......))....(((((((((((..........))))))))))).. ( -24.43)
>DroSim_CAF1 4049 86 - 1
-----------CAAGCAACAAACUACGCACA------AAAUAACUUUGCGGCUUGU---CUUCAUUGCAACCGUCUGUGCCACAAUAAGUGGCGUGGCACAGACAG
-----------(((((..((((.........------.......))))..))))).---.............(((((((((((..........))))))))))).. ( -27.99)
>DroEre_CAF1 4005 101 - 1
CAACUUUUAGACAAACUAGAAACUACGAACAGCUCCAAAAUAACUUUGUGGCUUGU---CUUCAUUGCAACCGUCUGAGCCACAAUAAGUGGCGUGGCACAGAC--
....((((((.....)))))).....((..(((..((((.....))))..)))..)---)............(((((.(((((..........))))).)))))-- ( -24.10)
>DroYak_CAF1 4232 90 - 1
-----------CAAACUACAAACUACGUACAGUUCCAAAAUAACUUUGUGGCUUGU---CUUCAUGGCAACCGUCUGAGCCACAAUAAGUGGCGUUGCACAGAC--
-----------......((((.(((((...((((.......)))).))))).))))---..((.(((((((.......(((((.....)))))))))).)))).-- ( -19.91)
>consensus
___________CAAACUACAAACUACGCACAGUUCCAAAAUAACUUUGUGGCUUGU___CUUCAUUGCAACCGUCUGAGCCACAAUAAGUGGCGUGGCACAGACAG
.........................((((.((((.......)))).))))((..............))....(((((.(((((..........))))).))))).. (-15.94 = -16.82 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:10 2006