Locus 111

Sequence ID 2L_DroMel_CAF1
Location 372,194 – 372,352
Length 158
Max. P 0.998409
window163 window164

overview

Window 3

Location 372,194 – 372,285
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 97.80
Mean single sequence MFE -14.23
Consensus MFE -13.04
Energy contribution -13.04
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.92
SVM decision value 1.48
SVM RNA-class probability 0.958058
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372194 91 + 22407834
CAUCGUAGUUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCAC
....((((...(((......((.((.(((((((.......))))))).)).)).......)))...)).))((((((......)))))).. ( -13.52)
>DroSec_CAF1 39854 91 + 1
CAUGGUAGUUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUGAUUUUACGGCAC
..(((.....))).......(((((.(((((((.......))))))).............)))))......((((((......)))))).. ( -13.74)
>DroSim_CAF1 40524 91 + 1
CAUGGUAGUUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCAC
..(((.....))).......(((((.(((((((.......))))))).............)))))......((((((......)))))).. ( -13.74)
>DroEre_CAF1 46387 91 + 1
CAUGGUAGUUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCUC
..(((.....))).......(((((.(((((((.......))))))).............)))))......((((((......)))))).. ( -13.24)
>DroYak_CAF1 41040 91 + 1
CAUGGUAGAUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUCACUUUACGGCAC
....((((((.(((......((.((.(((((((.......))))))).)).)).......))).)))).))((((((......)))))).. ( -16.92)
>consensus
CAUGGUAGUUCCACUUUAUUUGCAUUUUUAAUUUGUUCCUAAUUAAAUAUUCAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCAC
....((((...(((......((.((.(((((((.......))))))).)).)).......)))...)).))((((((......)))))).. (-13.04 = -13.04 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 372,245 – 372,352
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.47
Mean single sequence MFE -34.60
Consensus MFE -33.90
Energy contribution -33.90
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -2.00
Structure conservation index 0.98
SVM decision value 3.09
SVM RNA-class probability 0.998409
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372245 107 + 22407834
CAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCACUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGAAGCCGACUCGCGGGAGAAAGUCGGCGAGAUGCGUG-------------
...........(((((((..((((((......))))))..........(((((..(((....)))...)))))(((((((..(....)..))))))))))))))...------------- ( -37.80)
>DroSec_CAF1 39905 107 + 1
CAUCUCUCUGUGCAUCUCACGCUGUGUGAUUUUACGGCACUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGAAGCCGACUCGCGGGAGAAAGUCGGCGAGAUGCGUG-------------
...........(((((((..((((((......))))))..........(((((..(((....)))...)))))(((((((..(....)..))))))))))))))...------------- ( -37.80)
>DroSim_CAF1 40575 107 + 1
CAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCACUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGAAGCCGACUCGCGGGAGAAAGUCGGCGAGAUGCGUG-------------
...........(((((((..((((((......))))))..........(((((..(((....)))...)))))(((((((..(....)..))))))))))))))...------------- ( -37.80)
>DroEre_CAF1 46438 120 + 1
CAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCUCUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGGAGCCGACUCGCGGUAGAAAGUCGGCGAGGUAUAUAUACAUAUUUCCCU
........((((.(((((..((((((......))))))..........(((((..(((....)))...)))))(((((((..(....)..)))))))))))).))))............. ( -29.40)
>DroYak_CAF1 41091 113 + 1
CAUCUCUCUGUGCAUCUCACGCUGUGUCACUUUACGGCACUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGAAGCCGACUCGCGGUAGAAAGUCUGCGAGCUGCGAGUAUGGA-------
......(((((((.((....((((((......))))))..........(((((..(((....)))...)))))((.(.(((((((........)))))))).)))))))))))------- ( -30.20)
>consensus
CAUCUCUCUGUGCAUCUCACGCUGUGUCAUUUUACGGCACUUGAUUUAUUCGAAUAUCCCCUGAUUAAUUGAAGCCGACUCGCGGGAGAAAGUCGGCGAGAUGCGUG_____________
..........((((((((..((((((......))))))..........(((((..(((....)))...)))))(((((((..(....)..)))))))))))))))............... (-33.90 = -33.90 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:06 2006