Locus 8656

Sequence ID 3R_DroMel_CAF1
Location 23,148,894 – 23,149,019
Length 125
Max. P 0.999606
window13900 window13901

overview

Window 0

Location 23,148,894 – 23,149,003
Length 109
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 83.03
Mean single sequence MFE -27.70
Consensus MFE -19.33
Energy contribution -19.33
Covariance contribution 0.01
Combinations/Pair 1.12
Mean z-score -2.45
Structure conservation index 0.70
SVM decision value 1.02
SVM RNA-class probability 0.902129
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23148894 109 - 27905053
CCCGCUUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUUGCGAAUGA-AAGUAGAGAGCGCCACUUACAAGUUAUGGUA-AACUCUUGGCCAGAAGUA
.......((((((.(((((((((.(((((....)))))....((........)).....)-)))))))).(.((((.((((........)))-).....))))).)))))) ( -25.70)
>DroSim_CAF1 4229 104 - 1
-----UUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUGA-AAGUAGAGAGCGCCACUCGCAACUUAUGGUU-AACUCUUGGCCAGGAGUA
-----.........(((((((((.(((((....)))))....((((....)))).....)-)))))))).(((.....))).((((.(((((-(.....)))))).)))). ( -29.60)
>DroYak_CAF1 4227 100 - 1
CCCG-----CUUUACUUUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUAAAAAGUAGAGAGCGCCA------GGAAAUGGUAAAACUCUUGGCCAAAAGUA
...(-----((((.(((((((((.(((((....)))))....((((....))))......))))))))).(.((((------(((...........)))))))).))))). ( -27.80)
>consensus
CCCG_UUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUGA_AAGUAGAGAGCGCCACU__CAAGUUAUGGUA_AACUCUUGGCCAGAAGUA
.......((((((.((((((((..(((((....)))))....((........)).......)))))))).(.((((.......................))))).)))))) (-19.33 = -19.33 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 23,148,924 – 23,149,019
Length 95
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 75.09
Mean single sequence MFE -23.50
Consensus MFE -14.72
Energy contribution -14.50
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -2.86
Structure conservation index 0.63
SVM decision value 3.78
SVM RNA-class probability 0.999606
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23148924 95 - 27905053
AUUGGUGAAAAGGAAACCCGCUUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUUGCGAAUGA-AAGUAGAGAGCGCCACUUA
..(((((....((....))...........(((((((((.(((((....)))))....((........)).....)-))))))))..))))).... ( -24.60)
>DroSim_CAF1 4259 74 - 1
---------------------UUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUGA-AAGUAGAGAGCGCCACUCG
---------------------.........(((((((((.(((((....)))))....((((....)))).....)-))))))))........... ( -18.50)
>DroYak_CAF1 4256 86 - 1
AUUGGCGGAAAGC-AACCCG-----CUUUACUUUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUAAAAAGUAGAGAGCGCCA----
..(((((.(((((-.....)-----)))).(((((((((.(((((....)))))....((((....))))......)))))))))..)))))---- ( -27.40)
>consensus
AUUGG_G_AAAG__AACCCG_UUUACUUUACUCUACUUUAGUUGUCAAUGCAACAUAAGCUACUUAUGGCGAAUGA_AAGUAGAGAGCGCCACU__
..............................((((((((..(((((....)))))....((........)).......))))))))........... (-14.72 = -14.50 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:28 2006