Locus 9516

Sequence ID 3R_DroMel_CAF1
Location 25,148,796 – 25,148,886
Length 90
Max. P 0.652899
window15229

overview

Window 9

Location 25,148,796 – 25,148,886
Length 90
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 83.75
Mean single sequence MFE -16.84
Consensus MFE -12.33
Energy contribution -13.16
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.73
SVM decision value 0.25
SVM RNA-class probability 0.652899
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25148796 90 + 27905053
CACCAACCCCUGCUAGCCAACGA--ACAC--AGACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAAAAAAAA---------AA
...........((((((.((((.--...)--......((((....)))).))).))))))....((.(((((....))))))).........---------.. ( -17.20)
>DroSec_CAF1 6935 86 + 1
CACCAACCCCUGCUAGCCAACGA--ACAC--AGACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA----AA---------AA
...........((((((.((((.--...)--......((((....)))).))).))))))....((.(((((....)))))))...----..---------.. ( -17.20)
>DroSim_CAF1 6887 86 + 1
CACCAACCCCUGCUAGCCAACGA--ACAC--AGACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA----AA---------AA
...........((((((.((((.--...)--......((((....)))).))).))))))....((.(((((....)))))))...----..---------.. ( -17.20)
>DroEre_CAF1 8668 85 + 1
CACCCAC-CUUGCUAACCCACCA--ACAC--ACCCACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA----AA---------AA
.......-..(((..........--....--........)))...((((.((((((..(((....).))..)))))))))).....----..---------.. ( -14.35)
>DroYak_CAF1 7566 76 + 1
----------UGCUAGCCAACCA--ACAC--AGACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA----AA---------AA
----------.((((((.((((.--....--.)....((((....)))).))).))))))....((.(((((....)))))))...----..---------.. ( -16.30)
>DroPer_CAF1 8950 95 + 1
CACAUACU----CAAGCACACACUCACACUAACACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA----AAAAAAUAAAGAA
........----...(((.(((((.((.(((.((.((((((....)))).)).)).)))..)).))))).))).............----............. ( -18.80)
>consensus
CACCAACCCCUGCUAGCCAACGA__ACAC__AGACACAUGCAUAUGCAUAGUUUGCUGGCCGUAAGUGUAUGCAAACAUGCCUAAA____AA_________AA
...........((((((.(((................((((....)))).))).))))))....((.(((((....))))))).................... (-12.33 = -13.16 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:18 2006