Locus 4312

Sequence ID 2L_DroMel_CAF1
Location 12,333,585 – 12,333,685
Length 100
Max. P 0.676411
window6798

overview

Window 8

Location 12,333,585 – 12,333,685
Length 100
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 81.77
Mean single sequence MFE -34.03
Consensus MFE -21.44
Energy contribution -21.92
Covariance contribution 0.47
Combinations/Pair 1.10
Mean z-score -1.99
Structure conservation index 0.63
SVM decision value 0.30
SVM RNA-class probability 0.676411
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12333585 100 + 22407834
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCAGCCAGCCAG-GUAACAUGAA---------AAAGGAGC-----UCAGUCAGGCAGACA----GUCUGGCCGUGAGCUAAG
...........((((((.....(((..(((((....))).)).)))..)-))))).....---------.....(((-----((((((((((.....----)))))))..))))))... ( -31.20)
>DroPse_CAF1 230480 104 + 1
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGACUGCCAUGGGG---------------GGGGCAGAGGGGCACAAUUCAGUCAGGCAGACACACUGUCUGCCAGUCAGCUAAG
...(((((.((((((((.........))))))))....(((((......---------------..)))))..)))))...........(((((((.....)))))))........... ( -35.60)
>DroSim_CAF1 161630 100 + 1
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCAGCCAGCCAU-GUAACAUGAA---------AAAGGAGC-----UCAGUCAGGCAGACA----GUCUGGCCGUGAGCUAAG
....(((((.....((((....(((..(((((....))).)).)))(((-(...))))..---------....))))-----...(((((((.....----)))))))..))))).... ( -31.90)
>DroEre_CAF1 156132 100 + 1
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCAGCCAGCCAG-GUAACAUGAA---------AAAGGAGC-----UCAGUCAGGCAGACA----GUCUGGCCGAGAGCUAAG
....((((...((((((.....(((..(((((....))).)).)))..)-))))).....---------........-----((.(((((((.....----))))))).)))))).... ( -30.60)
>DroYak_CAF1 162831 100 + 1
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCAGCCAGCCAG-GUAACAUGAA---------AAAGGAGC-----UCAGUCAGACAGACA----GUCUGGCCGUGAGCUAAG
...........((((((.....(((..(((((....))).)).)))..)-))))).....---------.....(((-----((((((((((.....----)))))))..))))))... ( -31.80)
>DroPer_CAF1 235944 119 + 1
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCUGCCACGGGGUGGGGCAUGAAGGGGUGGGCAGAGGGGCACAAUUCAGUCAGGCAGACACACUGUCUGCCAGUCAGCUAAG
...(((((....(((((((...(((....)))(((((((..((....))..).)))))).....)))))))..)))))...........(((((((.....)))))))........... ( -43.10)
>consensus
ACAUGCUCAAAGUUGCUCAAAAGCUAAGCGGCUUAUGCCAGCCAGCCAG_GUAACAUGAA_________AAAGGAGC_____UCAGUCAGGCAGACA____GUCUGGCCGUGAGCUAAG
....(((((.....((((....((...))(((........)))..............................))))........(((((((.........)))))))..))))).... (-21.44 = -21.92 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:49 2006