Locus 2554

Sequence ID 3R_DroMel_CAF1
Location 6,930,198 – 6,930,306
Length 108
Max. P 0.885018
window4167

overview

Window 7

Location 6,930,198 – 6,930,306
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 95.18
Mean single sequence MFE -29.06
Consensus MFE -26.62
Energy contribution -26.90
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.37
Structure conservation index 0.92
SVM decision value 0.93
SVM RNA-class probability 0.885018
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6930198 108 + 27905053
AGUGUGCUUCUUUUGUGGUCCUCGCUAGCUGGUGUCAUAUUCCCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGACGGCGCAUAACUAAAUG
.(((((((((......(((....((.((((((((((((((((..............)))))))))....))))))).))..))).....)).)))))))......... ( -31.04)
>DroSec_CAF1 78919 108 + 1
AGUGUGCUUCUUUUGUGGUCCUCGUAAGCUGGUGUCAUUUUACCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGAAGGCGCAUAACUAAAUG
.(((((((...((..(((.....((((((((((.(((..((((....(.......)....))))..)))))))))))))......)))..)))))))))......... ( -29.20)
>DroSim_CAF1 80143 108 + 1
AGUGUGCUUCUUUUGUGGUCUUCGUAAGCUGGUGUCAUUUUACCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGACGGCGCAUAACUAAAUG
.(((((((((......(((....((((((((((.(((..((((....(.......)....))))..)))))))))))))..))).....)).)))))))......... ( -28.30)
>DroEre_CAF1 80767 107 + 1
AGUGUCCCUCUUUUGUGGUUCUGGUAAGCUGGUGUCAUUUU-CCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGACGGCGCAUAACUAAAUG
.(((.((.((......(((...((((((((((((((((.((-(.............))).)))))....))))))))))).))).....)).)))))........... ( -29.92)
>DroYak_CAF1 80835 107 + 1
AGUGUGCUUCUUUUGCGGUCCUCCUAAGCUGGUGUCAUUUU-CCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGACGGCGCAUAACUAAAUG
.(((((((((......((....))((((((((((((((.((-(.............))).)))))....)))))))))...........)).)))))))......... ( -26.82)
>consensus
AGUGUGCUUCUUUUGUGGUCCUCGUAAGCUGGUGUCAUUUU_CCCCAGACUUAUCCGAAUGUGACUUGGACCAGCUUGCUUAUCUUUAUGACGGCGCAUAACUAAAUG
.(((((((((......(((....(((((((((((((...........)))....((((.......))))))))))))))..))).....)).)))))))......... (-26.62 = -26.90 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:08 2006