Locus 10

Sequence ID 4_DroMel_CAF1
Location 154,725 – 154,832
Length 107
Max. P 0.837038
window16

overview

Window 6

Location 154,725 – 154,832
Length 107
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 84.45
Mean single sequence MFE -29.40
Consensus MFE -20.41
Energy contribution -21.72
Covariance contribution 1.31
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.69
SVM decision value 0.74
SVM RNA-class probability 0.837038
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 154725 107 + 1281640
AAGUGUCGAAGAAUUUA-UAAUUGCCUUCACUUGUAAUUUUAAAUUGUUCAGAAAUGUUCGCAAGUCAGAGCAAGGCUUGUGA---------UUCUCCGAGUGAGACUGUGCACCUA
.(((.(((((.((((((-.((((((........)))))).)))))).)))((((....(((((((((.......)))))))))---------))))......)).)))......... ( -27.30)
>DroSec_CAF1 29290 116 + 1
AACUGUCGCAGAAUUCA-UAAUUGCCUGCACUUGUAAUUUUAAAUUGUCCAGAAAUGUUCGCAAGUCAGAGCAAGGCUUGUGAGAUUAAUAAUUCUCGAAGUGAGACAGUGCAGCUA
.((((((..........-...(((((((.(((((((((.....)))(..((....))..)))))))))).)))).((((.(((((........)))))))))..))))))....... ( -30.30)
>DroEre_CAF1 16490 117 + 1
AGCUGUCGCAGAAUUAAAUAUUUGCUUGCCUUUGUAAUUUUAAAUUGUUCAGAAAUGUUCACAAGUCAGAGCAAGGCGUGUGAGAUUACCAAUUCUCAAAAUGAAACAGUGCAGCUA
(((((.(((..............((.((((((((......))))((((((.((..((....))..)).)))))))))).))((((........))))...........)))))))). ( -27.50)
>DroYak_CAF1 16648 117 + 1
AGCUGUCGCAGAACUAAAAAGUUGCCUUCCUUUGUAAUUUUAAAUUGUUCAGAAAUGUUCACAAGUCAGAGCAAGGCUUGUGAGAUUACUAAUUCUCAAAGUGAGACAGUACAGCUA
((((((.((.((((...((((((((........)))))))).....))))((.(((.((((((((((.......))))))))))))).))...((((.....))))..)))))))). ( -32.50)
>consensus
AACUGUCGCAGAAUUAA_UAAUUGCCUGCACUUGUAAUUUUAAAUUGUUCAGAAAUGUUCACAAGUCAGAGCAAGGCUUGUGAGAUUACUAAUUCUCAAAGUGAGACAGUGCAGCUA
(((((.(((.((((.....((((((........)))))).......)))).......((((((((((.......)))))))))).........((((.....))))..)))))))). (-20.41 = -21.72 +   1.31) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:02 2006