Locus 3667

Sequence ID 3R_DroMel_CAF1
Location 9,934,084 – 9,934,181
Length 97
Max. P 0.721585
window5889

overview

Window 9

Location 9,934,084 – 9,934,181
Length 97
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.26
Mean single sequence MFE -22.18
Consensus MFE -12.51
Energy contribution -12.41
Covariance contribution -0.11
Combinations/Pair 1.37
Mean z-score -1.68
Structure conservation index 0.56
SVM decision value 0.40
SVM RNA-class probability 0.721585
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9934084 97 + 27905053
UC-----------ACAGCUGUGUAUCUGUAUUUAAUGACGAAAACCGCUCGUCCAGGGCCGCAGAUAAAUUUCCAGAUACUUUUCACAUGCAGAUACUUCUGCGUAUU
..-----------........(((((((.(((((.((.((......((((.....))))))))..)))))...))))))).......(((((((....)))))))... ( -23.50)
>DroSec_CAF1 16827 97 + 1
UC-----------ACAGCUGUGUAUCUGUAUUUAAUGACGAAAACCGCUCGUCAAGGGCCGCAGAUAAAUUUCCAGAUACUUUUCACACGCAGAUACUUCUGCGUAUU
.(-----------((....)))(((((((..((..((((((.......))))))..))..)))))))....................(((((((....)))))))... ( -26.20)
>DroSim_CAF1 17070 97 + 1
UC-----------ACAGCUGUGUAUCUGUAUUUAAUGACGAAAACCGCUCGUCAAGGGCCGCAGAUAAAUUUCCAGAUACUUUUCACAUGCAGAUACUUCUGCGUAUU
.(-----------((....)))(((((((..((..((((((.......))))))..))..)))))))....................(((((((....)))))))... ( -24.40)
>DroEre_CAF1 17438 88 + 1
UC-----------ACAGCUGUGUAUCUGUA---AAUGACGAAAACCGCUCGUCCAGGGCCGCAGAUACAUUUCCAGAUACUUCUCACAUACAGAUACAGAUA------
..-----------.....(.((((((((((---..(((.(((....((((.....))))....((......)).......))))))..)))))))))).)..------ ( -20.60)
>DroWil_CAF1 21668 92 + 1
UCUGAGUGAGCGCACAGCUGUGUAUCU------AAUAAUGAAAUCCAUUUGGUCA--GCGGCAGAUACAUUUGUCGGUAUUAAUGUU-GUUAGAUAAUU-------UU
........(((.....)))...(((((------((((((.....((....))...--.(((((((....)))))))........)))-))))))))...-------.. ( -19.60)
>DroYak_CAF1 17510 90 + 1
UC-----------ACAGCUGUGUAUCUGUA---AAUGACGAAAACCGCUCGUCCAGGGCCGCAGAUACAUUUCCAGAUACUUUUCACAUACAGAUACAGAUACA----
..-----------.....(.((((((((((---..(((........((((.....))))....((......))..........)))..)))))))))).)....---- ( -18.80)
>consensus
UC___________ACAGCUGUGUAUCUGUA___AAUGACGAAAACCGCUCGUCCAGGGCCGCAGAUAAAUUUCCAGAUACUUUUCACAUGCAGAUACUUCUGCG__UU
.................((((((((((((.......(((((.......))))).......)))))))........((......))...)))))............... (-12.51 = -12.41 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:56 2006