Locus 3046

Sequence ID 3R_DroMel_CAF1
Location 8,090,587 – 8,090,707
Length 120
Max. P 0.596404
window4921

overview

Window 1

Location 8,090,587 – 8,090,707
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.36
Mean single sequence MFE -25.88
Consensus MFE -24.16
Energy contribution -23.72
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.10
Structure conservation index 0.93
SVM decision value 0.13
SVM RNA-class probability 0.596404
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8090587 120 + 27905053
UUAAGUGCAUCUACAGCAGUGGCACAUAUGUAUGAGACCGCUGCUUCCGCUUUUGAGUCGUAGCCGCCAAAGGACAUGCGCCAAAAUAUGAAAAAACACAAAAAACGAAAUGAAAACCCG
....((((((....(((((((((.(((....))).).))))))))...(((((((.(.((....))))))))).)))))))....................................... ( -26.00)
>DroSec_CAF1 42380 116 + 1
UUAAGUGCAUCUACAGCAGUGGUACAUA----UGAGACCGCUGCUUCCGCUUUUGAGUCGUAGCCGCCAAAGGACAUGCGCCAAAAUAUGAAAAAACACAAAAAACGAAAUGAAAGCCAG
..............(((((((((.(...----...))))))))))...(((((((..((((..((......)).((((........))))..............))))..)))))))... ( -26.20)
>DroSim_CAF1 14385 116 + 1
UUAUGUGCAUCUACAGCAGUGGUACAUA----UGAGACCGCUGCUUCCGCUUUUGAGUCGUAGCCGGCAAAGGACAUGCGCCAAAAUAUGAAAAAACACAAAAAACGAAAUGAAAACCAG
...((((........((((((((.(...----...)))))))))(((...(((((.(.((((.((......))...))))))))))...)))....)))).................... ( -26.10)
>DroEre_CAF1 17356 115 + 1
UUAAAUGCAUCUACAGCAGUGGUACAUA----UGAGACCGCUGCUUCCGCUUUUGAGUCGCAGCCGCCAAAGGACAUGCGCCAAAAUAUGAAAAAACAUAA-AAACGAAAUGAAAACCAG
......((......(((((((((.(...----...))))))))))...))(((((.(.((((.((......))...))))))))))((((......)))).-.................. ( -25.50)
>DroYak_CAF1 10751 115 + 1
UCCAGUGCCCCAACAGCAGUGGUACAUA----UGAGACCGCUGCUUCCGCUUUUGAGUCGCAGCCGCCAAAGGACAUGCGCCAAAAUAUGAAAAAACAUAA-AAACGAAAUGAAAACCAG
....((......))(((((((((.(...----...))))))))))..((.(((((.(.((((.((......))...))))))))))((((......)))).-...))............. ( -25.60)
>consensus
UUAAGUGCAUCUACAGCAGUGGUACAUA____UGAGACCGCUGCUUCCGCUUUUGAGUCGUAGCCGCCAAAGGACAUGCGCCAAAAUAUGAAAAAACACAAAAAACGAAAUGAAAACCAG
....(((........((((((((.((......))..))))))))(((...(((((.(.((((.((......))...))))))))))...)))....)))..................... (-24.16 = -23.72 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:21 2006