Locus 8808

Sequence ID 3R_DroMel_CAF1
Location 23,545,052 – 23,545,145
Length 93
Max. P 0.971170
window14143

overview

Window 3

Location 23,545,052 – 23,545,145
Length 93
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 79.60
Mean single sequence MFE -18.17
Consensus MFE -13.07
Energy contribution -13.43
Covariance contribution 0.36
Combinations/Pair 1.08
Mean z-score -3.02
Structure conservation index 0.72
SVM decision value 1.67
SVM RNA-class probability 0.971170
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23545052 93 + 27905053
AUUAUCGAAACAUGCGCAAGCACACUCCACAA----CUCCU-GGCGACUUUGCCGCAUAAAUCU-UGCCAAAGUCAAAA--AAAGCAUAAAAAACACACAA
............(((....)))....(((...----....)-)).(((((((..(((.......-))))))))))....--.................... ( -16.10)
>DroVir_CAF1 17193 84 + 1
AUUAUCGAAACAUGCGGAAGCCCACUUC--AG----CUCGC-UGCGACUUUGCCGCAUAAAUCU-UGGCAAAGUCGAAC-A-AAAUAAAAUAAA-------
....((.......((((.(((.......--.)----))..)-)))((((((((((.........-))))))))))))..-.-............------- ( -22.00)
>DroGri_CAF1 16456 93 + 1
AUUAUCGAAACAUGCGGAAGCACACUUA--AAACAGCCAGCGAGCGACUUUGCCGCAUAAAUCUUUGGCAAAGUCUAAC-A-AAACAUAAAAAACUC----
............(((....)))......--.....((......))((((((((((..........))))))))))....-.-...............---- ( -20.20)
>DroSec_CAF1 11844 93 + 1
AUUAUCGAAACAUGCGCAAGCACACUCCACAA----CUCCU-GGCGACUUUGCCGCAUAAAUCU-UGCCAAAGUCAAAAAAAAAGCAUAAAAAACAC--AA
............(((....)))....(((...----....)-)).(((((((..(((.......-))))))))))......................--.. ( -16.10)
>DroWil_CAF1 11939 87 + 1
AUUAUCGAAACAUGCGCAAGCACACUU--AAA----CUCCU-GGCGACUUUGCCGCAUAAAUCU-UGCCAAAGUCAAAA----AGCAUCAAAAAAAC--GA
....(((.....(((....))).....--...----.....-...(((((((..(((.......-))))))))))....----.............)--)) ( -17.50)
>DroAna_CAF1 12563 80 + 1
AUUAUCGAAACAUGCGCAAGCACACUCC--AA----CUCCU-GGCGACUUUGCCGCAUAAAUCU-UGCCAGAGUCAAAA-AA---CAUAAAA---------
............(((....)))......--.(----(((.(-(((((..((........))..)-))))))))).....-..---.......--------- ( -17.10)
>consensus
AUUAUCGAAACAUGCGCAAGCACACUCC__AA____CUCCU_GGCGACUUUGCCGCAUAAAUCU_UGCCAAAGUCAAAA_A_AAGCAUAAAAAACAC____
............(((....))).......................(((((((..(((........)))))))))).......................... (-13.07 = -13.43 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:12 2006