Locus 5018

Sequence ID 2R_DroMel_CAF1
Location 16,318,950 – 16,319,040
Length 90
Max. P 0.500000
window8026

overview

Window 6

Location 16,318,950 – 16,319,040
Length 90
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.14
Mean single sequence MFE -19.04
Consensus MFE -12.61
Energy contribution -12.95
Covariance contribution 0.34
Combinations/Pair 1.21
Mean z-score -1.24
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16318950 90 - 20766785
UACGCCAAACACCCGACGAGGCCA---------CCCACCUACAGCAAUCCUCGAUCGUCGAGUCCAUUUC--UAUCUCAGUCGCUUAAGCAGCUUAAGGCA
...(((........((((((((..---------..........))....((((.....))))........--...))).)))((....)).......))). ( -17.70)
>DroSec_CAF1 22213 90 - 1
UACGCCGCACACCCGACGAGUCCA---------GCCACCUCCAGCAAUCCUCGAUCGUCGAGUUCAUUUC--UAUCUCAGCCGCUUAAGCAGCUUAAGGCA
...(((.......(((((((....---------((........))....)))).)))..(((........--...)))(((.((....)).)))...))). ( -19.00)
>DroSim_CAF1 22609 90 - 1
UACGCCGCACACCCGACGAGUCCA---------GCCACCUCCAGCAAUCCUCGAUCGUCGAGUCCAUUUC--UAUCUCAGCCGCUUAAGCAGCUUAAGGCA
...(((.......(((((((....---------((........))....)))).)))..(((........--...)))(((.((....)).)))...))). ( -19.00)
>DroEre_CAF1 21404 90 - 1
UACGCCGAACACCCGGCGAAUCCA---------UCCACCUCGAACAAUCCUCGAUCGUCGAGUCCAUUUC--UAUCUCAGCCGCUUAAGCAGCUUAAGGCA
..(((((......)))))......---------......((((.......))))..((((((........--...)))(((.((....)).)))...))). ( -20.40)
>DroYak_CAF1 22227 99 - 1
UACGCCAAACACCCGACGAAUCCGACAAAUCUGCCCACCUCCAACAAUCCUCGAUCGUCGAGUCCAUUUC--UAUCUGAGCCGCUUAAGCAGCUUAAGGCA
...(((....((.((((((...(((.........................))).)))))).)).......--....(((((.((....)).))))).))). ( -21.01)
>DroAna_CAF1 23020 86 - 1
UACGCCGAAAGCACAGUGGAACC--------------UCUAGAAUAAUCCCCUAGCCCCAUG-CCGUCCCCAAAUCUCAUCCGCUUAAGCAGCUUAAGGCA
...(((..((((...((((....--------------.((((.........))))..)))).-...................((....)).))))..))). ( -17.10)
>consensus
UACGCCGAACACCCGACGAAUCCA_________CCCACCUCCAACAAUCCUCGAUCGUCGAGUCCAUUUC__UAUCUCAGCCGCUUAAGCAGCUUAAGGCA
...(((.......((((((...................................))))))..................(((.((....)).)))...))). (-12.61 = -12.95 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:30 2006