Locus 5914

Sequence ID	2R_DroMel_CAF1
Location	18,656,258 – 18,656,357
Length	99
Max. P	0.954158

overview

Window 1

Location	18,656,258 – 18,656,357
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	90.45
Mean single sequence MFE	-33.44
Consensus MFE	-25.64
Energy contribution	-26.24
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.43
Structure conservation index	0.77
SVM decision value	1.44
SVM RNA-class probability	0.954158
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18656258 99 + 20766785
GGGUGGUGUAUGCCACCCCUUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAAUGUUAGGGGUUUCCACUCCAUCCACGCCAUU
(((((((....))))))).......((((....)))).((((((...((((.((.(((((.(...........).))))).)).)))).....)))))) ( -34.80)
>DroSec_CAF1 19903 99 + 1
GGGUGGUGUAUGCCACCCCUUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAAUGUUAGGGGUUUCCACUCCAUCCACGCCAUU
(((((((....))))))).......((((....)))).((((((...((((.((.(((((.(...........).))))).)).)))).....)))))) ( -34.80)
>DroSim_CAF1 19984 90 + 1
GGGUGGUGUAUGCCACCCCUUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAACGUUAGGGGUUUCC---------ACGCCAUU
(((((((....))))))).......((((....)))).((((((...(((((......(((((.....)).)))....))))---------).)))))) ( -30.90)
>DroEre_CAF1 19760 97 + 1
GGGUGGUGUAUGCCACCCCAUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAAUGUUAGGGGUUUCCACUCUGUC--UGCCAUU
(((((((....))))))).......((((....)))).(((((((..((((.((.(((((.(...........).))))).)).))))..--))))))) ( -35.10)
>DroYak_CAF1 20179 95 + 1
GGGCGGUGUAUGCCACCCCGUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAAUGUUAGGGGUUUCCAUU--GCC--GCCAACU
.(((((((.(((..(((((......((((....))))..((.(((.((........)).))).))........)))))...))))--)))--))).... ( -31.60)
>consensus
GGGUGGUGUAUGCCACCCCUUUUUGGCCACCACUGGCAAAUGGCAAUUGGAAUGUAAACUGCGAUAAAUGUUAGGGGUUUCCACUC_AUC_ACGCCAUU
(((((((....))))))).....(((..(((.((((((.((.(((.((........)).))).))...)))))).)))..)))................ (-25.64 = -26.24 +   0.60)

alignment

secondary structure

dotplot

Window 2

Location	18,656,258 – 18,656,357
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	90.45
Mean single sequence MFE	-29.47
Consensus MFE	-22.90
Energy contribution	-22.78
Covariance contribution	-0.12
Combinations/Pair	1.08
Mean z-score	-1.70
Structure conservation index	0.78
SVM decision value	0.44
SVM RNA-class probability	0.737164
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18656258 99 - 20766785
AAUGGCGUGGAUGGAGUGGAAACCCCUAACAUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAAAGGGGUGGCAUACACCACCC
..((((((((.(((((((.((((.................)))).)))))))....))))..))))((((((((((........))))...)))))).. ( -31.93)
>DroSec_CAF1 19903 99 - 1
AAUGGCGUGGAUGGAGUGGAAACCCCUAACAUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAAAGGGGUGGCAUACACCACCC
..((((((((.(((((((.((((.................)))).)))))))....))))..))))((((((((((........))))...)))))).. ( -31.93)
>DroSim_CAF1 19984 90 - 1
AAUGGCGU---------GGAAACCCCUAACGUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAAAGGGGUGGCAUACACCACCC
..(((.((---------((..((((((..........((((((........)))))).....((((....)))).....))))))..).))).)))... ( -26.20)
>DroEre_CAF1 19760 97 - 1
AAUGGCA--GACAGAGUGGAAACCCCUAACAUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAAUGGGGUGGCAUACACCACCC
..(((((--((..(((((...........)))))...((((((........))))))..)))))))((((((((((........))))...)))))).. ( -28.00)
>DroYak_CAF1 20179 95 - 1
AGUUGGC--GGC--AAUGGAAACCCCUAACAUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAACGGGGUGGCAUACACCGCCC
....(((--((.--....(..(((((...........((((((........)))))).....((((....))))......)))))..).....))))). ( -29.30)
>consensus
AAUGGCGU_GAC_GAGUGGAAACCCCUAACAUUUAUCGCAGUUUACAUUCCAAUUGCCAUUUGCCAGUGGUGGCCAAAAAGGGGUGGCAUACACCACCC
................(((..(((.((..((...((.((((((........)))))).)).))..)).)))..))).....((((((......)))))) (-22.90 = -22.78 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:58 2006