Locus 3261

Sequence ID	2L_DroMel_CAF1
Location	9,411,695 – 9,411,852
Length	157
Max. P	0.647085

overview

Window 8

Location	9,411,695 – 9,411,798
Length	103
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	83.00
Mean single sequence MFE	-28.42
Consensus MFE	-17.94
Energy contribution	-18.03
Covariance contribution	0.09
Combinations/Pair	1.10
Mean z-score	-2.37
Structure conservation index	0.63
SVM decision value	0.24
SVM RNA-class probability	0.647085
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9411695 103 - 22407834
UGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUUGU----UGUCAUGUG--------C-CCGUGAUCUCAUCGAUGUCUUUUUCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))...........(((....)))......----.((((((((--------.-..(..(((..(((((........)))))..)))..).....))))))))... ( -28.00)
>DroSec_CAF1 40272 100 - 1
UGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU-------GUCAUGUG--------C-UCGUGAUCUCAUCGAUGUUUUUUUCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))...........(((....)))....-------((((((((--------.-..(..(((..(((((........)))))..)))..).....))))))))... ( -28.00)
>DroSim_CAF1 42822 100 - 1
UGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU-------GUCAUGUG--------C-UCGUGAUCUCAUCGAUGUCUUUUUCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))...........(((....)))....-------((((((((--------.-..(..(((..(((((........)))))..)))..).....))))))))... ( -28.00)
>DroEre_CAF1 40711 114 - 1
UGCGUUUUCACGCAUCCAACUCCACGGCACUUGGCAUUCGUCAUUUGUCAUUUG-UCAACUGC-UCGUGAUCUCAUCGAUGUCUUUUGCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))........(((((((.((((((...(.(....).)...))-)))).)))-.))))...........(((...(((((..((.....))..))))).)))... ( -32.30)
>DroYak_CAF1 42546 109 - 1
UGCGUUUGCACGCAUCCAACUCGACGGCACUUGUCAUUUGUCUUUUGUCAUGUGGUCA-------UGUGAUCUCAUCGAUGUCUUUUGCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))........((((((....)))....)))....(((((((((...-------.(..(((..((((..........))))..)))..)....)))))))))... ( -30.40)
>DroAna_CAF1 43865 93 - 1
UGCGCUCUCGAGCAUCUAACUUCAGGCCAUU-------U-------GUCAUGAG--------CGCCGUGAUCUCAUCGAUGUGUU-UGUGGUAUGAUUGCCAUUCCGCAUGACUUA
.((((((..(((........))).(((....-------.-------)))..)))--------)))((((....)).))(((((..-.((((((....))))))..)))))...... ( -23.80)
>consensus
UGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU_______GUCAUGUG________C_UCGUGAUCUCAUCGAUGUCUUUUGCGGUCUGAUUGCCAUUCCGCAUGACUUA
(((((....)))))................................((((((((............(..(((..((((..........))))..)))..).....))))))))... (-17.94 = -18.03 +   0.09)

alignment

secondary structure

dotplot

Window 9

Location	9,411,758 – 9,411,852
Length	94
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	85.21
Mean single sequence MFE	-24.05
Consensus MFE	-19.90
Energy contribution	-19.60
Covariance contribution	-0.30
Combinations/Pair	1.18
Mean z-score	-1.58
Structure conservation index	0.83
SVM decision value	0.05
SVM RNA-class probability	0.556991
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9411758 94 - 22407834
CACCACAUAACCGAGCUCGU---CUUAAGUAUGUGGACUCCUUGUCGUC-GCGAGAAAUGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUUG
...((((((...(((.....---)))...))))))(((....((((((.-(.(((..((((((....))))))....))))))))))...)))..... ( -25.00)
>DroSec_CAF1 40333 93 - 1
CACCACAUAACCGAGUUCGU---CUUAAGUAUGUGGACUCCUUGUCGCU-CCGAGAAAUGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU-
...((((((...(((.....---)))...))))))(((....(((((..-..(((..((((((....))))))....)))..)))))...)))....- ( -23.00)
>DroSim_CAF1 42883 93 - 1
CACCACAUAACCGAGUUCGU---CUUAAGUAUGUGGACUCCUUGUCGCU-CCGAGAAAUGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU-
...((((((...(((.....---)))...))))))(((....(((((..-..(((..((((((....))))))....)))..)))))...)))....- ( -23.00)
>DroEre_CAF1 40785 94 - 1
CACCACAUAACCGAGCUCGU---CUUAAGUAUGUGGACUGCUUGUCGCC-CCGAGCAAUGCGUUUUCACGCAUCCAACUCCACGGCACUUGGCAUUCG
..(((((((...(((.....---)))...)))))))..((((.((.(((-..(((..((((((....))))))....)))...)))))..)))).... ( -26.90)
>DroYak_CAF1 42615 94 - 1
CACCACAUAACCGAGUUCGC---CUUAAGUAUGUGGACUCCUUGUCGUC-CCGAGAAAUGCGUUUGCACGCAUCCAACUCGACGGCACUUGUCAUUUG
...((((((...(((.....---)))...))))))(((....(((((((-..(((..((((((....))))))....))))))))))...)))..... ( -27.30)
>DroAna_CAF1 43926 90 - 1
CACCACAUAACCGAGUCAAUAUACAUAAGUAUGUGGAUGCCUUGUUGCCUCCGAGGAAUGCGCUCUCGAGCAUCUAACUUCAGGCCAUU-------U-
..(((((((.....((......)).....)))))))..((((.((((.(((.((((.......)))))))....))))...))))....-------.- ( -19.10)
>consensus
CACCACAUAACCGAGUUCGU___CUUAAGUAUGUGGACUCCUUGUCGCC_CCGAGAAAUGCGUUUUCACGCAUCCAACUCCACGGCACUUGUCAUUU_
..(((((((...(((........)))...)))))))..........(((...(((..((((((....))))))....)))...)))............ (-19.90 = -19.60 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:15 2006