Locus 6291

Sequence ID	2L_DroMel_CAF1
Location	17,522,742 – 17,522,899
Length	157
Max. P	0.878682

overview

Window 8

Location	17,522,742 – 17,522,859
Length	117
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	81.88
Mean single sequence MFE	-33.50
Consensus MFE	-23.23
Energy contribution	-22.60
Covariance contribution	-0.63
Combinations/Pair	1.48
Mean z-score	-1.72
Structure conservation index	0.69
SVM decision value	0.30
SVM RNA-class probability	0.677282
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17522742 117 + 22407834
CACCUCUCUAUGUCCGCAUCGAUUUGCUUAGCCAGCUCGGUAAUAGUUUCGGCUGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCA
........((((((.(((......)))..((.((((.(((........))))))).)).......((((((((((.((((....)))).))))))))))..)))))).......... ( -35.60)
>DroPse_CAF1 41774 117 + 1
CAUCGCUGGAUAUCUAAAUCGAUUUGCUUGGCCUGCCCGGUCACCGUUAGCGCGGCCUCGCUCUCUGCUAUGUGGCUCAUAUCUGUUGUUAAAAGCGCGCUGAGAUAUUUAUUGCUG
....(((((((((((.............(((((.....)))))....((((((((((.(((.....))...).)))).......(((......))))))))))))))))))..)).. ( -30.40)
>DroSec_CAF1 39201 117 + 1
CACCGCCCUAUGUCCGCAUCAAUUUGCUUAGCCAGCUCUGUAAUAGUUUCGGCCGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCA
....(((..(((.(((.......((((..((....))..))))......))).))).........((((((((((.((((....)))).))))))))))..)))............. ( -32.32)
>DroSim_CAF1 39102 117 + 1
CAACGCUCUAUGUCCGCAUCAAUUUGCUUAGCCAGCUCGGUAAUAGUUUCGGCCGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCA
....(((........(((......)))...(((.((.(((........)))))............((((((((((.((((....)))).))))))))))..))).........))). ( -34.90)
>DroEre_CAF1 40370 117 + 1
CACCUCUCGAUGUCGGCAUCAAUUUGCUUGGCCAGCUCGGUAAUCGUUUCCGCAGUCUCCUCCUGCACCAUAUUACCCACAUCGGUGGUCAGUAUGGUGUCGGCAUAUUGCUCAGCA
........((((....))))....((((.(((..((((((.........))).))).....((.((((((((((..((((....))))..)))))))))).))......))).)))) ( -37.20)
>DroYak_CAF1 39967 117 + 1
CACCUCUCUAUGUCGGCAUCAAUUUGCUUAGCCAGCUCGGUAAUAGUUUCCGCAGUCUCCUCCUCUACUAUAUGGCCCACAUCGGUGGUCAGUAUGGUGUCGGCAUAUUUCUCAGCA
........(((((((((((((...((((..((((((((((.........))).)))................))))((((....))))..))))))))))))))))).......... ( -30.59)
>consensus
CACCGCUCUAUGUCCGCAUCAAUUUGCUUAGCCAGCUCGGUAAUAGUUUCCGCAGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCA
...............((......(((((.((....)).)))))..................((..((((((((((.((((....)))).))))))))))..))...........)). (-23.23 = -22.60 +  -0.63)

alignment

secondary structure

dotplot

Window 9

Location	17,522,782 – 17,522,899
Length	117
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	79.49
Mean single sequence MFE	-32.50
Consensus MFE	-20.16
Energy contribution	-20.25
Covariance contribution	0.09
Combinations/Pair	1.46
Mean z-score	-2.10
Structure conservation index	0.62
SVM decision value	0.90
SVM RNA-class probability	0.878682
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17522782 117 + 22407834
UAAUAGUUUCGGCUGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCAAUCUCACUGUGCACUGAAUUUGUAAACUGAAACAUCUCCU
.....(((((((.........((..((((((((((.((((....)))).))))))))))..))...........((((..(((........)))..))))...)))))))....... ( -34.50)
>DroPse_CAF1 41814 117 + 1
UCACCGUUAGCGCGGCCUCGCUCUCUGCUAUGUGGCUCAUAUCUGUUGUUAAAAGCGCGCUGAGAUAUUUAUUGCUGACCUGAUAGUGGGCCCCAAUACUCUUCUGGAACAAUUCUU
...((...(((((((((.(((.....))...).)))).......(((......))))))))(((.((((....(((.((......)).)))...)))))))....)).......... ( -25.20)
>DroSec_CAF1 39241 117 + 1
UAAUAGUUUCGGCCGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCAAUCUCACUGUGUACUGAAUUCGUAAACUGGAACAUCUCCU
....(((((((((((..........((((((((((.((((....)))).)))))))))).)))).......((((....(.....)....))))...)).)))))(((.....))). ( -33.00)
>DroSim_CAF1 39142 117 + 1
UAAUAGUUUCGGCCGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCAAUCUCACUGUGUACUGAAUUCGUAAACUGGAACAUCUCCU
....(((((((((((..........((((((((((.((((....)))).)))))))))).)))).......((((....(.....)....))))...)).)))))(((.....))). ( -33.00)
>DroEre_CAF1 40410 117 + 1
UAAUCGUUUCCGCAGUCUCCUCCUGCACCAUAUUACCCACAUCGGUGGUCAGUAUGGUGUCGGCAUAUUGCUCAGCAAUCUCACCGUGGAUUGCAUUCGUAUGCUGGAACAUCUCCU
.....(((((.(((.......((.((((((((((..((((....))))..)))))))))).))...........(((((((......))))))).......))).)))))....... ( -39.30)
>DroYak_CAF1 40007 117 + 1
UAAUAGUUUCCGCAGUCUCCUCCUCUACUAUAUGGCCCACAUCGGUGGUCAGUAUGGUGUCGGCAUAUUUCUCAGCAAUCUCACUGUGGAUGGCAUUCGUAUGCUGGAACAUCUCCU
........((((((((.........((((((((.(.((((....)))).).))))))))...((..........))......)))))))).(((((....)))))(((.....))). ( -30.00)
>consensus
UAAUAGUUUCCGCAGUCUCCUCCUCCACCAUGUUGCCCACAUCGGUGGUCAAUAUGGUGUCGGCAUAUUUCUCAGCAAUCUCACUGUGGACUGAAUUCGUAAACUGGAACAUCUCCU
.....(((((...........((..((((((((((.((((....)))).))))))))))..)).........(((........)))...................)))))....... (-20.16 = -20.25 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:23 2006