Locus 1641

Sequence ID	2L_DroMel_CAF1
Location	4,430,012 – 4,430,103
Length	91
Max. P	0.879734

overview

Window 1

Location	4,430,012 – 4,430,103
Length	91
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	94.67
Mean single sequence MFE	-32.88
Consensus MFE	-25.89
Energy contribution	-27.28
Covariance contribution	1.39
Combinations/Pair	1.06
Mean z-score	-2.93
Structure conservation index	0.79
SVM decision value	0.56
SVM RNA-class probability	0.782114
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4430012 91 + 22407834
UAGUGGCGGCGUCGCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGCUGG-GUG
.(((((((((((((....))))))).(((((((...)))))))..)))))).......(((..((((((..........))))))..)-)). ( -37.30)
>DroSec_CAF1 35505 91 + 1
UAGUGGCGGCGUCGCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGCUGG-GUG
.(((((((((((((....))))))).(((((((...)))))))..)))))).......(((..((((((..........))))))..)-)). ( -37.30)
>DroSim_CAF1 39114 91 + 1
UAGUGGCGGCGUCGCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGCUGG-GUG
.(((((((((((((....))))))).(((((((...)))))))..)))))).......(((..((((((..........))))))..)-)). ( -37.30)
>DroEre_CAF1 37660 91 + 1
UAGUGGCGGCGUCGCCAACGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGAUGG-GUG
.(((((((((((((....))))))).(((((((...)))))))..)))))).............(((((((.........))))))).-... ( -30.60)
>DroYak_CAF1 36412 91 + 1
UAGUGGCGGCGUCGCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUCAUGAUGG-GUG
.(((((((((((((....))))))).(((((((...)))))))..))))))((((((((....(((.......)))....)).)))))-).. ( -29.40)
>DroAna_CAF1 38413 86 + 1
CAGUGGC------GCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGCCGCAGCG
.((((((------(....)..(((...((((((...))))))))))))))).......(((((((((((..........)))))))).))). ( -25.40)
>consensus
UAGUGGCGGCGUCGCCACCGACGCCUUAAUGUAUGCUACAUUGCGGCCACUUUUAUCUGCUUGGCAUUAUCCUUGUACUUGAUGCUGG_GUG
.(((((((((((((....))))))).(((((((...)))))))..)))))).......(((((((((((..........))))))))).)). (-25.89 = -27.28 +   1.39)

alignment

secondary structure

dotplot

Window 2

Location	4,430,012 – 4,430,103
Length	91
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-26.44
Consensus MFE	-22.90
Energy contribution	-23.90
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.87
SVM decision value	0.91
SVM RNA-class probability	0.879734
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4430012 91 - 22407834
CAC-CCAGCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGCGACGCCGCCACUA
...-................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). ( -26.90)
>DroSec_CAF1 35505 91 - 1
CAC-CCAGCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGCGACGCCGCCACUA
...-................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). ( -26.90)
>DroSim_CAF1 39114 91 - 1
CAC-CCAGCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGCGACGCCGCCACUA
...-................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). ( -26.90)
>DroEre_CAF1 37660 91 - 1
CAC-CCAUCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGUUGGCGACGCCGCCACUA
...-................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). ( -27.70)
>DroYak_CAF1 36412 91 - 1
CAC-CCAUCAUGAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGCGACGCCGCCACUA
...-................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). ( -26.90)
>DroAna_CAF1 38413 86 - 1
CGCUGCGGCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGC------GCCACUG
.(((..(((((..............))))).)))...........(((..((((((...))))))..)))..(((((..------..))))) ( -23.34)
>consensus
CAC_CCAGCAUCAAGUACAAGGAUAAUGCCAAGCAGAUAAAAGUGGCCGCAAUGUAGCAUACAUUAAGGCGUCGGUGGCGACGCCGCCACUA
....................((......))...........((((((...((((((...))))))..(((((((....))))))))))))). (-22.90 = -23.90 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:22 2006