Locus 4386

Sequence ID	3L_DroMel_CAF1
Location	12,859,006 – 12,859,106
Length	100
Max. P	0.963557

overview

Window 6

Location	12,859,006 – 12,859,106
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	92.80
Mean single sequence MFE	-36.88
Consensus MFE	-32.60
Energy contribution	-32.08
Covariance contribution	-0.52
Combinations/Pair	1.16
Mean z-score	-1.65
Structure conservation index	0.88
SVM decision value	1.55
SVM RNA-class probability	0.963557
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12859006 100 + 23771897
CAAUCGCUGCUCUAUUUUUAUCCUGGCGCUGCUGGUCGCCAGCGGUGCAGUGAAAGUAUCCGGAAGAUUGCCUCGAAUCCUGCCGGAAUCUCUCGCCGAA
...(((..((..(((((((((....((((((((((...)))))))))).)))))))))(((((..((((......))))...))))).......))))). ( -35.50)
>DroSec_CAF1 97474 100 + 1
CAAUCGUUGCUCUAUUUUUAUCCUGGCGCUGCUGGUCGCCAGCGGUGCAGUGAAAGUAUCCGGAAGAUUGCCUCGAAUCCUGCCGGAAUCUCUCGCCGAA
...(((..((..(((((((((....((((((((((...)))))))))).)))))))))(((((..((((......))))...))))).......))))). ( -35.50)
>DroSim_CAF1 98868 100 + 1
CAAUCGCUGCUCUAUUUUUAUCCUGGCGCUGUUGGUCGCCAGCGGUGCAGUAAAGGUAUCCGGAAGAUUGCCUCGAAUCCUGCCGGAAUCUCUCGCCGAA
...(((..((..(((((((((....((((((((((...)))))))))).)))))))))(((((..((((......))))...))))).......))))). ( -32.60)
>DroEre_CAF1 102725 100 + 1
CAAUCGCUGCUCGGUUUUGAUCCUGGCGCUGCUGGUCGCCAGCAGUGCAGUGAAAGUAUCCGGAAGAUUGCCUCGCAUCCUGCCGGAGUCCUUCGCCGAG
.........((((((..........((((((((((...))))))))))...(((....(((((.((..(((...)))..)).)))))....))))))))) ( -40.50)
>DroYak_CAF1 108889 100 + 1
CAAUCGCUGCUCGGUUUUUAUCCUGGCGCUGCUGGUCGCCAGCAGUGCGGUGAAAGUGUCCGGAAGAUUGCCUCGAAUCCUGCCGGAAUCCUUCGCCGAG
.........(((((.......))..((((((((((...))))))))))((((((....(((((..((((......))))...)))))....))))))))) ( -40.30)
>consensus
CAAUCGCUGCUCUAUUUUUAUCCUGGCGCUGCUGGUCGCCAGCGGUGCAGUGAAAGUAUCCGGAAGAUUGCCUCGAAUCCUGCCGGAAUCUCUCGCCGAA
...(((..((...((((((((....((((((((((...)))))))))).)))))))).(((((..((((......))))...))))).......))))). (-32.60 = -32.08 +  -0.52)

alignment

secondary structure

dotplot

Window 7

Location	12,859,006 – 12,859,106
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	92.80
Mean single sequence MFE	-34.76
Consensus MFE	-30.18
Energy contribution	-29.62
Covariance contribution	-0.56
Combinations/Pair	1.19
Mean z-score	-1.32
Structure conservation index	0.87
SVM decision value	0.40
SVM RNA-class probability	0.721767
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12859006 100 - 23771897
UUCGGCGAGAGAUUCCGGCAGGAUUCGAGGCAAUCUUCCGGAUACUUUCACUGCACCGCUGGCGACCAGCAGCGCCAGGAUAAAAAUAGAGCAGCGAUUG
.(((..(((((..(((((.((((((......)))))))))))..))))).((((....((((((........)))))).((....))...)))))))... ( -33.10)
>DroSec_CAF1 97474 100 - 1
UUCGGCGAGAGAUUCCGGCAGGAUUCGAGGCAAUCUUCCGGAUACUUUCACUGCACCGCUGGCGACCAGCAGCGCCAGGAUAAAAAUAGAGCAACGAUUG
.((((((((((..(((((.((((((......)))))))))))..))))).((((.(.(((((...))))).).).)))............))..)))... ( -32.00)
>DroSim_CAF1 98868 100 - 1
UUCGGCGAGAGAUUCCGGCAGGAUUCGAGGCAAUCUUCCGGAUACCUUUACUGCACCGCUGGCGACCAACAGCGCCAGGAUAAAAAUAGAGCAGCGAUUG
.(((...((((..(((((.((((((......)))))))))))...)))).((((....((((((........)))))).((....))...)))))))... ( -29.00)
>DroEre_CAF1 102725 100 - 1
CUCGGCGAAGGACUCCGGCAGGAUGCGAGGCAAUCUUCCGGAUACUUUCACUGCACUGCUGGCGACCAGCAGCGCCAGGAUCAAAACCGAGCAGCGAUUG
(((((.(((((..(((((.(((((((...)).))))))))))..))))).((((.(((((((...))))))).).)))........)))))......... ( -40.10)
>DroYak_CAF1 108889 100 - 1
CUCGGCGAAGGAUUCCGGCAGGAUUCGAGGCAAUCUUCCGGACACUUUCACCGCACUGCUGGCGACCAGCAGCGCCAGGAUAAAAACCGAGCAGCGAUUG
(((((.(((((..(((((.((((((......)))))))))))..))))).((((.(((((((...))))))).))..)).......)))))......... ( -39.60)
>consensus
UUCGGCGAGAGAUUCCGGCAGGAUUCGAGGCAAUCUUCCGGAUACUUUCACUGCACCGCUGGCGACCAGCAGCGCCAGGAUAAAAAUAGAGCAGCGAUUG
(((((.(((((..(((((.((((((......)))))))))))..))))).))......((((((........))))))..........)))......... (-30.18 = -29.62 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:18 2006