Locus 1045

Sequence ID	3R_DroMel_CAF1
Location	3,245,993 – 3,246,100
Length	107
Max. P	0.989734

overview

Window 1

Location	3,245,993 – 3,246,100
Length	107
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	77.78
Mean single sequence MFE	-31.87
Consensus MFE	-20.77
Energy contribution	-19.90
Covariance contribution	-0.87
Combinations/Pair	1.34
Mean z-score	-2.45
Structure conservation index	0.65
SVM decision value	2.18
SVM RNA-class probability	0.989734
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3245993 107 + 27905053
-------------GUACCAUCUACGUGAUGCUAUAUGCCAUUGUUAUCGGAGAGCACUUGGUAGCUUUCAAUAACUAUGAUGAGAGUUCUUAUAAGGUAUACCGUGUAGAAAGUAUAUAU
-------------((((..(((((((((((((......(((.(((((..((((((........)))))).))))).)))(((((....)))))..)))))..))))))))..)))).... ( -26.90)
>DroSim_CAF1 64 120 + 1
AAACAAUGCAUUGAUACCGUCGAUGUGAUGCGAUAUGCCAUUGUCACUGGAGAGCACUUGAUUGCUUUCAAAAACUACGAUGAGAGUCCUUAUAAGGUAUACCUCGUCGAAAGUAUACAU
.......((((((((...)))))))).((((((((......))))....(((((((......)))))))........(((((((.(((((....)))...)))))))))...)))).... ( -31.20)
>DroYak_CAF1 15803 120 + 1
AAACAAUGCAUUGAUACUGUCGAUGUGAUGCGAUAUGCCAUUAUCACUGGAGAGCACUCGAUUGCUUUUAAUGACUAUGACGAGAGUCCCUAUAAGGUAUACCUUAUAGGAAGCAUAUAU
...((.(((((((((...))))))))).))..((((((.....(((...(((((((......)))))))..)))....(((....)))(((((((((....)))))))))..)))))).. ( -37.50)
>consensus
AAACAAUGCAUUGAUACCGUCGAUGUGAUGCGAUAUGCCAUUGUCACUGGAGAGCACUUGAUUGCUUUCAAUAACUAUGAUGAGAGUCCUUAUAAGGUAUACCUUGUAGAAAGUAUAUAU
.............((((((((...(((((((.....))....)))))..((((((........)))))).........)))).......((((((((....))))))))...)))).... (-20.77 = -19.90 +  -0.87)

alignment

secondary structure

dotplot

Window 2

Location	3,245,993 – 3,246,100
Length	107
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	77.78
Mean single sequence MFE	-26.60
Consensus MFE	-18.31
Energy contribution	-17.67
Covariance contribution	-0.64
Combinations/Pair	1.40
Mean z-score	-1.83
Structure conservation index	0.69
SVM decision value	1.03
SVM RNA-class probability	0.902914
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3245993 107 - 27905053
AUAUAUACUUUCUACACGGUAUACCUUAUAAGAACUCUCAUCAUAGUUAUUGAAAGCUACCAAGUGCUCUCCGAUAACAAUGGCAUAUAGCAUCACGUAGAUGGUAC-------------
.....((((.(((((..((....))......((........(((.(((((((..(((........)))...))))))).)))((.....)).))..))))).)))).------------- ( -22.60)
>DroSim_CAF1 64 120 - 1
AUGUAUACUUUCGACGAGGUAUACCUUAUAAGGACUCUCAUCGUAGUUUUUGAAAGCAAUCAAGUGCUCUCCAGUGACAAUGGCAUAUCGCAUCACAUCGACGGUAUCAAUGCAUUGUUU
..(((((((((....)))))))))....((((((((........)))))))).(((((((((.(((((.((..((((.....((.....)).))))...)).)))))...)).))))))) ( -23.30)
>DroYak_CAF1 15803 120 - 1
AUAUAUGCUUCCUAUAAGGUAUACCUUAUAGGGACUCUCGUCAUAGUCAUUAAAAGCAAUCGAGUGCUCUCCAGUGAUAAUGGCAUAUCGCAUCACAUCGACAGUAUCAAUGCAUUGUUU
....(((((((((((((((....))))))))))).....(((((.((((((...((((......))))....)))))).))))).....))))......((((((........)))))). ( -33.90)
>consensus
AUAUAUACUUUCUACAAGGUAUACCUUAUAAGGACUCUCAUCAUAGUUAUUGAAAGCAAUCAAGUGCUCUCCAGUGACAAUGGCAUAUCGCAUCACAUCGACGGUAUCAAUGCAUUGUUU
.....((((.(((((((((....))))....((........(((.(((((((..(((........)))...))))))).)))((.....)).))..))))).)))).............. (-18.31 = -17.67 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:11 2006