Locus 6754

Sequence ID	X_DroMel_CAF1
Location	16,776,427 – 16,776,546
Length	119
Max. P	0.912154

overview

Window 8

Location	16,776,427 – 16,776,546
Length	119
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	76.24
Mean single sequence MFE	-38.97
Consensus MFE	-26.58
Energy contribution	-26.58
Covariance contribution	0.00
Combinations/Pair	1.25
Mean z-score	-1.60
Structure conservation index	0.68
SVM decision value	1.08
SVM RNA-class probability	0.912154
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16776427 119 + 22224390
AGCGACAGCGUCUUGUCCCUGAUGUCCUUGAUGGCCUCCAGUUUGGCGUAGUAGUGCCGCUCAUUGGAGCUCGAGAUCUCGCUGGUGGCCAUUGUAGAUCCAAAACGAUCCGUGUGGUA
.((.(((.((..((((...((..(((..((((((((.(((((..((((......))))((((....))))..........))))).))))))))..))).))..))))..))))).)). ( -41.60)
>DroPse_CAF1 55230 109 + 1
AGGGCCAGCGUCUUGUCCCGUAUGUCCUUGAUGGCCUCUAGCUUGGCAUAGUAGUGUCGCUCGUUGGAGCUGGAUAUCUCGCUGGUGGCCAUUUUGUGUCC----------GUGCGGGC
(((((....)))))..((((((((..(..(((((((.(((((..(((((....)))))((((....))))..........))))).)))))))....)..)----------))))))). ( -46.50)
>DroGri_CAF1 58446 102 + 1
AGCGCCAGUGUCUUGUCCCUGAUAUCCUUGAUUGCCUCCAGCUUGGCAUAAUAAUGCCGCUCGUUGGAGCUGGAAAUCUCGCUGGUGGCCAUUUUGUAUGC----------C-------
.(((...(((((........))))).(..(((.(((.(((((..(((((....)))))((((....))))..........))))).))).)))..)..)))----------.------- ( -32.60)
>DroEre_CAF1 15920 92 + 1
AGCGACAGGGUCUUGUCCCUGAUGUCCUUGAUGGCCUCCAGUUUGGCAUAGUAGUGACGCUCAUUGGAGCUCGAUAUCUCGCUGGUGGCCAU---------------------------
.(((.(((((......))))).))).....((((((.(((((..((.(((....(((.((((....))))))).))))).))))).))))))--------------------------- ( -35.70)
>DroMoj_CAF1 77967 102 + 1
AGGGCCAACGUUUUGUCCCGUAUAUCCUUGAUGGCCUCCAGCUUAGCGUAGUAGUGCCGCUCAUUGGAGCUAGAAAUCUCGCUGGUGGCCAUUUUGAAUGG----------C-------
.(((.(((....))).)))...(((.(..(((((((.(((((...(((......))).((((....))))..........))))).)))))))..).))).----------.------- ( -35.60)
>DroAna_CAF1 58742 115 + 1
AGGGCCAGGGUCUUGUCCCUAAUGUCCUUGAUGGCUUCCAGCUUGGCGUAGUAGUGGCGCUCGUUGGAGCUGGAAAUCUCGCUGGUGGCCAUUU----UCUAAAUCGCCCUGUGUGGGA
(((((.((((......))))...))))).(((((((.(((((..(((((.......))))).....(((.(....).)))))))).))))))).----.........(((.....))). ( -41.80)
>consensus
AGCGCCAGCGUCUUGUCCCUGAUGUCCUUGAUGGCCUCCAGCUUGGCAUAGUAGUGCCGCUCAUUGGAGCUGGAAAUCUCGCUGGUGGCCAUUUUG_AUCC__________G_______
.............................(((((((.(((((..((((......))))((((....))))..........))))).))))))).......................... (-26.58 = -26.58 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	16,776,427 – 16,776,546
Length	119
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	76.24
Mean single sequence MFE	-33.52
Consensus MFE	-19.40
Energy contribution	-20.23
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-1.80
Structure conservation index	0.58
SVM decision value	0.78
SVM RNA-class probability	0.848170
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16776427 119 - 22224390
UACCACACGGAUCGUUUUGGAUCUACAAUGGCCACCAGCGAGAUCUCGAGCUCCAAUGAGCGGCACUACUACGCCAAACUGGAGGCCAUCAAGGACAUCAGGGACAAGACGCUGUCGCU
..((....(((((......)))))...((((((.(((((((....))).((((....))))(((........)))...)))).))))))...)).....((.((((......)))).)) ( -39.70)
>DroPse_CAF1 55230 109 - 1
GCCCGCAC----------GGACACAAAAUGGCCACCAGCGAGAUAUCCAGCUCCAACGAGCGACACUACUAUGCCAAGCUAGAGGCCAUCAAGGACAUACGGGACAAGACGCUGGCCCU
(((.((..----------.........((((((.(.(((((....))..((((....))))................))).).))))))...(..(.....)..).....)).)))... ( -26.70)
>DroGri_CAF1 58446 102 - 1
-------G----------GCAUACAAAAUGGCCACCAGCGAGAUUUCCAGCUCCAACGAGCGGCAUUAUUAUGCCAAGCUGGAGGCAAUCAAGGAUAUCAGGGACAAGACACUGGCGCU
-------(----------((..........(((.(((((..........((((....))))(((((....)))))..))))).)))...........(((((.......).)))).))) ( -32.80)
>DroEre_CAF1 15920 92 - 1
---------------------------AUGGCCACCAGCGAGAUAUCGAGCUCCAAUGAGCGUCACUACUAUGCCAAACUGGAGGCCAUCAAGGACAUCAGGGACAAGACCCUGUCGCU
---------------------------((((((.(((((((....))).((((....)))).................)))).))))))...((.(..(((((......)))))..))) ( -30.80)
>DroMoj_CAF1 77967 102 - 1
-------G----------CCAUUCAAAAUGGCCACCAGCGAGAUUUCUAGCUCCAAUGAGCGGCACUACUACGCUAAGCUGGAGGCCAUCAAGGAUAUACGGGACAAAACGUUGGCCCU
-------(----------((((((...((((((.(((((..........((((....))))(((........)))..))))).))))))...))))..(((........))).)))... ( -35.40)
>DroAna_CAF1 58742 115 - 1
UCCCACACAGGGCGAUUUAGA----AAAUGGCCACCAGCGAGAUUUCCAGCUCCAACGAGCGCCACUACUACGCCAAGCUGGAAGCCAUCAAGGACAUUAGGGACAAGACCCUGGCCCU
........(((((........----..(((((..(((((..........((((....))))((.........))...)))))..))))).........(((((......)))))))))) ( -35.70)
>consensus
_______C__________GGAU_CAAAAUGGCCACCAGCGAGAUUUCCAGCUCCAACGAGCGGCACUACUACGCCAAGCUGGAGGCCAUCAAGGACAUCAGGGACAAGACGCUGGCCCU
...........................((((((.(((((((....))..((((....))))................))))).)))))).............................. (-19.40 = -20.23 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:07 2006