Locus 2294

Sequence ID	X_DroMel_CAF1
Location	6,217,856 – 6,217,960
Length	104
Max. P	0.620956

overview

Window 3

Location	6,217,856 – 6,217,960
Length	104
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	75.91
Mean single sequence MFE	-36.09
Consensus MFE	-23.44
Energy contribution	-24.25
Covariance contribution	0.81
Combinations/Pair	1.10
Mean z-score	-1.22
Structure conservation index	0.65
SVM decision value	0.18
SVM RNA-class probability	0.620956
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6217856 104 + 22224390
GGAGACGAAGACGGAGGAGAUGACCGCUUACCUGGCCAUGGAUGUCACCGCAAACGGUGACGGGCGUGCUCACGGGCAGGAUGUUCGUCUCCUCCAGGAGGAUA
(....)......(((((((((((..((...((((.((......(((((((....)))))))(((....)))..)).))))..)))))))))))))......... ( -48.30)
>DroEre_CAF1 3005 97 + 1
G-----GGAGACUG--CCAAUAACCACUUACCUGGCCAUGGAUGUCACCGCAAACGGUGACGGGCGUGCUCACGGGCAGGAUGUUCGUCUCCUCCAGGAGGAUG
.-----((((((((--........))....((((.((......(((((((....)))))))(((....)))..)).))))......))))))(((....))).. ( -35.70)
>DroWil_CAF1 6630 89 + 1
-------CGUUCUG--CU------AACUAACCUGACCGUGUAUGUCACCGCAGACGGUGACGGGCGUGCUCACUGGCUGUAUGUUGGUCUCCUCCAAUAGAAUG
-------(((((((--..------.........((((.....((((((((....))))))))(((((((.........)))))))))))........))))))) ( -27.11)
>DroYak_CAF1 3145 92 + 1
------------UGGAUGGAUGAUCGCUUACCUGACCAUGGAUGUCACCGCAAACGGUGACGGGCGUGCUCACGGGCAGGAUGUUCGUCUCCUCCAGGAGGAUG
------------..(((((((.(((.((..(((((.((((..((((((((....))))))))..)))).))).))..))))))))))))(((((...))))).. ( -37.40)
>DroAna_CAF1 3801 89 + 1
----------UAUG--UAU---AUAUCUCACCUGUCCGUGGAUGUCGCCGCACACGGUGACGGGCGUGCUCACUGGCAGGAUGUUUGUCUCCUCAAUCAGGAUG
----------....--...---........((((((.((....(((((((....)))))))(((....))))).)))))).........((((.....)))).. ( -27.10)
>DroPer_CAF1 4102 97 + 1
G-----GCUGGCUG--CUUGGCGCCACUCACCUGGCCGUGUAUGUCGCCGCAGACGGUGACGGGCGUGCUCACUGGCAGUAUGUUCGUCUCCUCCAGGAGGAUG
.-----((((.(((--(..((((.((..(((......)))..)).)))))))).))))(((((((((((((....).))))))))))))(((((...))))).. ( -40.90)
>consensus
_________GACUG__CAGAU_ACCACUUACCUGGCCAUGGAUGUCACCGCAAACGGUGACGGGCGUGCUCACGGGCAGGAUGUUCGUCUCCUCCAGGAGGAUG
..............................((((.((......(((((((....)))))))(((....)))...)))))).......(((((....)))))... (-23.44 = -24.25 +   0.81)

alignment

secondary structure

dotplot

Window 4

Location	6,217,856 – 6,217,960
Length	104
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	75.91
Mean single sequence MFE	-32.37
Consensus MFE	-20.56
Energy contribution	-21.25
Covariance contribution	0.69
Combinations/Pair	1.05
Mean z-score	-1.26
Structure conservation index	0.64
SVM decision value	0.14
SVM RNA-class probability	0.601980
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6217856 104 - 22224390
UAUCCUCCUGGAGGAGACGAACAUCCUGCCCGUGAGCACGCCCGUCACCGUUUGCGGUGACAUCCAUGGCCAGGUAAGCGGUCAUCUCCUCCGUCUUCGUCUCC
..(((....)))(((((((((...((((.(((((.(....)..(((((((....)))))))...))))).))))...((((.........)))).))))))))) ( -43.50)
>DroEre_CAF1 3005 97 - 1
CAUCCUCCUGGAGGAGACGAACAUCCUGCCCGUGAGCACGCCCGUCACCGUUUGCGGUGACAUCCAUGGCCAGGUAAGUGGUUAUUGG--CAGUCUCC-----C
..(((....)))(((((((.....).((((.((((.(((..(((((((((....)))))))..(....)...))...))).)))).))--))))))))-----. ( -38.50)
>DroWil_CAF1 6630 89 - 1
CAUUCUAUUGGAGGAGACCAACAUACAGCCAGUGAGCACGCCCGUCACCGUCUGCGGUGACAUACACGGUCAGGUUAGUU------AG--CAGAACG-------
..((((.((((..((((((........((......))......(((((((....)))))))......))))...))..))------))--.))))..------- ( -22.60)
>DroYak_CAF1 3145 92 - 1
CAUCCUCCUGGAGGAGACGAACAUCCUGCCCGUGAGCACGCCCGUCACCGUUUGCGGUGACAUCCAUGGUCAGGUAAGCGAUCAUCCAUCCA------------
.........((((((((((.....((((.(((((.(....)..(((((((....)))))))...))))).))))....)).)).))).))).------------ ( -34.90)
>DroAna_CAF1 3801 89 - 1
CAUCCUGAUUGAGGAGACAAACAUCCUGCCAGUGAGCACGCCCGUCACCGUGUGCGGCGACAUCCACGGACAGGUGAGAUAU---AUA--CAUA----------
..((((.....))))......((.((((((.(((.((((((........))))))(....)...))))).))))))......---...--....---------- ( -24.80)
>DroPer_CAF1 4102 97 - 1
CAUCCUCCUGGAGGAGACGAACAUACUGCCAGUGAGCACGCCCGUCACCGUCUGCGGCGACAUACACGGCCAGGUGAGUGGCGCCAAG--CAGCCAGC-----C
.......((((.(....).......((((...((.((..(((((((.(((....))).)))...(((......))).).))))))).)--))))))).-----. ( -29.90)
>consensus
CAUCCUCCUGGAGGAGACGAACAUCCUGCCAGUGAGCACGCCCGUCACCGUUUGCGGUGACAUCCACGGCCAGGUAAGUGGU_AUAAG__CAGAC_________
..((((.....)))).........((((((.(((....)))..(((((((....)))))))......)).)))).............................. (-20.56 = -21.25 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:48 2006