Locus 5745

Sequence ID	X_DroMel_CAF1
Location	14,885,117 – 14,885,246
Length	129
Max. P	0.989759

overview

Window 0

Location	14,885,117 – 14,885,215
Length	98
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	91.28
Mean single sequence MFE	-30.52
Consensus MFE	-26.52
Energy contribution	-25.80
Covariance contribution	-0.72
Combinations/Pair	1.13
Mean z-score	-1.53
Structure conservation index	0.87
SVM decision value	0.94
SVM RNA-class probability	0.887135
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14885117 98 + 22224390
ACCCACAAGAGACACACAGCUGAAUGAAGCUAAAAGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---CCAUUACCACCACCGAUCAUACAG
...................(((.((((.(((......)))(((((..(((((((((((......)))))).)))---))....))))).....)))).))) ( -32.30)
>DroSec_CAF1 31183 97 + 1
ACCCACAAGAGACACAGAGCUGAAUGAAGCUAG-AGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---UCAUUAUCACCACCGAUCAUACGG
..((.............((((......))))..-..((.((((((..(((((((((((......)))))).)))---)).......)))))).))....)) ( -28.90)
>DroSim_CAF1 22549 97 + 1
ACCCACAAGAGACACAGAGCUGAAUGAAGCUAG-AGAAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---UCAUUAUCACCACCGAUCAUACGG
..((.............((((......)))).(-(....((((((..(((((((((((......)))))).)))---)).......)))))).))....)) ( -28.40)
>DroEre_CAF1 30215 97 + 1
ACCCACAAGAGACACAGAGCUGAAUGAAGCUAG-AGGAGCGGUUGGCGGUGGAGUGGUUGGAGCACCAUUGCCA---CCAUUACCACCACCGAUCAUACGG
..((........(....((((......))))..-..)...((((((.(((((((((((.((..........)))---))))).))))).))))))....)) ( -32.20)
>DroYak_CAF1 30729 93 + 1
-------AGAGACAUAGAGCUGAAUGAAGCUAG-AGGAGCGGUGGGCGGUGGAGUGGUUGGAGCACCAUUGCCAUUACCAUUAUCACCACCGAUCAUACGG
-------..........((((......))))..-..((.((((((..((((((((((((((....)))..)))))).)))))....)))))).))...... ( -30.80)
>consensus
ACCCACAAGAGACACAGAGCUGAAUGAAGCUAG_AGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA___CCAUUAUCACCACCGAUCAUACGG
.................((((......)))).........(((.((.((((((((((...(.(((....))))....))))).))))).)).)))...... (-26.52 = -25.80 +  -0.72)

alignment

secondary structure

dotplot

Window 1

Location	14,885,151 – 14,885,246
Length	95
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	95.63
Mean single sequence MFE	-33.50
Consensus MFE	-31.26
Energy contribution	-31.14
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.70
Structure conservation index	0.93
SVM decision value	2.18
SVM RNA-class probability	0.989759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14885151 95 + 22224390
AGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---CCAUUACCACCACCGAUCAUACAGAACCACCAAUGCGUGACCUUUCGCUGUACCA
.((.(((((((.((((((..(((((((.(((....)))..---)))..)))))))))).((.....)).)))))...(((........))).)).)). ( -34.10)
>DroSec_CAF1 31216 95 + 1
AGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---UCAUUAUCACCACCGAUCAUACGGAACCACCAAUGCGUGACCUUUCGCUGUACCA
.((.(((((((..(((((((((((......)))))).)))---))..........(((......)))..)))))...(((........))).)).)). ( -32.90)
>DroSim_CAF1 22582 95 + 1
AGAAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA---UCAUUAUCACCACCGAUCAUACGGAACCACCAAUGCGUGACCUUUCGCUGUACCA
......(((((..(((((((((((......)))))).)))---))..........(((......)))..)))))..(((((((....)))).)))... ( -29.60)
>DroEre_CAF1 30248 95 + 1
AGGAGCGGUUGGCGGUGGAGUGGUUGGAGCACCAUUGCCA---CCAUUACCACCACCGAUCAUACGGAACCACCAAUGCGUGACCUUUCGCUGUACCA
.((.((((((((.(((((((((((.((..........)))---))))).))))).))))))....((.....))...))((((....))))....)). ( -34.60)
>DroYak_CAF1 30755 98 + 1
AGGAGCGGUGGGCGGUGGAGUGGUUGGAGCACCAUUGCCAUUACCAUUAUCACCACCGAUCAUACGGAACCACCAAUGCGUGACCUUUCGCUGUACCA
.((.(((((((..(((((((((((..(.(((....))))...)))))).))))).(((......)))..)))))...(((........))).)).)). ( -36.30)
>consensus
AGGAGCGGUGGGCGGUGGAAUGGUUGGAGCACCAUUGCCA___CCAUUAUCACCACCGAUCAUACGGAACCACCAAUGCGUGACCUUUCGCUGUACCA
.((.(((((((..((((((((((...(.(((....))))....))))).))))).(((......)))..)))))...(((........))).)).)). (-31.26 = -31.14 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:20 2006