Locus 4306

Sequence ID	X_DroMel_CAF1
Location	11,357,656 – 11,357,784
Length	128
Max. P	0.891193

overview

Window 0

Location	11,357,656 – 11,357,751
Length	95
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	80.69
Mean single sequence MFE	-30.95
Consensus MFE	-18.04
Energy contribution	-18.48
Covariance contribution	0.45
Combinations/Pair	1.19
Mean z-score	-1.92
Structure conservation index	0.58
SVM decision value	0.21
SVM RNA-class probability	0.637427
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11357656 95 - 22224390
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA----------------UGUGUGUAUGCAUAUGUGUGCAUAUGUGUUGCUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).))((((.((----------------(((((((((((....)))))))))))))))))..))........ ( -33.10)
>DroSec_CAF1 18585 93 - 1
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA----------------UGUGUGUAUGCACAUGUGUGCA--AGUGUUGCUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).))))...((----------------((((((....))))))))((((--((.....))))))....... ( -34.50)
>DroSim_CAF1 1179 93 - 1
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA----------------UGUGUAUAUGCACAUGUGUGCA--UGUGUUGCUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).))))...((----------------..((((...(((((((....))--)))))....))))...)).. ( -31.00)
>DroEre_CAF1 22240 87 - 1
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA----------------UGUGUAUAUGCAUGUGU--------GUGUUACUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).)))).....----------------........((((.(((.--------....))).))))....... ( -24.30)
>DroYak_CAF1 23556 87 - 1
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA----------------UGUGCAUAUGCAUGUGU--------GUGUUACUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).))))...((----------------(((((....))))))).--------.(((.....)))....... ( -25.80)
>DroAna_CAF1 13128 101 - 1
---GUCUGUCGAGAGCUAAGGUCAGCUAGUGGUUGCACACACGCUCGCACACACUCACCGAGUUCCGAGUGCCUGUGGGCCUGUGU------GCGUUUC-UGCAAUUUGUU
---..........((((......)))).(..(.((((((((.(((((((..(((((..........)))))..))))))).)))))------)))...)-..)........ ( -37.00)
>consensus
GCGAUGUGUCGAGUGCUAAGGUCAGUUGGUGGUUGCACACACUCGCGGUCA________________UGUGUAUAUGCACAUGUGU______GUGUUGCUUGCAAUUUGUU
((((((((((((.((((((......)))))).))).))))).)))).......................((((...((((............))))....))))....... (-18.04 = -18.48 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	11,357,690 – 11,357,784
Length	94
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	88.94
Mean single sequence MFE	-13.63
Consensus MFE	-13.37
Energy contribution	-13.37
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.40
Structure conservation index	0.98
SVM decision value	0.96
SVM RNA-class probability	0.891193
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11357690 94 + 22224390
CAUACACACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACACACAACAUUCAACAU-------UCAACAUCCGAGCCA
...............((..((((((((.........(((....))).....((....))))))))))............-------((.......)))).. ( -13.50)
>DroSec_CAF1 18617 94 + 1
CAUACACACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACACACAACAUCCAACAU-------UCAACAUCCGAGCCA
...............((..((((((((.........(((....))).....((....))))))))))............-------((.......)))).. ( -13.50)
>DroSim_CAF1 1211 101 + 1
CAUAUACACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACACACAACAUCCAACAUUCAACAUUCAACAUCCGAGCCA
...............((..((((((((.........(((....))).....((....))))))))))...................((.......)))).. ( -13.50)
>DroEre_CAF1 22266 84 + 1
CAUAUACACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACAC---------AACAU-------CCAACAUCCGAG-CA
...............((((((((((((..................))))...)))).))))....---------.....-------............-.. ( -13.37)
>DroYak_CAF1 23582 84 + 1
CAUAUGCACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACAC---------AACAU-------CCAACAUCCGAG-CA
....(((........((((((((((((..................))))...)))).))))....---------....(-------(........)))-)) ( -14.27)
>consensus
CAUAUACACAUGACCGCGAGUGUGUGCAACCACCAACUGACCUUAGCACUCGACACAUCGCACACACAACAU_CAACAU_______UCAACAUCCGAGCCA
...............((((((((((((..................))))...)))).))))........................................ (-13.37 = -13.37 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:46 2006