Locus 1585

Sequence ID	3R_DroMel_CAF1
Location	4,542,075 – 4,542,175
Length	100
Max. P	0.926719

overview

Window 6

Location	4,542,075 – 4,542,175
Length	100
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	92.03
Mean single sequence MFE	-23.35
Consensus MFE	-19.17
Energy contribution	-19.93
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-2.17
Structure conservation index	0.82
SVM decision value	0.98
SVM RNA-class probability	0.894714
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4542075 100 + 27905053
AGCGGGCAACAACAACGCACAACAACGCGUAUAAAUAAACGUGAACGCAUGUACUUAAUAUUAGCAUAGAGUUGUCGCCUGCGUGCAUUUCAUAUACAUA
.((((((.(((((.((((........))))........(((((....)))))..................))))).)))))).................. ( -26.80)
>DroSec_CAF1 39289 90 + 1
AUCGGGCAACAAC----------AACGCGUAUAAAUAAACGUGAACGCAUGUACUUAAUAUUAGCAUAGAGUUGUCGCCUGCGUGCAUUACAUAUACAUA
..(((((.(((((----------..(((((........)))))...((((((.....))))..)).....))))).)))))................... ( -19.80)
>DroEre_CAF1 41486 96 + 1
AGCGGGCAACAACAACGCAC----ACGCGUAUAAAUAAACGUGAACGCAUGUACUUAAUAUUAGCAUAGAGUUGUCGCCUGCGUGCAUUGCAUAUACAUA
.((((((.(((((.((((..----..))))........(((((....)))))..................))))).))))))((((...))))....... ( -28.50)
>DroYak_CAF1 40216 96 + 1
AACGAGCAACAACAACGCAC----ACGCGUAUAAAUAAACGUGAACGCAUGUACUUAAUAUUAGCAUAGAGUUGUCGCCUGCGUGCAUUGCAUAUACAUA
.....((.(((((.((((..----..))))........(((((....)))))..................))))).)).((((.....))))........ ( -18.30)
>consensus
AGCGGGCAACAACAACGCAC____ACGCGUAUAAAUAAACGUGAACGCAUGUACUUAAUAUUAGCAUAGAGUUGUCGCCUGCGUGCAUUGCAUAUACAUA
.((((((.(((((............(((((........)))))...((((((.....))))..)).....))))).)))))).................. (-19.17 = -19.93 +   0.75)

alignment

secondary structure

dotplot

Window 7

Location	4,542,075 – 4,542,175
Length	100
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	92.03
Mean single sequence MFE	-28.38
Consensus MFE	-22.50
Energy contribution	-22.44
Covariance contribution	-0.06
Combinations/Pair	1.08
Mean z-score	-2.73
Structure conservation index	0.79
SVM decision value	1.18
SVM RNA-class probability	0.926719
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4542075 100 - 27905053
UAUGUAUAUGAAAUGCACGCAGGCGACAACUCUAUGCUAAUAUUAAGUACAUGCGUUCACGUUUAUUUAUACGCGUUGUUGUGCGUUGUUGUUGCCCGCU
..(((((.....))))).((.(((((((((...(((((((((........((((((..............))))))))))).)))).))))))))).)). ( -29.04)
>DroSec_CAF1 39289 90 - 1
UAUGUAUAUGUAAUGCACGCAGGCGACAACUCUAUGCUAAUAUUAAGUACAUGCGUUCACGUUUAUUUAUACGCGUU----------GUUGUUGCCCGAU
..(((((.....)))))((..(((((((((...((((......((((((...(((....))).))))))...)))).----------))))))))))).. ( -23.50)
>DroEre_CAF1 41486 96 - 1
UAUGUAUAUGCAAUGCACGCAGGCGACAACUCUAUGCUAAUAUUAAGUACAUGCGUUCACGUUUAUUUAUACGCGU----GUGCGUUGUUGUUGCCCGCU
..(((((.....))))).((.(((((((((..(((....)))....((((((((((..............))))))----))))...))))))))).)). ( -32.64)
>DroYak_CAF1 40216 96 - 1
UAUGUAUAUGCAAUGCACGCAGGCGACAACUCUAUGCUAAUAUUAAGUACAUGCGUUCACGUUUAUUUAUACGCGU----GUGCGUUGUUGUUGCUCGUU
..(((((.....))))).((..((((((((..(((....)))....((((((((((..............))))))----))))...))))))))..)). ( -28.34)
>consensus
UAUGUAUAUGCAAUGCACGCAGGCGACAACUCUAUGCUAAUAUUAAGUACAUGCGUUCACGUUUAUUUAUACGCGU____GUGCGUUGUUGUUGCCCGCU
..(((((.....))))).((.(((((((((....((((.......)))).((((((..............))))))...........))))))))).)). (-22.50 = -22.44 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:12 2006