Locus 7183

Sequence ID	2L_DroMel_CAF1
Location	20,128,818 – 20,129,032
Length	214
Max. P	0.987488

overview

Window 3

Location	20,128,818 – 20,128,937
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.33
Mean single sequence MFE	-31.02
Consensus MFE	-25.56
Energy contribution	-25.50
Covariance contribution	-0.06
Combinations/Pair	1.09
Mean z-score	-1.82
Structure conservation index	0.82
SVM decision value	0.72
SVM RNA-class probability	0.832915
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20128818 119 - 22407834
UCAAGUUGGGUUUUAAUAUUCGCUCGCAUACUAAUGC-CGGGUUAACCCGUCCGGCUAAACCGUCAAAACUGUGACGCAACCAAUCUGAAUUUUAAUACCAGCUUCUGCCCAGGAGUUUU
........(((.((((.(((((((.((((....))))-((((....))))...))).....(((((......)))))..........)))).)))).)))(((((((....))))))).. ( -30.20)
>DroSec_CAF1 40156 117 - 1
UUAAGUUGGGUUUUAAUAUUCGCUCGCAUACUAAUGC-CGGGUUAACCCGUCCGGCUAAACCGUCAAAACUGUGACGCGACCAAUCUGAAUUUUAAAACCAGCUUCUGCCCAGGAGUU--
........((((((((.(((((.((((........((-((((........))))))......((((......))))))))......))))).))))))))(((((((....)))))))-- ( -34.90)
>DroSim_CAF1 3551 117 - 1
UUAAGUUGGGUUUUAAUAUUCGCUCGCAUACUAAUGC-CGGGUUAACCCGUCCGGCUAAACCGUCAAAACUGUGACGCGACCAAUCUGAAUUUUAAUACCAGCUUCUGCCCAGGAGUU--
........(((.((((.(((((.((((........((-((((........))))))......((((......))))))))......))))).)))).)))(((((((....)))))))-- ( -31.60)
>DroEre_CAF1 16821 103 - 1
UCAAGCUAGGUUUUAAUAUUUGCUUGCAUACUAAUGCGCGGGUUAACCCGUCCGGCUAAGCCGUCAAAACUGUGACGCAACCAAUCUGAAUUUUAAUGCCAGC-----------------
....(((.(((.((((.((((((((((((....))))(((((....)))))......))))(((((......)))))..........)))).)))).))))))----------------- ( -27.40)
>consensus
UCAAGUUGGGUUUUAAUAUUCGCUCGCAUACUAAUGC_CGGGUUAACCCGUCCGGCUAAACCGUCAAAACUGUGACGCAACCAAUCUGAAUUUUAAUACCAGCUUCUGCCCAGGAGUU__
..(((((.(((.((((.(((((((.((((....)))).((((....))))...))).....(((((......)))))..........)))).)))).))))))))............... (-25.56 = -25.50 +  -0.06)

alignment

secondary structure

dotplot

Window 4

Location	20,128,937 – 20,129,032
Length	95
Sequences	3
Columns	95
Reading direction	forward
Mean pairwise identity	92.17
Mean single sequence MFE	-22.94
Consensus MFE	-21.67
Energy contribution	-22.00
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.47
Structure conservation index	0.94
SVM decision value	1.62
SVM RNA-class probability	0.967970
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20128937 95 + 22407834
AGAUUACCAUAUUUUAUGCUGAUGCAUACAUAUAUACCAGCCAGCACUAGUGGCUAGUCUUAUUUUAGUAACCACUAGCCGAGCAUCAAAUAAGG
......((.(((((.(((((..(((..................)))....((((((((.((((....))))..))))))))))))).))))).)) ( -20.97)
>DroSec_CAF1 40273 91 + 1
AGAUUACCAUAUUUUAUGCUGAAGCA----UAUAAACCAGCCAGCACUAGUGGCUAGCCUUAAAUUAGUAACCACUAGCCGAGCAUGAAAUAAGG
......((.(((((((((((...((.----.............)).(((((((((((.......))))...)))))))...))))))))))).)) ( -22.84)
>DroSim_CAF1 3668 91 + 1
AGAUUACCAUAUUUUAUGCUGAUGCA----UAUAAGCCAGCCAGCACUAGUGGCUAGCCUUAAAUUAGUAACCACUAGCCGAGCAUGAAAUAAGG
......((.(((((((((((...((.----..(((((.(((((.......))))).).))))...((((....))))))..))))))))))).)) ( -25.00)
>consensus
AGAUUACCAUAUUUUAUGCUGAUGCA____UAUAAACCAGCCAGCACUAGUGGCUAGCCUUAAAUUAGUAACCACUAGCCGAGCAUGAAAUAAGG
......((.(((((((((((...((..................)).(((((((((((.......))))...)))))))...))))))))))).)) (-21.67 = -22.00 +   0.33)

alignment

secondary structure

dotplot

Window 5

Location	20,128,937 – 20,129,032
Length	95
Sequences	3
Columns	95
Reading direction	reverse
Mean pairwise identity	92.17
Mean single sequence MFE	-27.03
Consensus MFE	-25.71
Energy contribution	-25.60
Covariance contribution	-0.11
Combinations/Pair	1.07
Mean z-score	-2.86
Structure conservation index	0.95
SVM decision value	2.08
SVM RNA-class probability	0.987488
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20128937 95 - 22407834
CCUUAUUUGAUGCUCGGCUAGUGGUUACUAAAAUAAGACUAGCCACUAGUGCUGGCUGGUAUAUAUGUAUGCAUCAGCAUAAAAUAUGGUAAUCU
((.(((((........(((((((((((((......))..)))))))))))(((((...(((((....))))).)))))...))))).))...... ( -26.80)
>DroSec_CAF1 40273 91 - 1
CCUUAUUUCAUGCUCGGCUAGUGGUUACUAAUUUAAGGCUAGCCACUAGUGCUGGCUGGUUUAUA----UGCUUCAGCAUAAAAUAUGGUAAUCU
((.(((((.(((((.(((((((....)))).....(((((((((((....).))))))))))...----.)))..))))).))))).))...... ( -26.20)
>DroSim_CAF1 3668 91 - 1
CCUUAUUUCAUGCUCGGCUAGUGGUUACUAAUUUAAGGCUAGCCACUAGUGCUGGCUGGCUUAUA----UGCAUCAGCAUAAAAUAUGGUAAUCU
((.(((((.(((((..((((((....)))).....(((((((((((....).))))))))))...----.))...))))).))))).))...... ( -28.10)
>consensus
CCUUAUUUCAUGCUCGGCUAGUGGUUACUAAUUUAAGGCUAGCCACUAGUGCUGGCUGGUUUAUA____UGCAUCAGCAUAAAAUAUGGUAAUCU
((.(((((.(((((..((((((....)))).....(((((((((((....).))))))))))........))...))))).))))).))...... (-25.71 = -25.60 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:26 2006