Locus 3976

Sequence ID	2L_DroMel_CAF1
Location	11,591,921 – 11,592,039
Length	118
Max. P	0.984437

overview

Window 7

Location	11,591,921 – 11,592,029
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.69
Mean single sequence MFE	-23.15
Consensus MFE	-17.86
Energy contribution	-17.87
Covariance contribution	0.00
Combinations/Pair	1.25
Mean z-score	-1.97
Structure conservation index	0.77
SVM decision value	1.97
SVM RNA-class probability	0.984437
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11591921 108 + 22407834
AAU------------AUGUACUCAACCAGUUUUCCUUGCUGUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCGAGUUAUCUCAUUAGAUGUACUUGAGACUGUUGAG
...------------.....((((((((((.......))))......................................(((((.(((((((((....))))).))))))))).)))))) ( -20.90)
>DroSec_CAF1 46026 120 + 1
AAUUCAAUACUCAACAAAUACUCAACCAGUUUUCCUCGCAGUCCAUUAUUAUACACCAUACACUCAAUUUUCGCCAGUUGUCUCCGAGUUAUCUCAUUAGAUGUACUUGAGACUGGCGAG
......................................................................(((((((((.....((((((((((....))))).))))).))))))))). ( -21.60)
>DroSim_CAF1 48702 120 + 1
AAUUCAAUAUUCAUCAAACACUCAACCAGUUUUCCUCGCUGUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCAAAUUAUCUCAUUAGAUGUACUUGAGACUGGCGAG
..........................((((.......))))............................(((((((...(((((.....(((((....))))).....)))))))))))) ( -21.50)
>DroEre_CAF1 77226 93 + 1
------------------------ACCCAGUUCUUUUGCUGUCCAUUAUU--ACCCCAUACACUCAAUUCGCGCCAGUUGUCUCC-AGUUAUCUCAUUAGAUGUACUUGCGGCUGGCGAG
------------------------...((((......)))).........--...................((((((((((....-((((((((....))))).))).)))))))))).. ( -22.60)
>DroYak_CAF1 47940 106 + 1
CA------------CAAGUACUCAACCAGCUAGUCUUGCAGCUCAUUAUU--ACCCCAUACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAGAUGUACUUGAGGCUGGCGAG
..------------((((.(((.........)))))))............--.................(((((((((...(((.(((((((((....))))).)))))))))))))))) ( -25.70)
>DroAna_CAF1 60442 115 + 1
A--UCAAGG--UAAUGAAUAUUCAGGCUCUGUUCCUCACUCCUCGUCAUUAUCC-UUGCACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAUAUGUACUUGAGGUUGGCGAG
.--.(((((--((((((......(((...((.....))..)))..)))))).))-)))...........((((((((...((((.(((((((........))).)))))))))))))))) ( -26.60)
>consensus
AA____________CAAAUACUCAACCAGUUUUCCUCGCUGUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAGAUGUACUUGAGACUGGCGAG
.....................................................................((((((((((.....((((((((((....))))).))))).)))))))))) (-17.86 = -17.87 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	11,591,949 – 11,592,039
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	89.02
Mean single sequence MFE	-22.83
Consensus MFE	-20.76
Energy contribution	-20.77
Covariance contribution	0.00
Combinations/Pair	1.22
Mean z-score	-1.90
Structure conservation index	0.91
SVM decision value	1.49
SVM RNA-class probability	0.958278
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11591949 90 + 22407834
GUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCGAGUUAUCUCAUUAGAUGUACUUGAGACUGUUGAGGUGGAAAAUU
...............((((...((((((...........(((((.(((((((((....))))).))))))))).))))))))))...... ( -19.40)
>DroSec_CAF1 46066 90 + 1
GUCCAUUAUUAUACACCAUACACUCAAUUUUCGCCAGUUGUCUCCGAGUUAUCUCAUUAGAUGUACUUGAGACUGGCGAGGUGGAAAAUG
.((((((..(((.....)))..........(((((((((.....((((((((((....))))).))))).)))))))))))))))..... ( -25.00)
>DroSim_CAF1 48742 90 + 1
GUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCAAAUUAUCUCAUUAGAUGUACUUGAGACUGGCGAGGUGGAAAAUG
.(((((...(((.....))).........(((((((...(((((.....(((((....))))).....)))))))))))))))))..... ( -23.40)
>DroEre_CAF1 77242 87 + 1
GUCCAUUAUU--ACCCCAUACACUCAAUUCGCGCCAGUUGUCUCC-AGUUAUCUCAUUAGAUGUACUUGCGGCUGGCGAGGUGGAAAAUG
.((((((...--...................((((((((((....-((((((((....))))).))).)))))))))).))))))..... ( -22.50)
>DroYak_CAF1 47968 88 + 1
GCUCAUUAUU--ACCCCAUACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAGAUGUACUUGAGGCUGGCGAGGUGGAAAAUG
..........--...........((...((((((((((...(((.(((((((((....))))).)))))))))))))))))..))..... ( -26.20)
>DroAna_CAF1 60478 89 + 1
CCUCGUCAUUAUCC-UUGCACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAUAUGUACUUGAGGUUGGCGAGGUGGAAAAUG
......((((.(((-(((......))).(((((((((...((((.(((((((........))).))))))))))))))))).))).)))) ( -20.50)
>consensus
GUCCAUUAUUAUACACCAUACACUCAAUUCUCGCCAGUUGUCUCCAAGUUAUCUCAUUAGAUGUACUUGAGACUGGCGAGGUGGAAAAUG
.......................((...(((((((((((.....((((((((((....))))).))))).)))))))))))..))..... (-20.76 = -20.77 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:12 2006