Locus 744

Sequence ID	2L_DroMel_CAF1
Location	2,130,665 – 2,130,831
Length	166
Max. P	0.936511

overview

Window 6

Location	2,130,665 – 2,130,778
Length	113
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	86.94
Mean single sequence MFE	-42.24
Consensus MFE	-34.75
Energy contribution	-36.87
Covariance contribution	2.12
Combinations/Pair	1.08
Mean z-score	-2.78
Structure conservation index	0.82
SVM decision value	1.25
SVM RNA-class probability	0.936511
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2130665 113 + 22407834
UGUUGUAUUAUAUCCCCUAGAUGAUAAU-------UCGUAGCAGUUGAUACCCAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCG
((((((......((((((....((((((-------(((((........)))(((((((((.....)))))))))))))))))....))))))))))))((((.((((.....)))))))) ( -47.70)
>DroSim_CAF1 130061 120 + 1
UAUUGAAUUGUAUCCCCUUGAUGAUAAUUAUCUGUUCAUAACAGUUGAUACUCAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCG
.......((((.((((((((..(((((((..((((.....))))......((((((((((.....)))))))))))))))))..))))))))))))..((((.((((.....)))))))) ( -47.80)
>DroYak_CAF1 136131 116 + 1
UCUUGCAUUUUAUCCCUUUGAUGAUAAGUAUUUGUUCGUAGCAGUUGAGACACAGC----CCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCG
...(((......((((((((..(((((.......(((.((((......(.(((((.----...)))))))))).))))))))..))))))))...)))((((.((((.....)))))))) ( -31.21)
>consensus
UAUUGAAUUAUAUCCCCUUGAUGAUAAUUAU_UGUUCGUAGCAGUUGAUACACAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCG
............((((((((..(((((((......(((.......)))..((((((((((.....)))))))))))))))))..))))))))......((((.((((.....)))))))) (-34.75 = -36.87 +   2.12)

alignment

secondary structure

dotplot

Window 7

Location	2,130,698 – 2,130,818
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.17
Mean single sequence MFE	-40.30
Consensus MFE	-32.58
Energy contribution	-34.47
Covariance contribution	1.89
Combinations/Pair	1.03
Mean z-score	-2.40
Structure conservation index	0.81
SVM decision value	0.23
SVM RNA-class probability	0.644380
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2130698 120 + 22407834
GCAGUUGAUACCCAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGCCGAAAGUAUAAAGUGA
......(((.((((((((((.....)))))))))).)))..((((..(((((..(((.((((.((((.....)))))))).....))).))))).....((((.(....)))))..)))) ( -43.20)
>DroSim_CAF1 130101 120 + 1
ACAGUUGAUACUCAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUUCCGAGAGUAUAAAGUGA
.((.((.(((((((((((((.....))))))).(((((..(((....(((((..(((.((((.((((.....)))))))).....))).))))).)))..)))))..)))))).)).)). ( -44.30)
>DroYak_CAF1 136171 116 + 1
GCAGUUGAGACACAGC----CCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGGCGAAAGUAUAAAGUGA
...((((.....))))----.((((.(((((..((.(((((((.......)))))))..(((........)))))..)))))...(((((...(....).)))))..........)))). ( -33.40)
>consensus
GCAGUUGAUACACAGCGCACCCACUGUGCGCUGGGAGUUGUUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGCCGAAAGUAUAAAGUGA
..........((((((((((.....))))))))))......((((..(((((..(((.((((.((((.....)))))))).....))).))))).....((((.(....)))))..)))) (-32.58 = -34.47 +   1.89)

alignment

secondary structure

dotplot

Window 8

Location	2,130,738 – 2,130,831
Length	93
Sequences	3
Columns	93
Reading direction	forward
Mean pairwise identity	97.85
Mean single sequence MFE	-26.20
Consensus MFE	-24.37
Energy contribution	-24.70
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.85
Structure conservation index	0.93
SVM decision value	0.34
SVM RNA-class probability	0.696766
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2130738 93 + 22407834
UUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGCCGAAAGUAUAAAGUGAGAAUCGCUCCGGA
.........((((((((.((((.((((.....)))))))).....))).(((((.....((((.(....)))))..).))))...)))))... ( -26.20)
>DroSim_CAF1 130141 93 + 1
UUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUUCCGAGAGUAUAAAGUGAGAAUCGCUCCGGA
.........((((((((.((((.((((.....)))))))).....))).(((((....((((((...))))))...).))))...)))))... ( -25.80)
>DroYak_CAF1 136207 93 + 1
UUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGGCGAAAGUAUAAAGUGAGAAUCGCUCCGGA
.........((((((((.((((.((((.....)))))))).....))).(((((....)....((....)).......))))...)))))... ( -26.60)
>consensus
UUUACAAGGGGAGCAGCACGCUGAGAGAAAAGCUCUGGCGCAAAAGCUAUCUCCGAAAGUAUGCCGAAAGUAUAAAGUGAGAAUCGCUCCGGA
.........((((((((.((((.((((.....)))))))).....))).(((((.....((((.(....)))))..).))))...)))))... (-24.37 = -24.70 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:36 2006