Locus 2930

Sequence ID	2L_DroMel_CAF1
Location	8,423,054 – 8,423,212
Length	158
Max. P	0.990683

overview

Window 8

Location	8,423,054 – 8,423,145
Length	91
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	95.66
Mean single sequence MFE	-29.65
Consensus MFE	-25.39
Energy contribution	-25.67
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-1.72
Structure conservation index	0.86
SVM decision value	1.20
SVM RNA-class probability	0.930340
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8423054 91 + 22407834
UCAAUAAAGCCAAAUGCAUCGUCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCU
......((((((.......(((((((...---....)))))))))))))...(((((..((....)).....((((.(....)))))..))))) ( -26.81)
>DroSec_CAF1 21246 91 + 1
UCAAUAAAGCCAAAUGCAUCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGGAACGAAAGUGCACUCCGCU
......((((((.......(((((((...---....)))))))))))))...(((((..((....)).....((..((....)).))..))))) ( -28.41)
>DroSim_CAF1 21061 91 + 1
UCAAUAAAGCCAAAUGCAUCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCU
......((((((.......(((((((...---....)))))))))))))...(((((..((....)).....((((.(....)))))..))))) ( -29.51)
>DroEre_CAF1 21481 94 + 1
UCAAUAAAGCCAAAUGCUUCGCCUGAUUGCUGCGGCUUAGGCGUGGCUUAUCAGAGGCAGCGAAGGCAGCAAUGCAACGAAAGUGCACUCUGCU
......((((((.......(((((((..((....)))))))))))))))..(((((((.((....)).))..((((.(....)))))))))).. ( -35.21)
>DroYak_CAF1 21509 91 + 1
UCAAUAAAGCGAAAUGCAUCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCU
........((((...((..(((((((...---....)))))))..))...)).))(((((.(..(....)..((((.(....)))))).))))) ( -28.30)
>consensus
UCAAUAAAGCCAAAUGCAUCGCCUGAUUG___CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCU
......((((((.......(((((((..........)))))))))))))...(((((..((....)).....((((.(....)))))..))))) (-25.39 = -25.67 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	8,423,072 – 8,423,178
Length	106
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	94.59
Mean single sequence MFE	-39.76
Consensus MFE	-33.42
Energy contribution	-34.30
Covariance contribution	0.88
Combinations/Pair	1.07
Mean z-score	-2.26
Structure conservation index	0.84
SVM decision value	2.23
SVM RNA-class probability	0.990683
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8423072 106 + 22407834
UCGUCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUACUGCUCCUUCCUCGCCGUCUUAUUG
((((......)---)))....((((.((......(((((.((.(((((((....((((.(....)))))...)))))))..)).)))))....)).))))......... ( -32.20)
>DroSec_CAF1 21264 106 + 1
UCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGGAACGAAAGUGCACUCCGCUUUCUUCUGCUGCUCCUGCCUCGCCGUCUUAUUG
..(((......---.)))...((((.(((.....((((((.((....))......((((.(((((((.....)))))))))))))))))...))).))))......... ( -41.10)
>DroSim_CAF1 21079 106 + 1
UCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGCUCCUGCCUCGCCGUCUUAUUG
..(((......---.)))...((((.(((.....((((((((.(((((((....((((.(....)))))...)))))))..))))))))...))).))))......... ( -45.80)
>DroEre_CAF1 21499 109 + 1
UCGCCUGAUUGCUGCGGCUUAGGCGUGGCUUAUCAGAGGCAGCGAAGGCAGCAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGUUCCUUCCUCUCCGUCUUAUUG
.(((((((..((....))))))))).((......((..((((((((((.((((.((((.(....)))))...)))).))))).)))))..))......))......... ( -38.20)
>DroYak_CAF1 21527 106 + 1
UCGCCUGAUUG---CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCGGCUGCUCCUUCCGCGCCGUCUUAUUG
..(((......---.)))...(((((((......((((((...(((((((....((((.(....)))))...)))))))....))))))....)))))))......... ( -41.50)
>consensus
UCGCCUGAUUG___CGGCUUAGGCGUGGCUUAUCAGCGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGCUCCUUCCUCGCCGUCUUAUUG
..(((..........)))...((((.((......((((((((.(((((((....((((.(....)))))...)))))))..))))))))....)).))))......... (-33.42 = -34.30 +   0.88)

alignment

secondary structure

dotplot

Window 0

Location	8,423,105 – 8,423,212
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	95.33
Mean single sequence MFE	-30.02
Consensus MFE	-25.88
Energy contribution	-26.32
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-1.54
Structure conservation index	0.86
SVM decision value	0.84
SVM RNA-class probability	0.864718
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8423105 107 + 22407834
CGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUACUGCUCCUUCCUCGCCGUCUUAUUGUUCUCCCACUCAAAACUUGGGUCUACUUGAGCCU
((((((.(((((......((((.(....)))))....((...........)).))))))).)))).((((..((...((((.........))))...)).))))... ( -26.40)
>DroSec_CAF1 21297 107 + 1
CGGCAGCGAAGGCAACAAUGGAACGAAAGUGCACUCCGCUUUCUUCUGCUGCUCCUGCCUCGCCGUCUUAUUGUUCUCCCACUCGAAACUUGGGUCUACUUGAGCCU
.(((.((((.((((.((..((((.(((((((.....)))))))))))..))....)))))))).........((...((((.........))))...))....))). ( -32.40)
>DroSim_CAF1 21112 107 + 1
CGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGCUCCUGCCUCGCCGUCUUAUUGUUCUCCCACUCGAAACUUGGGUCUACUUGAGCCU
((((((((((((((....((((.(....)))))...)))))))....)))((....))...)))).((((..((...((((.........))))...)).))))... ( -29.40)
>DroEre_CAF1 21535 107 + 1
AGGCAGCGAAGGCAGCAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGUUCCUUCCUCUCCGUCUUAUUGUUCUCCCACUCGAAACUUGGGCCUACUUGAGCCU
.(((((.((((((((...((((.(....)))))..))))))))..)))))..............(.((((..((...((((.........))))...)).)))).). ( -30.40)
>DroYak_CAF1 21560 107 + 1
CGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCGGCUGCUCCUUCCGCGCCGUCUUAUUGUUCUCCCACUCGAAACUUGGGUCUACUUGAGCCU
.(((...(((((((....((((.(....)))))...)))))))..((((.((.......)))))).......((...((((.........))))...))....))). ( -31.50)
>consensus
CGGCAGCGAAGGCAACAAUGCAACGAAAGUGCACUCUGCUUUCUUCUGCUGCUCCUUCCUCGCCGUCUUAUUGUUCUCCCACUCGAAACUUGGGUCUACUUGAGCCU
.(((((((((((((....((((.(....)))))...)))))))....))))))...........(.((((..((...((((.........))))...)).)))).). (-25.88 = -26.32 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:48 2006