Locus 8228

Sequence ID	3R_DroMel_CAF1
Location	22,062,956 – 22,063,104
Length	148
Max. P	0.994074

overview

Window 9

Location	22,062,956 – 22,063,064
Length	108
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.79
Mean single sequence MFE	-30.02
Consensus MFE	-26.09
Energy contribution	-25.61
Covariance contribution	-0.48
Combinations/Pair	1.10
Mean z-score	-1.81
Structure conservation index	0.87
SVM decision value	1.80
SVM RNA-class probability	0.978027
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22062956 108 + 27905053
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUACUCGUAU--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCU
.....((.(((((.....)))))..)).(((((..((((((--------(.........)))))))..(((((....))----)))(((((((((....))))))))).....))))).. ( -29.40)
>DroSec_CAF1 54940 108 + 1
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUACUCGUAU--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCU
.....((.(((((.....)))))..)).(((((..((((((--------(.........)))))))..(((((....))----)))(((((((((....))))))))).....))))).. ( -29.40)
>DroSim_CAF1 47642 108 + 1
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUACUCGUAU--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCU
.....((.(((((.....)))))..)).(((((..((((((--------(.........)))))))..(((((....))----)))(((((((((....))))))))).....))))).. ( -29.40)
>DroEre_CAF1 49513 116 + 1
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUGCUCGUAUAAUAGUAUAAUAUGCAAAUAUACGACAGGCCUUAUCAG----UCCGCCUUGUUAUCGCUGAUGGGGCACUAGAACAUCU
..((((..(((((.....)))))(((((....((.(((((((...((((...))))...))))))))))))))......----...((((..(((....)))..))))..))))...... ( -30.70)
>DroYak_CAF1 57307 112 + 1
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUACUCGUAU--------AAUAUGCAAAUAUACGACAGGCCUUAUCAGUUCGUCCGCUUCAUUAUCGCUGAUGGGGCACUAGAACAUCU
........(((((.....)))))(((((.((....((((((--------(.........)))))))))))))).....((((....(((((((((....)))))))))....)))).... ( -31.20)
>consensus
AAUCUGCAGACUUAGUCAAAGUCAGGCCAUGUUACUCGUAU________AAUAUGCAAAUAUACGACAGGCCUUAUCAG____GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCU
..((((..(((((.....)))))(((((.((....((((((...................))))))))))))).............(((((((((....)))))))))..))))...... (-26.09 = -25.61 +  -0.48)

alignment

secondary structure

dotplot

Window 0

Location	22,062,996 – 22,063,104
Length	108
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.44
Mean single sequence MFE	-27.85
Consensus MFE	-22.95
Energy contribution	-23.15
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.82
SVM decision value	2.45
SVM RNA-class probability	0.994074
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22062996 108 + 27905053
U--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCCUGUGCA
.--------.(((.((((((((((((..(((((....))----)))...))).....((((.((((...........)))).))))..................))))))))).)))... ( -27.60)
>DroSec_CAF1 54980 108 + 1
U--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCAUGUGCA
.--------.((((((((((((((((..(((((....))----)))...))).....((((.((((...........)))).))))..................)))))))))))))... ( -31.90)
>DroSim_CAF1 47682 108 + 1
U--------AAUAUGCAAAUAUACGACAGGCCUUAUCAG----GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCCUGUGCA
.--------.(((.((((((((((((..(((((....))----)))...))).....((((.((((...........)))).))))..................))))))))).)))... ( -27.60)
>DroEre_CAF1 49553 116 + 1
UAAUAGUAUAAUAUGCAAAUAUACGACAGGCCUUAUCAG----UCCGCCUUGUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCCCGUGCA
.....((((.....(((((((((....((((((((((((----(.............))))))))))).)).................((((.....))))...)))))))))..)))). ( -26.52)
>DroYak_CAF1 57347 112 + 1
U--------AAUAUGCAAAUAUACGACAGGCCUUAUCAGUUCGUCCGCUUCAUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCCUGUGCA
.--------.(((.(((((((((....(((((((((((((.................))))))))))).)).................((((.....))))...))))))))).)))... ( -25.63)
>consensus
U________AAUAUGCAAAUAUACGACAGGCCUUAUCAG____GCCGCUUCGUUAUCGCUGAUGGGGCACUAGAACAUCUAACAGCAUAAUCAAAAUGAUUUAAUAUAUUUGCCUGUGCA
..........(((.(((((((((....((((((((((((...................)))))))))).)).................((((.....))))...))))))))).)))... (-22.95 = -23.15 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:07 2006