Locus 3464

Sequence ID 3L_DroMel_CAF1
Location 10,187,387 – 10,187,515
Length 128
Max. P 0.994439
window5404 window5405

overview

Window 4

Location 10,187,387 – 10,187,497
Length 110
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 94.45
Mean single sequence MFE -35.39
Consensus MFE -30.52
Energy contribution -31.72
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.86
SVM decision value 2.48
SVM RNA-class probability 0.994439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10187387 110 + 23771897
ACUGAGCCUG-------UCACCCGACGA--GGCGUAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.....((((.-------(((((((..((--((((.......((((((..((((((((.......)))))))).)))))).......))))....))..)).)))))))))......... ( -35.44)
>DroSec_CAF1 63884 110 + 1
ACUGAGCCUG-------UCACCCGACGA--GGCGAAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAAUUUCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.((..(((((-------((....))).)--)))..))....((((((..((((((((.......)))))))).)))))).................(((.......))).......... ( -33.00)
>DroSim_CAF1 67861 110 + 1
ACUGAGCCUG-------UCACCCGACGA--GGCGAAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.....((((.-------(((((((..((--(((((......((((((..((((((((.......)))))))).))))))......)))))....))..)).)))))))))......... ( -37.30)
>DroEre_CAF1 67969 117 + 1
ACUGAGCCUGUCGUCUGUCACCCGACGA--GGCGAAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.((..(((..(((((........)))))--(((((......((((((..((((((((.......)))))))).))))))......)))))...........)))..))........... ( -37.30)
>DroYak_CAF1 67761 112 + 1
ACUGAGCCUG-------UCACCCGACGCGAUCCGCAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.....((((.-------(((((((..(.(((..((((....((((((..((((((((.......)))))))).))))))......))))....)))).)).)))))))))......... ( -33.90)
>consensus
ACUGAGCCUG_______UCACCCGACGA__GGCGAAGAUGAAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAG
.....((((........(((((((..((..(((((......((((((..((((((((.......)))))))).))))))......)))))....))..)).)))))))))......... (-30.52 = -31.72 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,187,418 – 10,187,515
Length 97
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 90.03
Mean single sequence MFE -28.60
Consensus MFE -23.26
Energy contribution -23.93
Covariance contribution 0.67
Combinations/Pair 1.15
Mean z-score -2.62
Structure conservation index 0.81
SVM decision value 0.80
SVM RNA-class probability 0.854575
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10187418 97 + 23771897
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUGGCA
.((((((..((((((((.......)))))))).))))))......(((((...(((.....)))...)))))..........(((((....))))). ( -30.30)
>DroSec_CAF1 63915 97 + 1
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAAUUUCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUCGCA
.((((((..((((((((.......)))))))).)))))).................(((.......))).........((((..(....)..)))). ( -27.40)
>DroSim_CAF1 67892 97 + 1
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUGGCA
.((((((..((((((((.......)))))))).))))))......(((((...(((.....)))...)))))..........(((((....))))). ( -30.30)
>DroEre_CAF1 68007 97 + 1
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUGGCA
.((((((..((((((((.......)))))))).))))))......(((((...(((.....)))...)))))..........(((((....))))). ( -30.30)
>DroYak_CAF1 67794 97 + 1
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUGGCA
.((((((..((((((((.......)))))))).))))))......(((((...(((.....)))...)))))..........(((((....))))). ( -30.30)
>DroAna_CAF1 61490 89 + 1
AAAUAUUCACCUUAACGAAGA-------CAGGAGCUAUUCAAAAGUCGCCACAAUCGCC-CGGGGAGUGUAAAAUGAAGCGAGCCUUUUGAAUGGCA
.........(((.........-------.))).((((((((((((((((..((..((((-....).))).....))..))))..)))))))))))). ( -23.00)
>consensus
AAAUGACAACCUGGGCGGACAAUAUGUCCAGGAGUCAUUAAAAAGUUGCCACAAUCCCCGCGGUGAGGGUAAAAUUAAGCGAGCCAUUUGAAUGGCA
.((((((..((((((((.......)))))))).))))))......((((......(((........))).........))))(((((....))))). (-23.26 = -23.93 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:41 2006