Locus 7200

Sequence ID	3R_DroMel_CAF1
Location	18,966,026 – 18,966,159
Length	133
Max. P	0.890281

overview

Window 0

Location	18,966,026 – 18,966,120
Length	94
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	85.36
Mean single sequence MFE	-29.36
Consensus MFE	-19.38
Energy contribution	-21.54
Covariance contribution	2.16
Combinations/Pair	1.11
Mean z-score	-2.61
Structure conservation index	0.66
SVM decision value	0.96
SVM RNA-class probability	0.890281
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18966026 94 + 27905053
AUACUAUAUUU---C-AGCCCAGUUUUAUGGCAGCCAUCGCCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUC-----AAUGAUUGGGCACUUUUCCGCC
......(((((---(-(..(((..(((((((..((....))..)))))))..)))))))))).....(((((((((-----...))))))))).......... ( -28.70)
>DroSec_CAF1 77311 99 + 1
AUGCGAUAUUU---C-GGCCCAGUUUUAUGGCCGCAACCGCCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCC
..(((.(((((---(-(..(((..(((((((..((....))..)))))))..)))))))))).....((((((((((......))))))))))......))). ( -34.40)
>DroSim_CAF1 78907 102 + 1
AUGCGAUAUUUCUUC-AGCCCAGUUUUAUGGCCGCAACCGCCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCC
..(((.((((((...-...(((..(((((((..((....))..)))))))..))).)))))).....((((((((((......))))))))))......))). ( -32.30)
>DroEre_CAF1 77562 97 + 1
AUGCGAUAUUU---C-AGCCCUGUUUUAUGGG--CCACCGCCACCAUAAAGUUGCUAAAAUACCCAAUGCCCACCAAAGUGAAUGAUUGGGCACUUUUCCGCC
..(((.(((((---.-(((....((((((((.--.........))))))))..))).))))).....((((((.((.......))..))))))......))). ( -22.10)
>DroYak_CAF1 80000 98 + 1
AUGCGAUAUUU---UGGGCCCUGGUUUAUGGC--CCAUCGCCACCAUAAAUUUGGUGAAAUAACCAAUGCUCGCCAAAGUGAAUGAUUGGGCACUUUUACGCC
..(((......---((((((.........)))--)))..(((((((......)))))......(((((..((((....))))...))))))).......))). ( -29.30)
>consensus
AUGCGAUAUUU___C_AGCCCAGUUUUAUGGC_GCCACCGCCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCC
..(((..............((((((((((((..((....))..))))))))))))............((((((((((......))))))))))......))). (-19.38 = -21.54 +   2.16)

alignment

secondary structure

dotplot

Window 1

Location	18,966,062 – 18,966,159
Length	97
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-27.22
Consensus MFE	-22.42
Energy contribution	-23.94
Covariance contribution	1.52
Combinations/Pair	1.12
Mean z-score	-1.45
Structure conservation index	0.82
SVM decision value	0.36
SVM RNA-class probability	0.704697
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18966062 97 + 27905053
CCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUC-----AAUGAUUGGGCACUUUUCCGCCACGUAGCGUUUAUCAAUGGGAACCGAGUGGCACAAUCUC
.(((((......)))))..........(((((((((-----...))))))))).......(((((...(.((((........)))))..)))))........ ( -28.50)
>DroSec_CAF1 77347 102 + 1
CCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCCACGUAGCGUUUAUCAAUGGGAACUGAGUGGCACAAUCUC
.(((((......)))))..........((((((((((......)))))))))).......(((((.(((..((((....))))..))).)))))........ ( -30.50)
>DroSim_CAF1 78946 102 + 1
CCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCCACGUAGCGUUUAUCAAUGGGAACUGAGUGGCACAAUCUC
.(((((......)))))..........((((((((((......)))))))))).......(((((.(((..((((....))))..))).)))))........ ( -30.50)
>DroEre_CAF1 77596 102 + 1
CCACCAUAAAGUUGCUAAAAUACCCAAUGCCCACCAAAGUGAAUGAUUGGGCACUUUUCCGCCACGUAGCGUUUAUCAAUGGGAACUGAGUGCCGCAAUCUC
..........(((((.........((((...(((....)))....))))(((((((((((((......))(.....)....))))..))))))))))))... ( -21.50)
>DroYak_CAF1 80035 102 + 1
CCACCAUAAAUUUGGUGAAAUAACCAAUGCUCGCCAAAGUGAAUGAUUGGGCACUUUUACGCCACGUAGCGUUUAUCAAUGGGAACUGAGUGGCACAAUCUC
.(((((......)))))......(((((..((((....))))...)))))..........(((((.(((..((((....))))..))).)))))........ ( -25.10)
>consensus
CCACCAUAAAGUUGGUGAAAUAGCCAAUGCUCGAUCAAGUCAAUGAUUGGGCACUUUUCCGCCACGUAGCGUUUAUCAAUGGGAACUGAGUGGCACAAUCUC
.(((((......)))))..........((((((((((......)))))))))).......(((((...(.((((........)))))..)))))........ (-22.42 = -23.94 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:58 2006