Locus 5706

Sequence ID 2R_DroMel_CAF1
Location 18,064,872 – 18,064,969
Length 97
Max. P 0.929085
window9136 window9137

overview

Window 6

Location 18,064,872 – 18,064,969
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 84.97
Mean single sequence MFE -22.59
Consensus MFE -15.71
Energy contribution -16.40
Covariance contribution 0.69
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.22
SVM RNA-class probability 0.641710
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18064872 97 + 20766785
AAGUCGGCCACUCGAAAGAUCAGCGGAGUAUAUAUGUACAUAUGUACAUAGAGGCCUGAUAACGAGCGGAAUGGAAAGAAGGAAAAAUCGGCGGGGG
..(((((((.((((....(((((....((...(((((((....)))))))...)))))))..)))).))..(....)..........)))))..... ( -24.50)
>DroSec_CAF1 22572 96 + 1
AAGUCGGCCACUCGAAAGAUCAGCAGAGUAUAUAUAUACAUAUGUACAUAGAGGCCUGAUAACGAGCGGAACGGAAAGUAAGAAAAAUCGGCGGG-G
..(((((((.((((....((((((...((((((((....))))))))......).)))))..)))).)).((.....))........)))))...-. ( -22.70)
>DroSim_CAF1 22628 96 + 1
AAGUCGGCCACUCGAAAGAUCAGCAGAGUAUAUAUAUACAUAUGUACAUAGAGGCCUGAUAACGAGCGGAACGGAAAGAAAUGAAAAUCGGCGGG-G
..(((((((.((((....((((((...((((((((....))))))))......).)))))..)))).))..((........))....)))))...-. ( -21.70)
>DroYak_CAF1 23154 84 + 1
AAGUCGGCCACUCGAAAGAUCAGCAGAGUAUACAGA-------GUAUACGGCCUCCUGAUAACGAGCGGAACGGAAAG----AAAAAUCGCUGGG--
.((..((((..((....))........((((((...-------))))))))))..)).....(.(((((.........----.....))))).).-- ( -21.44)
>consensus
AAGUCGGCCACUCGAAAGAUCAGCAGAGUAUAUAUAUACAUAUGUACAUAGAGGCCUGAUAACGAGCGGAACGGAAAGAAAGAAAAAUCGGCGGG_G
..(((((((.((((....(((((....((((((((....))))))))........)))))..)))).))..(.....).........)))))..... (-15.71 = -16.40 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,064,872 – 18,064,969
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 84.97
Mean single sequence MFE -20.87
Consensus MFE -16.65
Energy contribution -16.71
Covariance contribution 0.06
Combinations/Pair 1.21
Mean z-score -2.14
Structure conservation index 0.80
SVM decision value 1.20
SVM RNA-class probability 0.929085
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18064872 97 - 20766785
CCCCCGCCGAUUUUUCCUUCUUUCCAUUCCGCUCGUUAUCAGGCCUCUAUGUACAUAUGUACAUAUAUACUCCGCUGAUCUUUCGAGUGGCCGACUU
............................(((((((..((((((....(((((((....))))))).......).)))))....)))))))....... ( -20.40)
>DroSec_CAF1 22572 96 - 1
C-CCCGCCGAUUUUUCUUACUUUCCGUUCCGCUCGUUAUCAGGCCUCUAUGUACAUAUGUAUAUAUAUACUCUGCUGAUCUUUCGAGUGGCCGACUU
.-.......................((((((((((..(((((.....(((((((....))))))).........)))))....)))))))..))).. ( -19.44)
>DroSim_CAF1 22628 96 - 1
C-CCCGCCGAUUUUCAUUUCUUUCCGUUCCGCUCGUUAUCAGGCCUCUAUGUACAUAUGUAUAUAUAUACUCUGCUGAUCUUUCGAGUGGCCGACUU
.-.......................((((((((((..(((((.....(((((((....))))))).........)))))....)))))))..))).. ( -19.44)
>DroYak_CAF1 23154 84 - 1
--CCCAGCGAUUUUU----CUUUCCGUUCCGCUCGUUAUCAGGAGGCCGUAUAC-------UCUGUAUACUCUGCUGAUCUUUCGAGUGGCCGACUU
--.............----......((((((((((..(((((.(((..((((((-------...))))))))).)))))....)))))))..))).. ( -24.20)
>consensus
C_CCCGCCGAUUUUUCUUUCUUUCCGUUCCGCUCGUUAUCAGGCCUCUAUGUACAUAUGUAUAUAUAUACUCUGCUGAUCUUUCGAGUGGCCGACUU
............................(((((((..(((((.....(((((((....))))))).........)))))....)))))))....... (-16.65 = -16.71 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:17 2006