Locus 6147

Sequence ID 2R_DroMel_CAF1
Location 19,343,897 – 19,343,987
Length 90
Max. P 0.993709
window9847 window9848

overview

Window 7

Location 19,343,897 – 19,343,987
Length 90
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 84.83
Mean single sequence MFE -36.15
Consensus MFE -28.06
Energy contribution -29.38
Covariance contribution 1.31
Combinations/Pair 1.11
Mean z-score -3.05
Structure conservation index 0.78
SVM decision value 2.36
SVM RNA-class probability 0.992947
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19343897 90 + 20766785
C---------UGCCACUGCUGCUGGUGGCAACAAAGCAGCCAGUGUUGCAGCUGCAACAGCAACAGUCGCCGCUGGCAAAACGCCUGCAGCAGCAAUGG
.---------..(((.(((((((((((((......(((((....))))).((((...))))....))))))((.(((.....))).))))))))).))) ( -42.30)
>DroSec_CAF1 6205 90 + 1
C---------AGCUCCUACUACUGGUGGCAACAAAGCACACAAUGUUGCAGCUGCAACAGCAACAGUCGCCACUGGCAAAACGCCUGCAGCGGCAAUGG
.---------.((...........(((((......)).)))..((((((....))))))))....(((((..(.(((.....))).)..)))))..... ( -27.50)
>DroSim_CAF1 6161 90 + 1
C---------AGCUCCUACUGCUGGUGGCAACAAAGCAGCCAGUGUUGCAGCUGCAACAGCAACAGUCGCCACUGGCAAAACGCCUGCAGCGGCAAUGG
.---------.(((....((((.((((((......)).(((((((..((.((((.........)))).)))))))))....)))).)))).)))..... ( -34.20)
>DroYak_CAF1 6534 96 + 1
CUGUAACUGCUA---CUGCUGCUGGUGGCAACAAAGCAGCAAGUGUGGCAACUGCAACAGCAACAGUCGCUGCUGGCAAAACGCCUGCUGCAGCAAUGG
((((...(((((---((((((((..((....)).)))))))...))))))..(((....)))))))..(((((.(((.....)))....)))))..... ( -40.60)
>consensus
C_________AGCUCCUACUGCUGGUGGCAACAAAGCAGCCAGUGUUGCAGCUGCAACAGCAACAGUCGCCACUGGCAAAACGCCUGCAGCAGCAAUGG
................(((((((((((((.((...(((((....))))).((((...))))....)).))))).(((.....)))..)))))))).... (-28.06 = -29.38 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,343,897 – 19,343,987
Length 90
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 84.83
Mean single sequence MFE -38.88
Consensus MFE -33.44
Energy contribution -32.62
Covariance contribution -0.81
Combinations/Pair 1.21
Mean z-score -2.77
Structure conservation index 0.86
SVM decision value 2.42
SVM RNA-class probability 0.993709
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19343897 90 - 20766785
CCAUUGCUGCUGCAGGCGUUUUGCCAGCGGCGACUGUUGCUGUUGCAGCUGCAACACUGGCUGCUUUGUUGCCACCAGCAGCAGUGGCA---------G
((((((((((((..((((.......((((((.(.((((((.((....)).)))))).).))))))....))))..))))))))))))..---------. ( -46.20)
>DroSec_CAF1 6205 90 - 1
CCAUUGCCGCUGCAGGCGUUUUGCCAGUGGCGACUGUUGCUGUUGCAGCUGCAACAUUGUGUGCUUUGUUGCCACCAGUAGUAGGAGCU---------G
......(((((((.(((.....))).((((((((.(((((....))))).(((........)))...))))))))..))))).))....---------. ( -32.80)
>DroSim_CAF1 6161 90 - 1
CCAUUGCCGCUGCAGGCGUUUUGCCAGUGGCGACUGUUGCUGUUGCAGCUGCAACACUGGCUGCUUUGUUGCCACCAGCAGUAGGAGCU---------G
......(((((((.(((.....))).((((((((.((.((((((((....)))))...))).))...))))))))..))))).))....---------. ( -37.30)
>DroYak_CAF1 6534 96 - 1
CCAUUGCUGCAGCAGGCGUUUUGCCAGCAGCGACUGUUGCUGUUGCAGUUGCCACACUUGCUGCUUUGUUGCCACCAGCAGCAG---UAGCAGUUACAG
.....((((((((.(((.....)))((((((....))))))))))))))..........(((((((((((((.....)))))))---.))))))..... ( -39.20)
>consensus
CCAUUGCCGCUGCAGGCGUUUUGCCAGCGGCGACUGUUGCUGUUGCAGCUGCAACACUGGCUGCUUUGUUGCCACCAGCAGCAGGAGCA_________G
...((((((((...(((.....)))))))))))(((((((((..(((((.(((........)))...)))))...)))))))))............... (-33.44 = -32.62 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:59 2006