Locus 315

Sequence ID 2L_DroMel_CAF1
Location 900,828 – 900,988
Length 160
Max. P 0.995752
window500 window501

overview

Window 0

Location 900,828 – 900,948
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -51.96
Consensus MFE -48.62
Energy contribution -48.66
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.02
Structure conservation index 0.94
SVM decision value 2.61
SVM RNA-class probability 0.995752
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 900828 120 - 22407834
CGAUACCACAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
.....((((..((.((....)).))....))))....((((((((((((...(((.......((((...(((((.((.....)).)))))...)))).....))).)))))))))))).. ( -49.70)
>DroSec_CAF1 28981 120 - 1
CGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
.....((((((((((((((((..(((..(((((....(((((....)))))..(((......))).))))).)))...))))))))..(((....)))))))))..(((....))).)). ( -51.70)
>DroSim_CAF1 25325 120 - 1
CGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
.....((((((((((((((((..(((..(((((....(((((....)))))..(((......))).))))).)))...))))))))..(((....)))))))))..(((....))).)). ( -51.70)
>DroEre_CAF1 32498 120 - 1
CGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUAGGGCACCACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
((((..(((........)))..))))...........((((((((((((...(((.....((((((...(((((.((.....)).)))))...))))))...))).)))))))))))).. ( -55.60)
>DroYak_CAF1 29405 120 - 1
CGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACAUAGGGGACAACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
((((..(((........)))..))))...........((((((((((((...(((.....((((.(...(((((.((.....)).)))))...).))))...))).)))))))))))).. ( -51.10)
>consensus
CGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAACAUCUGCAUGGGCAUGCCCUUCUGCCAGCCCAUGGGCAGGA
((((..(((........)))..))))...........((((((((((((...(((.......((((...(((((.((.....)).)))))...)))).....))).)))))))))))).. (-48.62 = -48.66 +   0.04) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 900,868 – 900,988
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.92
Mean single sequence MFE -50.78
Consensus MFE -45.82
Energy contribution -46.26
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.62
Structure conservation index 0.90
SVM decision value 1.52
SVM RNA-class probability 0.961087
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 900868 120 - 22407834
UAGCCGAAGGGCAGGCUGUCCACGUAGCGCGCUCCGGAUCCGAUACCACAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAAC
..(((....))).(((((((((((.((((..(((((..(.((((..(((........)))..)))).)..)))))...)))))))))))))(((((......))).)).))......... ( -50.60)
>DroSec_CAF1 29021 120 - 1
UAGCCGAAGGGCAGGCUGUCCACGUAGCGGGCUCCGGACCCGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAAC
..(((....))).(((((((((((.(((((.((((..(((((((..(((........)))..))))..)))))))..))))))))))))))(((((......))).)).))......... ( -53.00)
>DroSim_CAF1 25365 120 - 1
UAGCCGAAGGGCAGGCUGUCCACGUAGCGGGCUCCGGAUCCGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAAC
..(((....))).(((((((((((.(((((.(((((..(.((((..(((........)))..)))).)..)))))..))))))))))))))(((((......))).)).))......... ( -53.10)
>DroEre_CAF1 32538 120 - 1
UAGCCGAAGGGCAUGCUGUCCACGAAGCGGGCUCCGGAUCCGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUAGGGCACCACCAUGAAGAAC
..(((....)))...((((((((((.((((.(((((..(.((((..(((........)))..)))).)..)))))..))))))))))))))(((((......))).))............ ( -51.50)
>DroYak_CAF1 29445 120 - 1
UAGCCGAAGGGCAUGCUGUCCACGAAGCGUGCUCCGGAUCCGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACAUAGGGGACAACCAUGAAGAAC
..(((....))).(.((((((((((.((((.(((((..(.((((..(((........)))..)))).)..))))).)).)))))))))))).)....(((.((......)))))...... ( -45.70)
>consensus
UAGCCGAAGGGCAGGCUGUCCACGUAGCGGGCUCCGGAUCCGAUGCCGCAGGAGUAGGUGUAGUCGAAGGUGGAGAACUGCUCGUGGGCGGGGGCCACGUACGGCACCACCAUGAAGAAC
..(((....)))...(((((((((.((((..(((((..(.((((..(((........)))..)))).)..)))))...)))))))))))))(((((......))).))............ (-45.82 = -46.26 +   0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:48 2006