Locus 7998

Sequence ID 3L_DroMel_CAF1
Location 21,119,227 – 21,119,347
Length 120
Max. P 0.903287
window13053 window13054

overview

Window 3

Location 21,119,227 – 21,119,347
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -59.47
Consensus MFE -57.07
Energy contribution -57.73
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.96
SVM decision value 0.85
SVM RNA-class probability 0.865519
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21119227 120 + 23771897
UUGCUGCUGCUGCAGCAGGUGAGCCAAGGCGGGUGGCACACUCGCAUUUUGGCCGAAACCAAUGGGCGAGUUCUGAGGUGCCGGCGGAGUGCGCGGGCGCCGCGUCGUUGGACUCCAGUU
.((((((....))))))((.(.(((((.(((((((...)))))))...))))).....((((((((((....)...((((((.(((.....))).)))))))).))))))).).)).... ( -57.00)
>DroSec_CAF1 169876 120 + 1
UUGCUGCUGCUGCAGCAGGUGAGCCAAGGCGGGUGGCACACUCGCAUUUUGGCCGAAACCAAUGGGCGAGUUCUGUGGUGCCGGCGGUGUGCGCGGGCGCCGCGGCGUUGGACUCCAGUU
.((((((....))))))(((..(((((.(((((((...)))))))...)))))....)))..(((((.((..((((((((((.(((.....))).))))))))))..)).).).)))... ( -60.70)
>DroSim_CAF1 81582 120 + 1
UUGCUGCUGCUGCAGCAGGUGAGCCAAGGCGGGUGGCACACUCGCAUUUUGGCCGAAACCAAUGGGCGAGUUCUGUGGUGCCGGCGGUGUGCGCGGGCGCCGCGGCGUUGGACUCCAGUU
.((((((....))))))(((..(((((.(((((((...)))))))...)))))....)))..(((((.((..((((((((((.(((.....))).))))))))))..)).).).)))... ( -60.70)
>consensus
UUGCUGCUGCUGCAGCAGGUGAGCCAAGGCGGGUGGCACACUCGCAUUUUGGCCGAAACCAAUGGGCGAGUUCUGUGGUGCCGGCGGUGUGCGCGGGCGCCGCGGCGUUGGACUCCAGUU
.((((((....))))))(((..(((((.(((((((...)))))))...)))))....)))..(((((.((..((((((((((.(((.....))).))))))))))..)).).).)))... (-57.07 = -57.73 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 21,119,227 – 21,119,347
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -48.13
Consensus MFE -46.80
Energy contribution -46.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.10
Structure conservation index 0.97
SVM decision value 1.03
SVM RNA-class probability 0.903287
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21119227 120 - 23771897
AACUGGAGUCCAACGACGCGGCGCCCGCGCACUCCGCCGGCACCUCAGAACUCGCCCAUUGGUUUCGGCCAAAAUGCGAGUGUGCCACCCGCCUUGGCUCACCUGCUGCAGCAGCAGCAA
.....(((.((((.(.((.((((((.(((.....))).)))........((((((...(((((....)))))...))))))..)))...))).)))))))...((((((....)))))). ( -46.80)
>DroSec_CAF1 169876 120 - 1
AACUGGAGUCCAACGCCGCGGCGCCCGCGCACACCGCCGGCACCACAGAACUCGCCCAUUGGUUUCGGCCAAAAUGCGAGUGUGCCACCCGCCUUGGCUCACCUGCUGCAGCAGCAGCAA
.....(((.((((.((.(.((((((.(((.....))).)))........((((((...(((((....)))))...))))))..))).)..)).)))))))...((((((....)))))). ( -48.80)
>DroSim_CAF1 81582 120 - 1
AACUGGAGUCCAACGCCGCGGCGCCCGCGCACACCGCCGGCACCACAGAACUCGCCCAUUGGUUUCGGCCAAAAUGCGAGUGUGCCACCCGCCUUGGCUCACCUGCUGCAGCAGCAGCAA
.....(((.((((.((.(.((((((.(((.....))).)))........((((((...(((((....)))))...))))))..))).)..)).)))))))...((((((....)))))). ( -48.80)
>consensus
AACUGGAGUCCAACGCCGCGGCGCCCGCGCACACCGCCGGCACCACAGAACUCGCCCAUUGGUUUCGGCCAAAAUGCGAGUGUGCCACCCGCCUUGGCUCACCUGCUGCAGCAGCAGCAA
.....(((.((((.(.((.((((((.(((.....))).)))........((((((...(((((....)))))...))))))..)))...))).)))))))...((((((....)))))). (-46.80 = -46.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:16 2006