Locus 222

Sequence ID 3L_DroMel_CAF1
Location 617,966 – 618,092
Length 126
Max. P 0.901657
window331 window332

overview

Window 1

Location 617,966 – 618,069
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 91.91
Mean single sequence MFE -31.12
Consensus MFE -25.25
Energy contribution -25.75
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.49
SVM RNA-class probability 0.758422
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 617966 103 - 23771897
CUGCACGUGUGGGUGAGUGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCAUAAUCACAGUUGUGGGCAAAAUAAUAGUAGUC
(..((..(((((....(((((.(((((((..((((.(((((.....))))).))))..))))))).).))))..)))))..))..)................. ( -31.80)
>DroSec_CAF1 29245 103 - 1
CUGCACGUGUAGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCAUAAUCACAGUUGUGGGCAAAAUAAUAGUAGUC
.(((((.....(((....))).(((((((..((((.(((((.....))))).))))..))))))).)))))...((((....))))................. ( -33.70)
>DroSim_CAF1 27659 103 - 1
CUGCACGUGUGGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCAUAAUCACAGUUGUGGGCAAAAUAAUAGUAGUC
.(((((.....(((....))).(((((((..((((.(((((.....))))).))))..))))))).)))))...((((....))))................. ( -33.50)
>DroEre_CAF1 31533 99 - 1
CUGCACGUGUGGGUG----AGCCAGUGUGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUGCAACGUACAUAAUCACAGUUGUGGCCAAAAUAAUAGUAGUC
.((((((.((.((..----..))..((((((((.(((.......))).))))))))))))))))..(..((((((....))))))..)............... ( -25.50)
>consensus
CUGCACGUGUGGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCAUAAUCACAGUUGUGGGCAAAAUAAUAGUAGUC
((((..((((((((....))).(((((((..((((.(((((.....))))).))))..)))))))..)))))..((((....))))...........)))).. (-25.25 = -25.75 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 617,998 – 618,092
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 87.88
Mean single sequence MFE -30.65
Consensus MFE -24.75
Energy contribution -25.62
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -2.05
Structure conservation index 0.81
SVM decision value 1.02
SVM RNA-class probability 0.901657
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 617998 94 - 23771897
UGUGGGUAUGUGUGGGUAG-CUAGCUGCACGUGUGGGUGAGUGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCA
.....((((.....((((.-.((.(..(....)..).))..)))).(((((((..((((.(((((.....))))).))))..))))))).)))). ( -30.10)
>DroSec_CAF1 29277 92 - 1
U---UGUAUGUGUGGGUAGGGUAGCUGCACGUGUAGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCA
.---...(((((..(.((...)).)..)))))((((((....))).(((((((..((((.(((((.....))))).))))..)))))))..))). ( -32.90)
>DroSim_CAF1 27691 92 - 1
U---UGUAUGUGUGGGUAGGGUAGCUGCACGUGUGGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCA
.---..((((((..(.((...)).)..))))))..(((....))).(((((((..((((.(((((.....))))).))))..)))))))...... ( -32.50)
>DroEre_CAF1 31565 87 - 1
U---UGUAUGUGUGGGU-GGGUAGCUGCACGUGUGGGUG----AGCCAGUGUGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUGCAACGUACA
.---(((((((...(((-.....)))(((((.((.((..----..))..((((((((.(((.......))).))))))))))))))).))))))) ( -27.10)
>consensus
U___UGUAUGUGUGGGUAGGGUAGCUGCACGUGUGGGUGAGAGCCAGUGUGCGAGUGUGUGUGAACUUCAUUCAUUCAUAACCGUACACAGUGCA
......((((((..(.(.....).)..))))))..(((....))).(((((((..((((.(((((.....))))).))))..)))))))...... (-24.75 = -25.62 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:45 2006