Locus 7478

Sequence ID 3L_DroMel_CAF1
Location 20,039,114 – 20,039,301
Length 187
Max. P 0.924113
window12159 window12160

overview

Window 9

Location 20,039,114 – 20,039,233
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 81.67
Mean single sequence MFE -36.35
Consensus MFE -24.47
Energy contribution -27.80
Covariance contribution 3.33
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.67
SVM decision value 1.16
SVM RNA-class probability 0.924113
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20039114 119 - 23771897
CUCUUUCUGUCAAACUCGCUCGCUCUCUCUCUCUCUUCCAGGAUGUCUGUCUGGCUUGGGAGAGCGGUGAGAGUUUCGCGGUUAUU-UCUGUUCAGAGGCGAAUGAACAGGAUAACAAUU
................(((..((((((.(.(.((((((((((..(.....)...)))))))))).)).))))))...)))((((((-.(((((((........))))))))))))).... ( -41.90)
>DroSec_CAF1 6193 103 - 1
CUCUUUCUGUCAAACUC----UCUCUCUCGCUCUCUUCCAGGAUGUCUGUCUGGCUUGGGAGAGCGGUGAGAGUUUCGCGGUUAUUUUCUGUUCAGA------UGUUCAG-------AUU
......((((.((((((----((...(.((((((((((((((.......)))))...)))))))))).)))))))).))))......((((..(...------.)..)))-------).. ( -36.90)
>DroSim_CAF1 7159 114 - 1
CUCUUUCUGUCAAACUCUUUCUCUCUCUCGCUCUCUUCCAGGAUGUCUGUCUGGCUC------UCGGUGAGAGUUUCGCGGUUAUUUUCUGUUCAGAGGCGGAUGAACAGGAUAGCAAUG
......(((((.((((........((((((((.....(((((.......)))))...------..))))))))......)))).....(((((((........))))))))))))..... ( -30.24)
>consensus
CUCUUUCUGUCAAACUC__UCUCUCUCUCGCUCUCUUCCAGGAUGUCUGUCUGGCUUGGGAGAGCGGUGAGAGUUUCGCGGUUAUUUUCUGUUCAGAGGCG_AUGAACAGGAUA_CAAUU
............((((......((((((((((((((((((((.......)))))...)))))))))).)))))......)))).....(((((((........))))))).......... (-24.47 = -27.80 +   3.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,039,193 – 20,039,301
Length 108
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 91.44
Mean single sequence MFE -20.63
Consensus MFE -18.22
Energy contribution -18.56
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.40
Structure conservation index 0.88
SVM decision value 0.98
SVM RNA-class probability 0.894090
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20039193 108 - 23771897
ACGUCAGUGUGACGUCAUGGUCGUGACGUUCGCACUCAAACUCUUUACCACCGAGGUUUU-UUACAUUCCUCUUUCUGUCAAACUCGCUCGCUCUCUCUCUCUCUUCCA
.....(((((((((((((....)))))).)))))))...............(((((..((-(.(((..........))).)))..).)))).................. ( -21.60)
>DroSec_CAF1 6260 105 - 1
ACGUCAGUGUGACGUCAUGGUCGUGACGUUCGCACUCAAACUCUUUACCAUCGACGUUCUUCUCGAUUCCUCUUUCUGUCAAACUC----UCUCUCUCGCUCUCUUCCA
((((((((((((((((((....)))))).)))))))................))))).......(((..........)))......----................... ( -20.19)
>DroSim_CAF1 7233 109 - 1
ACGUCAGUGUGACGUCAUGGUCGUGACGUUCGCACUCAAACUCUUUACCAUCGACGUUCUUUUCCAUUCCUCUUUCUGUCAAACUCUUUCUCUCUCUCGCUCUCUUCCA
((((((((((((((((((....)))))).)))))))................))))).................................................... ( -20.09)
>consensus
ACGUCAGUGUGACGUCAUGGUCGUGACGUUCGCACUCAAACUCUUUACCAUCGACGUUCUUUUCCAUUCCUCUUUCUGUCAAACUC__UCUCUCUCUCGCUCUCUUCCA
((((((((((((((((((....)))))).)))))))................))))).................................................... (-18.22 = -18.56 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:14 2006