Locus 3563

Sequence ID	3L_DroMel_CAF1
Location	10,427,268 – 10,427,361
Length	93
Max. P	0.997197

overview

Window 6

Location	10,427,268 – 10,427,361
Length	93
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	87.91
Mean single sequence MFE	-30.47
Consensus MFE	-26.70
Energy contribution	-27.20
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.79
Structure conservation index	0.88
SVM decision value	2.03
SVM RNA-class probability	0.986052
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10427268 93 + 23771897
------------------------CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAAUAAAUUGGGAUU---
------------------------..((((((((.(((((((((((...((((.(((.......))).))))...)))))).)))).).))))))))....................--- ( -29.00)
>DroSec_CAF1 298274 93 + 1
------------------------CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAAUAAAUUGGGAUU---
------------------------..((((((((.(((((((((((...((((.(((.......))).))))...)))))).)))).).))))))))....................--- ( -29.00)
>DroSim_CAF1 313950 93 + 1
------------------------CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAAUAAAUUUGGAUU---
------------------------..((((((((.(((((((((((...((((.(((.......))).))))...)))))).)))).).)))))))).(((((......)))))...--- ( -30.00)
>DroEre_CAF1 309644 93 + 1
------------------------CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAGUAAAUUGGGAUU---
------------------------..((((((((.(((((((((((...((((.(((.......))).))))...)))))).)))).).))))))))....................--- ( -29.00)
>DroYak_CAF1 311637 93 + 1
------------------------CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAAUAAAUUGGGAUU---
------------------------..((((((((.(((((((((((...((((.(((.......))).))))...)))))).)))).).))))))))....................--- ( -29.00)
>DroAna_CAF1 303962 120 + 1
AGUUGCUGGUUGCCAGUUGGCGCUUGGCAGUUUAUCGCUGCCAGAGAUGGGCACUGGAAAAUUGCCAAUGACAAAUUCUGGCUUGCAGCUAAAUGGUAUAAGAAAUAAAUUGAGAAUAAG
((((((.....((((((((.((.((((((((((.(((.((((.......)))).))).)))))))))))).)))...)))))..)))))).............................. ( -36.80)
>consensus
________________________CGGCAGUUUAUCGCUGCCAGAGAUGGUCACUGGAAAAUUGCCAAUGACAAAUUCUGGCCGGCAGCUAAAUUGUAUCAGAAAUAAAUUGGGAUU___
..........................((((((((.(((((((((((...((((.(((.......))).))))...))))))).))).).))))))))....................... (-26.70 = -27.20 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	10,427,268 – 10,427,361
Length	93
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	87.91
Mean single sequence MFE	-26.53
Consensus MFE	-24.16
Energy contribution	-24.35
Covariance contribution	0.19
Combinations/Pair	1.05
Mean z-score	-2.98
Structure conservation index	0.91
SVM decision value	2.82
SVM RNA-class probability	0.997197
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10427268 93 - 23771897
---AAUCCCAAUUUAUUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG------------------------
---.....((.((((((..(((......)))((((((((..(((....((((((((.......))))))))..))))))))))))))))).))...------------------------ ( -26.20)
>DroSec_CAF1 298274 93 - 1
---AAUCCCAAUUUAUUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG------------------------
---.....((.((((((..(((......)))((((((((..(((....((((((((.......))))))))..))))))))))))))))).))...------------------------ ( -26.20)
>DroSim_CAF1 313950 93 - 1
---AAUCCAAAUUUAUUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG------------------------
---............................((((((((..(((....((((((((.......))))))))..)))))))))))............------------------------ ( -25.90)
>DroEre_CAF1 309644 93 - 1
---AAUCCCAAUUUACUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG------------------------
---............................((((((((..(((....((((((((.......))))))))..)))))))))))............------------------------ ( -25.90)
>DroYak_CAF1 311637 93 - 1
---AAUCCCAAUUUAUUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG------------------------
---.....((.((((((..(((......)))((((((((..(((....((((((((.......))))))))..))))))))))))))))).))...------------------------ ( -26.20)
>DroAna_CAF1 303962 120 - 1
CUUAUUCUCAAUUUAUUUCUUAUACCAUUUAGCUGCAAGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGCCCAUCUCUGGCAGCGAUAAACUGCCAAGCGCCAACUGGCAACCAGCAACU
...............................((((...(((((...(((.(.((((((.(((..(..((((.......))))..)..))).))))))..).))))))))...)))).... ( -28.80)
>consensus
___AAUCCCAAUUUAUUUCUGAUACAAUUUAGCUGCCGGCCAGAAUUUGUCAUUGGCAAUUUUCCAGUGACCAUCUCUGGCAGCGAUAAACUGCCG________________________
...............................((((((((..(((....((((((((.......))))))))..))))))))))).................................... (-24.16 = -24.35 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:04 2006