Locus 3245

Sequence ID	3L_DroMel_CAF1
Location	9,494,571 – 9,494,676
Length	105
Max. P	0.976084

overview

Window 8

Location	9,494,571 – 9,494,676
Length	105
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	77.50
Mean single sequence MFE	-28.67
Consensus MFE	-15.18
Energy contribution	-14.15
Covariance contribution	-1.03
Combinations/Pair	1.21
Mean z-score	-1.78
Structure conservation index	0.53
SVM decision value	0.13
SVM RNA-class probability	0.598118
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9494571 105 + 23771897
CGUC--UUCGUGUAUCGCAUUGCAGG---CAGCAAUUUAAUUUGAAAUUUAAUGCCAACUUUGAAAGGCGUCGCGUGCCAGGAAUACACACGAC--CAACACGACACGAAGA
..((--(((((((...((......((---((..(((((......)))))...))))..((.....))))((((.(((.........))).))))--.......))))))))) ( -28.10)
>DroVir_CAF1 10611 102 + 1
UGUG-UUGCAAGUAUCGCAUUGCAGACGGCAGCAAUUUCAUUUGAAAUUUAAUGCCAAGUUUGAAAGACGCCGCGUGACUCGCAUACACAUGAGAGCGAG-------AGU--
((((-((((.(((..(((...((....((((..((((((....))))))...))))..(((.....))))).)))..))).))).))))).....((...-------.))-- ( -28.40)
>DroGri_CAF1 9127 101 + 1
UGUG--UGUUAGUAUCGCAUUGCAGACAGCAGCAAUUUCAUUUGAAAUUUAAUGCCGAGUUUGAAAGGCGCCGCGUGACUGGCAUACACAUGA--GCAAA-------UGCUG
((((--(((((((..(((..(((.....)))((((((((....))))))....(((..........))))).)))..)))))))))))....(--((...-------.))). ( -30.80)
>DroSec_CAF1 11789 107 + 1
CGUCUCUUCGUGUAUCGCAUUGCAGG---CAGCAAUUUAAUUUGAAAUUUAAUGCCAACUUUGAAAGGCGUCGCGUGUCAGGAAUACACACGAC--CAACACGACACGAAGA
....(((((((((...((......((---((..(((((......)))))...))))..((.....))))((((.((((.......)))).))))--.......))))))))) ( -29.60)
>DroSim_CAF1 12157 105 + 1
CGUC--UUCGUGUAUCGCAUUGCAGG---CAGCAAUUUAAUUUGAAAUUUAAUGCCAACUUUGAAAGGCGUCGCGUGUCAGGAAUACACACGAC--CAACACGACACGAAGA
..((--(((((((...((......((---((..(((((......)))))...))))..((.....))))((((.((((.......)))).))))--.......))))))))) ( -29.70)
>DroAna_CAF1 8802 100 + 1
CAUG--UGCGUGUAUCGCAUUGCAGA---UAGCAAUUUAAUUUGAAAUUUAAUACCAAGUUUGAAAGGCGUCGCGUGCCAUGCAUACAUAUGA-------AGGCCAAGAAAA
((((--((..(((((.((((.((.((---(.((..(((((((((...........)))).)))))..))))))))))).)))))..)))))).-------............ ( -25.40)
>consensus
CGUC__UGCGUGUAUCGCAUUGCAGA___CAGCAAUUUAAUUUGAAAUUUAAUGCCAACUUUGAAAGGCGUCGCGUGACAGGAAUACACACGAC__CAACACGACACGAAGA
.((...(((.((...((((((((........)))))................((((..........))))..)))...)).)))...))....................... (-15.18 = -14.15 +  -1.03)

alignment

secondary structure

dotplot

Window 9

Location	9,494,571 – 9,494,676
Length	105
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	77.50
Mean single sequence MFE	-31.47
Consensus MFE	-15.78
Energy contribution	-14.23
Covariance contribution	-1.55
Combinations/Pair	1.32
Mean z-score	-2.75
Structure conservation index	0.50
SVM decision value	1.76
SVM RNA-class probability	0.976084
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9494571 105 - 23771897
UCUUCGUGUCGUGUUG--GUCGUGUGUAUUCCUGGCACGCGACGCCUUUCAAAGUUGGCAUUAAAUUUCAAAUUAAAUUGCUG---CCUGCAAUGCGAUACACGAA--GACG
((((((((((((((((--(((((((((.......))))))))).............((((...(((((......)))))..))---))..))))))))..))))))--)).. ( -39.40)
>DroVir_CAF1 10611 102 - 1
--ACU-------CUCGCUCUCAUGUGUAUGCGAGUCACGCGGCGUCUUUCAAACUUGGCAUUAAAUUUCAAAUGAAAUUGCUGCCGUCUGCAAUGCGAUACUUGCAA-CACA
--...-------..........(((((.(((((((..(((.((((.......))..((((...((((((....))))))..))))....))...)))..))))))))-)))) ( -28.60)
>DroGri_CAF1 9127 101 - 1
CAGCA-------UUUGC--UCAUGUGUAUGCCAGUCACGCGGCGCCUUUCAAACUCGGCAUUAAAUUUCAAAUGAAAUUGCUGCUGUCUGCAAUGCGAUACUAACA--CACA
..(((-------(.(((--......)))(((.((.((.((((((((..........)))....((((((....))))))))))))).)))))))))..........--.... ( -25.70)
>DroSec_CAF1 11789 107 - 1
UCUUCGUGUCGUGUUG--GUCGUGUGUAUUCCUGACACGCGACGCCUUUCAAAGUUGGCAUUAAAUUUCAAAUUAAAUUGCUG---CCUGCAAUGCGAUACACGAAGAGACG
((((((((((((((((--(((((((((.......))))))))).............((((...(((((......)))))..))---))..))))))))..)))))))).... ( -39.40)
>DroSim_CAF1 12157 105 - 1
UCUUCGUGUCGUGUUG--GUCGUGUGUAUUCCUGACACGCGACGCCUUUCAAAGUUGGCAUUAAAUUUCAAAUUAAAUUGCUG---CCUGCAAUGCGAUACACGAA--GACG
((((((((((((((((--(((((((((.......))))))))).............((((...(((((......)))))..))---))..))))))))..))))))--)).. ( -39.10)
>DroAna_CAF1 8802 100 - 1
UUUUCUUGGCCU-------UCAUAUGUAUGCAUGGCACGCGACGCCUUUCAAACUUGGUAUUAAAUUUCAAAUUAAAUUGCUA---UCUGCAAUGCGAUACACGCA--CAUG
........(((.-------.(((....)))...)))..(((..(((..........)))............(((..(((((..---...)))))..)))...))).--.... ( -16.60)
>consensus
UCUUCGUGUCGUGUUG__GUCAUGUGUAUGCCUGACACGCGACGCCUUUCAAACUUGGCAUUAAAUUUCAAAUUAAAUUGCUG___CCUGCAAUGCGAUACACGAA__CACG
......................(((...(((.((...(((...(((..........))).................(((((........))))))))...)).)))...))) (-15.78 = -14.23 +  -1.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:55 2006