Locus 459

Sequence ID	2L_DroMel_CAF1
Location	1,348,368 – 1,348,459
Length	91
Max. P	0.941775

overview

Window 9

Location	1,348,368 – 1,348,459
Length	91
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	78.65
Mean single sequence MFE	-23.47
Consensus MFE	-14.38
Energy contribution	-14.88
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.50
Structure conservation index	0.61
SVM decision value	0.15
SVM RNA-class probability	0.605347
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1348368 91 + 22407834
UGUGUCCCAUGUCCUGGC------------CGCAUGUUCU----CGUGUCCGUGUCAGGCGUCACUUUAUGCCCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
.(((............((------------((((((..(.----...)..)))((((((.((........)).)))))).)))))............)))....... ( -22.45)
>DroPse_CAF1 148717 87 + 1
UGUGUC-CGUGUC-------------------CGUGUCGGAGUCCGUGUCCGUGUCAGACGUCACUUUAUGCGCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
(((.((-((....-------------------.....)))).....((.(((((((((.(((........))).)))))).)))))))).................. ( -20.30)
>DroSec_CAF1 104898 91 + 1
UGUGUCCCAUGUCCUGGC------------CUCAUGUUCU----CGUGUCCGUGUCAGGCGUCACUUUAUGCCCCUGACAGGGGCAACAAUUUUAUUUACUUAAUUU
.(((....(((.((((((------------(.((((....----))))...).))))))))))))....((((((.....))))))..................... ( -25.70)
>DroWil_CAF1 148091 81 + 1
CGUGUC-CAUGUC-------------------------CAUGUCCAUGUCCGUGUCAGGCGUCACUUUAUGCGCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
((((..-(((...-------------------------.)))..)))).(((((((((((((........)))))))))).)))....................... ( -26.80)
>DroAna_CAF1 129882 106 + 1
-AUGUCCCAUGUCCUGCCUGGAAGUUUGUGCUCGUGUUCGUGUCCAUGUCCGUGUCAGGCGUCACUUUAUGCCCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
-........(((..((((.(((....((..(.((....)).)..))..))).(((((((.((........)).)))))))..))))))).................. ( -25.30)
>DroPer_CAF1 157491 81 + 1
UGUGUC--------------------------CGUGUCGGAGUCCGUGUCCGUGUCAGACGUCACUUUAUGCGCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
(((..(--------------------------((((((((.((.((((...(((.(....).)))..)))).)))))))).)))..))).................. ( -20.30)
>consensus
UGUGUC_CAUGUC___________________CGUGUUCG_GUCCGUGUCCGUGUCAGGCGUCACUUUAUGCCCCUGACAGCGGCAACAAUUUUAUUUACUUAAUUU
..............................................((.((((((((((.((........)).))))))).)))))..................... (-14.38 = -14.88 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	1,348,368 – 1,348,459
Length	91
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	78.65
Mean single sequence MFE	-25.07
Consensus MFE	-16.24
Energy contribution	-16.18
Covariance contribution	-0.05
Combinations/Pair	1.06
Mean z-score	-2.21
Structure conservation index	0.65
SVM decision value	1.32
SVM RNA-class probability	0.941775
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1348368 91 - 22407834
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGGGCAUAAAGUGACGCCUGACACGGACACG----AGAACAUGCG------------GCCAGGACAUGGGACACA
..................((((((((((((((((.((((...))).).)))))))((....))----.......)))------------))...))))......... ( -25.00)
>DroPse_CAF1 148717 87 - 1
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGCGCAUAAAGUGACGUCUGACACGGACACGGACUCCGACACG-------------------GACACG-GACACA
..................((((.(((.((((((((((((...))).))))))))))))...((...((((...))-------------------))..))-)))).. ( -26.10)
>DroSec_CAF1 104898 91 - 1
AAAUUAAGUAAAUAAAAUUGUUGCCCCUGUCAGGGGCAUAAAGUGACGCCUGACACGGACACG----AGAACAUGAG------------GCCAGGACAUGGGACACA
.......((........((((.(.((.(((((((.((((...))).).))))))).)).))))----).........------------.(((.....))).))... ( -20.90)
>DroWil_CAF1 148091 81 - 1
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGCGCAUAAAGUGACGCCUGACACGGACAUGGACAUG-------------------------GACAUG-GACACG
..................((((.(((.((((((((((((...))).)))))))))))).((((......-------------------------..))))-)))).. ( -28.00)
>DroAna_CAF1 129882 106 - 1
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGGGCAUAAAGUGACGCCUGACACGGACAUGGACACGAACACGAGCACAAACUUCCAGGCAGGACAUGGGACAU-
..................((((.(((.(((((((.((((...))).).)))))))))).((((..(.((....)).((............)).)..)))).)))).- ( -26.60)
>DroPer_CAF1 157491 81 - 1
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGCGCAUAAAGUGACGUCUGACACGGACACGGACUCCGACACG--------------------------GACACA
.................((((..(((.((((((((((((...))).))))))))))))..))))..((((...))--------------------------)).... ( -23.80)
>consensus
AAAUUAAGUAAAUAAAAUUGUUGCCGCUGUCAGGCGCAUAAAGUGACGCCUGACACGGACACGGAC_CGAACACG___________________GACAUG_GACACA
.....................(((((.(((((((.((((...))).).)))))))))).)).............................................. (-16.24 = -16.18 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:42 2006