Locus 2454

Sequence ID	3L_DroMel_CAF1
Location	6,935,558 – 6,935,672
Length	114
Max. P	0.965815

overview

Window 2

Location	6,935,558 – 6,935,672
Length	114
Sequences	3
Columns	114
Reading direction	forward
Mean pairwise identity	84.19
Mean single sequence MFE	-20.87
Consensus MFE	-17.90
Energy contribution	-17.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.86
SVM decision value	0.61
SVM RNA-class probability	0.797481
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6935558 114 + 23771897
AUUUGUGGUUAUUUUAUGGCUAUUUAACUAACAAAUCUAUGCUUUAAUAGGCAGUUAUUUUUAAGCUAUGACAUGAUAUUAGCCAUAAUUCAAGCUUGUGAAGCUUUAUGAUCA
.....(((((((.(((((((((.................(((((....)))))(((((.........))))).......)))))))))...(((((.....))))).))))))) ( -23.80)
>DroSec_CAF1 5155 97 + 1
----------AUUUUAUGGCUAUUUAACUA----UGCUAUGCUUUAAUAGGCAGUUAUUUUUAAGCUAUGACAUGAUAUUAGCCAUAAUUCAAGCUUAUGAAGCUUUAGGA---
----------...(((((((((......((----((.(((((((.(((((....)))))...)))).))).))))....)))))))))...(((((.....))))).....--- ( -20.50)
>DroSim_CAF1 5793 96 + 1
----------AUUUUAUGGCUAUUUAACUAACAAAUCUAUGCUUUAAUAGGCAGUUAUUUUUAAGCUAU-----GAUAUUAGCCAUAAUUCAAGCUUAUGAAGCUUUAUGA---
----------...(((((((((.................(((((....)))))(((((.........))-----)))..)))))))))...(((((.....))))).....--- ( -18.30)
>consensus
__________AUUUUAUGGCUAUUUAACUAACAAAUCUAUGCUUUAAUAGGCAGUUAUUUUUAAGCUAUGACAUGAUAUUAGCCAUAAUUCAAGCUUAUGAAGCUUUAUGA___
.............(((((((((..................((((....))))((((.......))))............)))))))))...(((((.....)))))........ (-17.90 = -17.90 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	6,935,558 – 6,935,672
Length	114
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	84.19
Mean single sequence MFE	-19.87
Consensus MFE	-16.07
Energy contribution	-16.07
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.78
Structure conservation index	0.81
SVM decision value	1.59
SVM RNA-class probability	0.965815
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6935558 114 - 23771897
UGAUCAUAAAGCUUCACAAGCUUGAAUUAUGGCUAAUAUCAUGUCAUAGCUUAAAAAUAACUGCCUAUUAAAGCAUAGAUUUGUUAGUUAAAUAGCCAUAAAAUAACCACAAAU
........(((((.....)))))...(((((((((...........(((((...((((...(((........)))...))))...)))))..)))))))))............. ( -19.02)
>DroSec_CAF1 5155 97 - 1
---UCCUAAAGCUUCAUAAGCUUGAAUUAUGGCUAAUAUCAUGUCAUAGCUUAAAAAUAACUGCCUAUUAAAGCAUAGCA----UAGUUAAAUAGCCAUAAAAU----------
---.....(((((.....)))))...(((((((((..((.(((..((.((((...((((......)))).))))))..))----).))....)))))))))...---------- ( -20.10)
>DroSim_CAF1 5793 96 - 1
---UCAUAAAGCUUCAUAAGCUUGAAUUAUGGCUAAUAUC-----AUAGCUUAAAAAUAACUGCCUAUUAAAGCAUAGAUUUGUUAGUUAAAUAGCCAUAAAAU----------
---.....(((((.....)))))...(((((((((.....-----.(((((...((((...(((........)))...))))...)))))..)))))))))...---------- ( -20.50)
>consensus
___UCAUAAAGCUUCAUAAGCUUGAAUUAUGGCUAAUAUCAUGUCAUAGCUUAAAAAUAACUGCCUAUUAAAGCAUAGAUUUGUUAGUUAAAUAGCCAUAAAAU__________
........(((((.....)))))...(((((((((...........(((((..........(((........)))..........)))))..)))))))))............. (-16.07 = -16.07 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:40 2006