Locus 1162

Sequence ID	2L_DroMel_CAF1
Location	3,182,571 – 3,182,694
Length	123
Max. P	0.946057

overview

Window 2

Location	3,182,571 – 3,182,663
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	88.59
Mean single sequence MFE	-21.19
Consensus MFE	-17.04
Energy contribution	-16.12
Covariance contribution	-0.92
Combinations/Pair	1.25
Mean z-score	-1.50
Structure conservation index	0.80
SVM decision value	0.20
SVM RNA-class probability	0.628706
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3182571 92 - 22407834
UUUUGUGGUAAGCCAAAUCUGGUUAUUCCGCGUGCUCUAAAUUGCUUGCAAGUUUAUAGUAUUAACGUCCCUCUAUGUUGGCAGAGCAGCUU
....((((..(((((....)))))...)))).((((((.....(((.(((((......((....))......)).))).))))))))).... ( -21.90)
>DroSec_CAF1 19377 92 - 1
UUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUGUUUGCAGAGCAGCUU
....((((..(((((....)))))...))))..........(((((((((((..(((((.............))))))))).)))))))... ( -19.02)
>DroSim_CAF1 18472 92 - 1
UUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUGUUUGCAGAGCAGCUU
....((((..(((((....)))))...))))..........(((((((((((..(((((.............))))))))).)))))))... ( -19.02)
>DroEre_CAF1 19050 86 - 1
UUUUGUGGUAAACCAAAUUUGGUUAUUCCGCAUACUUUAAAUGGUUUUCAAGUUUAAAGUUU-AAC----CGCUAUGU-UGCCGAGCGGCUU
...(((((..(((((....)))))...))))).(((((((((.........)))))))))..-..(----((((.((.-...)))))))... ( -21.70)
>DroYak_CAF1 18550 92 - 1
UUUUGUGGUAAACCAAAUUUGGUUAUGCCGCGUGCUCGAAAUUGCUUUCAAGUUUAAAGUAUUAACGUUUCACUAUGUUUGCAGAGCAGCUU
....(((((((((((....))))).)))))).(((((((((....)))).........(((..(((((......)))))))).))))).... ( -24.30)
>consensus
UUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUGUUUGCAGAGCAGCUU
...(((((..(((((....)))))...)))))(((((.....(((...((((......((....))......)).))...)))))))).... (-17.04 = -16.12 +  -0.92)

alignment

secondary structure

dotplot

Window 3

Location	3,182,586 – 3,182,694
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	88.43
Mean single sequence MFE	-26.92
Consensus MFE	-22.12
Energy contribution	-22.48
Covariance contribution	0.36
Combinations/Pair	1.14
Mean z-score	-1.99
Structure conservation index	0.82
SVM decision value	1.36
SVM RNA-class probability	0.946057
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3182586 108 - 22407834
GACUAUAAACAUAUAGGGCUAGAACCGCAAUUUUUGUGGUAAGCCAAAUCUGGUUAUUCCGCGUGCUCUAAAUUGCUUGCAAGUUUAUAGUAUUAACGUCCCUCUAUG
.(((((((((......((((...((((((.....)))))).))))......((.....))(((.((........)).)))..)))))))))................. ( -28.50)
>DroSec_CAF1 19392 108 - 1
GACUAUGAACAUAUAGGGCUAGAACCGCAAUUUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUG
.(((((((((.....((.......))(((((((.(((((..(((((....)))))...)))))......)))))))......)))))))))................. ( -26.80)
>DroSim_CAF1 18487 108 - 1
GACUAUGAACAUAUAGGGCUAGAACCGCAAUUUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUG
.(((((((((.....((.......))(((((((.(((((..(((((....)))))...)))))......)))))))......)))))))))................. ( -26.80)
>DroEre_CAF1 19064 103 - 1
GACUGUGAACAUAUUGAAGUGGAACCGCAAUUUUUGUGGUAAACCAAAUUUGGUUAUUCCGCAUACUUUAAAUGGUUUUCAAGUUUAAAGUUU-AAC----CGCUAUG
((((.(((((...((((((((((((((((.....)))))).(((((....)))))..)))))..(((......))).)))))))))).)))).-...----....... ( -24.70)
>DroYak_CAF1 18565 108 - 1
GACUGUGAACAUAUAGAACUGGAACCGCAAUUUUUGUGGUAAACCAAAUUUGGUUAUGCCGCGUGCUCGAAAUUGCUUUCAAGUUUAAAGUAUUAACGUUUCACUAUG
....((((((.....(((((.(((..((((((((((((((((((((....))))).))))))).....)))))))).))).)))))...((....))).))))).... ( -27.80)
>consensus
GACUAUGAACAUAUAGGGCUAGAACCGCAAUUUUUGUGGUAAACCAAAUCUGGUUAUUCCGCGUGCUCCAAAUUGCUUUCAAGUUUAUAGUAUUAACGUCCCUCUAUG
.(((((((((.....((.......))(((((((.(((((..(((((....)))))...)))))......)))))))......)))))))))................. (-22.12 = -22.48 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:09 2006