Locus 3062

Sequence ID	3L_DroMel_CAF1
Location	8,847,957 – 8,848,118
Length	161
Max. P	0.995330

overview

Window 6

Location	8,847,957 – 8,848,059
Length	102
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	73.73
Mean single sequence MFE	-18.03
Consensus MFE	-14.82
Energy contribution	-15.60
Covariance contribution	0.78
Combinations/Pair	1.06
Mean z-score	-1.69
Structure conservation index	0.82
SVM decision value	2.53
SVM RNA-class probability	0.995027
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8847957 102 - 23771897
UUGCCACUU------CCCCUCCACAGCUAUUUUAACACUCCCCCCCACUCCUUCCGACGGGGCAUUUCCCGGUGGCAUAUGCAACUUGUAUGCGUUUUCAAUUUGCAC
.((((((..------.................................((.....))(((((....)))))))))))..(((((.(((..........))).))))). ( -19.80)
>DroSec_CAF1 108078 95 - 1
UUCCCACAU------CCCCCCCAUUGCUAUUUUG------CCCCCCUCUCC-CCCGCCGGGGCAUUUCCCGGUGGCAUAUGCAACUUGUAUGCGUUUUCAAUUUGCAC
.........------.........(((....(((------...........-..((((((((....))))))))((((((.......)))))).....)))...))). ( -22.30)
>DroYak_CAF1 111176 96 - 1
UCCCCAAUUACCACACUCCCCCAU------U-UAGCAAG-CCCCC---CUC-CCCGCAGAGACAUUUCCCAGUGGCAUAUGCAACUUGUAUGCGUUUUCAAUUUGCAC
........................------.-..(((((-.....---(((-......))).(((......)))((((((.......))))))........))))).. ( -12.00)
>consensus
UUCCCACUU______CCCCCCCAU_GCUAUUUUA_CA___CCCCCC_CUCC_CCCGCCGGGGCAUUUCCCGGUGGCAUAUGCAACUUGUAUGCGUUUUCAAUUUGCAC
.....................................................(((((((((....)))))))))....(((((.(((..........))).))))). (-14.82 = -15.60 +   0.78)

alignment

secondary structure

dotplot

Window 7

Location	8,848,025 – 8,848,118
Length	93
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	72.64
Mean single sequence MFE	-17.84
Consensus MFE	-11.22
Energy contribution	-11.82
Covariance contribution	0.60
Combinations/Pair	1.10
Mean z-score	-2.30
Structure conservation index	0.63
SVM decision value	2.56
SVM RNA-class probability	0.995330
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8848025 93 - 23771897
UAUGGGAGUGGAUUUUGCAUACCUUGACAUAUUUCGAGUGUCCUUACUCCGCCACAUCCUUGCCACUU------CCCCUCCACAGCUAUUUUAACACUC
..((((((.(((....(((......((......))(((((....)))))...........)))....)------)).)))).))............... ( -17.30)
>DroSec_CAF1 108145 87 - 1
UAUGGGAGUGGAUUUUGCAUACCUUGACAUAUUUCGAGUGUCCUUACUCCACCACAUCCUUCCCACAU------CCCCCCCAUUGCUAUUUUG------
...((((((((....((((.....)).))......(((((....))))).............)))).)------)))................------ ( -16.40)
>DroEre_CAF1 112124 77 - 1
CAUGGGAGUGGAUUGUGCAUACCUUGACAUAUUUCGAGUGUCCUUACUCCACCACAUCCAUCCC------CUCUCCCCACCAU----------------
...(((..(((((.(((((.....)).........(((((....)))))...))))))))..))------)............---------------- ( -19.20)
>DroYak_CAF1 111240 91 - 1
UAUGGGAGUGGAUUUUGCAUACCUUGACAUAUUUCGAGUGUCCUUACUCCACCACAGCCUCCCCAAUUACCACACUCCCCCAU------U-UAGCAAG-
...(((((((((...((((.....)).))....))(((((....))))).......................)))))))....------.-.......- ( -18.40)
>DroAna_CAF1 108671 73 - 1
UUUGGGAGUGGAUUUUGCAUACCUUGACAUAUUUUGAGUGUCCUUACACCGCCACU----CCCCACUA------CUCUGGCUU----------------
...((((((((....((((.....)).))......(.((((....))))).)))))----))).....------.........---------------- ( -17.90)
>consensus
UAUGGGAGUGGAUUUUGCAUACCUUGACAUAUUUCGAGUGUCCUUACUCCACCACAUCCUUCCCACUU______CCCCCCCAU______U_U_______
..((((((((((.(..(.((((.((((......)))))))).)..).)))))........))))).................................. (-11.22 = -11.82 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:36 2006