Locus 3057

Sequence ID	2L_DroMel_CAF1
Location	8,746,810 – 8,746,956
Length	146
Max. P	0.999698

overview

Window 4

Location	8,746,810 – 8,746,916
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	85.01
Mean single sequence MFE	-18.88
Consensus MFE	-18.57
Energy contribution	-18.02
Covariance contribution	-0.55
Combinations/Pair	1.19
Mean z-score	-1.14
Structure conservation index	0.98
SVM decision value	0.15
SVM RNA-class probability	0.606946
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8746810 106 - 22407834
GGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCCCCGCCCCGUACUCCU--------------
(((((((........)))))))..............(((((((((........((((((.............))))))))))))).))..................-------------- ( -19.22)
>DroSec_CAF1 50990 106 - 1
GGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCCCCGCACCGCACUCUC--------------
(((((((........)))))))..(((((((.....((((((((..........)).))))))..)))))))..((...(((...........)))..))......-------------- ( -19.50)
>DroSim_CAF1 54118 106 - 1
GGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCCCCGCCCCGCACUCUC--------------
(((((((........)))))))..............(((((((((........((((((.............))))))))))))).))..................-------------- ( -19.22)
>DroEre_CAF1 54926 108 - 1
GGCUGUAUCCCCGUUUAUGGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCC-CGCCCAGCACUCCU-----------CCC
.((((.......((..(((.((..(((((((.....((((((((..........)).))))))..))))))).)))))..)).((......-))..))))......-----------... ( -18.60)
>DroYak_CAF1 53384 99 - 1
GGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGGCACUC-CC---------CCG-----------UCC
(((((((........)))))))..(((((((.....((((((((..........)).))))))..)))))))..((....))((((.....-..---------)))-----------).. ( -20.90)
>DroAna_CAF1 50523 114 - 1
GGCUAUGUCUACGUUUAUAGCUUCGAA-AAUCCCCCAGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCUCCAC-----ACUCUCUGCCCUCCACUCGC
(((((((........))))))).....-.........((((((((........((((((.............))))))))))))).)........-----.................... ( -15.82)
>consensus
GGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUUGCACGUCACCCCCGCCCCGCACUCCC______________
(((((((........)))))))...............((((((((........((((((.............))))))))))))).)................................. (-18.57 = -18.02 +  -0.55)

alignment

secondary structure

dotplot

Window 5

Location	8,746,836 – 8,746,956
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.72
Mean single sequence MFE	-25.83
Consensus MFE	-25.04
Energy contribution	-24.98
Covariance contribution	-0.05
Combinations/Pair	1.12
Mean z-score	-2.12
Structure conservation index	0.97
SVM decision value	3.91
SVM RNA-class probability	0.999698
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8746836 120 - 22407834
UCUGUCAUAUUAUUUCGGCAAUGAUGCUGACAACAACAACGGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......((((((....))))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... ( -27.20)
>DroSec_CAF1 51016 120 - 1
UCUGUCAUAUUAUUUCGGCAAUGAUGCUGACAACAACAACGGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......((((((....))))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... ( -27.20)
>DroSim_CAF1 54144 120 - 1
UCUGUCAUAUUAUUUCGGCAAUGAUGCUGACAACAACAACGGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......((((((....))))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... ( -27.20)
>DroEre_CAF1 54954 120 - 1
UCUGUCAUAUUAUUUCGGCAAUGAUGCUGACAACAACAACGGCUGUAUCCCCGUUUAUGGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......((((((....))))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... ( -25.90)
>DroYak_CAF1 53403 120 - 1
UCUGUCAUAUUAUUUCGGCUAUGAUGCUGACAACAACAACGGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......(((((......)))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... ( -27.00)
>DroAna_CAF1 50558 119 - 1
UCUGUCAUAUUAUUUCGGCAAUGAUGCUAACAACAACAAGGGCUAUGUCUACGUUUAUAGCUUCGAA-AAUCCCCCAGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..((((..........))))..(((((((..........((((((((........)))))))).(((-((.......(((((((..........)).))))).....)))))))))))). ( -20.50)
>consensus
UCUGUCAUAUUAUUUCGGCAAUGAUGCUGACAACAACAACGGCUGUAUCCUCGUUUAUAGCCUCGAAAAAUCCCCCUGUGUGCAAUAUUUAUCAUGUCACAUAAUAUUUUUCUGGCAUUU
..(((((.......(((((......)))))..........(((((((........)))))))..(((((((.....((((((((..........)).))))))..))))))))))))... (-25.04 = -24.98 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:17 2006