Locus 3104

Sequence ID	3L_DroMel_CAF1
Location	8,993,736 – 8,993,884
Length	148
Max. P	0.692474

overview

Window 0

Location	8,993,736 – 8,993,844
Length	108
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	92.95
Mean single sequence MFE	-27.78
Consensus MFE	-19.88
Energy contribution	-20.48
Covariance contribution	0.60
Combinations/Pair	1.08
Mean z-score	-2.58
Structure conservation index	0.72
SVM decision value	0.33
SVM RNA-class probability	0.692474
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8993736 108 + 23771897
UUAUUACAUUUUACCCGGCGCACUACAGAGAAAAGAAUUUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUUACUCUUGGUGUGU---UUGGC
.............((..((((((((.((((.((((((((.((..(((((((....))))))..)..))))))))))(((....))).....))))))))))))---..)). ( -29.10)
>DroSec_CAF1 32962 107 + 1
UUAUUACAUUUUACCCGGCGCACUACAGAGAAAAGAAUUUAUUGAUGCUGUUUGAACAGCAAUUUGAUAGUU-UUUAUUGAAAAAUAUUGACUCUUGGUGUGU---UUGGC
.............((..((((((((.((((........((((..(((((((....))))))..)..))))((-..((((....))))..))))))))))))))---..)). ( -28.70)
>DroSim_CAF1 33532 108 + 1
UUAUUACAUUUUACCCGGCGCACUACAGAGAAAAGAAUUUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUGGUGUGU---UUGGC
.............((..((((((((.((((.((((((((.((..(((((((....))))))..)..))))))))))(((....))).....))))))))))))---..)). ( -29.10)
>DroEre_CAF1 33680 107 + 1
UUAUUACAUUUUACC-GGCGCACUACAGUGAAAAGAAUUCAUUGAUGCUGUUUGCUCAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUAAGUGUGU---UUGGC
.............((-((((((((.(((((((.....))))))).(((((......))))).......((((...((((....))))..))))...)))))).---)))). ( -26.50)
>DroYak_CAF1 34361 111 + 1
UUAUUACAUUUUACCCGCCGCACUACAGUGAAAAGAAUUUAUCGUUGCUGUUUGUUCAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUAGUUUGUGUGUUGGC
..............(((.(((((..((((((((((....(((((((((((......)))))))..)))).)))))))))).........(((.....))).))))).))). ( -25.50)
>consensus
UUAUUACAUUUUACCCGGCGCACUACAGAGAAAAGAAUUUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUGGUGUGU___UUGGC
.............((..((((((((.((((...............(((((......))))).((..((((....))))..)).........)))))))))))).....)). (-19.88 = -20.48 +   0.60)

alignment

secondary structure

dotplot

Window 1

Location	8,993,774 – 8,993,884
Length	110
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	92.00
Mean single sequence MFE	-24.04
Consensus MFE	-18.18
Energy contribution	-18.26
Covariance contribution	0.08
Combinations/Pair	1.13
Mean z-score	-1.57
Structure conservation index	0.76
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8993774 110 + 23771897
UUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUUACUCUUGGUGUGU---UUGGCAGCGUAUUGUAUAAGAUAUUGAUCUAAGUAUCAGUAAAAG
((((((((((((.(..((((.((..(..(.(((....((((....))))...))).)..))))))---)..)))))..........((((....))))....))))))))... ( -23.20)
>DroSec_CAF1 33000 109 + 1
UUAUUGAUGCUGUUUGAACAGCAAUUUGAUAGUU-UUUAUUGAAAAAUAUUGACUCUUGGUGUGU---UUGGCAGCGUAUUGUAUAAGAUAUUGAUCUAAGUAUCAGUAAAAG
((((((((((((.(..((((.((..(..(.((((-..((((....))))..)))).)..))))))---)..)))))..........((((....))))....))))))))... ( -26.40)
>DroSim_CAF1 33570 110 + 1
UUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUGGUGUGU---UUGGCAGCGUAUUGUAUAAGAUAUUGAUCUAAGUAUCAGUAAAAG
((((((((((((.(..((((.((..(..(.((((...((((....))))..)))).)..))))))---)..)))))..........((((....))))....))))))))... ( -24.90)
>DroEre_CAF1 33717 110 + 1
UCAUUGAUGCUGUUUGCUCAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUAAGUGUGU---UUGGCGGCCUAUUGUAUAAGAUAUUGAUCUAGGUAUGAGUAAAAA
..(((.(((((..(((((.(((((((((..((((...((((....))))..)))).))))).)))---).)))))...........((((....)))).))))).)))..... ( -18.90)
>DroYak_CAF1 34399 113 + 1
UUAUCGUUGCUGUUUGUUCAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUAGUUUGUGUGUUGGCAGCGCAUUGUAUAAGAUAUUGAUCUAAGUAUCAGUAAAAA
.(((((((((((......)))))))..))))(((...((((....))))..)))(((((....((((((.....))))))....)))))(((((((......))))))).... ( -26.80)
>consensus
UUAUUGAUGCUGUUUGAACAGCAAUUUGAUGGUUUUUUAUUGAAAAAUAUUGACUCUUGGUGUGU___UUGGCAGCGUAUUGUAUAAGAUAUUGAUCUAAGUAUCAGUAAAAG
.......(((((......))))).((..((((....))))..))...((((((..(((((.((((......((((....)))).....))))....)))))..)))))).... (-18.18 = -18.26 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:38 2006