Locus 6170

Sequence ID 3L_DroMel_CAF1
Location 16,353,519 – 16,353,620
Length 101
Max. P 0.999952
window9905 window9906

overview

Window 5

Location 16,353,519 – 16,353,620
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 68.15
Mean single sequence MFE -26.24
Consensus MFE -14.66
Energy contribution -17.60
Covariance contribution 2.94
Combinations/Pair 1.20
Mean z-score -3.39
Structure conservation index 0.56
SVM decision value 4.81
SVM RNA-class probability 0.999952
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16353519 101 + 23771897
CAGCUAGCUCCACCACACCAGCUAGCUCCACCACACCAGCUAGCUCCACCACAGCAGCGAGCUCCGCCACAGCAGCUAGCUCCGCCACAGCAGCUAGCUCC
.((((((((..........((((((((..........((((.(((.(......).))).))))..((....))))))))))..((....)))))))))).. ( -31.90)
>DroSec_CAF1 36179 101 + 1
CAGCUAGCUCCUCCUCAGCAACGAGCUCCUCCACAACAGCUAGCUCCUCCACAACAGCGAGCUCCACCACAGCAGCUAGCUCCACCACAACAGCGAGCUCC
..(((((......)).)))...((((((((.......((((((((.((.......((....)).......)).))))))))..........)).)))))). ( -23.57)
>DroSim_CAF1 39765 101 + 1
CAGCUAGCUCCUCCACAACAGCUAGCUUCUCCACAACAGCGAGCUCCACCACAGCAGCUAGCUCCACCGCAGCAGCGAGCUUCCCCACAGCAGCUAGCUCC
.((((((((.((.......((((.(((.((.......(((.((((.(......).)))).))).......)).))).)))).......)).)))))))).. ( -28.88)
>DroEre_CAF1 36208 77 + 1
CAUCUAGCUCCACCGCAGCAGCUAGGUACACCUAGA---UCAGUUCCACAACACCAGUUAGGUAUACCGAG---AUCA------------------GCUGC
......((......)).((((((.((((.((((((.---...(((....))).....)))))).))))(..---..))------------------))))) ( -20.60)
>consensus
CAGCUAGCUCCACCACAGCAGCUAGCUCCACCACAACAGCUAGCUCCACCACAGCAGCGAGCUCCACCACAGCAGCUAGCUCC_CCACAGCAGCUAGCUCC
.((((((((..........((((((((..........))))))))..........))))))))..........((((((((.(......).)))))))).. (-14.66 = -17.60 +   2.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,353,519 – 16,353,620
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 68.15
Mean single sequence MFE -38.45
Consensus MFE -20.81
Energy contribution -22.88
Covariance contribution 2.06
Combinations/Pair 1.32
Mean z-score -2.64
Structure conservation index 0.54
SVM decision value 3.45
SVM RNA-class probability 0.999238
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16353519 101 - 23771897
GGAGCUAGCUGCUGUGGCGGAGCUAGCUGCUGUGGCGGAGCUCGCUGCUGUGGUGGAGCUAGCUGGUGUGGUGGAGCUAGCUGGUGUGGUGGAGCUAGCUG
..((((((((.(..(.(((.((((((((.(..(.(((.((((.(((.(......).))).))))..))).)..)))))))))..))).)..))))))))). ( -47.80)
>DroSec_CAF1 36179 101 - 1
GGAGCUCGCUGUUGUGGUGGAGCUAGCUGCUGUGGUGGAGCUCGCUGUUGUGGAGGAGCUAGCUGUUGUGGAGGAGCUCGUUGCUGAGGAGGAGCUAGCUG
.((((((((..(.(..((.......))..).)..)).)))))).............((((((((.((.(..((.((....)).))..).)).)))))))). ( -35.00)
>DroSim_CAF1 39765 101 - 1
GGAGCUAGCUGCUGUGGGGAAGCUCGCUGCUGCGGUGGAGCUAGCUGCUGUGGUGGAGCUCGCUGUUGUGGAGAAGCUAGCUGUUGUGGAGGAGCUAGCUG
..((((((((.(((((((....)))))..(..((..(.((((((((.(((..(..(......)..)..)))...)))))))).)))..))).)))))))). ( -44.50)
>DroEre_CAF1 36208 77 - 1
GCAGC------------------UGAU---CUCGGUAUACCUAACUGGUGUUGUGGAACUGA---UCUAGGUGUACCUAGCUGCUGCGGUGGAGCUAGAUG
(((((------------------((..---...(((((((((((..(((........)))..---).))))))))))))))))).((......))...... ( -26.50)
>consensus
GGAGCUAGCUGCUGUGG_GGAGCUAGCUGCUGCGGUGGAGCUAGCUGCUGUGGUGGAGCUAGCUGUUGUGGAGGAGCUAGCUGCUGUGGAGGAGCUAGCUG
..((((((((.(......).))))))))(((.((.((.(((.....))).)).)).)))...............((((((((.(......).)))))))). (-20.81 = -22.88 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:48 2006