Locus 2000

Sequence ID 2L_DroMel_CAF1
Location 5,422,565 – 5,422,673
Length 108
Max. P 0.598951
window3222

overview

Window 2

Location 5,422,565 – 5,422,673
Length 108
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 81.07
Mean single sequence MFE -20.85
Consensus MFE -15.93
Energy contribution -16.10
Covariance contribution 0.17
Combinations/Pair 1.12
Mean z-score -1.26
Structure conservation index 0.76
SVM decision value 0.13
SVM RNA-class probability 0.598951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5422565 108 - 22407834
CAAGUGGCUAAAAGUGUCAAUUCGUGAAAAU-UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGUCGACAACAACAGCAGCAGCAGCACCAGCACAAAAGCC
...((((((.....((((.....((((....-.))))...........(((((.(((.......))).))))))))).....))).((....)).....)))....... ( -22.90)
>DroSec_CAF1 42375 99 - 1
CAAGUGGCUAAAAGUGUCAAUUCGUGAAAAU-UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGGCGACAACAACGGCAGCAGCA---------CAAAAGCC
.....((((....((((((((((.(((....-((((((............))))))...)))))))))(((.((.......)).).)).)))---------)...)))) ( -22.40)
>DroEre_CAF1 40820 96 - 1
CAAGUGGCUAAAAGUGUCAAUUCGUGAAAAU-UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGGCGACAACAA---------CAG---CAGCACAAAAGCC
.....((((.....(((((((((.(((....-((((((............))))))...))))))))))))((..(.....---------..)---..)).....)))) ( -21.80)
>DroWil_CAF1 61532 95 - 1
CAAGUGGCUAGAAGUGUCAAUUCGUGAAAGUUUUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAACGGAAUCGAUAGAAACG-CAACA-------------AAGAACA
...((.((......((((.....(((((....)))))..(((((..(((((.......))).))...))))).)))).....)-).)).-------------....... ( -13.70)
>DroYak_CAF1 48596 105 - 1
CAAGUGGCUAGGAGUGUCAAUUCGUGAAAAU-UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGGCGACAACAACAGCAACAACAG---CAGCACAAAAGCC
.....((((.(..((((((((((.(((....-((((((............))))))...))))))))))).))..).......((.......)---)........)))) ( -23.40)
>DroAna_CAF1 45103 94 - 1
CAAGUGGCGGCUAGUGUCAAUUCGUGAAAAU-UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGGCGACAAUAACAAUUG--------------GGAUUGCU
.....((((((((((((((((((.(((....-((((((............))))))...)))))))))))(....).......))))--------------)..))))) ( -20.90)
>consensus
CAAGUGGCUAAAAGUGUCAAUUCGUGAAAAU_UUCACAAAUUCCAAUCGAUGUGAAUAAUCAGAAUUGGCGGCGACAACAACAGCAGCA_CA_________CAAAAGCC
.....((((......(((((((((((((....)))))..((((((.....)).)))).....))))))))(....).............................)))) (-15.93 = -16.10 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:50 2006