Locus 1329

Sequence ID 2L_DroMel_CAF1
Location 3,518,778 – 3,518,877
Length 99
Max. P 0.689157
window2171

overview

Window 1

Location 3,518,778 – 3,518,877
Length 99
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 77.04
Mean single sequence MFE -33.16
Consensus MFE -14.19
Energy contribution -15.42
Covariance contribution 1.23
Combinations/Pair 1.19
Mean z-score -2.20
Structure conservation index 0.43
SVM decision value 0.32
SVM RNA-class probability 0.689157
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3518778 99 + 22407834
AUACCGGCUGC---U---UCUUGCA---GCUCAUUAUAGCGCAGGCGAUCUCUUCGAUCAUCUUCUUGUCCUCAGGACAAGCGCCCUUCAUCUUCUGCAUGGCCUUUU
...((((((((---.---....)))---))).........(((((.((((.....)))).....(((((((...)))))))............)))))..))...... ( -28.90)
>DroVir_CAF1 29780 105 + 1
AGAUUUGCUUUGGCUUGGACUUGGA---GGCCAUAAUGGCGCAGGCGAUUUCCUGCAUCAUUUUCAUGUCCUCCGGGCAGGCGCCCUUCAUUUUCUGCAUGGCCUUGU
......((...((((.(((...(((---((.(((((((..(((((......)))))..))))...))).)))))((((....)))).......)))....))))..)) ( -35.70)
>DroPse_CAF1 38910 99 + 1
AUACGGGCUUG---U---UUUUGCA---GGCCAUGAUCGCAGCUGCAAUCUCUUGCAUCAUCCGCUUGUCUUCCGGACAGGCGCCCUUCAUCUUCUGCAUGGCCUUCU
....(((((..---.---...((((---((..((((..((.(.(((((....))))).)....(((((((.....)))))))))...))))..)))))).)))))... ( -33.90)
>DroGri_CAF1 45820 105 + 1
AAACGUGCUUCGGCUUGGACUUGGA---GGCCAUGAUGGCGCAGGCGAUGUUUUGCAUCAUUUUCAAGUCCUCGGGGCAGGCGCCCUUCAUCUUUUGCAUGGCCUUGC
...(((((........(((((((((---((((.((......)))))((((.....))))..))))))))))..(((((....))))).........)))))....... ( -37.00)
>DroMoj_CAF1 29997 105 + 1
AGACCUGCUUCGGCUUGGACUUGGA---GGCCAUUAUGGCGCAGGCGAUUUCCUGCAUCAUUUUCAUGUCCUCCGGACAGGCGCCCUUCAUCUUCUGCAUGGCCUUGC
.(.((((.(((((...((((.((((---((((.....)))(((((......))))).....))))).)))).))))))))))(((...((.....))...)))..... ( -37.30)
>DroAna_CAF1 23556 102 + 1
AAGUCGGCUUC---U---UUUUGGAUGCACCCAUAAUGGCGCAAGCGAUCUCCUCAAUCAUUUUCUUGUCCUCCGGACAGGCGCCCUUCAUCUUCUUCAUGGCCGUUU
....(((((..---.---....(((((.......((.(((((....(((.......)))......((((((...))))))))))).))))))).......)))))... ( -26.15)
>consensus
AAACCGGCUUC___U___ACUUGGA___GGCCAUAAUGGCGCAGGCGAUCUCCUGCAUCAUUUUCAUGUCCUCCGGACAGGCGCCCUUCAUCUUCUGCAUGGCCUUGU
............................((((((((.(((((....(((.......))).......(((((...))))).))))).))..........)))))).... (-14.19 = -15.42 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:46 2006