Locus 1954

Sequence ID	2R_DroMel_CAF1
Location	7,379,334 – 7,379,425
Length	91
Max. P	0.999508

overview

Window 0

Location	7,379,334 – 7,379,425
Length	91
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	91.04
Mean single sequence MFE	-24.96
Consensus MFE	-20.84
Energy contribution	-21.52
Covariance contribution	0.68
Combinations/Pair	1.08
Mean z-score	-1.58
Structure conservation index	0.83
SVM decision value	0.75
SVM RNA-class probability	0.840640
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7379334 91 + 20766785
GUUUUCGAUGCCCAGUGUGGACAUAGAUUCCGUUUCCGAUUCGGGUUCGUAUCCGAAAUUCGGCUGAUGAAAACGAAACUGAAAACUGC--AC
((((((((((.((.....)).)))......((((.(((((((((((....)))))))..))))..))))..........)))))))...--.. ( -23.40)
>DroSec_CAF1 2107 91 + 1
GUUUUCGAUGCCCAGUGUGGACAUGGAUUCCGUAUCCGAUUCGGAUUCGUAUCCGAAAUUCGGCUGAUGAAAACGAAACUGAAAACUGC--AC
(((((((..(((.(((.((((.((((...)))).)))).(((((((....)))))))))).)))...)))))))...............--.. ( -26.20)
>DroSim_CAF1 2431 91 + 1
GUUUUCGAUGCCCAGUGUGGACAUGGAUUCCGUAUCCGAUUCAGAUUCGUAUCCGAAAUUCGGCUGAAGAAAACGAAACUAAAAACUGC--AC
((((((...(((.(((.((((.((((...)))).)))).(((.(((....))).)))))).)))....))))))...............--.. ( -20.10)
>DroEre_CAF1 2009 88 + 1
GUUUUCGAUGCCA---GUGGACAUGGAUUCCGUUUCCGAUUCGGAUUCGAAUCCAAAAUUCGGCUGAUGGAAACGAAACCGAAAACUGC--AC
(((((((....((---((.((..(((((((.(..((((...))))..))))))))....)).)))).((....))....)))))))...--.. ( -29.80)
>DroYak_CAF1 2134 90 + 1
GUUUUCGAUGCCA---GUGGACAUGGAUUCCGUUUCCGAUUCGGAUUCGAAUCCAAAAUUCGGCUGAUGAAAACGAAACUGAAAACUGAAAAC
(((((((....((---((.((..(((((((.(..((((...))))..))))))))....)).)))).)))))))................... ( -25.30)
>consensus
GUUUUCGAUGCCCAGUGUGGACAUGGAUUCCGUUUCCGAUUCGGAUUCGUAUCCGAAAUUCGGCUGAUGAAAACGAAACUGAAAACUGC__AC
(((((((..(((.....((((.((((...)))).)))).(((((((....)))))))....)))...)))))))................... (-20.84 = -21.52 +   0.68)

alignment

secondary structure

dotplot

Window 1

Location	7,379,334 – 7,379,425
Length	91
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	91.04
Mean single sequence MFE	-26.84
Consensus MFE	-24.54
Energy contribution	-24.82
Covariance contribution	0.28
Combinations/Pair	1.12
Mean z-score	-2.37
Structure conservation index	0.91
SVM decision value	3.67
SVM RNA-class probability	0.999508
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7379334 91 - 20766785
GU--GCAGUUUUCAGUUUCGUUUUCAUCAGCCGAAUUUCGGAUACGAACCCGAAUCGGAAACGGAAUCUAUGUCCACACUGGGCAUCGAAAAC
..--...((((((.(((((((((((.((....))..(((((........)))))..)))))))))))..((((((.....)))))).)))))) ( -27.10)
>DroSec_CAF1 2107 91 - 1
GU--GCAGUUUUCAGUUUCGUUUUCAUCAGCCGAAUUUCGGAUACGAAUCCGAAUCGGAUACGGAAUCCAUGUCCACACUGGGCAUCGAAAAC
..--...((((((......(..(((.....((((..(((((((....))))))))))).....)))..)((((((.....)))))).)))))) ( -28.40)
>DroSim_CAF1 2431 91 - 1
GU--GCAGUUUUUAGUUUCGUUUUCUUCAGCCGAAUUUCGGAUACGAAUCUGAAUCGGAUACGGAAUCCAUGUCCACACUGGGCAUCGAAAAC
..--...((((((......(..((((....((((..(((((((....)))))))))))....))))..)((((((.....)))))).)))))) ( -24.10)
>DroEre_CAF1 2009 88 - 1
GU--GCAGUUUUCGGUUUCGUUUCCAUCAGCCGAAUUUUGGAUUCGAAUCCGAAUCGGAAACGGAAUCCAUGUCCAC---UGGCAUCGAAAAC
..--...((((((((((((((((((.((....))......((((((....)))))))))))))))))).(((((...---.))))).)))))) ( -30.10)
>DroYak_CAF1 2134 90 - 1
GUUUUCAGUUUUCAGUUUCGUUUUCAUCAGCCGAAUUUUGGAUUCGAAUCCGAAUCGGAAACGGAAUCCAUGUCCAC---UGGCAUCGAAAAC
.......((((((.(((((((((((.((....))......((((((....)))))))))))))))))..(((((...---.))))).)))))) ( -24.50)
>consensus
GU__GCAGUUUUCAGUUUCGUUUUCAUCAGCCGAAUUUCGGAUACGAAUCCGAAUCGGAAACGGAAUCCAUGUCCACACUGGGCAUCGAAAAC
.......((((((.(((((((((((.((....))..(((((((....)))))))..)))))))))))..((((((.....)))))).)))))) (-24.54 = -24.82 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:14 2006