Locus 3849

Sequence ID	2R_DroMel_CAF1
Location	12,716,712 – 12,716,802
Length	90
Max. P	0.918730

overview

Window 9

Location	12,716,712 – 12,716,802
Length	90
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	93.92
Mean single sequence MFE	-22.38
Consensus MFE	-21.60
Energy contribution	-21.70
Covariance contribution	0.10
Combinations/Pair	1.14
Mean z-score	-0.76
Structure conservation index	0.97
SVM decision value	0.01
SVM RNA-class probability	0.536592
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12716712 90 + 20766785
CAUAGAAAUUAAGCCAAGUGUUGUCUGCUUCCGC---UGGUGGGAUGGCCAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.(((((.---...)))))))).))))))))..))...))))))........((((.......)))) ( -22.10)
>DroSec_CAF1 63035 90 + 1
CAUAGAAAUUAAGCCAAGUGUUGUCUGCUUCCGC---UGGUGGGAUGGCCAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.(((((.---...)))))))).))))))))..))...))))))........((((.......)))) ( -22.10)
>DroSim_CAF1 69049 90 + 1
CAUAGAAAUUAAGCCAAGUGUUGUCUGCUUCCGC---UGGUGGGAUGGCCAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.(((((.---...)))))))).))))))))..))...))))))........((((.......)))) ( -22.10)
>DroEre_CAF1 63823 90 + 1
CAUAGGAAUUAAGCCAAGUGUUGUCUACUUCCGC---UGGUGGGAUGGCCAGCACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.(((((.---...)))))))).))))))))..))...))))))........((((.......)))) ( -22.60)
>DroYak_CAF1 66546 93 + 1
CAUAGAAAUUAAGCCAAGUGUUGUCUGCUUCCGCUGCUGGUGGGAUGGCCAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.((((((.....))))))))).))))))))..))...))))))........((((.......)))) ( -24.90)
>DroAna_CAF1 60175 85 + 1
CAAAGGAAUUAAGCCAAGUGUUGUCUGUUUCCG--------GGGCAGGCUAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
...(((((...((..((((((((((((((....--------.))))))).)))))))..))...))))).........((((.......)))) ( -20.50)
>consensus
CAUAGAAAUUAAGCCAAGUGUUGUCUGCUUCCGC___UGGUGGGAUGGCCAACACUUAACUCAUUUUCUACAUGUGCCGCAUACUAAGAGUGC
..((((((...((..((((((((.(((.((((((.....))))))))).))))))))..))...))))))........((((.......)))) (-21.60 = -21.70 +   0.10)

alignment

secondary structure

dotplot

Window 0

Location	12,716,712 – 12,716,802
Length	90
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	93.92
Mean single sequence MFE	-25.92
Consensus MFE	-22.68
Energy contribution	-23.68
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.88
SVM decision value	1.12
SVM RNA-class probability	0.918730
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12716712 90 - 20766785
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUGGCCAUCCCACCA---GCGGAAGCAGACAACACUUGGCUUAAUUUCUAUG
(((.........))).......(((((((.(((((((((((((((........)).---((....))....))))))))))))).))))))). ( -28.70)
>DroSec_CAF1 63035 90 - 1
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUGGCCAUCCCACCA---GCGGAAGCAGACAACACUUGGCUUAAUUUCUAUG
(((.........))).......(((((((.(((((((((((((((........)).---((....))....))))))))))))).))))))). ( -28.70)
>DroSim_CAF1 69049 90 - 1
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUGGCCAUCCCACCA---GCGGAAGCAGACAACACUUGGCUUAAUUUCUAUG
(((.........))).......(((((((.(((((((((((((((........)).---((....))....))))))))))))).))))))). ( -28.70)
>DroEre_CAF1 63823 90 - 1
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGCUGGCCAUCCCACCA---GCGGAAGUAGACAACACUUGGCUUAAUUCCUAUG
(((.........))).......((((.((.(((((((((((((((........)))---))....((.....)))))))))))).)).)))). ( -20.80)
>DroYak_CAF1 66546 93 - 1
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUGGCCAUCCCACCAGCAGCGGAAGCAGACAACACUUGGCUUAAUUUCUAUG
(((.........))).......(((((((.((((((((((((((((..........)).((....))...)))))))))))))).))))))). ( -31.20)
>DroAna_CAF1 60175 85 - 1
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUAGCCUGCCC--------CGGAAACAGACAACACUUGGCUUAAUUCCUUUG
....(((...((((.....)))).)))...(((((((((((((.(.(((...--------......))).))))))))))))))......... ( -17.40)
>consensus
GCACUCUUAGUAUGCGGCACAUGUAGAAAAUGAGUUAAGUGUUGGCCAUCCCACCA___GCGGAAGCAGACAACACUUGGCUUAAUUUCUAUG
(((.........))).......(((((((.((((((((((((((....(((..........)))......)))))))))))))).))))))). (-22.68 = -23.68 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:33 2006