Locus 4923

Sequence ID	2L_DroMel_CAF1
Location	14,079,672 – 14,079,772
Length	100
Max. P	0.709317

overview

Window 1

Location	14,079,672 – 14,079,772
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	89.60
Mean single sequence MFE	-25.56
Consensus MFE	-22.46
Energy contribution	-22.10
Covariance contribution	-0.36
Combinations/Pair	1.24
Mean z-score	-1.37
Structure conservation index	0.88
SVM decision value	0.37
SVM RNA-class probability	0.709317
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14079672 100 + 22407834
AACUAUUUAGUUUGGCUGCGGCUUCAGUUUCCUUGGCUACAGUUGGCCAAUAAUUUUAGGAGAUCGAUAUUGAGACAAAAGGGUAAUAGUUAGUCAAGAA
(((((((...((((.((.(((..((.(((((((((((((....))))))........))))))).))..))))).)))).....)))))))......... ( -23.70)
>DroSec_CAF1 168296 100 + 1
AACUAUUUAGUUUGGCUGCGGCUUUAGUUUCCUUGGCUACAGUUGGCCAAUAAUUUUGGGAGAUCGAUACCGUGACAAAAGGGUAAUAGUUAGUCAAGAA
(((((((...((((..(((((..(..(((((((((((((....))))))........)))))))..)..))))).)))).....)))))))......... ( -27.80)
>DroSim_CAF1 169167 100 + 1
AACUAUUUAGUUUGGCUGCGGCUUUAGUUUCCUUGGCUACAGUUGGCCAAUAAUUUAAGGAGAUCGAUACCGUGACAAAAGGGUAAUAGUUAGUCAAGAA
(((((((...((((..(((((..(..(((((((((((((....))))))........)))))))..)..))))).)))).....)))))))......... ( -27.80)
>DroEre_CAF1 171039 99 + 1
AACUAUUUAGUUUGGCUGCGGCUUAAGUUUCCUUAGCCACAGUUGGCCAAUAAAUUUAGGAGAUCGGUACCGUGACAAAG-GGUAAUAGUUAGCCAAGUA
.(((.....(.(..((((.((((.(((....))))))).))))..).)..........((....(..((((.(.....).-))))...)....)).))). ( -23.70)
>DroYak_CAF1 178888 100 + 1
AACUAUUUUGCUUUGCGGUGGCUUAAGUUUCCUUGGCCACAGUUGGCCAAUAAUUUUAGAAAAUCGAUACCAUGACAAAGGGGUAAUAGUUAGCCGAGUA
(((((((((.(((((..((((((.(((((...(((((((....))))))).))))).))..........))))..))))).)).)))))))......... ( -24.80)
>consensus
AACUAUUUAGUUUGGCUGCGGCUUAAGUUUCCUUGGCUACAGUUGGCCAAUAAUUUUAGGAGAUCGAUACCGUGACAAAAGGGUAAUAGUUAGUCAAGAA
(((((((...((((...((((..(..(((((((((((((....))))))........)))))))..)..))))..)))).....)))))))......... (-22.46 = -22.10 +  -0.36)

alignment

secondary structure

dotplot

Window 2

Location	14,079,672 – 14,079,772
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	89.60
Mean single sequence MFE	-20.89
Consensus MFE	-15.54
Energy contribution	-15.42
Covariance contribution	-0.12
Combinations/Pair	1.14
Mean z-score	-1.83
Structure conservation index	0.74
SVM decision value	0.36
SVM RNA-class probability	0.702710
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14079672 100 - 22407834
UUCUUGACUAACUAUUACCCUUUUGUCUCAAUAUCGAUCUCCUAAAAUUAUUGGCCAACUGUAGCCAAGGAAACUGAAGCCGCAGCCAAACUAAAUAGUU
.........(((((((........(((........)))............(((((....((..((..((....))...))..)))))))....))))))) ( -17.10)
>DroSec_CAF1 168296 100 - 1
UUCUUGACUAACUAUUACCCUUUUGUCACGGUAUCGAUCUCCCAAAAUUAUUGGCCAACUGUAGCCAAGGAAACUAAAGCCGCAGCCAAACUAAAUAGUU
.........(((((((....(((.((..((((...................((((........))))((....))...))))..)).)))...))))))) ( -17.10)
>DroSim_CAF1 169167 100 - 1
UUCUUGACUAACUAUUACCCUUUUGUCACGGUAUCGAUCUCCUUAAAUUAUUGGCCAACUGUAGCCAAGGAAACUAAAGCCGCAGCCAAACUAAAUAGUU
.........(((((((....(((.((..((((...................((((........))))((....))...))))..)).)))...))))))) ( -17.10)
>DroEre_CAF1 171039 99 - 1
UACUUGGCUAACUAUUACC-CUUUGUCACGGUACCGAUCUCCUAAAUUUAUUGGCCAACUGUGGCUAAGGAAACUUAAGCCGCAGCCAAACUAAAUAGUU
...((((((((........-....(((........)))............))))))))(((((((((((....))).))))))))............... ( -26.75)
>DroYak_CAF1 178888 100 - 1
UACUCGGCUAACUAUUACCCCUUUGUCAUGGUAUCGAUUUUCUAAAAUUAUUGGCCAACUGUGGCCAAGGAAACUUAAGCCACCGCAAAGCAAAAUAGUU
.........(((((((....((((((..((((....................(((((....)))))(((....)))..))))..))))))...))))))) ( -26.40)
>consensus
UUCUUGACUAACUAUUACCCUUUUGUCACGGUAUCGAUCUCCUAAAAUUAUUGGCCAACUGUAGCCAAGGAAACUAAAGCCGCAGCCAAACUAAAUAGUU
.........(((((((....(((.((..((((..................(((((........)))))(....)....))))..)).)))...))))))) (-15.54 = -15.42 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:08 2006