Locus 4002

Sequence ID 2R_DroMel_CAF1
Location 13,234,504 – 13,234,636
Length 132
Max. P 0.841524
window6459 window6460

overview

Window 9

Location 13,234,504 – 13,234,596
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -34.80
Consensus MFE -33.53
Energy contribution -33.53
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.96
SVM decision value 0.75
SVM RNA-class probability 0.841524
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13234504 92 - 20766785
CCAGGGGCCAAAGGCAAAGGCCCUAUCGCCUGAAAAGCCGAGGGAAGUGUUAACGCUGCGUAUGUGCGAUAUUUAAUUAUCGCGCGGGGGCG
((.((((((.........)))))).(((.((....)).)))))..((((....))))((.(.(((((((((......))))))))).).)). ( -36.10)
>DroSec_CAF1 14929 91 - 1
CCAGGGGCCAAAGGCAAAGGCCCUACCGCCUGAAAAGCCGAGGGAAGUGUUUACGCUGCGUAUGUGCGAUAUUUAAUUAUCGCGCGG-GGCG
...((((((.........))))))..(((((.......((.....((((....)))).))..(((((((((......))))))))))-)))) ( -33.80)
>DroSim_CAF1 16172 92 - 1
CCAGGGGCCAAAGGCAAAGGCCCUACCGCCUGAAAAGCCGAGGGAAGUGUUAACGCUGCGUAUGUGCGAUAUUUAAUUAUCGCGCGGGGGCG
((.((((((.........))))))..((.((....)).)).))..((((....))))((.(.(((((((((......))))))))).).)). ( -34.50)
>consensus
CCAGGGGCCAAAGGCAAAGGCCCUACCGCCUGAAAAGCCGAGGGAAGUGUUAACGCUGCGUAUGUGCGAUAUUUAAUUAUCGCGCGGGGGCG
((.((((((.........))))))..((.((....)).)).))..((((....))))((...(((((((((......)))))))))...)). (-33.53 = -33.53 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,234,544 – 13,234,636
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 98.55
Mean single sequence MFE -30.57
Consensus MFE -29.90
Energy contribution -29.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.98
SVM decision value 0.13
SVM RNA-class probability 0.598386
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13234544 92 + 20766785
UAACACUUCCCUCGGCUUUUCAGGCGAUAGGGCCUUUGCCUUUGGCCCCUGGUCGCAUUUCACGGCUUAAUGCCUCGAUUCGCUGCGGAAUG
.........((.((((...((..(((((.(((((.........)))))...))))).......(((.....)))..))...)))).)).... ( -31.90)
>DroSec_CAF1 14968 92 + 1
AAACACUUCCCUCGGCUUUUCAGGCGGUAGGGCCUUUGCCUUUGGCCCCUGGUCGCAUUUCACGGCUUAAUGCCUCGAUUCGCUGCGGAAUG
.........((.((((...(((((((...(((((.........)))))..(((((.......)))))...))))).))...)))).)).... ( -29.90)
>DroSim_CAF1 16212 92 + 1
UAACACUUCCCUCGGCUUUUCAGGCGGUAGGGCCUUUGCCUUUGGCCCCUGGUCGCAUUUCACGGCUUAAUGCCUCGAUUCGCUGCGGAAUG
.........((.((((...(((((((...(((((.........)))))..(((((.......)))))...))))).))...)))).)).... ( -29.90)
>consensus
UAACACUUCCCUCGGCUUUUCAGGCGGUAGGGCCUUUGCCUUUGGCCCCUGGUCGCAUUUCACGGCUUAAUGCCUCGAUUCGCUGCGGAAUG
.........((.((((...(((((((...(((((.........)))))..(((((.......)))))...))))).))...)))).)).... (-29.90 = -29.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:25 2006