Locus 1827

Sequence ID 3R_DroMel_CAF1
Location 5,226,200 – 5,226,293
Length 93
Max. P 0.971487
window3005 window3006

overview

Window 5

Location 5,226,200 – 5,226,293
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 96.42
Mean single sequence MFE -37.87
Consensus MFE -35.70
Energy contribution -36.03
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.94
SVM decision value 0.67
SVM RNA-class probability 0.817195
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5226200 93 + 27905053
CUUGCCAGCGGCUCCCUUGGCGCCAGCACCACCCUUGGUGACCUUGCCGGCACCGGCCUUGGUUCCCUUGGCUCCAGCAGCGGGCUUCUUCUU
...(((.((.(((.....((.((((((((((....)))))(((..((((....))))...)))....))))).))))).)).)))........ ( -35.60)
>DroEre_CAF1 37 93 + 1
CUUGCCAGCGGCUCCCUUGGCGCCAGCACCACCCUUGGUGACCUUGCCGGCACCGGCCUUGGUACCCUUGGCACCAGCGGCGGGCUUCUUCUU
......((.(((((((((((.((((((((((....)))))(((..((((....))))...)))....))))).)))).)).))))).)).... ( -38.90)
>DroYak_CAF1 38 93 + 1
CUUGCCAGCGGCUCCCUUGGCGCCAGGACCACCCUUGGUGACCUUGCCGGCACCGGCCUUGGUACCCUUGGCACCAGCGGCAGGCUUCUUCUU
((((((.((((...)).(((.((((((..((((...))))(((..((((....))))...)))...)))))).)))))))))))......... ( -39.10)
>consensus
CUUGCCAGCGGCUCCCUUGGCGCCAGCACCACCCUUGGUGACCUUGCCGGCACCGGCCUUGGUACCCUUGGCACCAGCGGCGGGCUUCUUCUU
...(((.((.(((.....((.((((((((((....)))))(((..((((....))))...)))....))))).))))).)).)))........ (-35.70 = -36.03 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,226,200 – 5,226,293
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 96.42
Mean single sequence MFE -45.00
Consensus MFE -41.41
Energy contribution -41.97
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -3.10
Structure conservation index 0.92
SVM decision value 1.68
SVM RNA-class probability 0.971487
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5226200 93 - 27905053
AAGAAGAAGCCCGCUGCUGGAGCCAAGGGAACCAAGGCCGGUGCCGGCAAGGUCACCAAGGGUGGUGCUGGCGCCAAGGGAGCCGCUGGCAAG
........(((.((.(((.(.(((..((...))..))))((((((((((...(((((...))))))))))))))).....))).)).)))... ( -41.00)
>DroEre_CAF1 37 93 - 1
AAGAAGAAGCCCGCCGCUGGUGCCAAGGGUACCAAGGCCGGUGCCGGCAAGGUCACCAAGGGUGGUGCUGGCGCCAAGGGAGCCGCUGGCAAG
.........((((((..(((((((...))))))).))).((((((((((...(((((...)))))))))))))))..))).(((...)))... ( -47.30)
>DroYak_CAF1 38 93 - 1
AAGAAGAAGCCUGCCGCUGGUGCCAAGGGUACCAAGGCCGGUGCCGGCAAGGUCACCAAGGGUGGUCCUGGCGCCAAGGGAGCCGCUGGCAAG
........(((.(((..(((((((...))))))).))).)))((((((.((((((((...))))).)))(((.((...)).)))))))))... ( -46.70)
>consensus
AAGAAGAAGCCCGCCGCUGGUGCCAAGGGUACCAAGGCCGGUGCCGGCAAGGUCACCAAGGGUGGUGCUGGCGCCAAGGGAGCCGCUGGCAAG
.........((((((..(((((((...))))))).))).((((((((((...(((((...)))))))))))))))..))).(((...)))... (-41.41 = -41.97 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:28 2006