Locus 6609

Sequence ID 3L_DroMel_CAF1
Location 17,562,989 – 17,563,088
Length 99
Max. P 0.774496
window10757

overview

Window 7

Location 17,562,989 – 17,563,088
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.68
Mean single sequence MFE -49.83
Consensus MFE -27.63
Energy contribution -27.67
Covariance contribution 0.04
Combinations/Pair 1.32
Mean z-score -1.98
Structure conservation index 0.55
SVM decision value 0.54
SVM RNA-class probability 0.774496
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17562989 99 + 23771897
GAGGGCGG---------CAGCUGCUGCUGCAAUCGCCGA------------GGCUGCCGAGCUGGAAGAGCCGAAGGCCAGUAGCGCCUGCUGACCACCGGCAUCGCCGGAAUCGGCCAG
((..((((---------(((...)))))))..))(((((------------..(((.((((((((....(((...)))((((((...))))))....))))).))).)))..)))))... ( -47.10)
>DroSim_CAF1 1695 99 + 1
GAGGGCAG---------CAGCUGCGGCUGCAAUCGCCGA------------GGCCGCCGAGCUGGAGGAGCCGAAGGCCAGUAGCGCCUGCUGACCACCGGCAUCGCCGGAAUCGGCCAG
((..((((---------(.......)))))..))(((((------------..(((.((((((((.((.(((...)))((((((...)))))).)).))))).))).)))..)))))... ( -49.90)
>DroEre_CAF1 7354 99 + 1
GAGAGCAG---------CAGCUGCGGCUGCAAUGGCCGA------------GGCCGCCGAGCUGGAGGAGCCGAAGGCCAGGAGCGCCUGCUGACCAGCGGCAUCGCCGGCAUCGGCCAG
.......(---------((((....)))))...(((...------------.)))((((((((((.(..((((..((.(((.((...)).))).))..))))..).))))).)))))... ( -49.70)
>DroWil_CAF1 2451 114 + 1
AAGAGCAGCCGCCGCUGCAGCUGCUGCUGCAAUGGCCGCCGAUGCGGCAUUUGCCGCCGAAUUGG---AACCGAAGGCCAAUAAGGCU---UGACCAUUGCCAUCGGUGGCAUCGGCAAG
..........((((.((((((....)))))).)))).(((((((((((....)))(((((..(((---......(((((.....))))---)........)))))))).))))))))... ( -54.74)
>DroYak_CAF1 7769 99 + 1
GAGAGCAG---------CGGCUGCGGCUGCAAUGGCCGA------------GGCCGCCGAGCUGGAGGAGCCGAAGGUCAGGAGCGCCUGCUGAGCAGCGGCAUCGCCGGAAUCGGCCAG
..(.((.(---------(((((.(((((.....))))).------------))))))(((.((((.(..((((..(.((((.((...)).)))).)..))))..).))))..)))))).. ( -47.70)
>consensus
GAGAGCAG_________CAGCUGCGGCUGCAAUGGCCGA____________GGCCGCCGAGCUGGAGGAGCCGAAGGCCAGUAGCGCCUGCUGACCACCGGCAUCGCCGGAAUCGGCCAG
.................(((((.((((.((......................)).))))))))).....(((((((((.......))))........(((((...)))))..)))))... (-27.63 = -27.67 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:35 2006