Locus 3652

Sequence ID 3R_DroMel_CAF1
Location 9,865,263 – 9,865,381
Length 118
Max. P 0.531380
window5869

overview

Window 9

Location 9,865,263 – 9,865,381
Length 118
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.30
Mean single sequence MFE -28.67
Consensus MFE -18.60
Energy contribution -19.43
Covariance contribution 0.83
Combinations/Pair 1.12
Mean z-score -1.23
Structure conservation index 0.65
SVM decision value -0.00
SVM RNA-class probability 0.531380
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9865263 118 + 27905053
UU-UGUAAGUAUCUUCCCUUUCAUCGAGUGUACUUUCUAGUUCUGGGCAUUGGCCAGUUUGGAACGCAUCGAACGGAAGCCGCUGCUCAUUCAUUUAAAACUUGUCUGCAAGUUGCCAA
..-((..(((..(((((......((((((((....(((((..((((.(...).)))).))))))))).))))..)))))..)))...)).........((((((....))))))..... ( -27.90)
>DroPse_CAF1 82669 96 + 1
----------------------AUCUACUGUA-UCCCAGGCUCUGGGCAUUGGCCAGCUCCGAACGCAUCGAACGGAAGCCGAUGCUCAUUCAUUUAAAACUUGUCUGCAACUUGCCAA
----------------------..........-.....(((..(((((((((((....((((..((...))..)))).)))))))))))............(((....)))...))).. ( -26.10)
>DroEre_CAF1 70144 118 + 1
UU-UUAAAAGUGCUGUGCUUUUUUCGAGUGUACCUGCUGGCUCUGGGCAUUGGCCAGUUUGGAACGCAUCGAACGGAAGCCGCUGCUCAUUCAUUUAAAACUUGUCUGCAAGUUGCCAA
..-......(.((.(((((((((((((((((.((.((((((.(........)))))))..)).)))).))))).))))).))).)).)..........((((((....))))))..... ( -37.60)
>DroYak_CAF1 71513 119 + 1
UUUUUGAAAAUUCUUCCCUUUUUUCGAGUGUACUUUCUGGCUCUGGGCAUUGGCCAGUUUGGAACGCAUUGAACGGAAGCCGCUGCUCAUUCAUUUAAAACUUGUCUGCAAGUUGCCAA
..((((((((..........)))))))).........((((..((((((.((((..(((..(......)..)))....)))).)))))).........((((((....)))))))))). ( -30.70)
>DroAna_CAF1 70972 110 + 1
UC-UUCAAAAUU--------AUUUUCCGUGUAAUUCCCAACUCUGGACAGUGGCCAGUUUCGAACGCAUCGAACGGAAGCCGCUGCUCAUUCAUUUAAAACUUGUCUGCAAGUUGCCAA
..-.....((((--------((.......))))))........((..(((((((..(((.(((.....))))))....)))))))..)).........((((((....))))))..... ( -23.60)
>DroPer_CAF1 84599 96 + 1
----------------------AUCUACUGUA-UCCCAGGCUCUGGGCAUUGGCCAGCUCCGAACGCAUCGAACGGAAGCCGAUGCUCAUUCAUUUAAAACUUGUCUGCAACUUGCCAA
----------------------..........-.....(((..(((((((((((....((((..((...))..)))).)))))))))))............(((....)))...))).. ( -26.10)
>consensus
UU_UU_AAA_UU________UUAUCGAGUGUACUUCCUGGCUCUGGGCAUUGGCCAGUUUCGAACGCAUCGAACGGAAGCCGCUGCUCAUUCAUUUAAAACUUGUCUGCAAGUUGCCAA
......................................(((..((((((.((((..((((.((.....))))))....)))).)))))).........((((((....))))))))).. (-18.60 = -19.43 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:36 2006