Locus 6218

Sequence ID X_DroMel_CAF1
Location 15,816,485 – 15,816,602
Length 117
Max. P 0.999338
window10126 window10127

overview

Window 6

Location 15,816,485 – 15,816,602
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.38
Mean single sequence MFE -35.08
Consensus MFE -30.84
Energy contribution -30.64
Covariance contribution -0.20
Combinations/Pair 1.11
Mean z-score -2.41
Structure conservation index 0.88
SVM decision value 3.34
SVM RNA-class probability 0.999030
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15816485 117 + 22224390
CCGAAGAAACUCGAGCGGAGCUAGCGUU-UUCGUUGCUCCGG--GAGUUAUCCGUACUCGAAGUGUCGUUCAAUAUAUUUGCAUAUAUUGUUAUACUUUUCGGAUUUGACAUUCAUAGUU
(((((((...(((((((((((.((((..-..))))))))))(--((....)))...))))).((((....((((((((....))))))))..)))))))))))................. ( -37.90)
>DroSec_CAF1 16808 119 + 1
CCGAAGAAACUCGAGCGGAGCUAGCGUU-UUCGUUGCUCCGGGGGAGUUAUCCGUACUCGAAGUGUCGUUCAAUAUAUUUGCAUAUAUUGUUAUACUUUUCGGAUUUGACAAUCAUAGUU
(((((((...(((((((((((.((((..-..))))))))))..(((....)))...))))).((((....((((((((....))))))))..)))))))))))................. ( -37.90)
>DroSim_CAF1 19471 119 + 1
CCGAAGAAACUCGAGCGGAGCUAGCGUU-UUCGUUGCUCCGGGGGAGUUAUCCGUACUCGAAGUGUCGUUCAAUAUAUUUGCAUAUAUUGUUAUACUUUUCGGAUUUGACAAUCAUAGUU
(((((((...(((((((((((.((((..-..))))))))))..(((....)))...))))).((((....((((((((....))))))))..)))))))))))................. ( -37.90)
>DroEre_CAF1 15879 119 + 1
CCGAAGAAACUCGAACGGAGCUGACGUU-UUCGAUGCUCUCCGUGAGUUAUCCGUACUCAAAGUGUCGCUCAAUAUAUUUGCAUAUAUUGUUAUAUUUUCCGGAUUUGACAAUCAUAGUU
.((((..((((((...(((((...((..-..))..)))))...)))))).((((.....(((((((....((((((((....))))))))..))))))).))))))))............ ( -25.30)
>DroYak_CAF1 16928 120 + 1
CCGAAGAAACUCGAACGGAGCUGGCGUUUUUCGAUGCUCCGACGGAGUUAUCCGUACUCGAAGUGUCGCUCAAUAUAUUUGCAUAUAUUGUUAUAUUUUUCGGAUUUGACAAUCAUAGUU
((((((((((((((.((((((...((.....))..))))))(((((....)))))..))).)))......((((((((....)))))))).....))))))))................. ( -36.40)
>consensus
CCGAAGAAACUCGAGCGGAGCUAGCGUU_UUCGUUGCUCCGGGGGAGUUAUCCGUACUCGAAGUGUCGUUCAAUAUAUUUGCAUAUAUUGUUAUACUUUUCGGAUUUGACAAUCAUAGUU
.((((..(((((...((((((.((((.....))))))))))...))))).((((.....(((((((....((((((((....))))))))..))))))).))))))))............ (-30.84 = -30.64 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,816,485 – 15,816,602
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.38
Mean single sequence MFE -30.74
Consensus MFE -26.96
Energy contribution -27.20
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -2.54
Structure conservation index 0.88
SVM decision value 3.52
SVM RNA-class probability 0.999338
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15816485 117 - 22224390
AACUAUGAAUGUCAAAUCCGAAAAGUAUAACAAUAUAUGCAAAUAUAUUGAACGACACUUCGAGUACGGAUAACUC--CCGGAGCAACGAA-AACGCUAGCUCCGCUCGAGUUUCUUCGG
.................(((((........((((((((....))))))))...((.(((.(((((..(((....))--).(((((..((..-..))...))))))))))))).))))))) ( -31.90)
>DroSec_CAF1 16808 119 - 1
AACUAUGAUUGUCAAAUCCGAAAAGUAUAACAAUAUAUGCAAAUAUAUUGAACGACACUUCGAGUACGGAUAACUCCCCCGGAGCAACGAA-AACGCUAGCUCCGCUCGAGUUUCUUCGG
.................(((((........((((((((....))))))))...((.(((.(((((..(((....)))...(((((..((..-..))...))))))))))))).))))))) ( -31.90)
>DroSim_CAF1 19471 119 - 1
AACUAUGAUUGUCAAAUCCGAAAAGUAUAACAAUAUAUGCAAAUAUAUUGAACGACACUUCGAGUACGGAUAACUCCCCCGGAGCAACGAA-AACGCUAGCUCCGCUCGAGUUUCUUCGG
.................(((((........((((((((....))))))))...((.(((.(((((..(((....)))...(((((..((..-..))...))))))))))))).))))))) ( -31.90)
>DroEre_CAF1 15879 119 - 1
AACUAUGAUUGUCAAAUCCGGAAAAUAUAACAAUAUAUGCAAAUAUAUUGAGCGACACUUUGAGUACGGAUAACUCACGGAGAGCAUCGAA-AACGUCAGCUCCGUUCGAGUUUCUUCGG
.(((.....((((...(....)........((((((((....))))))))...)))).....))).((((.(((((((((((.....((..-..))....))))))..)))))..)))). ( -25.90)
>DroYak_CAF1 16928 120 - 1
AACUAUGAUUGUCAAAUCCGAAAAAUAUAACAAUAUAUGCAAAUAUAUUGAGCGACACUUCGAGUACGGAUAACUCCGUCGGAGCAUCGAAAAACGCCAGCUCCGUUCGAGUUUCUUCGG
.................(((((........((((((((....))))))))...((.(((.((((.(((((....)))))((((((..((.....))...))))))))))))).))))))) ( -32.10)
>consensus
AACUAUGAUUGUCAAAUCCGAAAAGUAUAACAAUAUAUGCAAAUAUAUUGAACGACACUUCGAGUACGGAUAACUCCCCCGGAGCAACGAA_AACGCUAGCUCCGCUCGAGUUUCUUCGG
.....(((.......(((((..........((((((((....))))))))..(((....)))....)))))(((((...((((((..((.....))...))))))...)))))...))). (-26.96 = -27.20 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:29 2006