Locus 4875

Sequence ID 3L_DroMel_CAF1
Location 13,612,839 – 13,612,958
Length 119
Max. P 0.996061
window7695 window7696

overview

Window 5

Location 13,612,839 – 13,612,942
Length 103
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 93.30
Mean single sequence MFE -31.00
Consensus MFE -30.00
Energy contribution -30.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.96
Structure conservation index 0.97
SVM decision value 0.60
SVM RNA-class probability 0.796203
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13612839 103 - 23771897
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAG--------------
..((((.(((((((((((...))))))))......))).))))..(((.(((.....))).)((((((....))))))....)).....((((....))))..-------------- ( -30.00)
>DroPse_CAF1 1795 117 - 1
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAGAGGAGAGCCAGAGA
....(((.((.(((.............(((((....((.(((((.(((((((.....)).)))))....))))).))..))))).....((((....))))..))).)).))).... ( -33.00)
>DroEre_CAF1 22617 103 - 1
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAG--------------
..((((.(((((((((((...))))))))......))).))))..(((.(((.....))).)((((((....))))))....)).....((((....))))..-------------- ( -30.00)
>DroYak_CAF1 26912 103 - 1
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAG--------------
..((((.(((((((((((...))))))))......))).))))..(((.(((.....))).)((((((....))))))....)).....((((....))))..-------------- ( -30.00)
>DroAna_CAF1 56077 103 - 1
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAG--------------
..((((.(((((((((((...))))))))......))).))))..(((.(((.....))).)((((((....))))))....)).....((((....))))..-------------- ( -30.00)
>DroPer_CAF1 1815 117 - 1
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAGAGGAGAGCCAGAGA
....(((.((.(((.............(((((....((.(((((.(((((((.....)).)))))....))))).))..))))).....((((....))))..))).)).))).... ( -33.00)
>consensus
GACAUGGGUCGCUUGGGUGAGAUUUAAGCUUUAAUGAUGCAUGAAGCGGCACAGGAUGUGGCUGCCCAGUCGUGGGUAAAAGGCAAUGAGCGCAAAUGUGCAG______________
..((((.(((((((((((...))))))))......))).))))..(((.(((.....))).)((((((....))))))....)).....((((....))))................ (-30.00 = -30.00 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,612,862 – 13,612,958
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -21.40
Consensus MFE -21.40
Energy contribution -21.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 1.00
SVM decision value 2.65
SVM RNA-class probability 0.996061
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13612862 96 + 23771897
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>DroSim_CAF1 28978 96 + 1
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>DroEre_CAF1 22640 96 + 1
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>DroYak_CAF1 26935 96 + 1
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>DroAna_CAF1 56100 96 + 1
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>DroPer_CAF1 1852 96 + 1
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). ( -21.40)
>consensus
UUUACCCACGACUGGGCAGCCACAUCCUGUGCCGCUUCAUGCAUCAUUAAAGCUUAAAUCUCACCCAAGCGACCCAUGUCGAUUCUGGCCAGCCAA
........((((((((..(((((.....)))..((.....))..........................))..)))).))))....(((....))). (-21.40 = -21.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:51 2006