Locus 3580

Sequence ID X_DroMel_CAF1
Location 9,604,424 – 9,604,536
Length 112
Max. P 0.984669
window5860 window5861

overview

Window 0

Location 9,604,424 – 9,604,536
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.06
Mean single sequence MFE -24.43
Consensus MFE -25.09
Energy contribution -25.12
Covariance contribution 0.03
Combinations/Pair 1.04
Mean z-score -0.81
Structure conservation index 1.03
SVM decision value 1.09
SVM RNA-class probability 0.913169
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9604424 112 + 22224390
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU-UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC-------CAGCCACAUGACAUAGC
........(((((............((.((..-..)).))...((((......((..(((.....(((.(((((((....))))))).))).))).-------)))))).)))))..... ( -24.00)
>DroSec_CAF1 63045 112 + 1
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU-UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC-------CAGCCACAUGACAUAGC
........(((((............((.((..-..)).))...((((......((..(((.....(((.(((((((....))))))).))).))).-------)))))).)))))..... ( -24.00)
>DroSim_CAF1 50312 112 + 1
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU-UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC-------CAGCCACAUGACAUAGC
........(((((............((.((..-..)).))...((((......((..(((.....(((.(((((((....))))))).))).))).-------)))))).)))))..... ( -24.00)
>DroEre_CAF1 67945 112 + 1
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU-UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC-------CAGCCACAUGACAUAGC
........(((((............((.((..-..)).))...((((......((..(((.....(((.(((((((....))))))).))).))).-------)))))).)))))..... ( -24.00)
>DroYak_CAF1 66951 112 + 1
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU-UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC-------CAGCCACAUGACAUAGC
........(((((............((.((..-..)).))...((((......((..(((.....(((.(((((((....))))))).))).))).-------)))))).)))))..... ( -24.00)
>DroAna_CAF1 83407 119 + 1
CAUUUGCAGUCAUUAGAAAUUCCCCGCAGGUUUUCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGA-GCUUGGUCUCUGCCACUGCCACAUGACGCAGA
..(((((.(((((............(((((....((.(((....(((..(....)..)))..........((((((....)))))).-))).))..))))).........)))))))))) ( -26.60)
>consensus
CAUUUGCAGUCAUUACGAAUUCCCCGCAGGUU_UCCCAGCAAAUGGCCUCAAUUGUUGCCUUUUUAGCCACUAAUUGCUCAAUUAGUCGCUUGGCC_______CAGCCACAUGACAUAGC
........(((((............((.((.....)).))...((((..........(((.....(((.(((((((....))))))).))).)))..........)))).)))))..... (-25.09 = -25.12 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,604,424 – 9,604,536
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 95.06
Mean single sequence MFE -38.60
Consensus MFE -32.35
Energy contribution -33.02
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.99
Structure conservation index 0.84
SVM decision value 1.98
SVM RNA-class probability 0.984669
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9604424 112 - 22224390
GCUAUGUCAUGUGGCUG-------GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA-AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((...((..-------((((.(((.(((((((....))))))).))).....(....)......)))).(((((.((..-..)).)))))......)).))))).))..... ( -39.50)
>DroSec_CAF1 63045 112 - 1
GCUAUGUCAUGUGGCUG-------GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA-AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((...((..-------((((.(((.(((((((....))))))).))).....(....)......)))).(((((.((..-..)).)))))......)).))))).))..... ( -39.50)
>DroSim_CAF1 50312 112 - 1
GCUAUGUCAUGUGGCUG-------GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA-AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((...((..-------((((.(((.(((((((....))))))).))).....(....)......)))).(((((.((..-..)).)))))......)).))))).))..... ( -39.50)
>DroEre_CAF1 67945 112 - 1
GCUAUGUCAUGUGGCUG-------GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA-AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((...((..-------((((.(((.(((((((....))))))).))).....(....)......)))).(((((.((..-..)).)))))......)).))))).))..... ( -39.50)
>DroYak_CAF1 66951 112 - 1
GCUAUGUCAUGUGGCUG-------GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA-AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((...((..-------((((.(((.(((((((....))))))).))).....(....)......)))).(((((.((..-..)).)))))......)).))))).))..... ( -39.50)
>DroAna_CAF1 83407 119 - 1
UCUGCGUCAUGUGGCAGUGGCAGAGACCAAGC-UCUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGAAAACCUGCGGGGAAUUUCUAAUGACUGCAAAUG
..((((((((..(((((((((.........((-((.....))))..(((((.(((.....)))....))))).)))).))))).(((((.((....))...))))).))))).))).... ( -34.10)
>consensus
GCUAUGUCAUGUGGCUG_______GGCCAAGCGACUAAUUGAGCAAUUAGUGGCUAAAAAGGCAACAAUUGAGGCCAUUUGCUGGGA_AACCUGCGGGGAAUUCGUAAUGACUGCAAAUG
((...(((((((((((.........(((.(((.(((((((....))))))).))).....))).........))))))((((.((.....)).))))..........))))).))..... (-32.35 = -33.02 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:57 2006