Locus 8039

Sequence ID X_DroMel_CAF1
Location 19,980,150 – 19,980,290
Length 140
Max. P 0.962321
window13191 window13192

overview

Window 1

Location 19,980,150 – 19,980,261
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 80.00
Mean single sequence MFE -26.75
Consensus MFE -17.66
Energy contribution -17.22
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.11
Structure conservation index 0.66
SVM decision value 0.95
SVM RNA-class probability 0.888887
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19980150 111 - 22224390
AUUAUACCGUCUUGGCCUACAAAUCUCUGGGCCAACACUUAGCUUACCAUAUUUUAGCUGCCUAUAUUUUGUCUCCUUUCCUUUCCAACAGCCAGUCAAGGUCGCGCGACA
........((.((((((((........)))))))).)).(((((...........))))).........((((.(....((((..(........)..))))....).)))) ( -21.80)
>DroSec_CAF1 18071 93 - 1
AUGAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC-----------------UUGGCUGCCCAUGUUUUUCUUCCUUU-GUUUCCAACAGGCAGGCAAGGUCGCGCGACA
.((.(((((.(((((((((........))))))))(-----------------(((.(((((..((((...........-......))))))))).))))).)).))).)) ( -30.03)
>DroSim_CAF1 11092 93 - 1
AUUAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC-----------------UUGGCUGCCCAUGUUUUUCCUCCUUU-GUUUCCAACAGCCAGCCAAGGUCGCGCGACA
....(((((.(((((((((........))))))))(-----------------(((((((....((((...........-......))))..))))))))).)).)))... ( -28.43)
>consensus
AUUAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC_________________UUGGCUGCCCAUGUUUUUCCUCCUUU_GUUUCCAACAGCCAGCCAAGGUCGCGCGACA
........(((((((((((........)))))))).....................((.(((.....................................))).))..))). (-17.66 = -17.22 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 19,980,188 – 19,980,290
Length 102
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 77.12
Mean single sequence MFE -22.16
Consensus MFE -14.42
Energy contribution -14.42
Covariance contribution -0.00
Combinations/Pair 1.14
Mean z-score -2.11
Structure conservation index 0.65
SVM decision value 1.54
SVM RNA-class probability 0.962321
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19980188 102 - 22224390
UACGGGCACCUGUUCUU-UGGGCCAACUUAAUUAUACCGUCUUGGCCUACAAAUCUCUGGGCCAACACUUAGCUUACCAUAUUUUAGCUGC----CUAUAUUUUGUC
.((((....))))....-(((((...............((.((((((((........)))))))).))..((((...........))))))----)))......... ( -24.00)
>DroSec_CAF1 18108 85 - 1
CACUGGCACCUGUUCUU-UUGGCCAAUUUAAUGAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC-----------------UUGGCUGC----CCAUGUUUUUCU
((..((((..((..(..-..)..))..........((((..((((((((........)))))))).-----------------.)))))))----)..))....... ( -23.80)
>DroSim_CAF1 11129 85 - 1
CACUGGCACCUGUUCUU-UUGGCCAACUUAAUUAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC-----------------UUGGCUGC----CCAUGUUUUUCC
((..((((..((..(..-..)..))..........((((..((((((((........)))))))).-----------------.)))))))----)..))....... ( -23.80)
>DroEre_CAF1 13192 89 - 1
CAGUGGCACCUGUUCCU-UUGGCCAUGCUAAUUACGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC-----------------CUAGCUGCUUAGCCAUGUUUUUCU
..(((((....((....-(((((...)))))..))((.((.((((((((........)))))))).-----------------...)).))...)))))........ ( -23.20)
>DroYak_CAF1 10676 86 - 1
CAGUGGCACCUGUUCUUUUUGGCCAAUUUAAUUAUGCCGCCCUGGUCUACAAAUCUCUGGGCCAAC-----------------UUAGCU----CGCAAUAUAUAUUU
..(((((.............(((............)))((((.(((......)))...))))....-----------------...)).----)))........... ( -16.00)
>consensus
CACUGGCACCUGUUCUU_UUGGCCAACUUAAUUAUGCCGUCUUGGUCCACAAAUCUCUGGGCCAAC_________________UUAGCUGC____CCAUGUUUUUCU
....(((.............(((............)))...((((((((........)))))))).....................))).................. (-14.42 = -14.42 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:50 2006