Locus 4129

Sequence ID 3R_DroMel_CAF1
Location 11,261,281 – 11,261,419
Length 138
Max. P 0.954049
window6616 window6617

overview

Window 6

Location 11,261,281 – 11,261,393
Length 112
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.02
Mean single sequence MFE -34.17
Consensus MFE -14.10
Energy contribution -17.04
Covariance contribution 2.95
Combinations/Pair 1.23
Mean z-score -2.22
Structure conservation index 0.41
SVM decision value -0.03
SVM RNA-class probability 0.519656
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11261281 112 + 27905053
GUGAGUUGCAUUUGGAAAUCUUUCACCGC-UGCAUUUCUCAUUGUUGCUGGC---GGUACUAGUACUGGUACUG-GUACUGGUACUGGUACUGGUACUGGGACUGGGUCUGGUGCUC
.......((((..((...((..(((((((-((((...........))).)))---))).(((((((..((((..-(((....)))..))))..)))))))))..)).))..)))).. ( -45.30)
>DroSec_CAF1 20185 100 + 1
GUGAGUUGCAUUUGGAAAUCUUUCACCGC-UGCAUUUCUCAUUGUUGCUGGC---GGUACUAGUACUGGUACUG-GUACUUG------------GACUGGUACUGGGUCUGGUGCUC
((.(((.(((...(((((((.........-.).))))))...))).))).))---((((((((..(..((((..-((.....------------.))..))))..)..)))))))). ( -35.00)
>DroSim_CAF1 23086 100 + 1
GUGAGUUGCAUUUGGAAAUCUUUCACCGC-UGCAUUUCUCAUUGUUGCUGGC---GGUACUAGUACUGGUACUG-GUACUGG------------GACUGGGACUGGGUCUGGUGCUC
.......((((..((...((..(((((((-((((...........))).)))---))).(((((.(..(((...-.)))..)------------.)))))))..)).))..)))).. ( -30.80)
>DroEre_CAF1 20945 94 + 1
UGGAGUUGCAUUUGGAAAUCUUUCACCGC-UGCAUUUCUCAUUGUUGCUGGC---GGUACUAGUACUGGUACUG-GUACUGG------------UACUGGUAG------UGGUACUU
..(((.((((..(((..........))).-))))...)))..((..((((.(---((((((((((((......)-)))))))------------))))).)))------)..))... ( -33.90)
>DroYak_CAF1 21162 89 + 1
GUGGGCUGCAUUUGGAAAUCUUUCACCGCCUGCAUUUCUCAUUGUUGCUGGC---GGUGCUAGUACGAGUACU-------GG------------UACUGGUAG------UGGUACUU
(..(((.......((....))......)))..).........((..((((.(---((((((((((....))))-------))------------))))).)))------)..))... ( -30.92)
>DroAna_CAF1 20856 95 + 1
GUGAGUUGCAUUUGGAAAUCUUUCACUGC-UGG------UACUGGUACUGGCUCUGGCACUGGCACUGGCACUGGGUACUGA------------UACUGGUACUGGUACUGGUG---
(((((................))))).((-..(------(((..((((..(.((..((.(..(........)..)))...))------------..)..))))..))))..)).--- ( -29.09)
>consensus
GUGAGUUGCAUUUGGAAAUCUUUCACCGC_UGCAUUUCUCAUUGUUGCUGGC___GGUACUAGUACUGGUACUG_GUACUGG____________UACUGGUACUGGGUCUGGUGCUC
((.(((.(((...(((((((...........).))))))...))).))).))...((((((((..((((((((.........................))))))))..)))))))). (-14.10 = -17.04 +   2.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,261,318 – 11,261,419
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 86.49
Mean single sequence MFE -33.00
Consensus MFE -24.43
Energy contribution -26.24
Covariance contribution 1.81
Combinations/Pair 1.04
Mean z-score -2.60
Structure conservation index 0.74
SVM decision value 1.44
SVM RNA-class probability 0.954049
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11261318 101 + 27905053
UCAUUGUUGCUGGCGGUACUAGUACUGGUACUGGUACUGGUACUGGUACUGGUACUGGGACUGGGUCUGGUGCUCGUACUGCUCUUUCUACUGGUCUACCC
...........((((((((((((((..(((((......)))))..))))))))))))((((..(....((.((.......)).)).....)..)))).)). ( -40.90)
>DroSec_CAF1 20222 89 + 1
UCAUUGUUGCUGGCGGUACUAGUACUGGUACUGGUACUUG------------GACUGGUACUGGGUCUGGUGCUCGUACUGCUCUUUCUACUGGUCUACCC
...........((((((((.(((((..(..(..(((((..------------....)))))..)..)..))))).)))))))).........((....)). ( -32.90)
>DroSim_CAF1 23123 89 + 1
UCAUUGUUGCUGGCGGUACUAGUACUGGUACUGGUACUGG------------GACUGGGACUGGGUCUGGUGCUCGUACUGCUCUUUCUACUGGUCUACCC
...........(((((((((((((....)))))))))))(------------(((..(((..((((..((((....))))))))..))..)..)))).)). ( -29.40)
>DroEre_CAF1 20982 83 + 1
UCAUUGUUGCUGGCGGUACUAGUACUGGUACUGGUACUGG------------UACUGGUAG------UGGUACUUGCACUGCUCUUUCUACUGGUCUACCC
.....((.((..((((((((((((((......))))))))------------)))))((((------((.......))))))........)..))..)).. ( -28.80)
>consensus
UCAUUGUUGCUGGCGGUACUAGUACUGGUACUGGUACUGG____________GACUGGGACUGGGUCUGGUGCUCGUACUGCUCUUUCUACUGGUCUACCC
...........((((((((.((((((((..(((((((..(..............)..)))))))..)))))))).)))))))).........((....)). (-24.43 = -26.24 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:57 2006