Locus 3784

Sequence ID 3L_DroMel_CAF1
Location 10,925,340 – 10,925,434
Length 94
Max. P 0.842725
window5898 window5899

overview

Window 8

Location 10,925,340 – 10,925,434
Length 94
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 82.83
Mean single sequence MFE -32.00
Consensus MFE -24.99
Energy contribution -24.79
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -1.83
Structure conservation index 0.78
SVM decision value 0.63
SVM RNA-class probability 0.805047
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10925340 94 + 23771897
U--U-----AUUUCAGCAU-------ACCCCAUGAUUGAUAUUGUACAGGGUACGACGACAGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCU
.--.-----....((((.(-------((((.(..((....))..)...))))).(.(.((.((((((((....))))).))).)).))..)))).((((....)))). ( -31.00)
>DroSec_CAF1 57982 94 + 1
U--U-----AUUUCAGCAU-------GCCCCAUGAUUGGUAUUUUACAGGGUACGACGACAGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCU
.--.-----....((((.(-------(((((.......((((((....)))))).......((((((((....))))).))))).)))).)))).((((....)))). ( -35.90)
>DroSim_CAF1 53495 94 + 1
U--U-----AUUUCAGCAU-------GCACCAUGAUUGGUAUUUUACAGGGUACGACGACAGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCU
.--.-----....((((.(-------(((((.......((((((....)))))).......((((((((....))))).)))))).))).)))).((((....)))). ( -33.60)
>DroEre_CAF1 57757 100 + 1
UGUUAAAAAA-UUCAGCAU-------ACCCCAUAAUUAUUUUUGUACAGGGUACGACGACAGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCU
..........-..((((.(-------((((.((((......))))...))))).(.(.((.((((((((....))))).))).)).))..)))).((((....)))). ( -31.20)
>DroAna_CAF1 53632 95 + 1
C--U-----AUUCUAACAUACCACACACCCCCUAAU------ACCAUAGGGUAUCACAACGGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCC
.--.-----......(((.......(((((((((..------....)))))..........((((((((....))))).)))))))......)))((((....)))). ( -28.32)
>consensus
U__U_____AUUUCAGCAU_______ACCCCAUGAUUGGUAUUGUACAGGGUACGACGACAGCAGCAGCAACAGUUGCUUGCGGUGGCAAGCUGUGGCGUCUGCGCCU
..........................((((..................))))......(((((.(((((....)))))((((....)))))))))((((....)))). (-24.99 = -24.79 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 10,925,340 – 10,925,434
Length 94
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 82.83
Mean single sequence MFE -31.56
Consensus MFE -23.90
Energy contribution -24.14
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.93
Structure conservation index 0.76
SVM decision value 0.76
SVM RNA-class probability 0.842725
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10925340 94 - 23771897
AGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCUGUCGUCGUACCCUGUACAAUAUCAAUCAUGGGGU-------AUGCUGAAAU-----A--A
.(((((((..((.(((((((((....))))))...))).))..)))).)))(.((((((((((............)))))))-------))))......-----.--. ( -32.50)
>DroSec_CAF1 57982 94 - 1
AGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCUGUCGUCGUACCCUGUAAAAUACCAAUCAUGGGGC-------AUGCUGAAAU-----A--A
.((((....)))).((((.((((.(((((.(((.(....).))))))((..((..(((...)))..))..)).....)))))-------).))))....-----.--. ( -29.10)
>DroSim_CAF1 53495 94 - 1
AGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCUGUCGUCGUACCCUGUAAAAUACCAAUCAUGGUGC-------AUGCUGAAAU-----A--A
.(((((((..((.(((((((((....))))))...))).))..)))).......(((((.((............)).)))))-------..))).....-----.--. ( -28.60)
>DroEre_CAF1 57757 100 - 1
AGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCUGUCGUCGUACCCUGUACAAAAAUAAUUAUGGGGU-------AUGCUGAA-UUUUUUAACA
.(((((((..((.(((((((((....))))))...))).))..)))).)))(.(((((((((((..........))))))))-------))))....-.......... ( -33.90)
>DroAna_CAF1 53632 95 - 1
GGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCCGUUGUGAUACCCUAUGGU------AUUAGGGGGUGUGUGGUAUGUUAGAAU-----A--G
.((((....))))...((((((....))))))..(((.(((..(((((.((.(((((((....)))------)))).)))))).)..)))...)))...-----.--. ( -33.70)
>consensus
AGGCGCAGACGCCACAGCUUGCCACCGCAAGCAACUGUUGCUGCUGCUGUCGUCGUACCCUGUAAAAUACCAAUCAUGGGGU_______AUGCUGAAAU_____A__A
.(((((((..((.(((((((((....))))))...))).))..)))).)))......((((((............))))))........................... (-23.90 = -24.14 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:32 2006