Locus 6433

Sequence ID 2R_DroMel_CAF1
Location 20,086,508 – 20,086,602
Length 94
Max. P 0.856746
window10261 window10262

overview

Window 1

Location 20,086,508 – 20,086,602
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 64.20
Mean single sequence MFE -15.15
Consensus MFE -10.93
Energy contribution -10.55
Covariance contribution -0.38
Combinations/Pair 1.22
Mean z-score -1.00
Structure conservation index 0.72
SVM decision value 0.81
SVM RNA-class probability 0.856746
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20086508 94 + 20766785
CUCUUCCAGAAUGGCCACCUUGGCCUUGAGGAAUCUAAAAGGCGAAAAUUAGUCAUGGUUUGUAAGAAUUCAUACUGUUUAGCUGAUCAU-AUUA
...((((..((.((((.....))))))..)))).......(((........)))((((((.((..((((.......)))).)).))))))-.... ( -17.20)
>DroSec_CAF1 841 77 + 1
CUCUUCCAAAAUGGCCACCUUGGCCUUGAGGAAUCUAAAAGGCAAAAAUUAGUCAUGUAUUCUUAGAAUAUAU------------------AUUA
...((((..((.((((.....))))))..)))).......(((........)))((((((((...))))))))------------------.... ( -17.00)
>DroEre_CAF1 836 77 + 1
CUCCUCCAGAAUGGCCACCUUGGCCUUGAGGAAUCUAAUAGACGAAAAUAAGUAUUGUAUUAUGGAAAUUUAU------------------AGUU
.(((((......((((.....))))..))))).((((....((((.........))))....)))).......------------------.... ( -15.50)
>DroAna_CAF1 766 75 + 1
CUCCUCCAGAAUAGCCACCUUGGCUUUAAGGAACCUGAAA------AAAGAGCCGUAU---CUGAAAGACAAU--CAAUU---------AAAUAA
......((((..((((.....))))....((...((....------..))..))...)---))).........--.....---------...... ( -10.90)
>consensus
CUCCUCCAGAAUGGCCACCUUGGCCUUGAGGAAUCUAAAAGGCGAAAAUUAGUCAUGUAUUCUGAAAAUUUAU__________________AUUA
.(((((......((((.....))))..)))))............................................................... (-10.93 = -10.55 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,086,508 – 20,086,602
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 64.20
Mean single sequence MFE -15.37
Consensus MFE -11.32
Energy contribution -10.70
Covariance contribution -0.62
Combinations/Pair 1.20
Mean z-score -0.71
Structure conservation index 0.74
SVM decision value 0.31
SVM RNA-class probability 0.682531
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20086508 94 - 20766785
UAAU-AUGAUCAGCUAAACAGUAUGAAUUCUUACAAACCAUGACUAAUUUUCGCCUUUUAGAUUCCUCAAGGCCAAGGUGGCCAUUCUGGAAGAG
....-....((..(((((..((..(((((....((.....))...)))))..))..))))).((((..((((((.....)))).))..)))))). ( -14.80)
>DroSec_CAF1 841 77 - 1
UAAU------------------AUAUAUUCUAAGAAUACAUGACUAAUUUUUGCCUUUUAGAUUCCUCAAGGCCAAGGUGGCCAUUUUGGAAGAG
....------------------.....((((((((.....(((..(((((.........)))))..))).((((.....)))).))))))))... ( -15.10)
>DroEre_CAF1 836 77 - 1
AACU------------------AUAAAUUUCCAUAAUACAAUACUUAUUUUCGUCUAUUAGAUUCCUCAAGGCCAAGGUGGCCAUUCUGGAGGAG
....------------------.........................................(((((..((((.....))))......))))). ( -13.70)
>DroAna_CAF1 766 75 - 1
UUAUUU---------AAUUG--AUUGUCUUUCAG---AUACGGCUCUUU------UUUCAGGUUCCUUAAAGCCAAGGUGGCUAUUCUGGAGGAG
......---------.....--....((((((((---(...((..(((.------....)))..))....((((.....))))..))))))))). ( -17.90)
>consensus
UAAU__________________AUAAAUUCUCAGAAUACAUGACUAAUUUUCGCCUUUUAGAUUCCUCAAGGCCAAGGUGGCCAUUCUGGAAGAG
..............................................................((((..((((((.....)))).))..))))... (-11.32 = -10.70 +  -0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:53 2006