Locus 7812

Sequence ID	3L_DroMel_CAF1
Location	20,892,491 – 20,892,691
Length	200
Max. P	0.996546

overview

Window 2

Location	20,892,491 – 20,892,611
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-30.82
Consensus MFE	-28.76
Energy contribution	-28.80
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.84
Structure conservation index	0.93
SVM decision value	2.71
SVM RNA-class probability	0.996546
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20892491 120 - 23771897
AAAUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCAGAGUUCGCAUAAAUCAUUUCUGAUCAAAGCCUUCGGACUUCUGGAAACAUGUGGUUUUCCCGAU
...(((((((......)))..((..((((((((((.((((...(((((.....)))).)...))))..((((....)))).......))))))))))..))....))))........... ( -27.80)
>DroSec_CAF1 149135 120 - 1
AAGUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCAGAGUUCGCAUAAAUCAUUUCUGAUCAAAGCCUUCGGACUUCUGGAAACAUGUGGUUUUCCUGCU
.....((((.......(((((((..((((((((((.((((...(((((.....)))).)...))))..((((....)))).......))))))))))..))....)).)))...)))).. ( -30.50)
>DroSim_CAF1 145605 120 - 1
AAGUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCAGAGUUCGCAUAAAUCAUUUCUGAUCAACGCCUUCGGACUUCUGGAAACAUGUGGUUUUCCUGCU
.....((((.......(((((((..((((((((((..((((......(((((.......)))))....((((....)))).))))..))))))))))..))....)).)))...)))).. ( -31.20)
>DroEre_CAF1 149010 120 - 1
AAAUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCACAGUUCGCAUAAGUCAUUUUUGAUUAGCUCCUUCGGACUUCUGGAAAUAUGCGGUUUUCCUGAU
.....((((.......(((((((..((((((((((...((((.....(((((.......)))))....((((....))))))))...))))))))))..))....)).)))...)))).. ( -33.10)
>DroYak_CAF1 150004 120 - 1
AAGUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCACAGUUCGCAUAAAUCAUUUCUGAUCAAGGACUUCGGACUUCUGGAAAUAUGUGGUUUUCCUGAU
.....((((.(((((((....((..((((((((((.......((((.(((((.......)))))....((((....))))..)))).))))))))))..))..)))))))....)))).. ( -31.50)
>consensus
AAGUACAGGUUUAUAUACCCAUCUGGAAGUUUGAAAAUGUUAUCCUGGCGAAACCAGAGUUCGCAUAAAUCAUUUCUGAUCAAAGCCUUCGGACUUCUGGAAACAUGUGGUUUUCCUGAU
.....((((.......(((((((..((((((((((............(((((.......)))))....((((....)))).......))))))))))..))....)).)))...)))).. (-28.76 = -28.80 +   0.04)

alignment

secondary structure

dotplot

Window 3

Location	20,892,571 – 20,892,691
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.58
Mean single sequence MFE	-27.54
Consensus MFE	-24.04
Energy contribution	-23.40
Covariance contribution	-0.64
Combinations/Pair	1.21
Mean z-score	-1.60
Structure conservation index	0.87
SVM decision value	1.24
SVM RNA-class probability	0.935053
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20892571 120 + 23771897
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUAUUUUAUCACUCCACUAGUUCGUGAAAGUGUCAAGCAAUAUAUGCUGGGAGUCCUAUUUACCUAUUUAGUGGAAUUCAGAAUGG
.((((((.((..(((((((((((((.(((..............((((.(((......)))..))))((.((((.....))))..))....))).))))))))...))))))).)))))). ( -25.00)
>DroSec_CAF1 149215 120 + 1
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUACUUUAUCACUCCACUAGUUCGUGAAAAUGUCAAGCAAUAUAUGCUGGGAGUCCUUUUUACCUACUUAGUGGAAUUCAGAAUGG
.((((((..........((((((((((......))))).)))))..(((((((((..(((((((.(((.((((.....))))..))..).)))))))..)).)))))))....)))))). ( -28.30)
>DroSim_CAF1 145685 120 + 1
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUACUUUAUCACUCCACUAGUUCGUGAAAAUGUCAAGCAAUAUAUGCUGGGAGUCCUUUUUACCUACUUAGUGGAAUUCAGAAUGG
.((((((..........((((((((((......))))).)))))..(((((((((..(((((((.(((.((((.....))))..))..).)))))))..)).)))))))....)))))). ( -28.30)
>DroEre_CAF1 149090 120 + 1
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUAUUUCAUCACUCCUCUAGUUCGUGAAAACGUCAAGCAAUAUAUGCUGGGAGUACUUUUCACCUAUUUAGUGGAAUUCAGAAUGG
.((((((.((..(((((((((((.(((((....)))))))))))((((((......(((....)))...((((.....)))))))))).................))))))).)))))). ( -27.70)
>DroYak_CAF1 150084 120 + 1
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUACUUUAUCACUCCCUUAGUUCGUGAAAAUGUUAAGCAAUAUAUGUUGGGAGUACUUUUUACCUAUUUAGUGGAGUUCCGAAUGG
.(((((...((((((((((((((((((((....)))).......((((((......(((....)))...((((.....))))))))))......))))))))).).))))))..))))). ( -28.40)
>consensus
ACAUUUUCAAACUUCCAGAUGGGUAUAUAAACCUGUACUUUAUCACUCCACUAGUUCGUGAAAAUGUCAAGCAAUAUAUGCUGGGAGUCCUUUUUACCUAUUUAGUGGAAUUCAGAAUGG
.((((((..........((((((((((......))))).)))))..(((((((((..(((((((..((.((((.....))))..))....)))))))..)).)))))))....)))))). (-24.04 = -23.40 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:34 2006