Locus 646

Sequence ID	2R_DroMel_CAF1
Location	3,229,672 – 3,229,798
Length	126
Max. P	0.633743

overview

Window 5

Location	3,229,672 – 3,229,764
Length	92
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	95.76
Mean single sequence MFE	-20.70
Consensus MFE	-20.89
Energy contribution	-20.75
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-0.61
Structure conservation index	1.01
SVM decision value	0.21
SVM RNA-class probability	0.633743
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3229672 92 + 20766785
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCU-------GUCUUUUGGCUCUUC
...((((..((...(((((........)))))........(((((((......))))))).))..))))....((((-------(.....))))).... ( -20.20)
>DroSec_CAF1 12368 92 + 1
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCU-------GUCUUUUGGCUCUUC
...((((..((...(((((........)))))........(((((((......))))))).))..))))....((((-------(.....))))).... ( -20.20)
>DroSim_CAF1 12837 91 + 1
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUC-AUUAACUGCUGGUGUUGGCUGUGGCU-------GUCUUUUGGCUCUUC
...((((..((...(((((........)))))........(((((((...-..))))))).))..))))....((((-------(.....))))).... ( -18.60)
>DroEre_CAF1 12083 92 + 1
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCU-------GUCUUUUGGCUCUUC
...((((..((...(((((........)))))........(((((((......))))))).))..))))....((((-------(.....))))).... ( -20.20)
>DroYak_CAF1 12082 92 + 1
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUUUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCU-------GUCUUUUGGCUCUUC
...((((..((((((((((........)))))))).....(((((((......))))))).))..))))....((((-------(.....))))).... ( -23.00)
>DroAna_CAF1 15256 99 + 1
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUUUUUUUUGUCUUUUGGCUCAUC
....(((..((...(((((........)))))........(((((((......))))))).))..)))((((.(((........)))...))))..... ( -22.00)
>consensus
AAAUCAAUCCCUGAGUGCAUUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCU_______GUCUUUUGGCUCUUC
....(((..((...(((((........)))))........(((((((......))))))).))..)))((((.(((........)))...))))..... (-20.89 = -20.75 +  -0.14)

alignment

secondary structure

dotplot

Window 6

Location	3,229,691 – 3,229,798
Length	107
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	90.64
Mean single sequence MFE	-28.10
Consensus MFE	-23.20
Energy contribution	-23.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.41
Structure conservation index	0.83
SVM decision value	0.01
SVM RNA-class probability	0.538019
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3229691 107 + 20766785
UUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUGUCUUUUGGCUCUUCAACUGUUGGUGCGCAGUGUUGUAAG------UUUGAGUUU
((..((((.(((....((((((((((((......)))))))..(..(..((..(((..(((....)))...)))...))..)..))))))..))))))------)..)).... ( -28.30)
>DroSec_CAF1 12387 113 + 1
UUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUGUCUUUUGGCUCUUCAACUGGUGGUGCGCAGUGUUGUAAGUGUGUGUUUGAGUUU
....((((.(((..((.(((((((((((......)))))))........((((((((..((..((((....))))..))..)).))))))...)))).))..)))..)))).. ( -31.80)
>DroEre_CAF1 12102 99 + 1
UUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUGUCUUUUGGCUCUUCAACUGGUGGUGCGCAGUGG------------UUUGAGU--
...((((..(((......)))(((((((......))))))).)))).(.((((((((..((..((((....))))..))..)).)))))).)------------.......-- ( -25.40)
>DroYak_CAF1 12101 99 + 1
UUUUACUUUGCAUUUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUGUCUUUUGGCUCUUCAACUGUUGGUGCGCAGUGG------------UUUGAGU--
....(((.((((......)))).))).......(((((..((((..(..((..(((..(((....)))...)))...))..)..).)))..)------------.))))..-- ( -26.90)
>consensus
UUUUACUUUGCAUGUAAUUGCGUAGUUGCUAAAUCAACUGCUGGUGUUGGCUGUGGCUGUCUUUUGGCUCUUCAACUGGUGGUGCGCAGUGG____________UUUGAGU__
...((((..(((......)))(((((((......))))))).))))...(((((((((..(..((((....))))..)..))).))))))....................... (-23.20 = -23.20 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:34 2006