Locus 6633

Sequence ID	2R_DroMel_CAF1
Location	20,723,475 – 20,723,595
Length	120
Max. P	0.947510

overview

Window 3

Location	20,723,475 – 20,723,595
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-26.20
Consensus MFE	-24.68
Energy contribution	-24.72
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.58
Structure conservation index	0.94
SVM decision value	1.37
SVM RNA-class probability	0.947510
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20723475 120 + 20766785
UGUUUGAGUUAAGUGUUCUCAAAUUCUCCACCUUGGUAUUUGCUAAAGGUGUUUCGGACUCAUGCAAUUUUUGCGCAUCUUUUGCGCUUUGUUUAAUAUUCUCACAGGUGUUCUCUGGUU
(((.((((((...((....)).......(((((((((....))).)))))).....)))))).)))......(((((.....))))).................((((.....))))... ( -26.20)
>DroSec_CAF1 156865 120 + 1
UGUUUGAGUUAAGUGUUCUCAAAUUCUCCACCUUGGUAUUUGCUAAAGGUGUUUCAGACUCAUGCAAUUUUUGCGCAUCUUUUGCGCUUUGUUUAAUAUUCUCACAGGUGUUCUCUGGUU
(((.((((((...((....)).......(((((((((....))).)))))).....)))))).)))......(((((.....))))).................((((.....))))... ( -26.10)
>DroSim_CAF1 161953 120 + 1
UGUUUGAGUUAAGUGUUCUCAAAUUCUCCACCUUGAUAUUUGCUAAAGGUGUUUCAGACUCAUGCAAUUUUUGCGCAUCUUUUGCGCUUUGUUUAAUAUUCUCACAGGUGUUGUCUGGUU
.(((((((.........)))))))....((((((...........))))))..((((((....((((.....(((((.....))))).))))..((((((......)))))))))))).. ( -27.40)
>DroEre_CAF1 197940 120 + 1
UGUUUGAGUUAAGUGUUCUCAAAUUCUCCACCUUGGUAUUUGCUAAAGGUGUUUCAGACUCAUGCAAUUUUUGCGCAUCUUUUGCGCUUUGUUUAAUAUUCUCACAGGUGUUCUCUGGUU
(((.((((((...((....)).......(((((((((....))).)))))).....)))))).)))......(((((.....))))).................((((.....))))... ( -26.10)
>DroYak_CAF1 163172 120 + 1
UGUUUGAGUUAAGUGUUCUCAUAUUCUCCACCUUGGUAUUUGCUAAAGGUGUUUCAGACUCAUGCAAUUUUUGCGCAUCUUUUGCGUUUUGUUUAAUAUUCUCACAGGUGUUCUCUGGCU
(((.((((((..(((....)))......(((((((((....))).)))))).....)))))).)))......(((((.....))))).................((((.....))))... ( -25.20)
>consensus
UGUUUGAGUUAAGUGUUCUCAAAUUCUCCACCUUGGUAUUUGCUAAAGGUGUUUCAGACUCAUGCAAUUUUUGCGCAUCUUUUGCGCUUUGUUUAAUAUUCUCACAGGUGUUCUCUGGUU
(((.((((((...((....)).......(((((((((....))).)))))).....)))))).)))......(((((.....))))).................((((.....))))... (-24.68 = -24.72 +   0.04)

alignment

secondary structure

dotplot

Window 4

Location	20,723,475 – 20,723,595
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.00
Mean single sequence MFE	-21.96
Consensus MFE	-19.62
Energy contribution	-20.02
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.89
SVM decision value	1.34
SVM RNA-class probability	0.944528
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20723475 120 - 20766785
AACCAGAGAACACCUGUGAGAAUAUUAAACAAAGCGCAAAAGAUGCGCAAAAAUUGCAUGAGUCCGAAACACCUUUAGCAAAUACCAAGGUGGAGAAUUUGAGAACACUUAACUCAAACA
.....(((..(((((.((...............(((((.....))))).....((((..(((..........)))..))))....)))))))......(((((....))))))))..... ( -22.50)
>DroSec_CAF1 156865 120 - 1
AACCAGAGAACACCUGUGAGAAUAUUAAACAAAGCGCAAAAGAUGCGCAAAAAUUGCAUGAGUCUGAAACACCUUUAGCAAAUACCAAGGUGGAGAAUUUGAGAACACUUAACUCAAACA
.....(((..(((((.((...............(((((.....))))).....((((..(((..........)))..))))....)))))))......(((((....))))))))..... ( -22.50)
>DroSim_CAF1 161953 120 - 1
AACCAGACAACACCUGUGAGAAUAUUAAACAAAGCGCAAAAGAUGCGCAAAAAUUGCAUGAGUCUGAAACACCUUUAGCAAAUAUCAAGGUGGAGAAUUUGAGAACACUUAACUCAAACA
...(((((..((....))...............(((((.....))))).............)))))...((((((...........)))))).....((((((.........)))))).. ( -24.30)
>DroEre_CAF1 197940 120 - 1
AACCAGAGAACACCUGUGAGAAUAUUAAACAAAGCGCAAAAGAUGCGCAAAAAUUGCAUGAGUCUGAAACACCUUUAGCAAAUACCAAGGUGGAGAAUUUGAGAACACUUAACUCAAACA
.....(((..(((((.((...............(((((.....))))).....((((..(((..........)))..))))....)))))))......(((((....))))))))..... ( -22.50)
>DroYak_CAF1 163172 120 - 1
AGCCAGAGAACACCUGUGAGAAUAUUAAACAAAACGCAAAAGAUGCGCAAAAAUUGCAUGAGUCUGAAACACCUUUAGCAAAUACCAAGGUGGAGAAUAUGAGAACACUUAACUCAAACA
.((((.((.....)).))................((((.....))))........)).(((((......((((((...........)))))).......((((....))))))))).... ( -18.00)
>consensus
AACCAGAGAACACCUGUGAGAAUAUUAAACAAAGCGCAAAAGAUGCGCAAAAAUUGCAUGAGUCUGAAACACCUUUAGCAAAUACCAAGGUGGAGAAUUUGAGAACACUUAACUCAAACA
..........(((((.((...............(((((.....))))).....((((..(((..........)))..))))....)))))))(((...(((((....))))))))..... (-19.62 = -20.02 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:45 2006