Locus 2470

Sequence ID	3R_DroMel_CAF1
Location	6,802,654 – 6,802,774
Length	120
Max. P	0.866196

overview

Window 7

Location	6,802,654 – 6,802,774
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	98.44
Mean single sequence MFE	-27.68
Consensus MFE	-26.52
Energy contribution	-27.02
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.05
Structure conservation index	0.96
SVM decision value	0.85
SVM RNA-class probability	0.866196
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6802654 120 + 27905053
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUACGAAAUAAGUGACC
...((((((.((((((((.....(.((((.......)))))(((..((((..(.(((((((.....(((....)))....))))))).)..))))..))))))))))).....)))).)) ( -28.60)
>DroSec_CAF1 61035 120 + 1
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUUCGAAAUAAGUGACC
((((((((((((....)))))).)))..............((((((((.((((((((((((.....(((....)))....)))))))........)))))))))))))........))). ( -24.80)
>DroSim_CAF1 66498 120 + 1
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUACGAAAUAAGUGACC
...((((((.((((((((.....(.((((.......)))))(((..((((..(.(((((((.....(((....)))....))))))).)..))))..))))))))))).....)))).)) ( -28.60)
>DroEre_CAF1 46691 120 + 1
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUACGAAAUAAGUGACC
...((((((.((((((((.....(.((((.......)))))(((..((((..(.(((((((.....(((....)))....))))))).)..))))..))))))))))).....)))).)) ( -28.60)
>DroYak_CAF1 59489 120 + 1
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUUCGAAAUAAGUGACC
((((((((((((....)))))).)))..............((((((((.((((((((((((.....(((....)))....)))))))........)))))))))))))........))). ( -24.80)
>DroAna_CAF1 18916 120 + 1
GUUGGCAUUGUGUGCGCAUAAUAGCCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUACGGAAGAACUGACC
((..(..((.((((((((.....((.(((.......)))))(((..((((..(.(((((((.....(((....)))....))))))).)..))))..))))))))))).))...)..)). ( -30.70)
>consensus
GUUGGCAUUGUGUGCGCAUAAUAGUCUGAAAUUAAAUCAGCGAGCGCGUGGGUAACUUAAAAUAAUAGCCAUUGCUUAUGUUUAAGUAAAAUAUGUACUUUGUGUACGAAAUAAGUGACC
...((((((.((((((((.....(.((((.......)))))(((..((((..(.(((((((.....(((....)))....))))))).)..))))..))))))))))).....)))).)) (-26.52 = -27.02 +   0.50)

alignment

secondary structure

dotplot

Window 8

Location	6,802,654 – 6,802,774
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	98.44
Mean single sequence MFE	-20.82
Consensus MFE	-19.02
Energy contribution	-19.35
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.24
Structure conservation index	0.91
SVM decision value	0.57
SVM RNA-class probability	0.785959
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6802654 120 - 27905053
GGUCACUUAUUUCGUACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((.(((((....((((.....))))..................(((....))).......))))).)))...((((...((((.......))))........))))............. ( -21.90)
>DroSec_CAF1 61035 120 - 1
GGUCACUUAUUUCGAACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((.(((((...........(((((.......))))).......(((....))).......))))).)))...((((...((((.......))))........))))............. ( -19.60)
>DroSim_CAF1 66498 120 - 1
GGUCACUUAUUUCGUACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((.(((((....((((.....))))..................(((....))).......))))).)))...((((...((((.......))))........))))............. ( -21.90)
>DroEre_CAF1 46691 120 - 1
GGUCACUUAUUUCGUACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((.(((((....((((.....))))..................(((....))).......))))).)))...((((...((((.......))))........))))............. ( -21.90)
>DroYak_CAF1 59489 120 - 1
GGUCACUUAUUUCGAACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((.(((((...........(((((.......))))).......(((....))).......))))).)))...((((...((((.......))))........))))............. ( -19.60)
>DroAna_CAF1 18916 120 - 1
GGUCAGUUCUUCCGUACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGGCUAUUAUGCGCACACAAUGCCAAC
(((..........((((.....)))).......(((((((.((((((....)))..)))))))))).......((((..(((((.......))).))......)))).......)))... ( -20.00)
>consensus
GGUCACUUAUUUCGUACACAAAGUACAUAUUUUACUUAAACAUAAGCAAUGGCUAUUAUUUUAAGUUACCCACGCGCUCGCUGAUUUAAUUUCAGACUAUUAUGCGCACACAAUGCCAAC
(((..........((((.....)))).......(((((((.((((((....)))..)))))))))).......((((...((((.......))))........)))).......)))... (-19.02 = -19.35 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:12 2006