Locus 3071

Sequence ID X_DroMel_CAF1
Location 8,203,528 – 8,203,702
Length 174
Max. P 0.738553
window5023 window5024

overview

Window 3

Location 8,203,528 – 8,203,640
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 93.39
Mean single sequence MFE -29.62
Consensus MFE -22.20
Energy contribution -22.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.75
SVM decision value 0.44
SVM RNA-class probability 0.738553
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8203528 112 + 22224390
UGUUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCGAACCGAGAUUCCUCGCAUUAGUCUUGGGCACCGUCUCAGCGCCAGUCGCUUAUCCUUAGUAAAUA
.....((((((((((.......(((....(((....)))..........((((((((.........))))))))))).......((((.....)))).)))))))))).... ( -25.50)
>DroSec_CAF1 105504 112 + 1
UGUUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCGAACCGAGAUGCCUCGCAUUAGUCGCUGGCAGCGUCUCAGCGCCAGUCGCUCAUCCUUAGUAAAUA
.....((((((((((.......(((....((.(((..((.((....))))..))).))...)))..(((.((((((.((......)))))))).))).)))))))))).... ( -35.90)
>DroSim_CAF1 85299 112 + 1
UGUUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCGAACCGAGAUGCCUCGCAUUAGUCGCUGGCAUCGUCUCAGCGCCAGUCGCUCAUCCUUAGUAAAUA
.....((((((((((.......(((....((.(((..((.((....))))..))).))...)))..(((.((((((...........)))))).))).)))))))))).... ( -32.00)
>DroEre_CAF1 95792 112 + 1
UGCUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCGAACUGAGAUUCCUUGCAUUAGUCUUAGGAGCCGUCUAAGCGCCAGUCGCUCAUCCUUAGUAAAUA
.....((((((((((..(((..((((...(..(((((((.((....)))))))))..)..))))..))).....((((.(.((.......)).))))))))))))))).... ( -30.10)
>DroYak_CAF1 95634 112 + 1
UGUUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCUAACGGAGAUUUCUCGCAUUAGUCUUAGGAACCGUCUCAGCGCCAGUCGCUCAUCCUUAGUAAAUA
.....((((((((((............(((.(((((((.....(((....)))((((.........))))))))))).)))...((((.....)))).)))))))))).... ( -24.60)
>consensus
UGUUAUGCUAAGGAUUCAUUUUUGCAUAUGCUUCUUAGUCUCAUCCGAACCGAGAUUCCUCGCAUUAGUCUUAGGCACCGUCUCAGCGCCAGUCGCUCAUCCUUAGUAAAUA
.....((((((((((........((..((((......(((((.........))))).....))))..))...............((((.....)))).)))))))))).... (-22.20 = -22.20 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 8,203,600 – 8,203,702
Length 102
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.53
Mean single sequence MFE -30.40
Consensus MFE -22.19
Energy contribution -22.88
Covariance contribution 0.69
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.73
SVM decision value 0.17
SVM RNA-class probability 0.618159
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8203600 102 - 22224390
------ACACAG------U------CCAGUGUCCAGCGUCCAAUGUCCAGGACAAUUAUUCAAAAUGUAUUUGCCAAGGAUAUUUACUAAGGAUAAGCGACUGGCGCUGAGACGGUGCCC
------.(((.(------(------((((((.((((((((((((((((.((.(((.(((.......))).)))))..)))))))......))....))).))))))))).))).)))... ( -32.90)
>DroSec_CAF1 105576 102 - 1
------ACACAG------U------CCAAUGUCCAGCGUCCAAUGUCCAGGACAAUUAUUCAAAAUGUAUUUGCCAAGGAUAUUUACUAAGGAUGAGCGACUGGCGCUGAGACGCUGCCA
------......------.------........(((((((.(((((((.((.(((.(((.......))).)))))..))))))).........(.((((.....)))).))))))))... ( -26.20)
>DroSim_CAF1 85371 102 - 1
------ACACAG------U------CCAGUGUCCAGCGUCCAAUGUCCAGGACAAUUAUUCAAAAUGUAUUUGCCAAGGAUAUUUACUAAGGAUGAGCGACUGGCGCUGAGACGAUGCCA
------.((..(------(------((((((.((((((((((((((((.((.(((.(((.......))).)))))..)))))))......))))).....))))))))).)))..))... ( -31.10)
>DroEre_CAF1 95864 120 - 1
AAGUCCAGUGUCCAGUGUCCAGUGUCCAGUGUCCAAUGUCCAAUGUCCAGGACAAUUAUUCAAAAUGUAUUUGCCAAGGAUAUUUACUAAGGAUGAGCGACUGGCGCUUAGACGGCUCCU
..(((.((((.(((((((((((((...(((((((..(((((........)))))......((((.....))))....)))))))))))..)))).....)))))))))..)))....... ( -31.40)
>consensus
______ACACAG______U______CCAGUGUCCAGCGUCCAAUGUCCAGGACAAUUAUUCAAAAUGUAUUUGCCAAGGAUAUUUACUAAGGAUGAGCGACUGGCGCUGAGACGGUGCCA
..............................(((...((((((((((((.((.(((.(((.......))).)))))..)))))))......)))))...))).((((((.....)))))). (-22.19 = -22.88 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:17 2006