Locus 4829

Sequence ID 2L_DroMel_CAF1
Location 13,753,045 – 13,753,165
Length 120
Max. P 0.614059
window7651 window7652

overview

Window 1

Location 13,753,045 – 13,753,165
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.44
Mean single sequence MFE -36.35
Consensus MFE -29.01
Energy contribution -30.57
Covariance contribution 1.56
Combinations/Pair 1.12
Mean z-score -2.20
Structure conservation index 0.80
SVM decision value 0.16
SVM RNA-class probability 0.614059
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13753045 120 + 22407834
UUUUUGUUGCGGCACGCCGCACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGUGCUCCAAAAGCGGAAGACAGCAAAUUGCUAUACUUUUGCAAUUAUGCGGAGGAACUAUUGGAUGCA
..(((((.((((....)))))))))..(((((((..((((((((((((.....))))))....(((((((..(((.....)))...)))))))...........)))))))))))))... ( -38.00)
>DroSec_CAF1 16706 120 + 1
UUUUUGUUGCGGCACGCCGCACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGUGCUCCAAAAGCGGAAGACAGCAAAUUGCAAUACUUUUGCAAUUAUGCGGCGGAACUAUUGGAUGCA
..(((((.((((....)))))))))..(((((((..((((((((((((.....))))))....(((.....).(((((((((((.....)))))))).))).)))))))))))))))... ( -40.40)
>DroAna_CAF1 33932 116 + 1
CUUUCGUUGCGGUGCGCCACUUUGAUAAUUCAAUUAAAUUUUGAAGUAGAACUUACAGCAAAA-CGGAAGUCGGCAAAUUGCAAUACUUUCGCAAUUAUGCG---GAACAAUUGGGUCUA
.....((((((((..((((((((((....)).......(((((..((((...))))..)))))-..))))).)))..))))))))..(((((((....))))---)))............ ( -26.40)
>DroSim_CAF1 18729 120 + 1
UUUUUGUUGCGGCACGCCGCACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGUGCUCCAAAAGCGGAAGACAGCAAAUUGCAAUACUUUUGCAAUUAUGCGGAGGAACUAUUGGAUGCA
..(((((.((((....)))))))))..(((((((..((((((((((((.....))))))....((....).).(((((((((((.....)))))))).)))...)))))))))))))... ( -39.90)
>DroEre_CAF1 18744 117 + 1
UUUUUGCUGCGGCACGCCACACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGCACUCCAAAAGCGGAAGACGGCAAAUUGCAAUACUUUUGCAAUUAUCCG---GAACUAUUGGAUGCA
..((((.((.((....)).))))))..(((((((..(((((((((...((((....(((......)))...)))).((((((((.....)))))))).))))---))))))))))))... ( -35.20)
>DroYak_CAF1 19844 117 + 1
UUUCUGUUGCGGCACGCCGCACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGCACUCCAAAAGCGGAAGACAGCAAAUUGCAAUACUUUUGCAAUUAUGCG---CAACUAUUGGAUGCA
..(((((.((((....)))))))))..(((((((.((....((((((.(....)))))))...(((.....).(((((((((((.....)))))))).))))---)..)))))))))... ( -38.20)
>consensus
UUUUUGUUGCGGCACGCCGCACGGAUAAUUCAAUUAGGUUCUGGAGUAGUUGGUACUCCAAAAGCGGAAGACAGCAAAUUGCAAUACUUUUGCAAUUAUGCG___GAACUAUUGGAUGCA
..((((.(((((....)))))))))..(((((((..((((((((((((.....)))))))....(....)...(((((((((((.....)))))))).)))....))))))))))))... (-29.01 = -30.57 +   1.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,753,045 – 13,753,165
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.44
Mean single sequence MFE -30.05
Consensus MFE -24.29
Energy contribution -24.85
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.84
Structure conservation index 0.81
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13753045 120 - 22407834
UGCAUCCAAUAGUUCCUCCGCAUAAUUGCAAAAGUAUAGCAAUUUGCUGUCUUCCGCUUUUGGAGCACCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGCGGCGUGCCGCAACAAAAA
........(((((((....(((....)))..(((.(((((.....))))))))..(.((((((((.........)))))))).).....)))))))...(((((....)))))....... ( -28.30)
>DroSec_CAF1 16706 120 - 1
UGCAUCCAAUAGUUCCGCCGCAUAAUUGCAAAAGUAUUGCAAUUUGCUGUCUUCCGCUUUUGGAGCACCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGCGGCGUGCCGCAACAAAAA
........(((((((.((.(((.((((((((.....))))))))))).)).....(.((((((((.........)))))))).).....)))))))...(((((....)))))....... ( -30.80)
>DroAna_CAF1 33932 116 - 1
UAGACCCAAUUGUUC---CGCAUAAUUGCGAAAGUAUUGCAAUUUGCCGACUUCCG-UUUUGCUGUAAGUUCUACUUCAAAAUUUAAUUGAAUUAUCAAAGUGGCGCACCGCAACGAAAG
......((((((.((---.(((.((((((((.....))))))))))).)).....(-(((((..(((.....)))..)))))).))))))..........((((....))))..(....) ( -22.60)
>DroSim_CAF1 18729 120 - 1
UGCAUCCAAUAGUUCCUCCGCAUAAUUGCAAAAGUAUUGCAAUUUGCUGUCUUCCGCUUUUGGAGCACCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGCGGCGUGCCGCAACAAAAA
........(((((((....(((.((((((((.....)))))))))))........(.((((((((.........)))))))).).....)))))))...(((((....)))))....... ( -30.30)
>DroEre_CAF1 18744 117 - 1
UGCAUCCAAUAGUUC---CGGAUAAUUGCAAAAGUAUUGCAAUUUGCCGUCUUCCGCUUUUGGAGUGCCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGUGGCGUGCCGCAGCAAAAA
(((.....(((((((---(((..((((((((.....))))))))..)))......(.((((((((((.....)))))))))).).....)))))))...(((((....)))))))).... ( -35.40)
>DroYak_CAF1 19844 117 - 1
UGCAUCCAAUAGUUG---CGCAUAAUUGCAAAAGUAUUGCAAUUUGCUGUCUUCCGCUUUUGGAGUGCCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGCGGCGUGCCGCAACAGAAA
...........((((---(((((((((((((.....)))))))).(((((.....(.((((((((((.....)))))))))).).....((....))...)))))))).))))))..... ( -32.90)
>consensus
UGCAUCCAAUAGUUC___CGCAUAAUUGCAAAAGUAUUGCAAUUUGCUGUCUUCCGCUUUUGGAGCACCAACUACUCCAGAACCUAAUUGAAUUAUCCGUGCGGCGUGCCGCAACAAAAA
........(((((((....(((.((((((((.....)))))))))))........(.((((((((.........)))))))).).....)))))))...(((((....)))))....... (-24.29 = -24.85 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:38 2006