Locus 4793

Sequence ID 3L_DroMel_CAF1
Location 13,426,943 – 13,427,063
Length 120
Max. P 0.953558
window7547 window7548

overview

Window 7

Location 13,426,943 – 13,427,063
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -37.40
Consensus MFE -35.40
Energy contribution -36.04
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.20
Structure conservation index 0.95
SVM decision value 0.38
SVM RNA-class probability 0.711067
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13426943 120 + 23771897
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUGCGCAUUAGUCGUGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUACGAUUUUAUUUUUGGCC
...((.....((((((.(((((((((.(((.......))).)))))))))(((.(..((((.((((((((((...)))))))...))).)))).).)))........))))))....)). ( -38.20)
>DroSec_CAF1 24047 120 + 1
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUGCGCAUUAGUCGUGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUACUAUUUUAUUUUUGGCC
....(((((.(((((..(((((((((.(((.......))).)))))))))(((.(..((((.((((((((((...)))))))...))).)))).).)))....)))))....)))))... ( -40.10)
>DroSim_CAF1 25883 120 + 1
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUGCGCAUUAUUCGUGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUACUAUUCUAUUUUUGGCC
...((.....((((((.((.((((((.(((.......))).)))))).))(((.(..((((.((((((((((...)))))))...))).)))).).)))........))))))....)). ( -37.70)
>DroEre_CAF1 25190 120 + 1
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUACGCAUUAGUCGUGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUAUUAUUUUAUUCUUGGCC
.....((((((((((..(((((((((..(((.......))))))))))))(((.(..((((.((((((((((...)))))))...))).)))).).))).)))))))))).......... ( -36.90)
>DroYak_CAF1 24317 120 + 1
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUGCGCAUUAGUUUCGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUAUUAUUUUAUUUUUGGCC
.......(((((((((.(((((((((.(((.......))).))))))))))).(...((((.((((((((((...)))))))...))).))))...).)))))))............... ( -34.10)
>consensus
AACGCAAAAUGAUGGAUGAUUGAUGCUCGUGGCCAGAAUGCGCAUUAGUCGUGGAUUAGACGGCCUUUGGGCGGCGCCCAAACUUGGCGGUUUUUGCACAUUACUAUUUUAUUUUUGGCC
...(((((.((((..(((((((((((.(((.......))).)))))))))))..))))(((.((((((((((...)))))))...))).))))))))....................... (-35.40 = -36.04 +   0.64)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,426,943 – 13,427,063
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -30.75
Consensus MFE -28.85
Energy contribution -29.09
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.52
Structure conservation index 0.94
SVM decision value 1.43
SVM RNA-class probability 0.953558
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13426943 120 - 23771897
GGCCAAAAAUAAAAUCGUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCACGACUAAUGCGCAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((...........(.((((((((......(((...(((((((...)))))))))).(((........)))...))))))))))))))....(((.................)))... ( -32.03)
>DroSec_CAF1 24047 120 - 1
GGCCAAAAAUAAAAUAGUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCACGACUAAUGCGCAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((...........(.((((((((......(((...(((((((...)))))))))).(((........)))...))))))))))))))....(((.................)))... ( -32.03)
>DroSim_CAF1 25883 120 - 1
GGCCAAAAAUAGAAUAGUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCACGAAUAAUGCGCAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((...........(.((((((((......(((...(((((((...))))))))))(((.......))).....))))))))))))))....(((.................)))... ( -30.33)
>DroEre_CAF1 25190 120 - 1
GGCCAAGAAUAAAAUAAUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCACGACUAAUGCGUAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((.(((((.........((((.....((.(((...(((((((...)))))))))).))......)))).........))))))))))....(((.................)))... ( -30.70)
>DroYak_CAF1 24317 120 - 1
GGCCAAAAAUAAAAUAAUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCGAAACUAAUGCGCAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((.............((((((((......(((...(((((((...))))))))))((.......)).......)))))))).)))))....(((.................)))... ( -28.67)
>consensus
GGCCAAAAAUAAAAUAGUAAUGUGCAAAAACCGCCAAGUUUGGGCGCCGCCCAAAGGCCGUCUAAUCCACGACUAAUGCGCAUUCUGGCCACGAGCAUCAAUCAUCCAUCAUUUUGCGUU
(((((.............((((((((......(((...(((((((...)))))))))).(((........)))...)))))))).)))))....(((.................)))... (-28.85 = -29.09 +   0.24)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:27 2006