Locus 7134

Sequence ID 3L_DroMel_CAF1
Location 19,179,625 – 19,179,744
Length 119
Max. P 0.946442
window11583 window11584

overview

Window 3

Location 19,179,625 – 19,179,744
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.60
Mean single sequence MFE -36.93
Consensus MFE -35.95
Energy contribution -36.28
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.97
SVM decision value 1.36
SVM RNA-class probability 0.946442
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19179625 119 + 23771897
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU-GCCAUUGUCUGUU
.......((((((((.((((.......))))..(..(((((((......((.(.((((....(((((((((.......)))))))))..))))).)))))))))..-)))).)))))... ( -37.10)
>DroSec_CAF1 8140 119 + 1
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU-GCCAUUGUCUGUU
.......((((((((.((((.......))))..(..(((((((......((.(.((((....(((((((((.......)))))))))..))))).)))))))))..-)))).)))))... ( -37.10)
>DroSim_CAF1 11249 119 + 1
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU-GCCAUUGUCUGUU
.......((((((((.((((.......))))..(..(((((((......((.(.((((....(((((((((.......)))))))))..))))).)))))))))..-)))).)))))... ( -37.10)
>DroEre_CAF1 10896 119 + 1
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU-GCCAUUGUCUGUU
.......((((((((.((((.......))))..(..(((((((......((.(.((((....(((((((((.......)))))))))..))))).)))))))))..-)))).)))))... ( -37.10)
>DroYak_CAF1 12904 119 + 1
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU-GCCAUUGUCUGUU
.......((((((((.((((.......))))..(..(((((((......((.(.((((....(((((((((.......)))))))))..))))).)))))))))..-)))).)))))... ( -37.10)
>DroAna_CAF1 1305 120 + 1
UGACACAAGACAUGGAGGAGCCAUCGUUGCCGACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGACUGACGGCUCGCUUCGUUGGCUCGCCAUUGUCUGUU
.......((((((((..((((((((((((........))))))..((..((.((.(((....(((..((((.......))))..)))..))))).))..)))))))).))).)))))... ( -36.10)
>consensus
UGACACAAGACAUGGAGGAGCCAUCGUUUCCAACUUCCGACGACUACUUAGAGACGCCUAAACAGCUUCAUUACUUUUAUGGGGCUGACGGCGCGCUUCGUUGGCU_GCCAUUGUCUGUU
.......((((((((...((((((((((..........)))))..((..((.(.((((....(((((((((.......)))))))))..))))).))..)))))))..))).)))))... (-35.95 = -36.28 +   0.33)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,179,625 – 19,179,744
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 98.60
Mean single sequence MFE -36.73
Consensus MFE -35.93
Energy contribution -35.82
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.11
Structure conservation index 0.98
SVM decision value 1.34
SVM RNA-class probability 0.943598
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19179625 119 - 23771897
AACAGACAAUGGC-AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.-((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... ( -35.60)
>DroSec_CAF1 8140 119 - 1
AACAGACAAUGGC-AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.-((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... ( -35.60)
>DroSim_CAF1 11249 119 - 1
AACAGACAAUGGC-AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.-((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... ( -35.60)
>DroEre_CAF1 10896 119 - 1
AACAGACAAUGGC-AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.-((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... ( -35.60)
>DroYak_CAF1 12904 119 - 1
AACAGACAAUGGC-AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.-((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... ( -35.60)
>DroAna_CAF1 1305 120 - 1
AACAGACAAUGGCGAGCCAACGAAGCGAGCCGUCAGUCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUCGGCAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((.((((((.((.((.(((((..((((..(((.......)))..))))....))).)).)).....((((.(....).))))..)).))))))..))))))).))).... ( -42.40)
>consensus
AACAGACAAUGGC_AGCCAACGAAGCGCGCCGUCAGCCCCAUAAAAGUAAUGAAGCUGUUUAGGCGUCUCUAAGUAGUCGUCGGAAGUUGGAAACGAUGGCUCCUCCAUGUCUUGUGUCA
.(((((((.(((..((((.((((.(((((((..((((..(((.......)))..))))....)))))......))..)))).....((((....))))))))...))))))).))).... (-35.93 = -35.82 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:55 2006