Locus 6472

Sequence ID X_DroMel_CAF1
Location 16,233,850 – 16,234,001
Length 151
Max. P 0.879810
window10564 window10565

overview

Window 4

Location 16,233,850 – 16,233,961
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -34.78
Consensus MFE -23.32
Energy contribution -24.52
Covariance contribution 1.20
Combinations/Pair 1.27
Mean z-score -1.65
Structure conservation index 0.67
SVM decision value 0.20
SVM RNA-class probability 0.628839
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16233850 111 - 22224390
AGCUCACUUCCCAUCUGGUUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCAUCAAGGUCGUUAAUGAUAUGUACAGGAAAG------UGCCAC---UCAAAAGC
.(((.......((..((((((....))))))..))...((((((((.((((.(((.((((((((....))))))))..........)))))))...)------))))))---)....))) ( -31.60)
>DroSec_CAF1 16 111 - 1
AGCUCACUUCCCAUCUGGUUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCAUCAAGGUCGUUAAUGAUAUGUACAGGAAAG------UGCCAC---CCAAGAGC
.((((......((..((((((....))))))..))...((((((((.((((.(((.((((((((....))))))))..........)))))))...)------))))))---)...)))) ( -38.40)
>DroSim_CAF1 52 111 - 1
AGCUCACUUCCCAUCUGGCUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCCUCAAGGUCGUUAAUGAUAUGUACAGGAAAG------UGCCAC---CCAAGAGC
.((((......((..((..((....))..))..))...((((((((.((((.(((.((((((((....))))))))..........)))))))...)------))))))---)...)))) ( -35.00)
>DroEre_CAF1 40 114 - 1
AGCUCGCUUCCCAUCUGGCUGUUCACGAUAAUUUGCUCGGCAGCCUGCCUGCUGCCCGACUUGGUCACCAGGGUCGUUAGUGACAUGUCCAGAAACG------UGCCACCAACCAAGAGC
.((((........(((((((((.(((............((((((......))))))((((((((...))).)))))...)))))).).)))))...(------(.......))...)))) ( -34.40)
>DroYak_CAF1 178 111 - 1
AGCUCGCUUCCCAUCUGGCUGUUCACCAUCAUUUGCUCGGCAGCUUGCCUGCUGCCCGACUUUGUUAUCAAGGUCGUUAAUGAUAUGUACAGGAAGG------UGCCAC---CCAAGAGU
.((((......(((((..((((.((..((((((.((..((((((......)))))).(((((((....))))))))).)))))).)).))))..)))------))....---....)))) ( -40.14)
>DroPer_CAF1 49 117 - 1
GGCUCUCUGCCCAUUUGGCUAUAUACGAUCAUAUGCUCGGUGACUUGUUUACUACCCGAUUUCACAAUGAAGGUCGUUAAGGAUAUGCUCAGGCAACCAAUGCCGCCAU---CCGACAUA
(((.....)))....((((.......((.(((((.((..(((((((........................)))))))..)).))))).)).((((.....)))))))).---........ ( -29.16)
>consensus
AGCUCACUUCCCAUCUGGCUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCAUCAAGGUCGUUAAUGAUAUGUACAGGAAAG______UGCCAC___CCAAGAGC
.((((.....((....))((((.((..((((((.((..((((((......)))))).(((((((....))))))))).)))))).)).))))........................)))) (-23.32 = -24.52 +   1.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,233,881 – 16,234,001
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.56
Mean single sequence MFE -37.37
Consensus MFE -24.62
Energy contribution -24.18
Covariance contribution -0.44
Combinations/Pair 1.52
Mean z-score -1.81
Structure conservation index 0.66
SVM decision value 0.91
SVM RNA-class probability 0.879810
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16233881 120 - 22224390
CACCAGUGGCGAGCUGUACGAUGUCUACAAUCAGUUCCUCAGCUCACUUCCCAUCUGGUUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCAUCAAGGUCGUUAA
.((((((((.((((((.(((((.......))).))....)))))).....))).)))))...................((..(((....)))..))((((((((....)))))))).... ( -37.20)
>DroPse_CAF1 86 120 - 1
UACUAGCUCGGAGCUCUACUUGGUCUACAAUCUGCUCCUGGGCUCUCUGCCCAUUUGGCUAUAUACGAUCAUAUGCUCGGUGACUUGUUUACUACCCGAUUUCACAAUGAAGGUCGUUAA
...(((((.(((((.....(((.....)))...)))))(((((.....)))))...)))))...((((((......((((...............)))).(((.....)))))))))... ( -31.56)
>DroSim_CAF1 83 120 - 1
CCCCAGUGGUGAGCUGUACGAUGUCUACAACCAGUUCCUCAGCUCACUUCCCAUCUGGCUGUUCACGAUCAUUUGCUCGGUGGCAUGUCUGCUGCCCGACUUUGUCCUCAAGGUCGUUAA
..((((.(((((((((...((...((......)).))..)))))))))......))))....................((..(((....)))..))((((((((....)))))))).... ( -37.00)
>DroEre_CAF1 74 120 - 1
CACCAGCAGCGAGCUCCACGACGUCUACAACCAGUUCCUCAGCUCGCUUCCCAUCUGGCUGUUCACGAUAAUUUGCUCGGCAGCCUGCCUGCUGCCCGACUUGGUCACCAGGGUCGUUAG
.....(((((((((.......(((..(((.((((......((....))......)))).)))..))).......))))(((.....))).))))).((((((((...))).))))).... ( -37.34)
>DroYak_CAF1 209 120 - 1
CGCCAGUGGCGAGCUGUACGAUGUCUACAACCAGUUCCUCAGCUCGCUUCCCAUCUGGCUGUUCACCAUCAUUUGCUCGGCAGCUUGCCUGCUGCCCGACUUUGUUAUCAAGGUCGUUAA
.(((((.(((((((((...((...((......)).))..)))))))))......)))))...................((((((......))))))((((((((....)))))))).... ( -45.70)
>DroAna_CAF1 77 120 - 1
CAAAGGCGGGGAGCUCUAUGACGUCUAUAAUCAGUUCCUGGCUUCCCUACCCCUUUGGAUUUACACGAUCAUUUGCUCGGCGGCGUGCCUACUUCCAGACUUGGUUGUGAAGGUCAUUAG
((((((.((((((((....(((...........)))...))))))))....))))))(((((.((((((((....((.((.((........)).))))...)))))))).)))))..... ( -35.40)
>consensus
CACCAGCGGCGAGCUCUACGAUGUCUACAACCAGUUCCUCAGCUCACUUCCCAUCUGGCUGUUCACGAUCAUUUGCUCGGCGGCAUGCCUGCUGCCCGACUUUGUCAUCAAGGUCGUUAA
....((((((((((((...(((...........)))...)))))))))..((....))................))).((((((......))))))((((((........)))))).... (-24.62 = -24.18 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:36 2006