Locus 5106

Sequence ID 3L_DroMel_CAF1
Location 14,014,220 – 14,014,319
Length 99
Max. P 0.661086
window8089 window8090

overview

Window 9

Location 14,014,220 – 14,014,319
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.66
Mean single sequence MFE -26.70
Consensus MFE -19.27
Energy contribution -19.05
Covariance contribution -0.22
Combinations/Pair 1.30
Mean z-score -1.09
Structure conservation index 0.72
SVM decision value 0.27
SVM RNA-class probability 0.661086
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14014220 99 + 23771897
UGGCCACGUCCAAGUUUUGAACAACCUGUUGCAGUGGUUGCUGCAGCGGAGAAUCCAAAAGCUGUGUACAAA----GAAAACGAGUUUUUGUUUACCUAUUCA--
(((......)))((((((......(((((((((((....)))))))))).)......))))))(((.(((((----((.......))))))).))).......-- ( -24.10)
>DroSec_CAF1 11326 103 + 1
UGGCCACGUCCAAGUUUUGAACAACCUGCUGCAGCGGUUGCUGCAGCGGAGAAUCCAAAGGCUGUGUAAAAAAAAAAAAAACGAUUUUCAAUUUAACUAUUCA--
.((((..((.((.....)).))...((((((((((....))))))))))..........))))........................................-- ( -25.40)
>DroSim_CAF1 11865 99 + 1
UGGCCACGUCCAAGUUUUGAACAACCUGCUGCAGCGGUUGCUGCAGCGGAGAAUCCAAAGGCUGUGUACAAA----GAAAACGAUUUUCGAUUUAACUAUUCA--
((..((((.((..((.....))...((((((((((....))))))))))..........)).))))..))..----((((.....))))..............-- ( -27.00)
>DroEre_CAF1 11061 95 + 1
UGGCCACGUCCAAGUUCUGAACAACCUGUUGCAGUGGUUGCUGCAGCGGUGAAUCCAAAAGCUGUGUAU----------UUCGAUUUUAGGUUUAAGCAUGCAAU
(((......))).(((.(((((.(((.((((((((....)))))))))))(((((.(((.((...)).)----------)).)))))...))))))))....... ( -21.70)
>DroYak_CAF1 11231 101 + 1
UGGCCACGUCCAAGUUCUGAACAACCUGUUGCAGCGGUUGCUGUAGCGGUGAAUCCAAGAGCUGUGUAUAAG----GAAAUCGAUUUUAGGUUUAAGCAUGCAAA
(((......)))((((((.....(((.((((((((....))))))))))).......)))))).(((((...----.(((((.......)))))....))))).. ( -27.50)
>DroMoj_CAF1 11963 93 + 1
UGGGCACAUCCAAAUUCUGGAUGACCUGCUGCAGCGGCUGCUGCAAGGGCGAGUCCAGCAGCUGCUGAAAGA----AU-A--GA-U--CGCUUUAGGCAUUUA--
..((((((((((.....))))))...)))).(((((((((((....(((....)))))))))))))).....----.(-(--((-(--.((.....)))))))-- ( -34.50)
>consensus
UGGCCACGUCCAAGUUCUGAACAACCUGCUGCAGCGGUUGCUGCAGCGGAGAAUCCAAAAGCUGUGUAAAAA____GAAAACGAUUUUCGGUUUAACCAUUCA__
(((......)))((((((......(((((((((((....)))))))))).)......)))))).......................................... (-19.27 = -19.05 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,014,220 – 14,014,319
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 77.66
Mean single sequence MFE -25.11
Consensus MFE -16.24
Energy contribution -16.52
Covariance contribution 0.28
Combinations/Pair 1.25
Mean z-score -1.25
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.562003
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14014220 99 - 23771897
--UGAAUAGGUAAACAAAAACUCGUUUUC----UUUGUACACAGCUUUUGGAUUCUCCGCUGCAGCAACCACUGCAACAGGUUGUUCAAAACUUGGACGUGGCCA
--......(((((((........))))..----...((...(((.((((((((...((..(((((......)))))...))..)))))))).))).))...))). ( -21.30)
>DroSec_CAF1 11326 103 - 1
--UGAAUAGUUAAAUUGAAAAUCGUUUUUUUUUUUUUUACACAGCCUUUGGAUUCUCCGCUGCAGCAACCGCUGCAGCAGGUUGUUCAAAACUUGGACGUGGCCA
--........((((..(((((.......)))))..))))((((((((..((.....))((((((((....)))))))))))))(((((.....)))))))).... ( -31.00)
>DroSim_CAF1 11865 99 - 1
--UGAAUAGUUAAAUCGAAAAUCGUUUUC----UUUGUACACAGCCUUUGGAUUCUCCGCUGCAGCAACCGCUGCAGCAGGUUGUUCAAAACUUGGACGUGGCCA
--......((((..((((((.....))))----((((...(((((((..((.....))((((((((....))))))))))))))).)))).....))..)))).. ( -31.30)
>DroEre_CAF1 11061 95 - 1
AUUGCAUGCUUAAACCUAAAAUCGAA----------AUACACAGCUUUUGGAUUCACCGCUGCAGCAACCACUGCAACAGGUUGUUCAGAACUUGGACGUGGCCA
..........................----------.(((.(((.((((((((..(((..(((((......)))))...))).)))))))).)))...))).... ( -18.10)
>DroYak_CAF1 11231 101 - 1
UUUGCAUGCUUAAACCUAAAAUCGAUUUC----CUUAUACACAGCUCUUGGAUUCACCGCUACAGCAACCGCUGCAACAGGUUGUUCAGAACUUGGACGUGGCCA
.(((((.((..............((..((----(...............))).))...((....))....)))))))..((((((((((...)))))))..))). ( -18.06)
>DroMoj_CAF1 11963 93 - 1
--UAAAUGCCUAAAGCG--A-UC--U-AU----UCUUUCAGCAGCUGCUGGACUCGCCCUUGCAGCAGCCGCUGCAGCAGGUCAUCCAGAAUUUGGAUGUGCCCA
--....(((.....(((--(-..--.-..----...((((((....)))))).))))...((((((....)))))))))((((((((((...))))))).))).. ( -30.90)
>consensus
__UGAAUACUUAAACCGAAAAUCGUUUUC____UUUAUACACAGCUUUUGGAUUCUCCGCUGCAGCAACCGCUGCAACAGGUUGUUCAAAACUUGGACGUGGCCA
.......................................(((..(((((((((...((..((((((....))))))...))..)))))))....))..))).... (-16.24 = -16.52 +   0.28)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:08 2006