Locus 2944

Sequence ID 2L_DroMel_CAF1
Location 8,445,683 – 8,445,799
Length 116
Max. P 0.999218
window4672 window4673

overview

Window 2

Location 8,445,683 – 8,445,799
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.11
Mean single sequence MFE -32.42
Consensus MFE -24.39
Energy contribution -25.55
Covariance contribution 1.16
Combinations/Pair 1.07
Mean z-score -3.74
Structure conservation index 0.75
SVM decision value 3.44
SVM RNA-class probability 0.999218
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8445683 116 + 22407834
UUGGGCAAGUCUU--UUUUCGUGGUGGUACAGAAAUCUCCUUCCAUCAAAUUCUAACCAAAAG-UUUU-UAUGAAUUUUGUAGAAAGCGAUUUUUCUACCACCAAUGAAAAUGGAAAUUU
.........(((.--((((((((((((((.(((((((.(.(((.((.((((((.(((.....)-))..-...)))))).)).))).).))))))).))))))).))))))).)))..... ( -31.60)
>DroSec_CAF1 5356 118 + 1
UUGGGAAAGUCUUAUUUUUGGUGGUGGUACAGAAAUCUCCUUCCAUCAAAUUCUAACAAAAAG-UUUG-UAUGAAUUUGGUAGAAAGCGAUUUUUAUACCACCAAUGAAAAUUGAAAAUU
.........((..((((((..((((((((.(((((((.(.(((.(((((((((..((((....-.)))-)..))))))))).))).).))))))).))))))))..)))))).))..... ( -36.20)
>DroSim_CAF1 4911 118 + 1
UUGGGCAAGUCUUAUUUUUGGUGGUGGUACAGAAAUCUCCUUCCAUCAAAUUCUAACCACAAG-UUUG-UAUGAAUUUGGUAGAAAGCGAUUUUUAUACCACCAAUGAAAAUUGAAAAUU
.........((..((((((..((((((((.(((((((.(.(((.(((((((((.....(((..-..))-)..))))))))).))).).))))))).))))))))..)))))).))..... ( -33.80)
>DroEre_CAF1 5006 114 + 1
GUGGCAAAAUCCUACU--UCAUGGUGGUACAGAAAUCUCCUUCCACCAAAUUCUAACCGAAAG-CGUG-UAUGA--UUGUUAGAAAGAGAUUUUUCUACUACCAAUGAUUGUUAUAAUGU
(((((((.........--(((((((((((.(((((((((.(((...(((......(((....)-.)).-.....--)))...))).))))))))).))))))).)))))))))))..... ( -30.30)
>DroYak_CAF1 4765 118 + 1
GUGGGAAAAUCUAAUU--UUGUGGUUGUACAGUAAUCUCCUUCCACCAAAAUCGAACAGAAUAUUAUGUUAUGAAUUUGGUAGAAAGAGAUUUUUCUACUACCAAGGAUUGUUACAAUAA
((((...(((((....--...((((.(((.((.((((((.(((.((((((.(((((((........)))).))).)))))).))).)))))).)).))).)))).))))).))))..... ( -30.20)
>consensus
UUGGGAAAGUCUUAUUUUUCGUGGUGGUACAGAAAUCUCCUUCCAUCAAAUUCUAACCAAAAG_UUUG_UAUGAAUUUGGUAGAAAGCGAUUUUUCUACCACCAAUGAAAAUUGAAAUUU
.....................((((((((.(((((((.(.(((.(((((((((...................))))))))).))).).))))))).))))))))................ (-24.39 = -25.55 +   1.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 8,445,683 – 8,445,799
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.11
Mean single sequence MFE -33.86
Consensus MFE -25.13
Energy contribution -26.53
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -5.02
Structure conservation index 0.74
SVM decision value 3.37
SVM RNA-class probability 0.999101
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8445683 116 - 22407834
AAAUUUCCAUUUUCAUUGGUGGUAGAAAAAUCGCUUUCUACAAAAUUCAUA-AAAA-CUUUUGGUUAGAAUUUGAUGGAAGGAGAUUUCUGUACCACCACGAAAA--AAGACUUGCCCAA
.....((..(((((..((((((((.(.(((((.(((((((..((((((.((-(...-(....).)))))))))..))))))).))))).).)))))))).)))))--..))......... ( -32.90)
>DroSec_CAF1 5356 118 - 1
AAUUUUCAAUUUUCAUUGGUGGUAUAAAAAUCGCUUUCUACCAAAUUCAUA-CAAA-CUUUUUGUUAGAAUUUGAUGGAAGGAGAUUUCUGUACCACCACCAAAAAUAAGACUUUCCCAA
........(((((...((((((((((.(((((.(((((((.(((((((..(-(((.-....))))..))))))).))))))).))))).))))))))))...)))))............. ( -37.50)
>DroSim_CAF1 4911 118 - 1
AAUUUUCAAUUUUCAUUGGUGGUAUAAAAAUCGCUUUCUACCAAAUUCAUA-CAAA-CUUGUGGUUAGAAUUUGAUGGAAGGAGAUUUCUGUACCACCACCAAAAAUAAGACUUGCCCAA
........(((((...((((((((((.(((((.(((((((.(((((((.((-((..-..))))....))))))).))))))).))))).))))))))))...)))))............. ( -36.90)
>DroEre_CAF1 5006 114 - 1
ACAUUAUAACAAUCAUUGGUAGUAGAAAAAUCUCUUUCUAACAA--UCAUA-CACG-CUUUCGGUUAGAAUUUGGUGGAAGGAGAUUUCUGUACCACCAUGA--AGUAGGAUUUUGCCAC
............((((.(((.(((.(.(((((((((((((.(((--...((-..((-....))..))....))).))))))))))))).).))).)))))))--....((......)).. ( -28.50)
>DroYak_CAF1 4765 118 - 1
UUAUUGUAACAAUCCUUGGUAGUAGAAAAAUCUCUUUCUACCAAAUUCAUAACAUAAUAUUCUGUUCGAUUUUGGUGGAAGGAGAUUACUGUACAACCACAA--AAUUAGAUUUUCCCAC
................((((.(((.(..(((((((((((((((((.((..((((........)))).)).)))))))))))))))))..).))).))))...--................ ( -33.50)
>consensus
AAAUUUCAAUUUUCAUUGGUGGUAGAAAAAUCGCUUUCUACCAAAUUCAUA_CAAA_CUUUUGGUUAGAAUUUGAUGGAAGGAGAUUUCUGUACCACCACCAAAAAUAAGACUUUCCCAA
................((((((((.(.(((((.(((((((.(((((((...................))))))).))))))).))))).).))))))))..................... (-25.13 = -26.53 +   1.40)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:11 2006