Locus 4983

Sequence ID 3L_DroMel_CAF1
Location 13,744,113 – 13,744,205
Length 92
Max. P 0.700155
window7868 window7869

overview

Window 8

Location 13,744,113 – 13,744,205
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.99
Mean single sequence MFE -28.48
Consensus MFE -19.94
Energy contribution -20.08
Covariance contribution 0.14
Combinations/Pair 1.12
Mean z-score -1.60
Structure conservation index 0.70
SVM decision value 0.20
SVM RNA-class probability 0.631525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13744113 92 + 23771897
--UUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGCAGUCAUUACUUAUUGCUC-CCGAGCACACAAUGUCAGCCCAUA-------------------------UGGGUCGCCA
--......((((..((((((((.((((..........)))).)))))........((((.-...))))......))).((((...-------------------------.)))))))). ( -26.40)
>DroPse_CAF1 151947 119 + 1
AGCUCAGAGGCGUCGACUGGCCGCCGACAUUUACAAAUCAGCAGUCAUUAUUUAGGGGGCUCCGACCGGACGGAG-CAGCGCAGAACAGAACAGGGAUUGGACCCAAUCCUGCGAUGACU
.(((....((((((....)).))))((..........)))))(((((((.....(.(.((((((......)))))-)..).)...........(((((((....)))))))..))))))) ( -36.10)
>DroSec_CAF1 150870 92 + 1
--UUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGAAGUCAUUACUUAUUGCUC-CCGAGCACACAAUGUCAGCCCAUA-------------------------UGGGUCGCCA
--......((((..((((((((.((((..........)))).)))))........((((.-...))))......))).((((...-------------------------.)))))))). ( -26.40)
>DroSim_CAF1 162005 94 + 1
AGUUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGCAGUCAUUACUUAUUGCUC-CCGAGCACACAAUGUCAGCCCAUA-------------------------UGGGUCGCCA
........((((..((((((((.((((..........)))).)))))........((((.-...))))......))).((((...-------------------------.)))))))). ( -26.40)
>DroEre_CAF1 157763 94 + 1
AGUUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGCAGUCAUUACUUAUUGCUC-UCGAGCACACAAUGUCAGCCCAUA-------------------------UGGGGCGCCA
........(((...((((((((.((((..........)))).)))))........((((.-...))))......))).((((...-------------------------..))))))). ( -27.80)
>DroYak_CAF1 161918 94 + 1
AGUUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGCAGUCAUUACUUAUUGCUC-CCGAGCACACAAUGUCAGCCCAUA-------------------------UGGGGCGCCA
........(((...((((((((.((((..........)))).)))))........((((.-...))))......))).((((...-------------------------..))))))). ( -27.80)
>consensus
AGUUCAGAGGCGUCGACUGGCUACUGACAUUUACAAAUCAGCAGUCAUUACUUAUUGCUC_CCGAGCACACAAUGUCAGCCCAUA_________________________UGGGUCGCCA
........((((..((((((((.((((..........)))).))))).........((((...)))).......)))..((((...........................)))).)))). (-19.94 = -20.08 +   0.14)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,744,113 – 13,744,205
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.99
Mean single sequence MFE -32.18
Consensus MFE -24.12
Energy contribution -24.18
Covariance contribution 0.06
Combinations/Pair 1.19
Mean z-score -1.63
Structure conservation index 0.75
SVM decision value 0.35
SVM RNA-class probability 0.700155
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13744113 92 - 23771897
UGGCGACCCA-------------------------UAUGGGCUGACAUUGUGUGCUCGG-GAGCAAUAAGUAAUGACUGCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAA--
.((((.(((.-------------------------...))).(((((((...((((...-.))))...)))..((.((((((((........)))))))).)))))).))))......-- ( -30.30)
>DroPse_CAF1 151947 119 - 1
AGUCAUCGCAGGAUUGGGUCCAAUCCCUGUUCUGUUCUGCGCUG-CUCCGUCCGGUCGGAGCCCCCUAAAUAAUGACUGCUGAUUUGUAAAUGUCGGCGGCCAGUCGACGCCUCUGAGCU
((((((((((((((.(((......)))......))))))))..(-(((((......))))))..........))))))((((((........))))))((((((.........))).))) ( -41.00)
>DroSec_CAF1 150870 92 - 1
UGGCGACCCA-------------------------UAUGGGCUGACAUUGUGUGCUCGG-GAGCAAUAAGUAAUGACUUCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAA--
.((((.(((.-------------------------...)))((((((((......((((-(((((........)).)))))))......))))))))...........))))......-- ( -28.90)
>DroSim_CAF1 162005 94 - 1
UGGCGACCCA-------------------------UAUGGGCUGACAUUGUGUGCUCGG-GAGCAAUAAGUAAUGACUGCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAACU
.((((.(((.-------------------------...))).(((((((...((((...-.))))...)))..((.((((((((........)))))))).)))))).))))........ ( -30.30)
>DroEre_CAF1 157763 94 - 1
UGGCGCCCCA-------------------------UAUGGGCUGACAUUGUGUGCUCGA-GAGCAAUAAGUAAUGACUGCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAACU
.(((((((..-------------------------...))))(((((((...((((...-.))))...)))..((.((((((((........)))))))).))))))..)))........ ( -31.30)
>DroYak_CAF1 161918 94 - 1
UGGCGCCCCA-------------------------UAUGGGCUGACAUUGUGUGCUCGG-GAGCAAUAAGUAAUGACUGCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAACU
.(((((((..-------------------------...))))(((((((...((((...-.))))...)))..((.((((((((........)))))))).))))))..)))........ ( -31.30)
>consensus
UGGCGACCCA_________________________UAUGGGCUGACAUUGUGUGCUCGG_GAGCAAUAAGUAAUGACUGCUGAUUUGUAAAUGUCAGUAGCCAGUCGACGCCUCUGAACU
.((((.((((...........................)))).((((......(((((...)))))........((.((((((((........)))))))).)))))).))))........ (-24.12 = -24.18 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:38 2006