Locus 5675

Sequence ID 3R_DroMel_CAF1
Location 14,896,977 – 14,897,096
Length 119
Max. P 0.956612
window9275 window9276

overview

Window 5

Location 14,896,977 – 14,897,070
Length 93
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 83.83
Mean single sequence MFE -19.37
Consensus MFE -13.59
Energy contribution -13.70
Covariance contribution 0.11
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.587090
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14896977 93 + 27905053
-----------GAUGGCAAUGAACUU-----AUAUUCGUUUAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUACACUUCAUGAGCAAUCAGAAACA
-----------(((.((.(((((...-----.......(((((..-(((.--......)))..)))))..(((..((........))..))))))))..)).)))....... ( -14.30)
>DroSec_CAF1 24565 93 + 1
-----------GAUGGCAAUGAACUU-----AACUUCGUUUAACA-AUCU--ACUUUUGAUAAUUAAAUUGUGCGCAUAAAUUAUUGUGCACUUCAUGAGCAAUCAGAAACA
-----------(((.((.(((((...-----......((((((..-(((.--......)))..)))))).(((((((........))))))))))))..)).)))....... ( -20.50)
>DroSim_CAF1 24435 98 + 1
-----------GAUGGCAAUGAACUUAACUUAACUUCGUUUAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCAUGAGCAAUCAGAAACA
-----------(((.((.(((((...............(((((..-(((.--......)))..)))))..(((((((........))))))))))))..)).)))....... ( -19.70)
>DroEre_CAF1 24064 93 + 1
-----------GGUGGCAAUGAACUU-----AACUUCAUUUAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCGUAAGCAAUCAGAAACA
-----------.((...((((((...-----...))))))..)).-....--..(((((((..(((....(((((((........)))))))....)))...)))))))... ( -19.90)
>DroYak_CAF1 30602 93 + 1
-----------GGUGGCAAUGAACUU-----AACUUCAUUUAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCGUAAGCAAUCAGAAGCA
-----------.((...((((((...-----...))))))..)).-....--.((((((((..(((....(((((((........)))))))....)))...)))))))).. ( -22.50)
>DroAna_CAF1 23371 105 + 1
AGUCACUGCCGAAUGGCAUUGAACCU-----AACGUAGCCCCACAAAUCUGCACUCUUGAUUAUUAAAUUGUGCGCAUAAAUUACUGUGCACUUCAUAAACAAACAAAAA--
..(((.((((....)))).)))....-----...((((..........))))....(((.((((......(((((((........)))))))...)))).))).......-- ( -19.30)
>consensus
___________GAUGGCAAUGAACUU_____AACUUCGUUUAACA_AUCU__ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCAUAAGCAAUCAGAAACA
......................................................(((((((..(((....(((((((........)))))))....)))...)))))))... (-13.59 = -13.70 +   0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,897,001 – 14,897,096
Length 95
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -18.42
Consensus MFE -13.99
Energy contribution -14.10
Covariance contribution 0.11
Combinations/Pair 1.11
Mean z-score -2.65
Structure conservation index 0.76
SVM decision value 1.47
SVM RNA-class probability 0.956612
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14897001 95 + 27905053
UAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUACACUUCAUGAGCAAUCAGAAACAGAAACAAA--------------GUGCAAACGCUCCACAUA
.....-.(((--..(((((((..(((....(((..((........))..)))....)))...)))))))..))).....(--------------(((....))))....... ( -13.50)
>DroSec_CAF1 24589 95 + 1
UAACA-AUCU--ACUUUUGAUAAUUAAAUUGUGCGCAUAAAUUAUUGUGCACUUCAUGAGCAAUCAGAAACAGAAACAAA--------------GUGCAAACGCUCCACAUA
.....-.(((--..(((((((..(((....(((((((........)))))))....)))...)))))))..))).....(--------------(((....))))....... ( -18.90)
>DroSim_CAF1 24464 95 + 1
UAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCAUGAGCAAUCAGAAACAGAAACAAA--------------GUGCAAACGCUCCACAGA
.....-.(((--..(((((((..(((....(((((((........)))))))....)))...)))))))..))).....(--------------(((....))))....... ( -18.90)
>DroEre_CAF1 24088 109 + 1
UAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCGUAAGCAAUCAGAAACAAAACAAAACAGUAAAAACACCACGGCAAACGCUCCACAUA
.....-....--..(((((((..(((....(((((((........)))))))....)))...)))))))..........................(((....)))....... ( -17.70)
>DroYak_CAF1 30626 109 + 1
UAACA-AUCU--ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCGUAAGCAAUCAGAAGCAGAAACAAAAAGUAAAAACAUCACUGCAAACGCUCCACAUA
.....-.(((--.((((((((..(((....(((((((........)))))))....)))...)))))))).)))......................((....))........ ( -22.60)
>DroAna_CAF1 23406 96 + 1
CCACAAAUCUGCACUCUUGAUUAUUAAAUUGUGCGCAUAAAUUACUGUGCACUUCAUAAACAAACAAAAA-----------AGUG-----GCCACUGCCGCCGCUCCAUAUA
..........((....(((.((((......(((((((........)))))))...)))).))).......-----------.(((-----((....))))).))........ ( -18.90)
>consensus
UAACA_AUCU__ACUUUUGAUAAUUAAAAUGUGCGCAUAAAUUAUUGUGCACUUCAUAAGCAAUCAGAAACAGAAACAAA______________CUGCAAACGCUCCACAUA
..............(((((((..(((....(((((((........)))))))....)))...)))))))...........................((....))........ (-13.99 = -14.10 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:25 2006