Locus 1795

Sequence ID 2R_DroMel_CAF1
Location 6,715,191 – 6,715,284
Length 93
Max. P 0.613206
window2982 window2983

overview

Window 2

Location 6,715,191 – 6,715,284
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 83.32
Mean single sequence MFE -27.17
Consensus MFE -17.68
Energy contribution -18.47
Covariance contribution 0.78
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value -0.01
SVM RNA-class probability 0.530064
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6715191 93 + 20766785
AUGCAACUUAAGGUGGAAAUCCACUUAAGACUGCACCACGGGGCGUUCAGCCGAAAUCGCUGUUGCUGUUGCUGUUCCUGCUGCCACAGUGGA
.((((.((((((.(((....)))))))))..))))((((..(((((.((((...(((.((....)).))))))).....)).)))...)))). ( -31.00)
>DroSec_CAF1 63577 87 + 1
AUGCAACUUAAGGUGGAAAUCCACUUAAGACUGCACCACGGGGCGUUCAGCCGAAAUCGCUGUU------GCUGUUCCUGCUGCCACAGUGUA
.((((.((((((.(((....)))))))))..))))......(((.....))).....((((((.------((.((....)).)).)))))).. ( -28.10)
>DroSim_CAF1 71314 87 + 1
AUGCAACUUAAGGUGGAAAUCCACUUAAGACUGCACCACGGGGCGUUCAGCCGAAAUCGCUGUU------GCUGUUCCUGCUGCCACAGUGGA
.((((.((((((.(((....)))))))))..))))......(((.....)))....(((((((.------((.((....)).)).))))))). ( -29.50)
>DroEre_CAF1 65859 85 + 1
AUGCAACUUAAGGUGGAAAUCCACUUAAGACUGCACCACGGGGCGUUCAGACGAAAUCGCUA--------UGUAUUCCUGCUGCCACAGUGGA
.((((.((((((.(((....)))))))))..))))((((..(((....((.((....)))).--------.(((....))).)))...)))). ( -25.90)
>DroYak_CAF1 64499 85 + 1
AUGCAACUUAAGGUGGAAAUCCACUUAAAACUGCACCACGGGGCGUUCAGACAAAAUACAUA--------GCUAUUCCUGCUGCCACAGUGGA
.((((..((.((((((....)))))).))..))))((((..(((((....)).........(--------((.......))))))...)))). ( -25.40)
>DroAna_CAF1 59179 78 + 1
AUGCAGAGAAAGGUGGAAAUCCACUUAAGACAGCACCACGGGGCGUUCGGAUGGAAUUGCCAU------------ACGA---GCUACAGUGAA
.(((......((((((....))))))......))).(((..(..(((((.((((.....))))------------.)))---))..).))).. ( -23.10)
>consensus
AUGCAACUUAAGGUGGAAAUCCACUUAAGACUGCACCACGGGGCGUUCAGACGAAAUCGCUAU_______GCUGUUCCUGCUGCCACAGUGGA
.((((.....((((((....)))))).....))))((((..(((....((.((....)))).........((.......)).)))...)))). (-17.68 = -18.47 +   0.78)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 6,715,191 – 6,715,284
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 83.32
Mean single sequence MFE -27.55
Consensus MFE -19.32
Energy contribution -20.18
Covariance contribution 0.87
Combinations/Pair 1.21
Mean z-score -1.93
Structure conservation index 0.70
SVM decision value 0.16
SVM RNA-class probability 0.613206
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6715191 93 - 20766785
UCCACUGUGGCAGCAGGAACAGCAACAGCAACAGCGAUUUCGGCUGAACGCCCCGUGGUGCAGUCUUAAGUGGAUUUCCACCUUAAGUUGCAU
.((((.(.(((..........((....))..((((.......))))...)))).))))(((((.(((((((((....))).))))))))))). ( -32.40)
>DroSec_CAF1 63577 87 - 1
UACACUGUGGCAGCAGGAACAGC------AACAGCGAUUUCGGCUGAACGCCCCGUGGUGCAGUCUUAAGUGGAUUUCCACCUUAAGUUGCAU
..(((.(.((((((.((((..((------....))..)))).)))....)))).)))((((((.(((((((((....))).)))))))))))) ( -30.90)
>DroSim_CAF1 71314 87 - 1
UCCACUGUGGCAGCAGGAACAGC------AACAGCGAUUUCGGCUGAACGCCCCGUGGUGCAGUCUUAAGUGGAUUUCCACCUUAAGUUGCAU
.((((.(.((((((.((((..((------....))..)))).)))....)))).))))(((((.(((((((((....))).))))))))))). ( -32.10)
>DroEre_CAF1 65859 85 - 1
UCCACUGUGGCAGCAGGAAUACA--------UAGCGAUUUCGUCUGAACGCCCCGUGGUGCAGUCUUAAGUGGAUUUCCACCUUAAGUUGCAU
.((((.(.(((..(((.......--------..(((....))))))...)))).))))(((((.(((((((((....))).))))))))))). ( -28.00)
>DroYak_CAF1 64499 85 - 1
UCCACUGUGGCAGCAGGAAUAGC--------UAUGUAUUUUGUCUGAACGCCCCGUGGUGCAGUUUUAAGUGGAUUUCCACCUUAAGUUGCAU
.((((.(.(((..((((((((..--------....)))))...)))...)))).))))((((..((...((((....))))...))..)))). ( -23.80)
>DroAna_CAF1 59179 78 - 1
UUCACUGUAGC---UCGU------------AUGGCAAUUCCAUCCGAACGCCCCGUGGUGCUGUCUUAAGUGGAUUUCCACCUUUCUCUGCAU
..(((.(..((---(((.------------((((.....)))).)))..))..))))((((........((((....))))........)))) ( -18.09)
>consensus
UCCACUGUGGCAGCAGGAACAGC_______ACAGCGAUUUCGGCUGAACGCCCCGUGGUGCAGUCUUAAGUGGAUUUCCACCUUAAGUUGCAU
.((((.(.(((.((.......))........((((.......))))...)))).))))(((((.(((((((((....))).))))))))))). (-19.32 = -20.18 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:20 2006