Locus 86

Sequence ID 3R_DroMel_CAF1
Location 526,275 – 526,399
Length 124
Max. P 0.990618
window146 window147

overview

Window 6

Location 526,275 – 526,372
Length 97
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 90.69
Mean single sequence MFE -13.38
Consensus MFE -12.41
Energy contribution -11.10
Covariance contribution -1.31
Combinations/Pair 1.25
Mean z-score -2.41
Structure conservation index 0.93
SVM decision value 2.22
SVM RNA-class probability 0.990618
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 526275 97 + 27905053
---CACAAAUAGAUUAUUAAUCAAAUGCCCGCACAUGCACCACCUUAUUGUGGUUAUCAAAAUACCAAUCAUAAGUAAUAAUCAAUGCACCACAAACAAU
---........((((((((...........((....)).....(((((..((((.........))))...)))))))))))))................. ( -14.10)
>DroSec_CAF1 3151 97 + 1
---CACAAAUAGGUUAUUAAUCAAAUGCCCGCACAUGUACCACCUUAUUGUGGUUAUCAAAACACCGAUCAUAAGUAAUAAUCAAUGAACCACAAACAAU
---........((((((((.....(((..((....((.(((((......)))))...))......))..)))...))))))))................. ( -12.40)
>DroSim_CAF1 2513 96 + 1
---CACAAAUAGGUUAUUAAUCAAAUGCCCGCACAUGUACCACCUUAUUGUGGUUAUCAAAACACCGAUCAUAAGUAAUAAUCAAUGA-CCACAAACAAU
---........(((((((.................((.(((((......)))))...)).......(((.((.....)).))))))))-))......... ( -13.30)
>DroEre_CAF1 3454 100 + 1
AAACACAAAUAGAUUAUUAGUCAAAUGCCCACACAAGCACCACUUUAUUGUGGUUAUCAAAAUACCAAUCAUAAAUAGUAAUCAAUGAAUCACAAACUAU
...........((((((((.......((........))(((((......))))).....................))))))))................. ( -13.70)
>consensus
___CACAAAUAGAUUAUUAAUCAAAUGCCCGCACAUGCACCACCUUAUUGUGGUUAUCAAAACACCAAUCAUAAGUAAUAAUCAAUGAACCACAAACAAU
...........((((((((......(((........)))....(((((..((((.........))))...)))))))))))))................. (-12.41 = -11.10 +  -1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 526,307 – 526,399
Length 92
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 82.87
Mean single sequence MFE -20.95
Consensus MFE -13.73
Energy contribution -14.23
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.66
SVM decision value 0.28
SVM RNA-class probability 0.664042
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 526307 92 - 27905053
AAUAUUUGUAU----CGUCUGCACAUUUUCGAUUGUUUGUGGUGCAUUGAUUAUUACUUAUGAUUGGUAUUUUGAUAACCACAAUAAGGUGGUGCA
......(((((----(..((..(((........)))(((((((..((..(....((((.......))))..)..)).)))))))..))..)))))) ( -20.80)
>DroSec_CAF1 3183 96 - 1
AAUAUAUGCAUCUGCCGUCUGCACAUUUUCGAUUGUUUGUGGUUCAUUGAUUAUUACUUAUGAUCGGUGUUUUGAUAACCACAAUAAGGUGGUACA
............((((..((..(((........)))((((((((((((((((((.....)))))))))).......))))))))..))..)))).. ( -23.41)
>DroSim_CAF1 2545 95 - 1
AAUAUAUGCAUCUGCCGUCUGCACAUUUUCGAUUGUUUGUGG-UCAUUGAUUAUUACUUAUGAUCGGUGUUUUGAUAACCACAAUAAGGUGGUACA
............((((..((..(((........)))((((((-(((((((((((.....))))))))))........)))))))..))..)))).. ( -22.40)
>DroEre_CAF1 3489 80 - 1
----------------GUCUGCACACUUUAGAUAGUUUGUGAUUCAUUGAUUACUAUUUAUGAUUGGUAUUUUGAUAACCACAAUAAAGUGGUGCU
----------------....((((((((((......(((((.((.((..(.(((((........)))))..)..)))).))))))))))).)))). ( -17.20)
>consensus
AAUAUAUGCAU____CGUCUGCACAUUUUCGAUUGUUUGUGGUUCAUUGAUUAUUACUUAUGAUCGGUAUUUUGAUAACCACAAUAAGGUGGUACA
................(((..((((..(......)..))))...((((((((((.....))))))))))....))).(((((......)))))... (-13.73 = -14.23 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:42 2006