Locus 3737

Sequence ID 3R_DroMel_CAF1
Location 10,136,253 – 10,136,348
Length 95
Max. P 0.604692
window5988 window5989

overview

Window 8

Location 10,136,253 – 10,136,348
Length 95
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -34.30
Consensus MFE -24.42
Energy contribution -25.14
Covariance contribution 0.73
Combinations/Pair 1.15
Mean z-score -1.59
Structure conservation index 0.71
SVM decision value 0.13
SVM RNA-class probability 0.598486
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10136253 95 + 27905053
CAUCGGCAGAUGCGGCUGGAAAUGGCAGUGGAGCAGUGGAUG------------CAGAGCCCAAGCUCAACUAUUUCCAGAAACUGUGGCGCUAUCGCCACUAUCUG
......((((((...((((((((((.......(((.....))------------).((((....))))..)))))))))).....((((((....)))))))))))) ( -35.50)
>DroSec_CAF1 11805 95 + 1
CGUCGGUGGAUGCGGCUGGAAAUGGUAGUGGAGCUGUGGAUG------------CAGAGGCCAAGCUCAACUAUUUCCAGAAACUGUGGCGCUAUCGCCACUAUCUG
....(((((..(((((((((((((((....(((((.(((...------------......)))))))).)))))))))))...))))((((....)))).))))).. ( -36.00)
>DroSim_CAF1 11360 95 + 1
CGUCGGCGGAUGCGGCUGGAAAUGGCAAUGGAGCAGUGGAUG------------CAGAGGCCAAGCUCAACUAUUUCCAGAAACUAUGGCGCUAUCGCCACUAUCUG
....(((((..(((.((((((((((.....((((..(((...------------......))).))))..)))))))))).........)))..)))))........ ( -30.90)
>DroEre_CAF1 12154 95 + 1
CGUCGCCGGAUGCGACUGGAAAUGGCAAUGGAGCGGCGGAUG------------CGGAGCCCAAGCUCAACUAUUUCCAGAAACUGUGGCGCUAUCGCCACUAUCUG
.(((((.....)))))(((((((((.....(((((((.....------------....)))...))))..)))))))))......((((((....))))))...... ( -35.40)
>DroYak_CAF1 11842 107 + 1
CGUCGGCGGAUCCGACUGGAAAUGGCAACGGAGCAGCGGAUGCGGCUGCAGCUGCGGAGCCGAAGCUCAACUAUUUCCAGAAACUGUGGCGCUAUCGCCACUAUCUG
.(((((.....)))))(((((((((.....((((..(((.((((((....))))))...)))..))))..)))))))))......((((((....))))))...... ( -47.60)
>DroAna_CAF1 11690 89 + 1
CG---CAAGAUGCAGCUGGCAACGGGA-CGGACCAG--ACUC------------CAGAACCCAAGCUUAAUUACUUCCAGAAAUUAUGGCGCUAUCGCCACUAUCUG
.(---(.....))(((((....)(((.-.(((....--..))------------)....))).))))..........((((.....(((((....)))))...)))) ( -20.40)
>consensus
CGUCGGCGGAUGCGGCUGGAAAUGGCAAUGGAGCAGUGGAUG____________CAGAGCCCAAGCUCAACUAUUUCCAGAAACUGUGGCGCUAUCGCCACUAUCUG
......((((((...((((((((((.....((((..............................))))..)))))))))).....((((((....)))))))))))) (-24.42 = -25.14 +   0.73)

alignment

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secondary structure

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dotplot

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Window 9

Location 10,136,253 – 10,136,348
Length 95
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 82.49
Mean single sequence MFE -34.03
Consensus MFE -22.21
Energy contribution -22.52
Covariance contribution 0.31
Combinations/Pair 1.20
Mean z-score -1.89
Structure conservation index 0.65
SVM decision value 0.14
SVM RNA-class probability 0.604692
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10136253 95 - 27905053
CAGAUAGUGGCGAUAGCGCCACAGUUUCUGGAAAUAGUUGAGCUUGGGCUCUG------------CAUCCACUGCUCCACUGCCAUUUCCAGCCGCAUCUGCCGAUG
(((((.((((((....)))))).((..(((((((((((.((((.((((.....------------..))))..)))).)))...))))))))..)))))))...... ( -36.20)
>DroSec_CAF1 11805 95 - 1
CAGAUAGUGGCGAUAGCGCCACAGUUUCUGGAAAUAGUUGAGCUUGGCCUCUG------------CAUCCACAGCUCCACUACCAUUUCCAGCCGCAUCCACCGACG
..(((.((((((....)))))).((..(((((((((((.((((((((......------------...))).))))).))))...)))))))..)))))........ ( -32.50)
>DroSim_CAF1 11360 95 - 1
CAGAUAGUGGCGAUAGCGCCAUAGUUUCUGGAAAUAGUUGAGCUUGGCCUCUG------------CAUCCACUGCUCCAUUGCCAUUUCCAGCCGCAUCCGCCGACG
..(((.((((((....)))))).((..((((((((.((.((((.(((......------------...)))..))))....)).))))))))..)))))........ ( -27.90)
>DroEre_CAF1 12154 95 - 1
CAGAUAGUGGCGAUAGCGCCACAGUUUCUGGAAAUAGUUGAGCUUGGGCUCCG------------CAUCCGCCGCUCCAUUGCCAUUUCCAGUCGCAUCCGGCGACG
.((((.((((((....)))))).)))).(((((((.((.((((...(((....------------.....)))))))....)).)))))))(((((.....))))). ( -34.90)
>DroYak_CAF1 11842 107 - 1
CAGAUAGUGGCGAUAGCGCCACAGUUUCUGGAAAUAGUUGAGCUUCGGCUCCGCAGCUGCAGCCGCAUCCGCUGCUCCGUUGCCAUUUCCAGUCGGAUCCGCCGACG
.((((.((((((....)))))).)))).(((((((....((((....)))).(((((.(((((.......)))))...))))).)))))))(((((.....))))). ( -47.70)
>DroAna_CAF1 11690 89 - 1
CAGAUAGUGGCGAUAGCGCCAUAAUUUCUGGAAGUAAUUAAGCUUGGGUUCUG------------GAGU--CUGGUCCG-UCCCGUUGCCAGCUGCAUCUUG---CG
((((..((((((....))))))....))))...((((...((((((((...((------------((..--....))))-.)))).....)))).....)))---). ( -25.00)
>consensus
CAGAUAGUGGCGAUAGCGCCACAGUUUCUGGAAAUAGUUGAGCUUGGGCUCUG____________CAUCCACUGCUCCAUUGCCAUUUCCAGCCGCAUCCGCCGACG
..(((.((((((....)))))).((..((((((((....((((....))))......................((......)).))))))))..)))))........ (-22.21 = -22.52 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:48 2006