Locus 4012

Sequence ID 3L_DroMel_CAF1
Location 11,712,823 – 11,712,944
Length 121
Max. P 0.910039
window6250 window6251

overview

Window 0

Location 11,712,823 – 11,712,923
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -22.73
Consensus MFE -21.45
Energy contribution -21.57
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -0.49
Structure conservation index 0.94
SVM decision value 0.68
SVM RNA-class probability 0.819624
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11712823 100 + 23771897
UCUCCGCCUCCUUUGAGGUCCUUGCCACACACCACCACCCCCUCCCCCCCCUGCGCUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCA
.....(((((....)))))....((((.........................(((.((...)).)))..((((((((.......))))).)))))))... ( -21.60)
>DroSec_CAF1 26045 79 + 1
UCGCCGCCUCCUUUGAGGUCCUUGCCACAACC---------------------CGGUGCCCCACCGCUUGGUACGUGUAUGCGUCACGUCGCCUGGUUCA
.....(((((....)))))....((((.....---------------------(((((...)))))...((((((((.......))))).)))))))... ( -22.30)
>DroSim_CAF1 21975 79 + 1
UCGCCGCCUCCUUUGAGGUCCUUGCCACACCC---------------------CGGUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCA
.....(((((....)))))....((((.....---------------------(((((...)))))...((((((((.......))))).)))))))... ( -24.30)
>consensus
UCGCCGCCUCCUUUGAGGUCCUUGCCACACCC_____________________CGGUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCA
.....(((((....)))))....((((..........................(((((...)))))...((((((((.......))))).)))))))... (-21.45 = -21.57 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,712,846 – 11,712,944
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -21.90
Consensus MFE -20.55
Energy contribution -20.67
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -0.88
Structure conservation index 0.94
SVM decision value 1.07
SVM RNA-class probability 0.910039
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11712846 98 + 23771897
GCCACACACCACCACCCCCUCCCCCCCCUGCGCUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCAUCACCAGGACCUCCUGCCCAC
..........((((...............(((.((...)).)))..((((((((.......))))).))))))).......((((....))))..... ( -20.70)
>DroSec_CAF1 26068 77 + 1
GCCACAACC---------------------CGGUGCCCCACCGCUUGGUACGUGUAUGCGUCACGUCGCCUGGUUCAUCACCAGGACCUCCUGCCCAA
((((.....---------------------(((((...)))))...((((((((.......))))).))))))).......((((....))))..... ( -21.40)
>DroSim_CAF1 21998 77 + 1
GCCACACCC---------------------CGGUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCAUCACCAGGACCUCCUGCCCAA
((((.....---------------------(((((...)))))..))))(((((.......)))))..((((((.....))))))............. ( -23.60)
>consensus
GCCACACCC_____________________CGGUGCCCCACCGCUUGGCACGUGUAUGCGUCACGUCGCCUGGUUCAUCACCAGGACCUCCUGCCCAA
((((..........................(((((...)))))...((((((((.......))))).))))))).......((((....))))..... (-20.55 = -20.67 +   0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:23 2006