Locus 2393

Sequence ID 3R_DroMel_CAF1
Location 6,745,375 – 6,745,505
Length 130
Max. P 0.987719
window3867 window3868

overview

Window 7

Location 6,745,375 – 6,745,465
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 94.81
Mean single sequence MFE -24.86
Consensus MFE -24.81
Energy contribution -24.37
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.55
Structure conservation index 1.00
SVM decision value 2.09
SVM RNA-class probability 0.987719
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6745375 90 + 27905053
GCCGAACAAAAUGCCAUCCAUCAUACAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAG
((((......(((((..............)))))..((.....(((((.((((((((.......)))))))))))))....))))))... ( -24.34)
>DroSec_CAF1 10070 88 + 1
GCCAAACA--AUGCCAUCCAUCAUACAUGGGCAUACGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAG
((((....--(((((..............)))))..((.....(((((.((((((((.......)))))))))))))....))))))... ( -25.34)
>DroYak_CAF1 5756 90 + 1
GCCAAACAAAAUGCCAUCCAUCAUGCAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAACAGUCGGUUUAUGUGAAAUGCUGGCCAG
............((((.(..((((((((.(((....)))...))))..(((((((((.......))))))))).))))...).))))... ( -24.90)
>consensus
GCCAAACAAAAUGCCAUCCAUCAUACAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAG
((((......(((((..............)))))..((.....(((((.((((((((.......)))))))))))))....))))))... (-24.81 = -24.37 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 6,745,385 – 6,745,505
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.72
Mean single sequence MFE -30.43
Consensus MFE -28.56
Energy contribution -27.90
Covariance contribution -0.66
Combinations/Pair 1.10
Mean z-score -2.02
Structure conservation index 0.94
SVM decision value 0.79
SVM RNA-class probability 0.852271
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6745385 120 + 27905053
AUGCCAUCCAUCAUACAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAGGAAGCGUAUACAUUCCAUUGUUUCCCAUUUUACUGGAUUU
.....(((((......((((((....((.....(((((.((((((((.......)))))))))))))....))..))).(((((((............)))))))))).....))))).. ( -31.70)
>DroSec_CAF1 10078 120 + 1
AUGCCAUCCAUCAUACAUGGGCAUACGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAGGAAACGUAUACUUUCCAUUGUUUCCCAUUUUACUGAAUUU
..(((((((((.....))))).....((.....(((((.((((((((.......)))))))))))))....))))))..(((((((............)))))))............... ( -29.50)
>DroYak_CAF1 5766 119 + 1
AUGCCAUCCAUCAUGCAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAACAGUCGGUUUAUGUGAAAUGCUGGCCAGGAAGCGUCUACUUUCCAUUGUUUUCCAUUUUACUG-AUUU
.........(((((((((.(((....)))...))))).(((((((((.......))))))))).((((((((..(((..(((((.(....))))))...)))...))))))))))-)).. ( -30.10)
>consensus
AUGCCAUCCAUCAUACAUGGGCAUAUGCUAAAGUGCAUUAAACUGACAUCAGCAGUCGGUUUAUGUAAAAUGCUGGCCAGGAAGCGUAUACUUUCCAUUGUUUCCCAUUUUACUG_AUUU
..(((((((((.....))))).....((.....(((((.((((((((.......)))))))))))))....))))))..(((((((............)))))))............... (-28.56 = -27.90 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:20 2006