Locus 3224

Sequence ID 3L_DroMel_CAF1
Location 9,422,864 – 9,422,960
Length 96
Max. P 0.686736
window5020 window5021

overview

Window 0

Location 9,422,864 – 9,422,960
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 83.58
Mean single sequence MFE -32.51
Consensus MFE -21.73
Energy contribution -24.65
Covariance contribution 2.92
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.67
SVM decision value 0.32
SVM RNA-class probability 0.686736
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9422864 96 + 23771897
CCCUCAGCUGGUGGCCGCUCAGCAGCACACAAUCUCGCCUCAACACAUGGCUGCCGCUGCUGCCGCCGCAGCUGCAGCCGCAGCUCCACCCAGCAC
......((((((((..(((..((.((..........))..........((((((.(((((.......))))).))))))))))).))).))))).. ( -38.90)
>DroSec_CAF1 1928 84 + 1
UCCUCAGCUGGUGACCGCUCAGCAGCACACAAUCUCGCCUCAACACAUGGCUGCCGCUGCU------------GCAGCCGCAGCUCCACCCAGCAC
......(((((((...(((....)))......................((((((.((((..------------.)))).)))))).)).))))).. ( -26.50)
>DroSim_CAF1 531 96 + 1
UCCUCAGCUGGUGGCCGCUCAGCAGCACACAAUCUCGCCUCAACACAUGGCUGCCGCUGCUGCCGCCGCAGCUGCAGCCGCAGCUCCACCCAGCAC
......((((((((..(((..((.((..........))..........((((((.(((((.......))))).))))))))))).))).))))).. ( -38.90)
>DroEre_CAF1 1925 96 + 1
UCCUCAGAUGGUGGCCGCUCAGCAGCACACAAUCUCGCCCCAACACAUGGCUGCCGCUGCCGCCGCCGCUGCUGCAGCAUCAGCUCCAGCCAGCAC
.........((((((.((.(.(((((.((..................))))))).)..)).))))))(((((((.(((....))).))).)))).. ( -35.97)
>DroYak_CAF1 2232 96 + 1
UCCUCAGAUGGUGGCCGCUCAGCAGCACACAAUCUCGCCUCAACACAUGGCUGCCGCUGCCGCCGCCGCUGCUGCAGCAGCAGCUCCACCCAGCAC
.........((((((.((..(((.(((.........(((.........)))))).))))).))))))(((((....))))).(((......))).. ( -34.10)
>DroAna_CAF1 1979 81 + 1
UCCCCAACUGGUAGCCGCCCAGCAACACACAAUAUCGCCCCAGCACAUGGCUGCAGCCGCUGCC---------------GCUGCUCCAACAAGCUC
........(((.(((.((.((((.............((....))....(((....)))))))..---------------)).))))))........ ( -20.70)
>consensus
UCCUCAGCUGGUGGCCGCUCAGCAGCACACAAUCUCGCCUCAACACAUGGCUGCCGCUGCUGCCGCCGC_GCUGCAGCCGCAGCUCCACCCAGCAC
......((((((((..(((....)))......................((((((.(((((.((.......)).))))).))))))))).))))).. (-21.73 = -24.65 +   2.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,422,864 – 9,422,960
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 83.58
Mean single sequence MFE -41.32
Consensus MFE -32.57
Energy contribution -34.08
Covariance contribution 1.52
Combinations/Pair 1.19
Mean z-score -1.67
Structure conservation index 0.79
SVM decision value 0.19
SVM RNA-class probability 0.627677
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9422864 96 - 23771897
GUGCUGGGUGGAGCUGCGGCUGCAGCUGCGGCGGCAGCAGCGGCAGCCAUGUGUUGAGGCGAGAUUGUGUGCUGCUGAGCGGCCACCAGCUGAGGG
..(((((.(((.(((((.(((((....))))).)))))..((((((((((((.(((...))).).)))).))))))).....))))))))...... ( -46.90)
>DroSec_CAF1 1928 84 - 1
GUGCUGGGUGGAGCUGCGGCUGC------------AGCAGCGGCAGCCAUGUGUUGAGGCGAGAUUGUGUGCUGCUGAGCGGUCACCAGCUGAGGA
..(((((((......))((((((------------..((((((((..((..(((....)))....))..)))))))).)))))).)))))...... ( -33.80)
>DroSim_CAF1 531 96 - 1
GUGCUGGGUGGAGCUGCGGCUGCAGCUGCGGCGGCAGCAGCGGCAGCCAUGUGUUGAGGCGAGAUUGUGUGCUGCUGAGCGGCCACCAGCUGAGGA
..(((((.(((.(((((.(((((....))))).)))))..((((((((((((.(((...))).).)))).))))))).....))))))))...... ( -46.90)
>DroEre_CAF1 1925 96 - 1
GUGCUGGCUGGAGCUGAUGCUGCAGCAGCGGCGGCGGCAGCGGCAGCCAUGUGUUGGGGCGAGAUUGUGUGCUGCUGAGCGGCCACCAUCUGAGGA
..((((.(((.(((....))).)))))))(((.((..((((((((..((..(((....)))....))..)))))))).)).))).((......)). ( -44.30)
>DroYak_CAF1 2232 96 - 1
GUGCUGGGUGGAGCUGCUGCUGCAGCAGCGGCGGCGGCAGCGGCAGCCAUGUGUUGAGGCGAGAUUGUGUGCUGCUGAGCGGCCACCAUCUGAGGA
...((((((((.((((((((....))))))))(((.((..((((((((((((.(((...))).).)))).))))))).)).))).)))))).)).. ( -47.70)
>DroAna_CAF1 1979 81 - 1
GAGCUUGUUGGAGCAGC---------------GGCAGCGGCUGCAGCCAUGUGCUGGGGCGAUAUUGUGUGUUGCUGGGCGGCUACCAGUUGGGGA
...((..(((((((.((---------------..((((.(((.((((.....)))).)))(((((...))))))))).)).))).))))..))... ( -28.30)
>consensus
GUGCUGGGUGGAGCUGCGGCUGCAGC_GCGGCGGCAGCAGCGGCAGCCAUGUGUUGAGGCGAGAUUGUGUGCUGCUGAGCGGCCACCAGCUGAGGA
..(((((.(((.(((((.(((((....))))).)))))..((((((((((.(((....))).....))).))))))).....))))))))...... (-32.57 = -34.08 +   1.52)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:28 2006