Locus 8256

Sequence ID X_DroMel_CAF1
Location 20,509,119 – 20,509,231
Length 112
Max. P 0.936641
window13559 window13560

overview

Window 9

Location 20,509,119 – 20,509,216
Length 97
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 94.47
Mean single sequence MFE -33.00
Consensus MFE -27.54
Energy contribution -27.94
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.83
SVM decision value 1.25
SVM RNA-class probability 0.936641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20509119 97 - 22224390
CCUGCGACCUUGACCAAUCGCUGGCAAGGUCGGGCGGCAGCG-UACGACCUUGAACGGCCCACACAAACCAAAUGGACCAAGGUGUUGACCAGCAAAA
.(.((.((((((.......((((.((((((((..((....))-..))))))))..)))).........((....))..)))))))).).......... ( -31.40)
>DroSec_CAF1 77232 97 - 1
CCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG-GACGACCUUGAAAGGGCCACACUAACCAAAUGGACCAAGGUGUUGACCAGCAAAA
(((((((..........)))))))((((((((..((....))-..))))))))...((.(.(((((..((....)).....))))).).))....... ( -32.90)
>DroSim_CAF1 101087 97 - 1
CCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG-GACGACCUUGAAAGGCCCACACUAACCAAAUGGACCAAGGUGUUGACCAGCAAAA
(((((((..........)))))))((((((((..((....))-..))))))))...((.(.(((((..((....)).....))))).).))....... ( -32.90)
>DroEre_CAF1 76026 97 - 1
CCUGCGACCUUGACCAAUCGAAGGCAAGGUCGGGCGGCAGAGGGACGACCUUGA-CGGCCCACACAAACCAAAUGGACCAAGGUGUUGACCAGCAAAA
..((((((((((.((.......)))))))))((((.(..((((.....))))..-).)))).......((....)).....(((....))).)))... ( -35.60)
>DroYak_CAF1 78282 97 - 1
CCUGCGACCUUGACCAAUCGAAGGCAAGGUCGGGCGGCAGCGGGACGACCUUGA-CGGCCCACACAAACCAAAUGAACCAAGGUGUUGACCAGCGAAA
..((((((((((.((.......)))))))))((((.((((.((.....))))).-).))))....................(((....))).)))... ( -32.20)
>consensus
CCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG_GACGACCUUGAACGGCCCACACAAACCAAAUGGACCAAGGUGUUGACCAGCAAAA
....((((((((.((.......)))))))))).((((((((......((((((...(.....).....((....))..)))))))))).)).)).... (-27.54 = -27.94 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,509,139 – 20,509,231
Length 92
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 94.60
Mean single sequence MFE -30.46
Consensus MFE -25.46
Energy contribution -25.86
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.84
SVM decision value 0.98
SVM RNA-class probability 0.894933
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20509139 92 - 22224390
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGCUGGCAAGGUCGGGCGGCAGCG-UACGACCUUGAACGGCCCACACAAACCAAAUGGAC
...(((..((((((........))))))......((((.((((((((..((....))-..))))))))..))))..............))).. ( -31.10)
>DroSec_CAF1 77252 92 - 1
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG-GACGACCUUGAAAGGGCCACACUAACCAAAUGGAC
...(((.........(((((((..........)))))))((((((((..((....))-..))))))))...((..........))...))).. ( -29.70)
>DroSim_CAF1 101107 92 - 1
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG-GACGACCUUGAAAGGCCCACACUAACCAAAUGGAC
............((.(((((((..........)))))))((((((((..((....))-..))))))))......)).......((....)).. ( -29.10)
>DroEre_CAF1 76046 92 - 1
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGAAGGCAAGGUCGGGCGGCAGAGGGACGACCUUGA-CGGCCCACACAAACCAAAUGGAC
...(((..............(((((((.((.......)))))))))((((.(..((((.....))))..-).))))............))).. ( -32.60)
>DroYak_CAF1 78302 92 - 1
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGAAGGCAAGGUCGGGCGGCAGCGGGACGACCUUGA-CGGCCCACACAAACCAAAUGAAC
............((......(((((((.((.......)))))))))((((.((((.((.....))))).-).)))).......))........ ( -29.80)
>consensus
UCACCAAAUCGAGGACCUGCGACCUUGACCAAUCGCAGGCAAGGUCGGGCGGCAGCG_GACGACCUUGAACGGCCCACACAAACCAAAUGGAC
...(((..((((((.....((((((((.((.......)))))))))).((....)).......))))))..((..........))...))).. (-25.46 = -25.86 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:30 2006