Locus 7893

Sequence ID 3L_DroMel_CAF1
Location 21,040,125 – 21,040,285
Length 160
Max. P 0.967979
window12847 window12848

overview

Window 7

Location 21,040,125 – 21,040,245
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.81
Mean single sequence MFE -35.55
Consensus MFE -34.64
Energy contribution -34.70
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.36
Structure conservation index 0.97
SVM decision value 1.62
SVM RNA-class probability 0.967979
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21040125 120 - 23771897
UUGCGAUUUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCACCGCAGCCGGCGAAAGAGUUGGAUAUACAGGUAAAAGAAA
.(((((((((((((((((.((((((.......)))))).)))))))))))...))))))....(((((((.......)).......(((((......))))).......)))))...... ( -34.60)
>DroSec_CAF1 95358 120 - 1
UUGCAAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCAUCGCAGCCGGCGAAAGAGUUGGAUAUACAGGUAAAAGAAA
..((((.(((((((((((.((((((.......)))))).))))))))))).))))........(((((((.......))(((.((((...(....).))))))).....)))))...... ( -33.50)
>DroSim_CAF1 1590 120 - 1
UUGCGAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCAUCGCAGCCGGCGAAAGAGUUGGAUACACAGGUAAAAGAAA
.(((((((((((((((((.((((((.......)))))).)))))))))))...))))))....(((((((.......))(((.((((...(....).))))))).....)))))...... ( -37.50)
>DroEre_CAF1 17411 116 - 1
UUGCGAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCA---CAGCCGGCGAAAGAGUUGGAUAUACAGGUAA-AGAAA
.(((((((((((((((((.((((((.......)))))).)))))))))))...))))))....(((((((.......)).---...(((((......))))).......)))))-..... ( -36.60)
>consensus
UUGCGAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCAUCGCAGCCGGCGAAAGAGUUGGAUAUACAGGUAAAAGAAA
.(((((((((((((((((.((((((.......)))))).)))))))))))...))))))....(((((((.......)).......(((((......))))).......)))))...... (-34.64 = -34.70 +   0.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,040,165 – 21,040,285
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -27.95
Consensus MFE -27.24
Energy contribution -27.35
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.97
SVM decision value 0.58
SVM RNA-class probability 0.787634
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21040165 120 - 23771897
ACUAUUUAUUAAUUAUAAUUCAAACAGUGUAAGCCGAUCUUUGCGAUUUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCA
..........................((((((.(((.....(((((((((((((((((.((((((.......)))))).)))))))))))...))))))........)).).)))))).. ( -27.62)
>DroSec_CAF1 95398 120 - 1
ACUAUUUAUUAAUUAUAAUUCAAACAGUGUAAGCCGAUCUUUGCAAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCA
...............(((((.....((((((.((........((((.(((((((((((.((((((.......)))))).))))))))))).)))).)).)))))).....)))))..... ( -26.60)
>DroSim_CAF1 1630 120 - 1
ACUAUUUAUUAAUUAUAAUUCAAACAGUGUAAGCCGAUCUUUGCGAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCA
..........................((((((.(((.....(((((((((((((((((.((((((.......)))))).)))))))))))...))))))........)).).)))))).. ( -29.62)
>consensus
ACUAUUUAUUAAUUAUAAUUCAAACAGUGUAAGCCGAUCUUUGCGAUCUUUUAUUUCGUGUUGCGUGGAUUUUGCAAUUCGAGAUGAAAGUUUGUCGCAUGCAUUACCGAGAUUACAUCA
..........................((((((.(((.....(((((((((((((((((.((((((.......)))))).)))))))))))...))))))........)).).)))))).. (-27.24 = -27.35 +   0.11)

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 12:59:43 2006