Locus 3556

Sequence ID 3R_DroMel_CAF1
Location 9,628,163 – 9,628,264
Length 101
Max. P 0.944802
window5712 window5713

overview

Window 2

Location 9,628,163 – 9,628,264
Length 101
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 86.85
Mean single sequence MFE -34.95
Consensus MFE -28.63
Energy contribution -29.55
Covariance contribution 0.92
Combinations/Pair 1.12
Mean z-score -3.10
Structure conservation index 0.82
SVM decision value 1.35
SVM RNA-class probability 0.944802
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9628163 101 + 27905053
CCUGGCAUUCAGGCGU-CCUAACUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAAUAACAUAAAUAACAUAG
..((((.....((((.-(......).))))...)))).((((((((((((((((.......))))))))....))))))))..................... ( -37.00)
>DroSec_CAF1 21149 92 + 1
CCUGGCAUUCAGGCGU-CCUAACUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAAUAACAUAA---------
..((((.....((((.-(......).))))...)))).((((((((((((((((.......))))))))....))))))))............--------- ( -37.00)
>DroSim_CAF1 22410 92 + 1
CCUGGCAUUCAGGCGU-CCUAACUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAAUAACAUAA---------
..((((.....((((.-(......).))))...)))).((((((((((((((((.......))))))))....))))))))............--------- ( -37.00)
>DroEre_CAF1 21648 92 + 1
CCUGGCAUUCAGGCGU-CCUAAAUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAACGACAUAA---------
..((((.....((((.-(......).))))...)))).((((((((((((((((.......))))))))....))))))))............--------- ( -37.00)
>DroYak_CAF1 21864 92 + 1
CCUGGCAUUCAGGCGU-CCUAAAUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAAUAACAUAA---------
..((((.....((((.-(......).))))...)))).((((((((((((((((.......))))))))....))))))))............--------- ( -37.00)
>DroAna_CAF1 21089 85 + 1
CCUGUCACCCCAGCGUUCUUAACUGCUGCCUUAGCCAAUGUUGCCAUGGGGUCUUGGCCAUGGGCUGCGAACGUGAC--------UAACGUAA---------
...(((((..(((((........))))).(.(((((.(((..((((........))))))).))))).)...)))))--------........--------- ( -24.70)
>consensus
CCUGGCAUUCAGGCGU_CCUAACUGUCGCCCUGGCCAAUGUUGCCAUGGGGCCUUGGCCAUGGGCUCCAAAUGUGGCAACAAAAAUAACAUAA_________
..((((.....((((...........))))...)))).((((((((((((((((.......))))))))....))))))))..................... (-28.63 = -29.55 +   0.92)

alignment

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secondary structure

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dotplot

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Window 3

Location 9,628,163 – 9,628,264
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 86.85
Mean single sequence MFE -34.24
Consensus MFE -28.02
Energy contribution -28.30
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -2.30
Structure conservation index 0.82
SVM decision value 0.63
SVM RNA-class probability 0.803867
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9628163 101 - 27905053
CUAUGUUAUUUAUGUUAUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAGUUAGG-ACGCCUGAAUGCCAGG
.............(((....(((((.(((....))).((((.(((((((.(((....)))....))))))))))))))))....)-)).((((.....)))) ( -35.70)
>DroSec_CAF1 21149 92 - 1
---------UUAUGUUAUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAGUUAGG-ACGCCUGAAUGCCAGG
---------....(((....(((((.(((....))).((((.(((((((.(((....)))....))))))))))))))))....)-)).((((.....)))) ( -35.70)
>DroSim_CAF1 22410 92 - 1
---------UUAUGUUAUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAGUUAGG-ACGCCUGAAUGCCAGG
---------....(((....(((((.(((....))).((((.(((((((.(((....)))....))))))))))))))))....)-)).((((.....)))) ( -35.70)
>DroEre_CAF1 21648 92 - 1
---------UUAUGUCGUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAUUUAGG-ACGCCUGAAUGCCAGG
---------..((((.((.......)).))))((((.((((.(((((((.(((....)))....)))))))))))..((((((((-...)))))))))))). ( -37.10)
>DroYak_CAF1 21864 92 - 1
---------UUAUGUUAUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAUUUAGG-ACGCCUGAAUGCCAGG
---------.......................((((.((((.(((((((.(((....)))....)))))))))))..((((((((-...)))))))))))). ( -35.60)
>DroAna_CAF1 21089 85 - 1
---------UUACGUUA--------GUCACGUUCGCAGCCCAUGGCCAAGACCCCAUGGCAACAUUGGCUAAGGCAGCAGUUAAGAACGCUGGGGUGACAGG
---------........--------(((((.(..((.(((..((((((.......(((....))))))))).)))....((.....))))..).)))))... ( -25.61)
>consensus
_________UUAUGUUAUUUUUGUUGCCACAUUUGGAGCCCAUGGCCAAGGCCCCAUGGCAACAUUGGCCAGGGCGACAGUUAGG_ACGCCUGAAUGCCAGG
................................((((.((((.(((((((.(((....)))....)))))))))))..((.(((((....))))).)))))). (-28.02 = -28.30 +   0.28)

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 11:04:07 2006