Locus 975

Sequence ID 3L_DroMel_CAF1
Location 2,905,236 – 2,905,331
Length 95
Max. P 0.767194
window1502 window1503

overview

Window 2

Location 2,905,236 – 2,905,331
Length 95
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 84.48
Mean single sequence MFE -34.12
Consensus MFE -23.38
Energy contribution -24.85
Covariance contribution 1.47
Combinations/Pair 1.11
Mean z-score -3.20
Structure conservation index 0.69
SVM decision value 0.52
SVM RNA-class probability 0.767194
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2905236 95 + 23771897
----GGCGGGUGUGUGCUGCCAUAAAUUUCAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGCCAAAAGAAAUGGCUUUCGCCCUC--
----((((((((((.(((((...........))))))))..(((((((..(((.....)))..))))))).))(((((.......))))).)))))...-- ( -36.40)
>DroSec_CAF1 149648 93 + 1
------UGGGCUGGUGCUGCAAUAAAUUUCAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGCCAAAAGAAAUGGCUUUCGCCCUC--
------.((((((((((((.((.....))))))).)))...(((((((..(((.....)))..)))))))...(((((.......)))))...))))..-- ( -37.20)
>DroSim_CAF1 140827 95 + 1
----GGCGGGUGGGUGCUGCCAUAAAUUUCAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGCCAAAAGAAAUGGCUUUCGCCCUC--
----(((((((((.(((((..........))))).))))).(((((((..(((.....)))..)))))))...(((((.......)))))..))))...-- ( -39.70)
>DroEre_CAF1 157010 92 + 1
-------GAGUGGGCGCUGCCAUAAAUUUUAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGUCAAAAGAAAUGGCUUUCGCCCUC--
-------....(((((..(((((...((((..(.((.....(((((((..(((.....)))..))))))).)).)..))))...)))))...)))))..-- ( -35.90)
>DroYak_CAF1 158307 101 + 1
CUUAGAUGAGUGGGUGCUGCCAUAAAUUUCAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGUCAAAAGAAAUGGCUUUCGUCCUCCC
....(((((((((.(((((..........))))).))))..(((((((..(((.....)))..)))))))...(((((.......))))).)))))..... ( -33.60)
>DroAna_CAF1 136085 80 + 1
----G--GCGUGGGCG-UGUCAUAAAUUUUAGCAGCCAUUAUCUGACAGUGUUUUUAUGACAAGGCCAGAAGCAGUCU-----------CUGCGUCCU---
----(--((.(((.(.-(((((((((......(((.......)))........))))))))).).)))...((((...-----------)))))))..--- ( -21.94)
>consensus
____G__GGGUGGGUGCUGCCAUAAAUUUCAGCAGCCAUUAUCUGGCCGAGUUUUUAUGACAAGGCCAGAAGCAGCCAAAAGAAAUGGCUUUCGCCCUC__
...........(((((..(((((...(((..((.((.....(((((((..(((.....)))..))))))).)).))..)))...)))))...))))).... (-23.38 = -24.85 +   1.47) 

alignment

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secondary structure

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dotplot

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Window 3

Location 2,905,236 – 2,905,331
Length 95
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 84.48
Mean single sequence MFE -32.76
Consensus MFE -21.88
Energy contribution -22.72
Covariance contribution 0.84
Combinations/Pair 1.17
Mean z-score -3.26
Structure conservation index 0.67
SVM decision value 0.48
SVM RNA-class probability 0.751335
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2905236 95 - 23771897
--GAGGGCGAAAGCCAUUUCUUUUGGCUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUGAAAUUUAUGGCAGCACACACCCGCC----
--..(((.(..(((((.......)))))...(((((((..((.......))..)))))))...((((((((.........)))))).))).)))...---- ( -34.30)
>DroSec_CAF1 149648 93 - 1
--GAGGGCGAAAGCCAUUUCUUUUGGCUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUGAAAUUUAUUGCAGCACCAGCCCA------
--..((((...(((((.......)))))...(((((((..((.......))..)))))))...(((.(((((..........)))))))))))).------ ( -37.20)
>DroSim_CAF1 140827 95 - 1
--GAGGGCGAAAGCCAUUUCUUUUGGCUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUGAAAUUUAUGGCAGCACCCACCCGCC----
--..(((.(...(((((...(((..((.((((((((((..((.......))..)))))))....))).))..)))...)))))..).))).......---- ( -36.70)
>DroEre_CAF1 157010 92 - 1
--GAGGGCGAAAGCCAUUUCUUUUGACUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUAAAAUUUAUGGCAGCGCCCACUC-------
--..(((((...(((((...(((((.(.((((((((((..((.......))..)))))))....))).).)))))...)))))..)))))....------- ( -36.00)
>DroYak_CAF1 158307 101 - 1
GGGAGGACGAAAGCCAUUUCUUUUGACUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUGAAAUUUAUGGCAGCACCCACUCAUCUAAG
(((.((.(....)))................(((((((..((.......))..))))))).....((((((.........)))))).)))........... ( -31.30)
>DroAna_CAF1 136085 80 - 1
---AGGACGCAG-----------AGACUGCUUCUGGCCUUGUCAUAAAAACACUGUCAGAUAAUGGCUGCUAAAAUUUAUGACA-CGCCCACGC--C----
---.(((.((((-----------...)))).)))(((..(((((((((......((((.....))))........)))))))))-.))).....--.---- ( -21.04)
>consensus
__GAGGGCGAAAGCCAUUUCUUUUGACUGCUUCUGGCCUUGUCAUAAAAACUCGGCCAGAUAAUGGCUGCUGAAAUUUAUGGCAGCACCCACCC__C____
.....(((....))).........((.((..(((((((..((.......))..))))))).....(((((((.......)))))))...)).))....... (-21.88 = -22.72 +   0.84) 

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 09:55:50 2006