Locus 9205

Sequence ID 3R_DroMel_CAF1
Location 24,543,083 – 24,543,173
Length 90
Max. P 0.770627
window14722 window14723

overview

Window 2

Location 24,543,083 – 24,543,173
Length 90
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 82.83
Mean single sequence MFE -24.20
Consensus MFE -17.13
Energy contribution -16.93
Covariance contribution -0.19
Combinations/Pair 1.11
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24543083 90 + 27905053
----------------------CUGUUGCUGAUCCAUGUGGCACUGUAGUUAAUGUGCCACAUGUCGUAUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
----------------------.(((.(((((..((((((((((..........)))))))))((((......))))...............)..)))..)).)))...... ( -22.00)
>DroVir_CAF1 35307 92 + 1
--------------------UGCAGUUGUUGUUGCAUGUGGCGCCGUAGUUAAUGUGGCACAUGUCGUAUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
--------------------(((((......)))))((((((((((((.....))))))..((((((......)))))).....................))))))...... ( -23.10)
>DroPse_CAF1 49810 112 + 1
CCCCUGCAGGCUGCCUCUCUUCCUGCUGCUGAUCCAUGUGGCGUUGUAGUUAAUGUGACACAUGUCGUAUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
.....(((((..(.....)..)))))..........((((((((((.(((....(((....((((((......))))))......)))....))).))))))))))...... ( -30.30)
>DroGri_CAF1 53395 93 + 1
-------------------UUCUUGUUGUUGUUUUUUGUGGCACCGUAGUUAAUGUGGCACAUGUCGCAUACGUGACAUUUUUAAUACAUACGCUUCAAUGUCGCACAUUUU
-------------------.................(((((((....(((..(((((....(((((((....)))))))......)))))..)))....)))))))...... ( -20.70)
>DroWil_CAF1 45986 90 + 1
----------------------GUCUUGGUGAUGCAUGUGGCGUUGUAGUUAAUGUGGCACAUGUCGUCUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
----------------------........((((..((((((((((.(((....(((....((((((......))))))......)))....))).)))))))))))))).. ( -25.40)
>DroMoj_CAF1 53747 93 + 1
-------------------GUGUUGCUGCUGUUGCAUGUGGCGCCGUAGUUAAUGUGGCACAUGUCGUAUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
-------------------((((((..(((((..(((.((((......)))))))..))).((((((......)))))).............))..)))))).......... ( -23.70)
>consensus
____________________U_CUGUUGCUGAUGCAUGUGGCGCCGUAGUUAAUGUGGCACAUGUCGUAUACGUGACAUUUUUAAUACCUACGCUUCAACGCCGCACAUUUU
....................................(((((((....(((....(((....((((((......))))))......)))....)))....)))))))...... (-17.13 = -16.93 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 24,543,083 – 24,543,173
Length 90
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 82.83
Mean single sequence MFE -24.83
Consensus MFE -18.50
Energy contribution -17.87
Covariance contribution -0.64
Combinations/Pair 1.23
Mean z-score -2.09
Structure conservation index 0.75
SVM decision value 0.53
SVM RNA-class probability 0.770627
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24543083 90 - 27905053
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAUACGACAUGUGGCACAUUAACUACAGUGCCACAUGGAUCAGCAACAG----------------------
............(((((.((((.(..((.....))..)))))......((((((((((..........))))))))))..))))).....---------------------- ( -26.90)
>DroVir_CAF1 35307 92 - 1
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAUACGACAUGUGCCACAUUAACUACGGCGCCACAUGCAACAACAACUGCA--------------------
.....(((.(((((((.((.((.(((((.....(((((........)))))))))))).....)).))))))).)))(((........))).-------------------- ( -24.30)
>DroPse_CAF1 49810 112 - 1
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAUACGACAUGUGUCACAUUAACUACAACGCCACAUGGAUCAGCAGCAGGAAGAGAGGCAGCCUGCAGGGG
.....(((.(((((((..((((.(..((.....))..)))))....(((....)))..........))))))).))).........(((((..(.....)..)))))..... ( -30.40)
>DroGri_CAF1 53395 93 - 1
AAAAUGUGCGACAUUGAAGCGUAUGUAUUAAAAAUGUCACGUAUGCGACAUGUGCCACAUUAACUACGGUGCCACAAAAAACAACAACAAGAA-------------------
..((((((..((((.(..((((((((..((....))..))))))))..)))))..)))))).((....)).......................------------------- ( -18.90)
>DroWil_CAF1 45986 90 - 1
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAGACGACAUGUGCCACAUUAACUACAACGCCACAUGCAUCACCAAGAC----------------------
.....(((.(((((((.((.((.(((((.....(((((........)))))))))))).....)).))))))).))).............---------------------- ( -23.00)
>DroMoj_CAF1 53747 93 - 1
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAUACGACAUGUGCCACAUUAACUACGGCGCCACAUGCAACAGCAGCAACAC-------------------
....((((((((((((.((.((.(((((.....(((((........)))))))))))).....)).)))))))...(((....))))).))).------------------- ( -25.50)
>consensus
AAAAUGUGCGGCGUUGAAGCGUAGGUAUUAAAAAUGUCACGUAUACGACAUGUGCCACAUUAACUACAGCGCCACAUGCAACAGCAACAG_A____________________
....((((.(((((((.((.....((..((...(((((........))))).))..)).....)).))))))).)))).................................. (-18.50 = -17.87 +  -0.64)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:53 2006