Locus 9304

Sequence ID 3R_DroMel_CAF1
Location 24,776,168 – 24,776,288
Length 120
Max. P 0.995809
window14872 window14873

overview

Window 2

Location 24,776,168 – 24,776,288
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.08
Mean single sequence MFE -43.12
Consensus MFE -37.60
Energy contribution -37.92
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -1.32
Structure conservation index 0.87
SVM decision value 0.35
SVM RNA-class probability 0.701830
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24776168 120 + 27905053
ACAAAUUCGUAAGACCGCUGGUGCCGUAUGACCUUUGACCCAGCUGCUACCGCGUUGAGCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
....((((((((.((.((....)).)).....((((((((.....((....))((..(((((.........((((.(((.....))).)))))))))..))))))))))))))))))... ( -42.00)
>DroSec_CAF1 7338 120 + 1
ACAAAUUCGCAAGACCGCUGGUGCCGUAUGACCUUUGACCCAGCUGCUACCGCGUUGAGCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
....((((((((.((.((....)).)).....((((((((.....((....))((..(((((.........((((.(((.....))).)))))))))..))))))))))))))))))... ( -44.00)
>DroSim_CAF1 2736 120 + 1
ACAAAUUCGUAUGAACGCUGGUGCCGUAUGACCUUUGACCCAGCUGCUACCGCGUUGAGCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
.................((.((.(((((....((((((((.....((....))((..(((((.........((((.(((.....))).)))))))))..)))))))))).))))))).)) ( -40.40)
>DroEre_CAF1 16251 120 + 1
ACAUAUUCGUAAGACCGCUGGUGCCGUAUGACCUUUGACCCAGCUGCUACCGCGCUGACCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
...(((((((((.((.((....)).)).....((((((((((((.((....)))))).(((.....((((.((((.(((.....))).)))).))))))).))))))))))))))))).. ( -43.80)
>DroYak_CAF1 7825 120 + 1
ACAUAUGCGUAAGUUGGCCAGUGCCGUGUGACCUUUGACCCAGCUGCUACCGCGUUGGCCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
...(((.(((((...(((....))).......((((((((((((.((....))))))((((.....((((.((((.(((.....))).)))).))))))))))))))))))))).))).. ( -45.40)
>consensus
ACAAAUUCGUAAGACCGCUGGUGCCGUAUGACCUUUGACCCAGCUGCUACCGCGUUGAGCAGAAACAGCGACAGUAGCCAAAUCGGCAGCUGCUGCUUGGCGGUCAAAGUUGCGGAUGAG
....((((((((....((....))........((((((((.....((....))((..(((((.........((((.(((.....))).)))))))))..))))))))))))))))))... (-37.60 = -37.92 +   0.32)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 24,776,168 – 24,776,288
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.08
Mean single sequence MFE -44.54
Consensus MFE -39.76
Energy contribution -40.76
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 0.89
SVM decision value 2.62
SVM RNA-class probability 0.995809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24776168 120 - 27905053
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGCUCAACGCGGUAGCAGCUGGGUCAAAGGUCAUACGGCACCAGCGGUCUUACGAAUUUGU
.....((((..(((((((((((((((.((....)).).)))))).......((((((.((((.....)))).))))))..))))))))(((....)))....)))).............. ( -45.00)
>DroSec_CAF1 7338 120 - 1
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGCUCAACGCGGUAGCAGCUGGGUCAAAGGUCAUACGGCACCAGCGGUCUUGCGAAUUUGU
(.((.((((..(((((((((((((((.((....)).).)))))).......((((((.((((.....)))).))))))..))))))))(((....)))....))))...)).)....... ( -45.50)
>DroSim_CAF1 2736 120 - 1
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGCUCAACGCGGUAGCAGCUGGGUCAAAGGUCAUACGGCACCAGCGUUCAUACGAAUUUGU
......(((..(((((((((((((((.((....)).).)))))).......((((((.((((.....)))).))))))..))))))))(((....)))....)))............... ( -41.90)
>DroEre_CAF1 16251 120 - 1
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGGUCAGCGCGGUAGCAGCUGGGUCAAAGGUCAUACGGCACCAGCGGUCUUACGAAUAUGU
.....((((..((((((((......((((.(((((((....(((....)))((((........)))).))))))).))))))))))))(((....)))....)))).............. ( -45.50)
>DroYak_CAF1 7825 120 - 1
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGGCCAACGCGGUAGCAGCUGGGUCAAAGGUCACACGGCACUGGCCAACUUACGCAUAUGU
.......((..((((((((......((((.(((((((..(((((((..(.......)..)))))))..))))))).)))))))))))).......(((....))).......))...... ( -44.80)
>consensus
CUCAUCCGCAACUUUGACCGCCAAGCAGCAGCUGCCGAUUUGGCUACUGUCGCUGUUUCUGCUCAACGCGGUAGCAGCUGGGUCAAAGGUCAUACGGCACCAGCGGUCUUACGAAUUUGU
.....((((..(((((((((((((((.((....)).).)))))).......((((((.((((.....)))).))))))..))))))))(((....)))....)))).............. (-39.76 = -40.76 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:07 2006