Locus 4255

Sequence ID 3R_DroMel_CAF1
Location 11,389,581 – 11,389,696
Length 115
Max. P 0.990026
window6908 window6909

overview

Window 8

Location 11,389,581 – 11,389,696
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.41
Mean single sequence MFE -33.26
Consensus MFE -31.78
Energy contribution -32.18
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.96
SVM decision value 2.19
SVM RNA-class probability 0.990026
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11389581 115 + 27905053
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGGCAAACUUGAAUUGUUUGAGUGCCCGGGGCAGCGGUUCACAUUUCGAGUGAAUCCUCGGCU-----
.........................((.((((.((((((((((.(((.(((((((...(((..(.....)..)))..)))))).)....)))...)))))))))).)))).))..----- ( -38.00)
>DroSec_CAF1 137349 115 + 1
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGACAAACUUGAAUUGUUUGAGUGCCCGGGGCAGCGGUUCACAUUUCAAGUGAAUCCUCGGCA-----
.........................((.((((.(((((.((((.(.((...(((.(((((.......)))))..((((...)))).))).)).).)))).))))).)))).))..----- ( -28.80)
>DroSim_CAF1 128451 115 + 1
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGACAAACUUGAAUUGUUUGAGUGCCCGGGGCAGCGGUUCACAUUUCGAGUGAAUCCUCGGCA-----
.........................((.((((.((((((((((.(.((...(((.(((((.......)))))..((((...)))).))).)).).)))))))))).)))).))..----- ( -34.70)
>DroEre_CAF1 125849 115 + 1
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGACAAACUUGAAUUGUUUGAGUGCCCGGAGCAGCGGUUCACAUUUCGAGUGAAUCCUCGGCU-----
.........................((.((((.((((((((((.(.((...(((.(((((.......)))))..(((.....))).))).)).).)))))))))).)))).))..----- ( -32.50)
>DroYak_CAF1 128163 120 + 1
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGACAAACUUGAAUUGUUUGAGUGCCCGGGGCAGCGGUUCACAUUUCGAGUGAAUCCUCGACUGCUCU
..........................(.((((.((((((((((.(.((...(((.(((((.......)))))..((((...)))).))).)).).)))))))))).)))).)........ ( -32.30)
>consensus
UCAAAUUCCAUUAUGCUCACACCUUCCAAGGAAUCACUCGAGAAGAGAUCCCCGACAAACUUGAAUUGUUUGAGUGCCCGGGGCAGCGGUUCACAUUUCGAGUGAAUCCUCGGCU_____
.........................((.((((.((((((((((.(.((...(((.(((((.......)))))..(((.....))).))).)).).)))))))))).)))).))....... (-31.78 = -32.18 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,389,581 – 11,389,696
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.41
Mean single sequence MFE -37.46
Consensus MFE -37.66
Energy contribution -37.02
Covariance contribution -0.64
Combinations/Pair 1.12
Mean z-score -1.54
Structure conservation index 1.01
SVM decision value 2.11
SVM RNA-class probability 0.988202
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11389581 115 - 27905053
-----AGCCGAGGAUUCACUCGAAAUGUGAACCGCUGCCCCGGGCACUCAAACAAUUCAAGUUUGCCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
-----..(((((((.((((((((...(((...)))..((((((.....(((((.......)))))))))))........)))))))).)))))))...(((....)))............ ( -40.40)
>DroSec_CAF1 137349 115 - 1
-----UGCCGAGGAUUCACUUGAAAUGUGAACCGCUGCCCCGGGCACUCAAACAAUUCAAGUUUGUCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
-----..(((((((.((((((((...(((...)))..((((((.....(((((.......)))))))))))........)))))))).)))))))...(((....)))............ ( -36.00)
>DroSim_CAF1 128451 115 - 1
-----UGCCGAGGAUUCACUCGAAAUGUGAACCGCUGCCCCGGGCACUCAAACAAUUCAAGUUUGUCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
-----..(((((((.((((((((...(((...)))..((((((.....(((((.......)))))))))))........)))))))).)))))))...(((....)))............ ( -38.10)
>DroEre_CAF1 125849 115 - 1
-----AGCCGAGGAUUCACUCGAAAUGUGAACCGCUGCUCCGGGCACUCAAACAAUUCAAGUUUGUCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
-----..(((((((.((((((((...(.((.((.((((.....)))..(((((.......)))))..).)).)).)...)))))))).)))))))...(((....)))............ ( -36.30)
>DroYak_CAF1 128163 120 - 1
AGAGCAGUCGAGGAUUCACUCGAAAUGUGAACCGCUGCCCCGGGCACUCAAACAAUUCAAGUUUGUCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
...((..(((((((.((((((((...(((...)))..((((((.....(((((.......)))))))))))........)))))))).)))))))...)).................... ( -36.50)
>consensus
_____AGCCGAGGAUUCACUCGAAAUGUGAACCGCUGCCCCGGGCACUCAAACAAUUCAAGUUUGUCGGGGAUCUCUUCUCGAGUGAUUCCUUGGAAGGUGUGAGCAUAAUGGAAUUUGA
.......(((((((.((((((((...(((...)))..((((((.....(((((.......)))))))))))........)))))))).)))))))...(((....)))............ (-37.66 = -37.02 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:42 2006