Locus 3769

Sequence ID 2L_DroMel_CAF1
Location 10,982,694 – 10,982,814
Length 120
Max. P 0.724877
window5941 window5942

overview

Window 1

Location 10,982,694 – 10,982,814
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.82
Mean single sequence MFE -37.60
Consensus MFE -24.16
Energy contribution -24.38
Covariance contribution 0.23
Combinations/Pair 1.24
Mean z-score -1.35
Structure conservation index 0.64
SVM decision value 0.41
SVM RNA-class probability 0.724877
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10982694 120 + 22407834
GGAAUAGAGUGCAAGUUCGUACCCACGAGGGUAGCUAGCUUCUUAGCGUACUGGCAAACUGCUGGCACUCGUGUGGUGCCCGACCAAUUGUAGUACAAGUGGCACAUCUUGUACGUAAGU
........(((((((...(((((((((((....((((((......((......)).....)))))).)))))).)))))..(.(((.(((.....))).))))....)))))))...... ( -41.20)
>DroSec_CAF1 1 94 + 1
--------------------------GAGGGUAGCUAGCUUCUUAGCGUACUGGCAAACGGCGGGCACUCGUGUGGUGCCUGACCAAUUGUAGUACAAGUGGCACAUCUUGUACGUAAGU
--------------------------((((((.(((((((....)))((((((.(((..((((((((((.....)))))))).))..)))))))))...)))))).))))..((....)) ( -33.40)
>DroSim_CAF1 1 94 + 1
--------------------------GAGGGUAGCUAGCUUCUUAGCGUACUGGCAAACGGCGGGCACUCGUGUGGUGCCUGACCAAUUGUAGUACAAGUGGCACAUCUUGUACGUAAGU
--------------------------((((((.(((((((....)))((((((.(((..((((((((((.....)))))))).))..)))))))))...)))))).))))..((....)) ( -33.40)
>DroYak_CAF1 38 120 + 1
GGAAUGGAGUGCAAGUUCGUACCGACAAGGGUAGCAAGUUUUUUAGCGUACUGGCAAACGGCGGGCACCCGUGUGGUGCCUGACCAAUUAUAGUACAAGUGACACAUCUUGUACGUAAGC
........(((((((...((.((.....))((.((..(((....)))((((((......((((((((((.....)))))))).)).....))))))..)).))))..)))))))...... ( -37.10)
>DroMoj_CAF1 41 120 + 1
GGUAUAGCAUGCAGAUGAGAACCAACAAGCGUAGCCAGUUUCUUAGCAUAUUGGCAAACAGCUGGCACCCGAGUGGUGCCCGACCAGUUGUAGUACAAAUGGCACAUUUUGUACGUUAGC
(((....(((....)))...)))....(((...((((((..........))))))..((((((((((((.....)))))).....)))))).(((((((........))))))))))... ( -32.80)
>DroAna_CAF1 41 120 + 1
GGAAUGGCGUGCAAGUUGGUGGCCACCAGGGUGGCCAGCUUCUUGGCAUACUGGCAGACGGCAGGCACCCGGGUAGUGCCCGACCAGUUGUAGUACAAGUGGCACAUUUUGUAAGUCAAC
....((((.((((((.((.(((((((....)))))))(((.((((...(((((.(((..(((.(((((.......))))).).))..)))))))))))).))).)).)))))).)))).. ( -47.70)
>consensus
GGAAU_G_GUGCAAGUU_GUACC_ACGAGGGUAGCUAGCUUCUUAGCGUACUGGCAAACGGCGGGCACCCGUGUGGUGCCCGACCAAUUGUAGUACAAGUGGCACAUCUUGUACGUAAGC
.............................(((((((((....))))).)))).((((..(((.((((((.....)))))).).))..)))).(((((((........)))))))...... (-24.16 = -24.38 +   0.23)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 10,982,694 – 10,982,814
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.82
Mean single sequence MFE -31.82
Consensus MFE -21.14
Energy contribution -21.20
Covariance contribution 0.06
Combinations/Pair 1.17
Mean z-score -1.19
Structure conservation index 0.66
SVM decision value 0.26
SVM RNA-class probability 0.657795
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10982694 120 - 22407834
ACUUACGUACAAGAUGUGCCACUUGUACUACAAUUGGUCGGGCACCACACGAGUGCCAGCAGUUUGCCAGUACGCUAAGAAGCUAGCUACCCUCGUGGGUACGAACUUGCACUCUAUUCC
......(((((((........)))))))......((((.....))))...((((((....((((((.......((((......))))(((((....))))))))))).))))))...... ( -34.00)
>DroSec_CAF1 1 94 - 1
ACUUACGUACAAGAUGUGCCACUUGUACUACAAUUGGUCAGGCACCACACGAGUGCCCGCCGUUUGCCAGUACGCUAAGAAGCUAGCUACCCUC--------------------------
......((((.....)))).....(((((.(((.((((..((((((....).))))).)))).)))..)))))((((......)))).......-------------------------- ( -25.30)
>DroSim_CAF1 1 94 - 1
ACUUACGUACAAGAUGUGCCACUUGUACUACAAUUGGUCAGGCACCACACGAGUGCCCGCCGUUUGCCAGUACGCUAAGAAGCUAGCUACCCUC--------------------------
......((((.....)))).....(((((.(((.((((..((((((....).))))).)))).)))..)))))((((......)))).......-------------------------- ( -25.30)
>DroYak_CAF1 38 120 - 1
GCUUACGUACAAGAUGUGUCACUUGUACUAUAAUUGGUCAGGCACCACACGGGUGCCCGCCGUUUGCCAGUACGCUAAAAAACUUGCUACCCUUGUCGGUACGAACUUGCACUCCAUUCC
((.((((((((((........)))))))..(((.((((..((((((.....)))))).)))).)))...))).))........(((.((((......)))))))................ ( -30.70)
>DroMoj_CAF1 41 120 - 1
GCUAACGUACAAAAUGUGCCAUUUGUACUACAACUGGUCGGGCACCACUCGGGUGCCAGCUGUUUGCCAAUAUGCUAAGAAACUGGCUACGCUUGUUGGUUCUCAUCUGCAUGCUAUACC
((.((((((((((........))))))).......(((..((((((.....)))))).)))))).))...(((((...(((((..((.......))..))).))....)))))....... ( -32.40)
>DroAna_CAF1 41 120 - 1
GUUGACUUACAAAAUGUGCCACUUGUACUACAACUGGUCGGGCACUACCCGGGUGCCUGCCGUCUGCCAGUAUGCCAAGAAGCUGGCCACCCUGGUGGCCACCAACUUGCACGCCAUUCC
((.(((.........((((.....)))).......((.((((((((.....))))))))))))).))..(..(((.(((..(.(((((((....))))))).)..))))))..)...... ( -43.20)
>consensus
ACUUACGUACAAGAUGUGCCACUUGUACUACAAUUGGUCAGGCACCACACGAGUGCCCGCCGUUUGCCAGUACGCUAAGAAGCUAGCUACCCUCGU_GGUAC_AACUUGCAC_C_AUUCC
......(((((((........)))))))....(((((((.(((((.......))))).)......))))))..((((......))))................................. (-21.14 = -21.20 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:44 2006