Locus 2921

Sequence ID 2R_DroMel_CAF1
Location 10,136,643 – 10,136,796
Length 153
Max. P 0.999647
window4815 window4816

overview

Window 5

Location 10,136,643 – 10,136,759
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.64
Mean single sequence MFE -36.57
Consensus MFE -34.00
Energy contribution -33.45
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -4.01
Structure conservation index 0.93
SVM decision value 3.83
SVM RNA-class probability 0.999647
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10136643 116 + 20766785
---UAGUUACUUGAUGAUUGUUC-UUUUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUAGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUUUAACAACU
---(((((....(.((..(((((-((((((((..(((..((((((((((((....))))))))))))..)))...))))))....)))))))..)).).....)))))............ ( -37.40)
>DroSec_CAF1 1961 116 + 1
---UAGUUACUUGAUGAUUGUUC-UUUUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGUCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAAUUAAAUGUAAUAACU
---..(((((....((..(((((-((.((((........(((((.((((((....)))))).)))))..((((...)))))))).)))))))..))..(((....)))...))))).... ( -28.30)
>DroSim_CAF1 1962 116 + 1
---UAGUUACUUGAUGAUUGUUC-UUUUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUGUAAUAACU
---(((((....(.((..(((((-((.((((........((((((((((((....))))))))))))..((((...)))))))).)))))))..)).).....)))))............ ( -37.30)
>DroEre_CAF1 1980 117 + 1
---UAGUUUCUUGAUGAUUGUUCUAUUUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAACCUAAAUGUAAUGACA
---....((((((..((((.(((........))).))))((((((((((((....))))))))))))((((((...))))))..))))))(((....))).................... ( -34.40)
>DroYak_CAF1 1970 116 + 1
---UAGUUUCUUGAUGAUUGUUC-AUAUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGGCAUUCUAUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUCUAAUAACA
---((((((...(.((..(((((-.((((((........((((((((((((....))))))))))))..((((...)))))))))).)))))..)).)....))))))............ ( -38.30)
>DroAna_CAF1 2030 115 + 1
GUUUGAUUCUUUGAUGAAUGUUC-UUUUUCUGAAGAGUCGAGUGCCGGUUCGCAAGAACUGGCAUUCAUUUCUUGUAGAAAGAAUAAGAACGGCCAACUGAUGAAUC---UGU-CCAAGU
....(((((...(.((..(((((-(((((((((((((..((((((((((((....))))))))))))..))))).))))))....)))))))..)).)....)))))---...-...... ( -43.70)
>consensus
___UAGUUACUUGAUGAUUGUUC_UUUUUCUGAAGAGUCGAGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUGUAAUAACU
...(((((....(.((..(((((.((((((((..(((..((((((((((((....))))))))))))..)))...))))))))....)))))..)).).....)))))............ (-34.00 = -33.45 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,136,679 – 10,136,796
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.40
Mean single sequence MFE -28.65
Consensus MFE -20.55
Energy contribution -20.42
Covariance contribution -0.13
Combinations/Pair 1.17
Mean z-score -2.63
Structure conservation index 0.72
SVM decision value 0.37
SVM RNA-class probability 0.708824
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10136679 117 + 20766785
AGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUAGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUUUAACAACUGAAUUGCUUUAAAAUGC---AAUUGUGGGAAGCAAAUAAC
(((((((((((....)))))))))))..(((((..(..............(((....))).....................((((((........))---)))))..)))))........ ( -29.70)
>DroSec_CAF1 1997 117 + 1
AGUGCCAAGUCGCAAGAUUUGUCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAAUUAAAUGUAAUAACUGAAUUGCUUUCAAAUGC---AAUUGUGCGAAGCAAAUAAC
..(((....(((((.(((((((((((((((((....)))))))))......(.....).))))))))..............((((((........))---)))).))))).)))...... ( -26.40)
>DroSim_CAF1 1998 117 + 1
AGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUGUAAUAACUGAAUUGCUUUAAAAUGC---AAUUGUGCGAAGCAAAUAAC
...((((((((....))))))))(((((((((....))))))))).....(((....))).......................(((((((.....((---(....))))))))))..... ( -29.80)
>DroEre_CAF1 2017 116 + 1
AGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAACCUAAAUGUAAUGACAUAGUUGAUUUAAAAUGU---AAUUGUUC-AAGCAAAUAAC
...((((((((....))))))))(((((((((....)))))))))..((((((.(((((..........((((....)))))))))..(((.....)---))))))))-........... ( -27.60)
>DroYak_CAF1 2006 116 + 1
AGUGCCAAGUCGCAAGAUUUGGCAUUCUAUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUCUAAUAACAAAAUUGAUUUGAAAUGC---AAUUGUGC-AAGCAAAUAAC
...((((((((....))))))))(((((.((((...))))))))).......(((((.((......((((((.(((......))))))))).....)---).))).))-........... ( -27.40)
>DroAna_CAF1 2069 113 + 1
AGUGCCGGUUCGCAAGAACUGGCAUUCAUUUCUUGUAGAAAGAAUAAGAACGGCCAACUGAUGAAUC---UGU-CCAAGUGAAAAGCGUUUAAACGCCCCAGUUAUGCA---UUAUUAAA
(((((((((((....)))))))))))...(((((((.......)))))))..((.(((((.((....---...-.))........((((....))))..)))))..)).---........ ( -31.00)
>consensus
AGUGCCAAGUCGCAAGAUUUGGCAUUCUUUUCCUGUGGAAAGAAUAAGAACGGCCAACUGAUAAACUAAAUGUAAUAACUGAAUUGCUUUAAAAUGC___AAUUGUGCGAAGCAAAUAAC
...((((((((....))))))))((((((((......)))))))).....(((....)))..........................................((((.....))))..... (-20.55 = -20.42 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:46 2006