Locus 9852

Sequence ID 3R_DroMel_CAF1
Location 26,248,134 – 26,248,294
Length 160
Max. P 0.991499
window15725 window15726

overview

Window 5

Location 26,248,134 – 26,248,254
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.83
Mean single sequence MFE -43.62
Consensus MFE -39.56
Energy contribution -39.64
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.91
SVM decision value 2.27
SVM RNA-class probability 0.991499
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26248134 120 - 27905053
CCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAGAAGCUGCUGCGAAAGGCUCUUCAUGGAGGGCUGACCAGAGAAAAGGCUCUGGAGGUGGUGCA
(((((.(((......)))))))).....((((((....(.(((.....))).)....))))))((..(....(((((((....)))))))..((((((......))))))..)..))... ( -43.40)
>DroSec_CAF1 213865 120 - 1
CCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGACAAAAAAAGCUGCUGCGAAAGGCUCUUCAUGGAGGGCUGACCAGAGAAAAGGCUCUGGAGGUGGUGCA
(((((.(((......))))))))..((((((...))))))(((.....))).........((.((..(....(((((((....)))))))..((((((......))))))..)..)))). ( -43.10)
>DroSim_CAF1 221046 120 - 1
CCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAAAAGCUGCUGCGAAAGGCUCUUCAUGGAGGGCUGACCAGAGAAAAGGCUCUGGAGGUGGUGCA
(((((.(((......))))))))(.(((((.(((.((.....))))))))))).......((.((..(....(((((((....)))))))..((((((......))))))..)..)))). ( -43.40)
>DroEre_CAF1 229020 120 - 1
CCAGAAUCCUUCGGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGACAACCAAGCAAAAGAAGCUGCUGCGAAAGGCCCUUCAAGGUGGGCUGACCAGAGAAAAGGCUCUGGAGGUGGUGCA
((.((((((......)))))).))....((((((.....(((........)))....))))))((..(....(((((........)))))..((((((......))))))..)..))... ( -43.20)
>DroYak_CAF1 226500 120 - 1
CCGGAAUCCUUCGGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAAGCAAAAGAAGCUGCUCCGAAAGGCUCUGCAGAAGGGGCUGACCAGAGAAAAGGCUCUGGCGGUGGUGCA
((.((((((......)))))).))....((((((.....(((........)))....))))))((.((......((((.....))))((((.((((((......)))))))))))).)). ( -45.00)
>consensus
CCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAGAAGCUGCUGCGAAAGGCUCUUCAUGGAGGGCUGACCAGAGAAAAGGCUCUGGAGGUGGUGCA
(((((.(((......))))))))(.((((((...)))))))...................((.((..(....(((((((....)))))))..((((((......))))))..)..)))). (-39.56 = -39.64 +   0.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 26,248,174 – 26,248,294
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.67
Mean single sequence MFE -37.12
Consensus MFE -32.62
Energy contribution -32.46
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.57
Structure conservation index 0.88
SVM decision value 1.23
SVM RNA-class probability 0.933010
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26248174 120 - 27905053
AAGUAAAUGAGUCUGAUGCUGCUCCAGAAGCAUCACCCAACCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAGAAGCUGCUGCGAAAGGCUCUUC
........((((((((((((........))))))......(((((.(((......))))))))((..(((((((....(.(((.....))).)....)))))))..))...))))))... ( -38.10)
>DroSec_CAF1 213905 120 - 1
AAGUAAAUGAGUUUGAUGCUGCUCCAGAAGCAUCACCCAACCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGACAAAAAAAGCUGCUGCGAAAGGCUCUUC
........((((((((((((........))))))......(((((.(((......))))))))((..((((((((((.((.(....))).))))....))))))..))...))))))... ( -34.00)
>DroSim_CAF1 221086 120 - 1
AAGCAAAUGAGUUUGAUGCUGCUCCAGAAGCAUCACCCAACCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAAAAGCUGCUGCGAAAGGCUCUUC
........((((((((((((........))))))......(((((.(((......))))))))((..(((((((....(.(((.....))).)....)))))))..))...))))))... ( -35.20)
>DroEre_CAF1 229060 120 - 1
AAGUAAAUGAGUCUGAUGCUGCUCCAGAAGCAUCACCCAACCAGAAUCCUUCGGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGACAACCAAGCAAAAGAAGCUGCUGCGAAAGGCCCUUC
..........(..(((((((........)))))))..).....((((((......))))))(((((.(((..(((((.....))))))))((((........))))......)))))... ( -36.70)
>DroYak_CAF1 226540 120 - 1
AAACAAAUGAGUCUGAUGCUGCUCCAGAAGCAUCACCCAACCGGAAUCCUUCGGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAAGCAAAAGAAGCUGCUCCGAAAGGCUCUGC
........((((((((((((........))))))..(((.(((((....)))))))).(((((((...((((((.....(((........)))....)))))))).)))))))))))... ( -41.60)
>consensus
AAGUAAAUGAGUCUGAUGCUGCUCCAGAAGCAUCACCCAACCGAAAUCCUUCAGUGGAUUCGGGUCCUGGCUUUGUCAGGCUGAAAACCAGGCAAAAGAAGCUGCUGCGAAAGGCUCUUC
........((((((((((((........))))))......(((((.(((......))))))))((..(((((((.....(((........)))....)))))))..))...))))))... (-32.62 = -32.46 +  -0.16)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:32 2006