Locus 2678

Sequence ID 2L_DroMel_CAF1
Location 7,496,150 – 7,496,309
Length 159
Max. P 0.999823
window4262 window4263 window4264

overview

Window 2

Location 7,496,150 – 7,496,269
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.30
Mean single sequence MFE -34.96
Consensus MFE -31.60
Energy contribution -32.08
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.23
Structure conservation index 0.90
SVM decision value 0.38
SVM RNA-class probability 0.714807
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7496150 119 + 22407834
AUUAUCUGGUUGAUUACUCGCAAUUUACGUGCGUUUGGCGUUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGGCUUUUCGAAUUGCCGCUA
...................((((...(((..((..((.(......).))..))..)))))))((((((((((((((((((((((.-...)))....)))))....)))))))))))))). ( -35.80)
>DroSec_CAF1 18894 119 + 1
AUUAUCUGGUUGAUUACUCGCAAUUUACGUGCGUUUGGCGUUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGUCUUUUCGAAUUGCCGCUA
...................((((...(((..((..((.(......).))..))..)))))))((((((((((((((((((((((.-...)))....))))))....))))))))))))). ( -36.60)
>DroSim_CAF1 18958 119 + 1
AUUAUCUGGUUGAUUACUCGCAAUUUACGUGCGUUAGGCGUUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGUCUUUUUGAAUUGCCGCUA
...................((((...(((..((...(.(......).)...))..)))))))((((((((((..((((((((((.-...)))....))))))....)..)))))))))). ( -33.70)
>DroEre_CAF1 19222 119 + 1
AUUAUCUAGUUGAUUACUCGUAAUUUACGUGCGUUUGCCGUUUGAGGUGUUUGUGCGUUUGCAGCGGCGACUUGAACGAACCGUA-CUGGCGUGGAGUUUAUGUUUUCGAAUUGCCGCCA
...................((((...(((..((..((((......))))..))..))))))).(((((((.(((((.((((..((-(....)))..)))).....))))).))))))).. ( -32.10)
>DroYak_CAF1 19366 120 + 1
AUUAUCUGCUUGAUUACUCGCAAUUUACGUGCGUUUGGCGUUUGAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGUACCGUUUUUGGCGUGGAGUUUAUCUUUUCGAAUUGCCGCUA
...................((((...(((..((..((.(......).))..))..)))))))((((((((((((((((..(((....)))..))(((.....))))))))))))))))). ( -36.60)
>consensus
AUUAUCUGGUUGAUUACUCGCAAUUUACGUGCGUUUGGCGUUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA_UUGGCGUGGAGUUUGUCUUUUCGAAUUGCCGCUA
...................((((...(((..((..((.(......).))..))..)))))))((((((((((((((((..(((....)))..))(((.....))))))))))))))))). (-31.60 = -32.08 +   0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,496,190 – 7,496,309
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.47
Mean single sequence MFE -47.02
Consensus MFE -42.78
Energy contribution -43.22
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.62
Structure conservation index 0.91
SVM decision value 4.17
SVM RNA-class probability 0.999823
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7496190 119 + 22407834
UUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGGCUUUUCGAAUUGCCGCUAACAGAGCGCUGAGCUCCUCACGCGAACGAGAUCCACCGAC
.....((((..(.(.(((((((((((((((((((((((((((((.-...)))....)))))....))))))))))))))....((((.....)))).....)))))))).)..))))... ( -47.00)
>DroSec_CAF1 18934 119 + 1
UUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGUCUUUUCGAAUUGCCGCUAACAGAGCGCUGAGCUCCUCACGCGAACGAGAUCCACCGAC
.....((((..(.(.(((((((((((((((((((((((((((((.-...)))....))))))....)))))))))))))....((((.....)))).....)))))))).)..))))... ( -47.80)
>DroSim_CAF1 18998 119 + 1
UUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA-UUGGCGUGGAGUUUGUCUUUUUGAAUUGCCGCUAACAGAGCGCUGAGCUCCUCACGCGAACGAGAUCCACCGAC
.....((((..(.(.(((((((((((((((((..((((((((((.-...)))....))))))....)..))))))))))....((((.....)))).....)))))))).)..))))... ( -45.60)
>DroEre_CAF1 19262 119 + 1
UUUGAGGUGUUUGUGCGUUUGCAGCGGCGACUUGAACGAACCGUA-CUGGCGUGGAGUUUAUGUUUUCGAAUUGCCGCCAACGGAGCUCUGAGCUCCUCACGCGAACGAGUUCCACCGAC
.....((((......(((((((.(((((((.(((((.((((..((-(....)))..)))).....))))).)))))))....(((((.....)))))....))))))).....))))... ( -42.60)
>DroYak_CAF1 19406 120 + 1
UUUGAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGUACCGUUUUUGGCGUGGAGUUUAUCUUUUCGAAUUGCCGCUAACGGAGCGCUGAGCUCCACACGCGAACGAGAUCCACCGAC
.....((((..(.(.(((((((((((((((((((((((..(((....)))..))(((.....)))))))))))))))))...(((((.....)))))....)))))))).)..))))... ( -52.10)
>consensus
UUUAAGGUGUUUGUGCGUUUGCAGCGGCGAUUUGAACGAACCGUA_UUGGCGUGGAGUUUGUCUUUUCGAAUUGCCGCUAACAGAGCGCUGAGCUCCUCACGCGAACGAGAUCCACCGAC
.....((((......(((((((((((((((((((((((..(((....)))..))(((.....)))))))))))))))))....((((.....)))).....))))))).....))))... (-42.78 = -43.22 +   0.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,496,190 – 7,496,309
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.47
Mean single sequence MFE -34.90
Consensus MFE -33.45
Energy contribution -33.09
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.02
Structure conservation index 0.96
SVM decision value -0.01
SVM RNA-class probability 0.527493
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7496190 119 - 22407834
GUCGGUGGAUCUCGUUCGCGUGAGGAGCUCAGCGCUCUGUUAGCGGCAAUUCGAAAAGCCAAACUCCACGCCAA-UACGGUUCGUUCAAAUCGCCGCUGCAAACGCACAAACACCUUAAA
...((((((......))((((..(((((.....)))))((.((((((.(((.(((.((((..............-...))))..))).))).))))))))..)))).....))))..... ( -35.13)
>DroSec_CAF1 18934 119 - 1
GUCGGUGGAUCUCGUUCGCGUGAGGAGCUCAGCGCUCUGUUAGCGGCAAUUCGAAAAGACAAACUCCACGCCAA-UACGGUUCGUUCAAAUCGCCGCUGCAAACGCACAAACACCUUAAA
...((((((......))((((..(((((.....)))))((.((((((.(((.(((..(((..............-....)))..))).))).))))))))..)))).....))))..... ( -34.07)
>DroSim_CAF1 18998 119 - 1
GUCGGUGGAUCUCGUUCGCGUGAGGAGCUCAGCGCUCUGUUAGCGGCAAUUCAAAAAGACAAACUCCACGCCAA-UACGGUUCGUUCAAAUCGCCGCUGCAAACGCACAAACACCUUAAA
...((((((......))((((..(((((.....)))))((.((((((...((.....))..........(((..-...)))...........))))))))..)))).....))))..... ( -31.80)
>DroEre_CAF1 19262 119 - 1
GUCGGUGGAACUCGUUCGCGUGAGGAGCUCAGAGCUCCGUUGGCGGCAAUUCGAAAACAUAAACUCCACGCCAG-UACGGUUCGUUCAAGUCGCCGCUGCAAACGCACAAACACCUCAAA
...(((((((....)))((((..(((((.....)))))...((((((.(((.(((......((((..((....)-)..))))..))).))).))))))....)))).....))))..... ( -37.00)
>DroYak_CAF1 19406 120 - 1
GUCGGUGGAUCUCGUUCGCGUGUGGAGCUCAGCGCUCCGUUAGCGGCAAUUCGAAAAGAUAAACUCCACGCCAAAAACGGUACGUUCAAAUCGCCGCUGCAAACGCACAAACACCUCAAA
...((((((......))((((..(((((.....)))))((.((((((.(((.(((..((.....))...(((......)))...))).))).))))))))..)))).....))))..... ( -36.50)
>consensus
GUCGGUGGAUCUCGUUCGCGUGAGGAGCUCAGCGCUCUGUUAGCGGCAAUUCGAAAAGACAAACUCCACGCCAA_UACGGUUCGUUCAAAUCGCCGCUGCAAACGCACAAACACCUUAAA
...((((((......))((((..(((((.....)))))((.((((((.(((.(((..............(((......)))...))).))).))))))))..)))).....))))..... (-33.45 = -33.09 +  -0.36)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:33 2006