Locus 2535

Sequence ID 2L_DroMel_CAF1
Location 7,010,354 – 7,010,504
Length 150
Max. P 0.984263
window4052 window4053 window4054

overview

Window 2

Location 7,010,354 – 7,010,468
Length 114
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.04
Mean single sequence MFE -39.42
Consensus MFE -25.20
Energy contribution -26.00
Covariance contribution 0.80
Combinations/Pair 1.09
Mean z-score -3.42
Structure conservation index 0.64
SVM decision value 1.14
SVM RNA-class probability 0.921465
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7010354 114 - 22407834
GAAUUCGACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUUUUCGCCGACCGAUAACCAUAGAAAUGUGAAAAAAACCUAAGAAAUACGAAGCUUUUCGGGGCUUCAGUAUG
...(((..((((((((((.(((---((((((....)))))))))..))))))).))).....((((....))))............)))(((((((((((....))))))).)))). ( -44.70)
>DroSec_CAF1 31294 112 - 1
GAAUUUAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUAUUCGCCGACCGAUAACCAUACUAAUGUGAAA-AAACCUAAGAAAUCGGGAGCU-UUCGGGGCUUCAGUAUG
........((((((((((((((---((((((....))))))).)))))))))).))).....((((((...((....-..))...........((((((-.....)))))))))))) ( -42.40)
>DroSim_CAF1 31072 113 - 1
GAAUUUAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUAUUCGCCGACCGAUAACCAUACUAAUGUGAAAAAAACCUAAGAAAUCGGGAGCU-UUCGGGGCUUCAGUAUG
........((((((((((((((---((((((....))))))).)))))))))).))).....((((((.............((..(....)..))((((-.....))))..)))))) ( -42.40)
>DroEre_CAF1 31311 111 - 1
GAAUUCAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGCUGUUU-UUCACCGACCGAUAACCAUACUAAUGUGAAA-AAACCCAAGACAUCGGGAGCU-UUCGCGGCUUCAGUAUG
........((((((.(((.(((---(..(((....)))..)))).-))).))).))).....((((((..(((((((-...(((........)))...)-)))))).....)))))) ( -36.80)
>DroYak_CAF1 31239 102 - 1
GAAUUCAACGGCGGCGAGUAACGACGAUCGGUAUGCCGGUUGUUU-UUCACCGA------------CUUGUGUGAAG-AAACCUAAGAAAUCGGAAGCU-UUCGGGGCUUCAGUAUG
...(((((((((((.(((....(((((((((....))))))))).-))).))).------------).))).))))(-((.(((..((((.(....).)-))).))).)))...... ( -30.80)
>consensus
GAAUUCAACGGCGGCGAAUAAC___GAUCGGUAUGCCGGUUGUUU_UUCGCCGACCGAUAACCAUACUAAUGUGAAA_AAACCUAAGAAAUCGGGAGCU_UUCGGGGCUUCAGUAUG
........((((((((((.......((((((....)))))).....))))))).)))....................................((((((......))))))...... (-25.20 = -26.00 +   0.80)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,010,393 – 7,010,504
Length 111
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 87.48
Mean single sequence MFE -34.42
Consensus MFE -25.42
Energy contribution -24.86
Covariance contribution -0.56
Combinations/Pair 1.19
Mean z-score -1.92
Structure conservation index 0.74
SVM decision value 0.50
SVM RNA-class probability 0.761575
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7010393 111 + 22407834
UUUUCACAUUUCUAUGGUUAUCGGUCGGCGAAAAAACAACCGGCAUACCGAUC---GUUAUUCGCCGCCGUCGAAUUCGGCCGAAAUGAUGGCUCGGUAAUCUCAGCCGGCACU
....((((((((..........((.(((((((..(((...(((....)))...---))).)))))))))((((....)))).)))))).))((.((((.......))))))... ( -35.70)
>DroSec_CAF1 31332 110 + 1
-UUUCACAUUAGUAUGGUUAUCGGUCGGCGAAUAAACAACCGGCAUACCGAUC---GUUAUUCGCCGCCGUUAAAUUCGGCCGAAAAGACGGCUCGGUAAUCUCAGCCGGCACU
-.........(((.(((((..(((.((((((((((.....(((....)))...---.)))))))))))))......(((((((......)))).))).......)))))..))) ( -36.90)
>DroSim_CAF1 31110 111 + 1
UUUUCACAUUAGUAUGGUUAUCGGUCGGCGAAUAAACAACCGGCAUACCGAUC---GUUAUUCGCCGCCGUUAAAUUCGGCCGAAAAGACGGCUCGGUAAUCUCAGCCGGCACU
..........(((.(((((..(((.((((((((((.....(((....)))...---.)))))))))))))......(((((((......)))).))).......)))))..))) ( -36.90)
>DroEre_CAF1 31349 109 + 1
-UUUCACAUUAGUAUGGUUAUCGGUCGGUGAA-AAACAGCCGGCAUACCGAUC---GUUAUUCGCCGCCGUUGAAUUCGGCCGAAAAGACGGCUCGGUAAUCUCAACCGGCACU
-.........(((.(((((....((((((...-.....)))))).((((((((---(((.((((..((((.......))))))))..))))).)))))).....)))))..))) ( -35.60)
>DroYak_CAF1 31277 100 + 1
-CUUCACACAAG------------UCGGUGAA-AAACAACCGGCAUACCGAUCGUCGUUACUCGCCGCCGUUGAAUUCGGCCAAAAAGACGGCUCGGCAAUCUCAACCGGCACU
-...........------------..(((((.-.(((.(((((....)))...)).)))..)))))((((((((..((((((........))).))).....)))).))))... ( -27.00)
>consensus
_UUUCACAUUAGUAUGGUUAUCGGUCGGCGAA_AAACAACCGGCAUACCGAUC___GUUAUUCGCCGCCGUUGAAUUCGGCCGAAAAGACGGCUCGGUAAUCUCAGCCGGCACU
.......................((((((...........(((....))).............(((((((((...(((....)))..))))))..))).......))))))... (-25.42 = -24.86 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,010,393 – 7,010,504
Length 111
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 87.48
Mean single sequence MFE -42.26
Consensus MFE -30.60
Energy contribution -31.28
Covariance contribution 0.68
Combinations/Pair 1.15
Mean z-score -3.26
Structure conservation index 0.72
SVM decision value 1.97
SVM RNA-class probability 0.984263
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7010393 111 - 22407834
AGUGCCGGCUGAGAUUACCGAGCCAUCAUUUCGGCCGAAUUCGACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUUUUCGCCGACCGAUAACCAUAGAAAUGUGAAAA
.....((((((((((....((....)))))))))))).......((((((((((.(((---((((((....)))))))))..))))))).))).....((((....)))).... ( -46.60)
>DroSec_CAF1 31332 110 - 1
AGUGCCGGCUGAGAUUACCGAGCCGUCUUUUCGGCCGAAUUUAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUAUUCGCCGACCGAUAACCAUACUAAUGUGAAA-
((((.(((((((((..((......))..))))))))).......((((((((((((((---((((((....))))))).)))))))))).))).......)))).........- ( -47.10)
>DroSim_CAF1 31110 111 - 1
AGUGCCGGCUGAGAUUACCGAGCCGUCUUUUCGGCCGAAUUUAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGUUGUUUAUUCGCCGACCGAUAACCAUACUAAUGUGAAAA
((((.(((((((((..((......))..))))))))).......((((((((((((((---((((((....))))))).)))))))))).))).......)))).......... ( -47.10)
>DroEre_CAF1 31349 109 - 1
AGUGCCGGUUGAGAUUACCGAGCCGUCUUUUCGGCCGAAUUCAACGGCGGCGAAUAAC---GAUCGGUAUGCCGGCUGUUU-UUCACCGACCGAUAACCAUACUAAUGUGAAA-
((((..(((((.((....((.((((......))))))...))..((((((.(((.(((---(..(((....)))..)))).-))).))).))).))))).)))).........- ( -37.50)
>DroYak_CAF1 31277 100 - 1
AGUGCCGGUUGAGAUUGCCGAGCCGUCUUUUUGGCCGAAUUCAACGGCGGCGAGUAACGACGAUCGGUAUGCCGGUUGUUU-UUCACCGA------------CUUGUGUGAAG-
..(((((.(((((.((((((((.......))))).))).))))))))))((((((...(((((((((....))))))))).-.......)------------)))))......- ( -33.00)
>consensus
AGUGCCGGCUGAGAUUACCGAGCCGUCUUUUCGGCCGAAUUCAACGGCGGCGAAUAAC___GAUCGGUAUGCCGGUUGUUU_UUCGCCGACCGAUAACCAUACUAAUGUGAAA_
.....(((((((((..((......))..))))))))).......((((((((((.......((((((....)))))).....))))))).)))..................... (-30.60 = -31.28 +   0.68)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:11 2006