Locus 6273

Sequence ID X_DroMel_CAF1
Location 15,937,930 – 15,938,090
Length 160
Max. P 0.606318
window10219 window10220 window10221

overview

Window 9

Location 15,937,930 – 15,938,050
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.64
Mean single sequence MFE -30.57
Consensus MFE -27.93
Energy contribution -28.60
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.91
SVM decision value 0.09
SVM RNA-class probability 0.578408
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15937930 120 + 22224390
CUUUCGUCAUUGUUAUGGUUAUUUGCUGUUGCUAUUGCCGUUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUUAGUUGAGUU
..............(((((.....((....))....))))).(((((((((((((((..((((.....)))))))).)))))))))))((((((.(((((...)))))....)))))).. ( -30.60)
>DroSec_CAF1 6202 117 + 1
CUUUCGUCAUUGUUAUGGUUAUUUGCUGUUGCUAUUGCCGUUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCGUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUGAGUUGA---
..............(((((.....((....))....))))).(((((((((((((((..((((.....)))))))).)))))))))))(((((((((......)))).)))))....--- ( -31.00)
>DroEre_CAF1 5935 117 + 1
CUUUCGUCAUUGUUAUGGUUAUUUGCUGUUGCUAUUGCCGUUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCUGCCACCAUUUUGUGGUUUGAGUUGA---
..............(((((.....((....))....))))).(((((((((((((((..((((.....)))))))).)))))))))))(((.(((((......)))))..)))....--- ( -30.10)
>consensus
CUUUCGUCAUUGUUAUGGUUAUUUGCUGUUGCUAUUGCCGUUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUGAGUUGA___
..............(((((.....((....))....))))).(((((((((((((((..((((.....)))))))).)))))))))))(((((((((......)))).)))))....... (-27.93 = -28.60 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,937,970 – 15,938,090
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.63
Mean single sequence MFE -27.67
Consensus MFE -22.53
Energy contribution -23.20
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.81
SVM decision value 0.03
SVM RNA-class probability 0.546818
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15937970 120 + 22224390
UUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUUAGUUGAGUUUGAGUUUGUGCUUGCUUUGGUUAUUUCCUUCAUUUUUUUU
..(((((((((((((((..((((.....)))))))).)))))))))))((((((.(((((...)))))....))))))...((((....)))).....((......))............ ( -26.70)
>DroSec_CAF1 6242 113 + 1
UUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCGUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUGAGUUGA------GCUUGUGCUUGCUUUGGUUAUUUCCUUCAGUUUUUU-
..(((((((((((((((..((((.....)))))))).)))))))))))(((((((((......)))).)))))..((------((....))))(((..((......))...))).....- ( -30.10)
>DroEre_CAF1 5975 113 + 1
UUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCUGCCACCAUUUUGUGGUUUGAGUUGA------GUUUGUGCUUGCUUUGGUUAUUUCCUUCUUUUUUUU-
..(((((((((((((((..((((.....)))))))).)))))))))))(((.(((((......)))))..)))..((------((....)))).....((......))...........- ( -26.20)
>consensus
UUGCGCACAGUUGGGUUAAUAUUUCGAAAAUAAGCCAUAAUUGUGUGUCUCAGCCACCAUUUUGUGGUUUGAGUUGA______GUUUGUGCUUGCUUUGGUUAUUUCCUUCAUUUUUUU_
..(((((((((((((((..((((.....)))))))).)))))))))))(((((((((......)))).))))).........................((......))............ (-22.53 = -23.20 +   0.67)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,937,970 – 15,938,090
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.63
Mean single sequence MFE -18.13
Consensus MFE -15.93
Energy contribution -16.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.88
SVM decision value 0.15
SVM RNA-class probability 0.606318
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15937970 120 - 22224390
AAAAAAAAUGAAGGAAAUAACCAAAGCAAGCACAAACUCAAACUCAACUAAAACCACAAAAUGGUGGCUGAGACACACAAUUAUGGCUUAUUUUCGAAAUAUUAACCCAACUGUGCGCAA
............((......))...((..(((((........((((.((...((((.....)))))).))))...........(((.(((............))).)))..))))))).. ( -17.60)
>DroSec_CAF1 6242 113 - 1
-AAAAAACUGAAGGAAAUAACCAAAGCAAGCACAAGC------UCAACUCAAACCACAAAAUGGUGGCUGAGACACACAAUUACGGCUUAUUUUCGAAAUAUUAACCCAACUGUGCGCAA
-...........((((((((((......(((....))------)...((((..((((......)))).))))............)).))))))))......................... ( -18.90)
>DroEre_CAF1 5975 113 - 1
-AAAAAAAAGAAGGAAAUAACCAAAGCAAGCACAAAC------UCAACUCAAACCACAAAAUGGUGGCAGAGACACACAAUUAUGGCUUAUUUUCGAAAUAUUAACCCAACUGUGCGCAA
-...........((......))...((..(((((...------....(((...((((......))))..)))...........(((.(((............))).)))..))))))).. ( -17.90)
>consensus
_AAAAAAAUGAAGGAAAUAACCAAAGCAAGCACAAAC______UCAACUCAAACCACAAAAUGGUGGCUGAGACACACAAUUAUGGCUUAUUUUCGAAAUAUUAACCCAACUGUGCGCAA
............((......))...((..(((((.............(((...((((......))))..)))............((.(((............))).))...))))))).. (-15.93 = -16.27 +   0.33)

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 12:09:15 2006