Locus 697

Sequence ID X_DroMel_CAF1
Location 1,924,285 – 1,924,485
Length 200
Max. P 0.978091
window1117 window1118 window1119 window1120 window1121

overview

Window 7

Location 1,924,285 – 1,924,405
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -45.50
Consensus MFE -37.26
Energy contribution -38.08
Covariance contribution 0.81
Combinations/Pair 1.06
Mean z-score -2.10
Structure conservation index 0.82
SVM decision value 0.71
SVM RNA-class probability 0.830149
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924285 120 + 22224390
CGUGCCAAGGACAGCGGACACGACCCAAACCCAAAGCUCCAGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUAGCACCCACUGCUAGCAGACGAUCGUUCUGCUUCACGAGCAGCACGC
(((((...((....((....))..)).........((((.....(((((((((((..(((..(((((((.....)))))))(((....))))))...))))))))))).)))).))))). ( -47.40)
>DroSec_CAF1 8255 120 + 1
CGUGCCAAGGACAGCGGACACGACCCAAGCCCAAAGCUCCAGUCUUGAGCGGAGCUCCGUAAUGGGUGCACUUGGCACCCACUGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGAACGC
.((((((((..(..((....))(((((.......((((((.((.....))))))))......))))))..))))))))...(((....))).....(((((((((.....))))))))). ( -46.82)
>DroEre_CAF1 8323 120 + 1
CGUGCCAAGGACAGCGGACACGACCCAAACCCAAGGCUCCAGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUCGCACCCACGGCAAGCAGACGAUCGUUCUGCUUUACAAGCAGCACGC
(((((.......((((((.((((............(((((.....)))))...(((((((...((((((.....))))))))))..)))......)))))))))).........))))). ( -44.59)
>DroYak_CAF1 8359 120 + 1
CGUGCCACGGACAGCGAACACGACCCAAACCCAAGGCUCCAGUCUGAAGCGGAGCUCCGUAGUGGGUGCACUUGGCACCCACGGCCAGCAGACGAUCAUUCUGCUUCACAAGCAGCACGC
(((((.(((((...((....)).............(((((.((.....)))))))))))).((((((((.....))))))))(...((((((.......))))))...).....))))). ( -43.20)
>consensus
CGUGCCAAGGACAGCGGACACGACCCAAACCCAAAGCUCCAGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUGGCACCCACGGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGCACGC
(((((....((.((((((.((((...........((((((.((.....))))))))..(((.(((((((.....))))))).)))..........)))))))))))).......))))). (-37.26 = -38.08 +   0.81) 

alignment

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secondary structure

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dotplot

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Window 8

Location 1,924,285 – 1,924,405
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -52.27
Consensus MFE -46.97
Energy contribution -46.60
Covariance contribution -0.37
Combinations/Pair 1.15
Mean z-score -1.72
Structure conservation index 0.90
SVM decision value 0.70
SVM RNA-class probability 0.827484
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924285 120 - 22224390
GCGUGCUGCUCGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCUAAGUGCACCCAUUACGGAGCUCCGCUCCAGACUGGAGCUUUGGGUUUGGGUCGUGUCCGCUGUCCUUGGCACG
.((((((........((((((.(....)))))))((((((((((((.....)))))))))(((((((...))))).((((.((((.....)))).))))))....)))......)))))) ( -51.30)
>DroSec_CAF1 8255 120 - 1
GCGUUCUGCUUGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCCAAGUGCACCCAUUACGGAGCUCCGCUCAAGACUGGAGCUUUGGGCUUGGGUCGUGUCCGCUGUCCUUGGCACG
.(((((((((.....))))))))).(((.(((....))))))((((((((..((((((...((((((((((........))))))))))....))))).((....)).)..)))))))). ( -54.90)
>DroEre_CAF1 8323 120 - 1
GCGUGCUGCUUGUAAAGCAGAACGAUCGUCUGCUUGCCGUGGGUGCGAAGUGCACCCAUUACGGAGCUCCGCUCCAGACUGGAGCCUUGGGUUUGGGUCGUGUCCGCUGUCCUUGGCACG
.((((((.......(((((((.(....))))))))((.((((((((.....))))))))((((((((...))))).((((.(((((...))))).)))))))...)).......)))))) ( -50.20)
>DroYak_CAF1 8359 120 - 1
GCGUGCUGCUUGUGAAGCAGAAUGAUCGUCUGCUGGCCGUGGGUGCCAAGUGCACCCACUACGGAGCUCCGCUUCAGACUGGAGCCUUGGGUUUGGGUCGUGUUCGCUGUCCGUGGCACG
.(((((..(..((((((((((.......))))))((((((((((((.....))))))))....((((((.(((((.....)))))...)))))).))))....)))).....)..))))) ( -52.70)
>consensus
GCGUGCUGCUUGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCCAAGUGCACCCAUUACGGAGCUCCGCUCCAGACUGGAGCCUUGGGUUUGGGUCGUGUCCGCUGUCCUUGGCACG
.((((((........((((((.(....)))))))(((.((((((((.....))))))))((((((((...))))).((((.(((((...))))).)))))))...)))......)))))) (-46.97 = -46.60 +  -0.37) 

alignment

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secondary structure

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dotplot

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Window 9

Location 1,924,325 – 1,924,445
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.75
Mean single sequence MFE -48.78
Consensus MFE -42.09
Energy contribution -42.40
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -3.34
Structure conservation index 0.86
SVM decision value 1.81
SVM RNA-class probability 0.978091
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924325 120 + 22224390
AGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUAGCACCCACUGCUAGCAGACGAUCGUUCUGCUUCACGAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUUUCGUUCUC
.....((((((((((((.(((.(((((((.....))))))).))).(((((((....).))))))....)))).....(((((((..((......))..))))))).....)))))))). ( -51.00)
>DroSec_CAF1 8295 120 + 1
AGUCUUGAGCGGAGCUCCGUAAUGGGUGCACUUGGCACCCACUGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGAACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUCUCGUUCUC
......(((((..(((..(((.(((((((.....))))))).))).)))(((.((..((((((((.....))))))))(((((((..((......))..))))))).)).)))))))).. ( -51.50)
>DroEre_CAF1 8363 120 + 1
AGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUCGCACCCACGGCAAGCAGACGAUCGUUCUGCUUUACAAGCAGCACGCGGUUGUCCUCAUCGAAGUCCACUUGCUUCAUCUCGUUCUC
.....(((((((((((((((...((((((.....))))))))))..))).(((((((((.(((((.....)))))...)))))))))......(((((......))))).)).)))))). ( -47.40)
>DroYak_CAF1 8399 120 + 1
AGUCUGAAGCGGAGCUCCGUAGUGGGUGCACUUGGCACCCACGGCCAGCAGACGAUCAUUCUGCUUCACAAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACUUGCUUCAUCUCGUUCUC
.(((((..((((....)))).((((((((.....))))))))......)))))(((....(((((.....)))))...(((((((..((......))..)))))))...)))........ ( -45.20)
>consensus
AGUCUGGAGCGGAGCUCCGUAAUGGGUGCACUUGGCACCCACGGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUCUCGUUCUC
.(((((..((((....))))..(((((((.....))))))).......)))))((.(((.((((((...)))))).))(((((((..((......))..)))))))........).)).. (-42.09 = -42.40 +   0.31) 

alignment

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secondary structure

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Window 0

Location 1,924,325 – 1,924,445
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.75
Mean single sequence MFE -48.25
Consensus MFE -41.83
Energy contribution -41.70
Covariance contribution -0.13
Combinations/Pair 1.09
Mean z-score -2.43
Structure conservation index 0.87
SVM decision value 1.45
SVM RNA-class probability 0.955328
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924325 120 - 22224390
GAGAACGAAAUGAAGCAGGUGGACUUCGAUGAGGACACCCGCGUGCUGCUCGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCUAAGUGCACCCAUUACGGAGCUCCGCUCCAGACU
..((.((.......((.((((..(((....)))..)))).))...(((((.....)))))..)).))(((((..((((((((((((.....)))))))))..((....))))).))))). ( -48.40)
>DroSec_CAF1 8295 120 - 1
GAGAACGAGAUGAAGCAGGUGGACUUCGAUGAGGACACCCGCGUUCUGCUUGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCCAAGUGCACCCAUUACGGAGCUCCGCUCAAGACU
(((....((((((.((.((((..(((....)))..)))).))((((((((.....))))))))..))))))(((.(.(((((((((.....))))))))).)..)))....)))...... ( -52.00)
>DroEre_CAF1 8363 120 - 1
GAGAACGAGAUGAAGCAAGUGGACUUCGAUGAGGACAACCGCGUGCUGCUUGUAAAGCAGAACGAUCGUCUGCUUGCCGUGGGUGCGAAGUGCACCCAUUACGGAGCUCCGCUCCAGACU
..............(((((..(((.((((((.((....)).))).(((((.....)))))..)))..)))..))))).((((((((.....))))))))...(((((...)))))..... ( -46.50)
>DroYak_CAF1 8399 120 - 1
GAGAACGAGAUGAAGCAAGUGGACUUCGAUGAGGACACCCGCGUGCUGCUUGUGAAGCAGAAUGAUCGUCUGCUGGCCGUGGGUGCCAAGUGCACCCACUACGGAGCUCCGCUUCAGACU
..........((((((....((((((((....((.((((((((.(((........((((((.......))))))))))))))))))).((((....)))).))))).))))))))).... ( -46.10)
>consensus
GAGAACGAGAUGAAGCAAGUGGACUUCGAUGAGGACACCCGCGUGCUGCUUGUGAAGCAGAACGAUCGUCUGCUAGCAGUGGGUGCCAAGUGCACCCAUUACGGAGCUCCGCUCCAGACU
.................(((((((((((((((((....)).(((.(((((.....))))).))).))))).....(.(((((((((.....))))))))).))))).))))))....... (-41.83 = -41.70 +  -0.13) 

alignment

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secondary structure

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dotplot

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Window 1

Location 1,924,365 – 1,924,485
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.06
Mean single sequence MFE -36.35
Consensus MFE -31.98
Energy contribution -32.10
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -1.76
Structure conservation index 0.88
SVM decision value 0.69
SVM RNA-class probability 0.824435
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924365 120 + 22224390
ACUGCUAGCAGACGAUCGUUCUGCUUCACGAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUUUCGUUCUCCUUCAGAUCCGUAACUCUGCAGUCCACGGGGACCGCACUU
.(((..((.((((((..((.((((((...)))))).))(((((((..((......))..)))))))......))).))).)).)))...........(((.((((....)))).)))... ( -38.80)
>DroSec_CAF1 8335 120 + 1
ACUGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGAACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUCUCGUUCUCCUUCAGAUCCGUAACCUUGCAGUCCACAGGGACCGCACUG
.(((..((.((((((..((((((((.....))))))))(((((((..((......))..)))))))......))).))).)).)))...........(((.((((....)))).)))... ( -42.80)
>DroEre_CAF1 8403 120 + 1
ACGGCAAGCAGACGAUCGUUCUGCUUUACAAGCAGCACGCGGUUGUCCUCAUCGAAGUCCACUUGCUUCAUCUCGUUCUCCUUCAGAUCCGUAACUCUGCAGUCCACGAGGACCGCACUG
((((......(((((((((.(((((.....)))))...)))))))))......(((((......)))))...................)))).....(((.((((....)))).)))... ( -34.60)
>DroYak_CAF1 8439 120 + 1
ACGGCCAGCAGACGAUCAUUCUGCUUCACAAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACUUGCUUCAUCUCGUUCUCCUUCAGAUCCGUAACUCUGCAGUCCACGAGCACCGCACUG
.(((..((((((.......)))))).........((..(((((((..((......))..)))))))......((((....((.((((........)))).))...)))))).)))..... ( -29.20)
>consensus
ACGGCUAGCAGACGAUCGUUCUGCUUCACAAGCAGCACGCGGGUGUCCUCAUCGAAGUCCACCUGCUUCAUCUCGUUCUCCUUCAGAUCCGUAACUCUGCAGUCCACGAGGACCGCACUG
...((..((((((((((((.((((((...)))))).))(((((((..((......))..)))))))...................))).)))....)))).((((....)))).)).... (-31.98 = -32.10 +   0.12) 

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 09:51:27 2006