Locus 2913

Sequence ID X_DroMel_CAF1
Location 7,800,054 – 7,800,187
Length 133
Max. P 0.941420
window4772 window4773 window4774

overview

Window 2

Location 7,800,054 – 7,800,164
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.03
Mean single sequence MFE -38.64
Consensus MFE -20.80
Energy contribution -21.08
Covariance contribution 0.28
Combinations/Pair 1.28
Mean z-score -1.69
Structure conservation index 0.54
SVM decision value 0.09
SVM RNA-class probability 0.577810
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7800054 110 - 22224390
GUUGAACAUUACGGUGUCCAUUCUGUCCACCGUUAACAAUCCGCAUGUUCCAUCUGUGGCAUUCGCCACCAUGUGUGAUGAGGAGGAGUGCCCCACGUUCGACCUGCCCA
(((((((...((((((..(.....)..)))))).....(((((((((........(((((....))))))))))).)))..((.((....))))..)))))))....... ( -36.00)
>DroVir_CAF1 4007 98 - 1
GCUCUGCAUGACGGUG------CUCUCGGAUGUGGUGCAUCCGCACGAGUCUGAGGUGGCGUUUGCCGUUAUGCGCGAGAA---GG---CGACCAAAUUUAAGCUGCCGC
.(((((((((((((((------(((((((((...((((....))))..)))))))..)))....))))))))))).)))..---((---((.............)))).. ( -40.12)
>DroSec_CAF1 3043 110 - 1
GUUCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGAUCCAUCUGUGGCGUUCGCCACCAUGGGCGAUGACGAGGAUUGCCCCGAAUUCGAGCUGCCCA
((((....(((((((((.(.....).))))))))).((((((.(((..(((((..(((((....))))).)))))..)))....))))))..........))))...... ( -41.50)
>DroSim_CAF1 3557 110 - 1
GUUCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGAUCCAUCUGUGGCGUUCGCCACCAUGGGCGAUGACGAGGAGUGCCCCAAAUUCGAGCUGCCCA
((((....(((((((((.(.....).))))))))).((.(((.(((..(((((..(((((....))))).)))))..)))....))).))..........))))...... ( -37.80)
>DroEre_CAF1 3017 107 - 1
GCGCAACCUAACGGUGGCCAUUCUGUCCACCGUCAACAAUCCGCAUGUUCCCUCGGUGGCACUCGCCACCAUGGGCGAUGA---GGAGUGCCCCAAGUUCGAGCUGCCCA
((((......(((((((.(.....).)))))))......(((.(((...(((..((((((....))))))..)))..))).---)))))))....(((....)))..... ( -39.30)
>DroYak_CAF1 3558 107 - 1
GCGCAACCUGACGGUGGCCUUACUGUCCACCGUAAACCAUCCGCAUGUUCCCGCCGUGGCAUUCGCCACCAUGGGCGAUGA---GGAGUGCCCCAAGUUCGAGCUGCCCA
((((......(((((((.(.....).)))))))......(((.(((...((((..(((((....)))))..))))..))).---)))))))....(((....)))..... ( -37.10)
>consensus
GCUCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGAUCCAUCUGUGGCAUUCGCCACCAUGGGCGAUGA___GGAGUGCCCCAAAUUCGAGCUGCCCA
((........(((((((.(.....).))))))).........))...........(((((....)))))...(((((.(((...((......))....)))...))))). (-20.80 = -21.08 +   0.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,800,088 – 7,800,187
Length 99
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -39.75
Consensus MFE -23.00
Energy contribution -24.78
Covariance contribution 1.78
Combinations/Pair 1.12
Mean z-score -2.38
Structure conservation index 0.58
SVM decision value 1.32
SVM RNA-class probability 0.941420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7800088 99 + 22224390
ACACAUGGUGGCGAAUGCCACAGAUGGAACAUGCGGAUUGUUAACGGUGGACAGAAUGGACACCGUAAUGUUCAACUGGUGCGGCAUAAGCAUCAGG---AC
...(((.(((((....)))))..)))((((((((.....))..((((((..(.....)..)))))).))))))..(((((((.......))))))).---.. ( -36.20)
>DroSec_CAF1 3077 99 + 1
GCCCAUGGUGGCGAACGCCACAGAUGGAUCAUGCGGAUUGUUUACGGUGGACAGAAUGGCCACCGUAAUGUUGAACUGGUGCGGCAUUAGUAUCAGG---AC
..((((.(((((....)))))..))))........(((...(((((((((.(.....).))))))))).)))...(((((((.......))))))).---.. ( -36.50)
>DroSim_CAF1 3591 99 + 1
GCCCAUGGUGGCGAACGCCACAGAUGGAUCAUGCGGAUUGUUUACGGUGGACAGAAUGGCCACCGUAAUGUUGAACUGGUGCGGCAUAAGCAUCAGG---AC
..((((.(((((....)))))..))))........(((...(((((((((.(.....).))))))))).)))...(((((((.......))))))).---.. ( -38.50)
>DroEre_CAF1 3048 99 + 1
GCCCAUGGUGGCGAGUGCCACCGAGGGAACAUGCGGAUUGUUGACGGUGGACAGAAUGGCCACCGUUAGGUUGCGCUGGUGCGGCAUGAGCAUCAGG---AC
.(((.(((((((....))))))).))).....((((....((((((((((.(.....).)))))))))).)))).(((((((.......))))))).---.. ( -46.00)
>DroYak_CAF1 3589 99 + 1
GCCCAUGGUGGCGAAUGCCACGGCGGGAACAUGCGGAUGGUUUACGGUGGACAGUAAGGCCACCGUCAGGUUGCGCUGCCGCAGCAUGAGCAUGUGG---AC
.(((.(.(((((....))))).).))).((((((..........((((((.(......)))))))(((.((((((....)))))).)))))))))..---.. ( -43.00)
>DroAna_CAF1 3280 99 + 1
GCCCAAGGUGGCGAAGGCCACCAUCGGGACAUGGGGAUGUAAAACGGUGGACAGGAUCACAAUGGCCAGGCGGCACGGACGGG-C--AGUCACCAGGGCCAC
((((..((((((....(((.((((((..((((....))))....))))))..............(((....))).......))-)--.)))))).))))... ( -38.30)
>consensus
GCCCAUGGUGGCGAAUGCCACAGAUGGAACAUGCGGAUUGUUUACGGUGGACAGAAUGGCCACCGUAAGGUUGAACUGGUGCGGCAUAAGCAUCAGG___AC
.(((((((((((....)))))........)))).)).......(((((((.(.....).))))))).........(((((((.......)))))))...... (-23.00 = -24.78 +   1.78)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,800,088 – 7,800,187
Length 99
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.47
Mean single sequence MFE -33.38
Consensus MFE -18.88
Energy contribution -20.35
Covariance contribution 1.47
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.57
SVM decision value 0.93
SVM RNA-class probability 0.883936
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7800088 99 - 22224390
GU---CCUGAUGCUUAUGCCGCACCAGUUGAACAUUACGGUGUCCAUUCUGUCCACCGUUAACAAUCCGCAUGUUCCAUCUGUGGCAUUCGCCACCAUGUGU
..---......((..((((((((...((.((((((.((((((..(.....)..))))))...........)))))).)).))))))))..)).......... ( -26.80)
>DroSec_CAF1 3077 99 - 1
GU---CCUGAUACUAAUGCCGCACCAGUUCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGAUCCAUCUGUGGCGUUCGCCACCAUGGGC
((---((.(((....((((.((....))......(((((((((.(.....).))))))))).......)))).))).....(((((....)))))...)))) ( -29.40)
>DroSim_CAF1 3591 99 - 1
GU---CCUGAUGCUUAUGCCGCACCAGUUCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGAUCCAUCUGUGGCGUUCGCCACCAUGGGC
((---((.((((.((((((.((....))......(((((((((.(.....).))))))))).......))))))..)))).(((((....)))))...)))) ( -34.00)
>DroEre_CAF1 3048 99 - 1
GU---CCUGAUGCUCAUGCCGCACCAGCGCAACCUAACGGUGGCCAUUCUGUCCACCGUCAACAAUCCGCAUGUUCCCUCGGUGGCACUCGCCACCAUGGGC
((---((.((.(..((((((((....))).......(((((((.(.....).))))))).........)))))...).))((((((....))))))..)))) ( -36.30)
>DroYak_CAF1 3589 99 - 1
GU---CCACAUGCUCAUGCUGCGGCAGCGCAACCUGACGGUGGCCUUACUGUCCACCGUAAACCAUCCGCAUGUUCCCGCCGUGGCAUUCGCCACCAUGGGC
..---..((((((.((.(.((((....)))).).))(((((((.(.....).))))))).........)))))).((((..(((((....)))))..)))). ( -38.00)
>DroAna_CAF1 3280 99 - 1
GUGGCCCUGGUGACU--G-CCCGUCCGUGCCGCCUGGCCAUUGUGAUCCUGUCCACCGUUUUACAUCCCCAUGUCCCGAUGGUGGCCUUCGCCACCUUGGGC
((((((..((((...--(-(.(....).)))))).))))))(((((..(.(....).)..))))).........(((((.((((((....))))))))))). ( -35.80)
>consensus
GU___CCUGAUGCUUAUGCCGCACCAGUGCAACAUUACGGUGGCCAUUCUGUCCACCGUAAACAAUCCGCAUGUUCCAUCUGUGGCAUUCGCCACCAUGGGC
..............(((((.((....))........(((((((.(.....).))))))).........))))).((((...(((((....)))))..)))). (-18.88 = -20.35 +   1.47)

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 10:46:31 2006