Locus 1051

Sequence ID 3R_DroMel_CAF1
Location 3,268,080 – 3,268,195
Length 115
Max. P 0.994364
window1699 window1700 window1701 window1702

overview

Window 9

Location 3,268,080 – 3,268,181
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 91.25
Mean single sequence MFE -21.55
Consensus MFE -15.92
Energy contribution -16.86
Covariance contribution 0.94
Combinations/Pair 1.10
Mean z-score -2.79
Structure conservation index 0.74
SVM decision value 0.76
SVM RNA-class probability 0.842578
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3268080 101 + 27905053
ACCCGGCACACAAAUCCAAGCCCAAAACCAGGCUCAAACCGAACUCAGCUCCAAAUUUCAAGCGUAAACCCAAACCCAUCGCUUGACAUUUGCUCAACAUG
....(((...........((((........))))......(....).))).(((((.(((((((...............))))))).)))))......... ( -17.16)
>DroSec_CAF1 21278 101 + 1
ACCCGGCACACAAAUCCAAGCCCAAAACCUGGCUCAAGCCGAACUCGGUUCCGAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUG
...((((...........((((........))))...)))).....((((.(((((.(((((((((..........)).))))))).)))))...)))).. ( -26.34)
>DroSim_CAF1 22160 101 + 1
ACCCGGCACACAAAUCCAAGCCCAAAACCAGGCUCAAACCGAACUCGGUUCCGAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUG
....(((............)))......((((....(((((....))))).(((((.(((((((((..........)).))))))).))))).....)))) ( -26.50)
>DroYak_CAF1 40724 100 + 1
ACCCA-UACACAAGUCCAAACCCAAAACCAGGCUUAAACCGAACUCGGCUUCAAAUUUCAAGCGUGAACUCGAACCCAUCGCUUGACAUUCGCUCAACCUG
.....-......................((((......(((....))).........(((((((((..........)).)))))))...........)))) ( -16.20)
>consensus
ACCCGGCACACAAAUCCAAGCCCAAAACCAGGCUCAAACCGAACUCGGCUCCAAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUG
..................((((........))))..(((((....))))).(((((.(((((((...............))))))).)))))......... (-15.92 = -16.86 +   0.94)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,268,080 – 3,268,181
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 91.25
Mean single sequence MFE -34.75
Consensus MFE -32.34
Energy contribution -31.40
Covariance contribution -0.94
Combinations/Pair 1.27
Mean z-score -2.22
Structure conservation index 0.93
SVM decision value 1.95
SVM RNA-class probability 0.983528
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3268080 101 - 27905053
CAUGUUGAGCAAAUGUCAAGCGAUGGGUUUGGGUUUACGCUUGAAAUUUGGAGCUGAGUUCGGUUUGAGCCUGGUUUUGGGCUUGGAUUUGUGUGCCGGGU
.........(((((.(((((((.((..(....)..))))))))).)))))((((((....))))))..(((((((...(.((........)).)))))))) ( -28.60)
>DroSec_CAF1 21278 101 - 1
CAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGCUUGAGCCAGGUUUUGGGCUUGGAUUUGUGUGCCGGGU
..((((...(((((.(((((((.((..(....)..))))))))).))))).))))..(..((((.((((((((((.....)))))).))))...))))..) ( -37.80)
>DroSim_CAF1 22160 101 - 1
CAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGUUUGAGCCUGGUUUUGGGCUUGGAUUUGUGUGCCGGGU
..(((...((((((.((((((..(..(..((((((((.(((.(((.((((....)))))))))).))))))))..)..).))))))))))))..))).... ( -38.90)
>DroYak_CAF1 40724 100 - 1
CAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGAGUUCACGCUUGAAAUUUGAAGCCGAGUUCGGUUUAAGCCUGGUUUUGGGUUUGGACUUGUGUA-UGGGU
..((((...(((((.(((((((.((..(....)..))))))))).))))).))))......(((((((((((......)))))))))))......-..... ( -33.70)
>consensus
CAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGUUUGAGCCUGGUUUUGGGCUUGGAUUUGUGUGCCGGGU
((((((...(((((.(((((((.((..(....)..))))))))).)))))((((((....))))))((((((......)))))).)))))).......... (-32.34 = -31.40 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,268,105 – 3,268,195
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 92.96
Mean single sequence MFE -19.66
Consensus MFE -16.07
Energy contribution -16.76
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -2.52
Structure conservation index 0.82
SVM decision value 1.15
SVM RNA-class probability 0.922831
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3268105 90 + 27905053
AACCAGGCUCAAACCGAACUCAGCUCCAAAUUUCAAGCGUAAACCCAAACCCAUCGCUUGACAUUUGCUCAACAUGCUAAAUGCUAAUUA
.....((......))...........(((((.(((((((...............))))))).)))))........((.....))...... ( -13.76)
>DroSec_CAF1 21303 90 + 1
AACCUGGCUCAAGCCGAACUCGGUUCCGAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUGCUAAAUGCUAAUUA
....((((....)))).....((((.(((((.(((((((((..........)).))))))).)))))...)))).((.....))...... ( -24.00)
>DroSim_CAF1 22185 90 + 1
AACCAGGCUCAAACCGAACUCGGUUCCGAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUGCUAAAUGCUAAUUA
...((((....(((((....))))).(((((.(((((((((..........)).))))))).))))).....)))).............. ( -24.30)
>DroYak_CAF1 40748 90 + 1
AACCAGGCUUAAACCGAACUCGGCUUCAAAUUUCAAGCGUGAACUCGAACCCAUCGCUUGACAUUCGCUCAACCUGCUAAAUGCUAAUUA
...((((......(((....))).........(((((((((..........)).)))))))...........)))).............. ( -16.60)
>consensus
AACCAGGCUCAAACCGAACUCGGCUCCAAAUUUCAAGCGUGAACCCGAACCCAUCGCUUGACAUUCGCUCAACCUGCUAAAUGCUAAUUA
.....(((...(((((....))))).(((((.(((((((...............))))))).)))))........)))............ (-16.07 = -16.76 +   0.69)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,268,105 – 3,268,195
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 92.96
Mean single sequence MFE -29.50
Consensus MFE -28.52
Energy contribution -28.15
Covariance contribution -0.37
Combinations/Pair 1.22
Mean z-score -2.50
Structure conservation index 0.97
SVM decision value 2.47
SVM RNA-class probability 0.994364
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3268105 90 - 27905053
UAAUUAGCAUUUAGCAUGUUGAGCAAAUGUCAAGCGAUGGGUUUGGGUUUACGCUUGAAAUUUGGAGCUGAGUUCGGUUUGAGCCUGGUU
...(((((((.....))))))).(((((.(((((((.((..(....)..))))))))).))))).((((..((((.....))))..)))) ( -23.00)
>DroSec_CAF1 21303 90 - 1
UAAUUAGCAUUUAGCAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGCUUGAGCCAGGUU
.....(((......((((((((((((((.(((((((.((..(....)..))))))))).))))(....)..))))))))))......))) ( -30.20)
>DroSim_CAF1 22185 90 - 1
UAAUUAGCAUUUAGCAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGUUUGAGCCUGGUU
..............((((((...(((((.(((((((.((..(....)..))))))))).)))))((((((....)))))).))))))... ( -33.80)
>DroYak_CAF1 40748 90 - 1
UAAUUAGCAUUUAGCAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGAGUUCACGCUUGAAAUUUGAAGCCGAGUUCGGUUUAAGCCUGGUU
..............((((((...(((((.(((((((.((..(....)..))))))))).)))))((((((....)))))).))))))... ( -31.00)
>consensus
UAAUUAGCAUUUAGCAGGUUGAGCGAAUGUCAAGCGAUGGGUUCGGGUUCACGCUUGAAAUUCGGAACCGAGUUCGGUUUGAGCCUGGUU
..............((((((...(((((.(((((((.((..(....)..))))))))).)))))((((((....)))))).))))))... (-28.52 = -28.15 +  -0.37)

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 09:59:20 2006