Locus 1618

Sequence ID 2L_DroMel_CAF1
Location 4,347,006 – 4,347,165
Length 159
Max. P 0.974951
window2599 window2600 window2601

overview

Window 9

Location 4,347,006 – 4,347,125
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.89
Mean single sequence MFE -38.46
Consensus MFE -33.58
Energy contribution -33.70
Covariance contribution 0.12
Combinations/Pair 1.06
Mean z-score -1.79
Structure conservation index 0.87
SVM decision value 1.74
SVM RNA-class probability 0.974951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4347006 119 + 22407834
AGUGGAAGAGCCAUUGAGUCGGAGAGGGAUGGAGAG-AUGUGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
(((((.....)))))..(((((((((.....(((.(-(((..........))))...((((((((((((.(((......))).))))))))))))))).......)))))))))...... ( -42.50)
>DroSec_CAF1 15720 119 + 1
AGAGGAAGAGCCAGCGAGUCAGAGAGGGAUGGAGAG-AUGUGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
.(((((...(....)..((((.(((((..(((((((-.(((((((..((((......))))..))))).))..)))))))))))).))))...)))))...(((....)))......... ( -38.30)
>DroSim_CAF1 16480 119 + 1
AGAGGAAGAGCCAUCGAGUCAGAGAGGGAUGGAGAG-AUGUGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
.(((((.((....))..((((.(((((..(((((((-.(((((((..((((......))))..))))).))..)))))))))))).))))...)))))...(((....)))......... ( -39.40)
>DroEre_CAF1 16080 120 + 1
AGAGGAACAGACAUUGAGUCGGAGAGGGAUGGAGAGCGUGUGUGUGGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGUCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
.(((((...(((.....)))..(.(((((((((((((.(((.(((((.(((......)))...)))))))))).))))))))))).)......)))))...(((....)))......... ( -36.50)
>DroYak_CAF1 16393 119 + 1
AGGGGAAGAGACAGCGAGUCGGAGAGGGAUGGCGAG-AUGUGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGUCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
.............((((((((((((((((.(((..(-...(((((..((((......))))..))))).).))).)))).((((((.((.....)).))))))...))))))))..)))) ( -35.60)
>consensus
AGAGGAAGAGCCAUCGAGUCGGAGAGGGAUGGAGAG_AUGUGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGU
...((((((........((((.(((((..((((((...(((((((.(((((......))))).))))).))...))))))))))).))))...(((.....))).))))))......... (-33.58 = -33.70 +   0.12)

alignment

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secondary structure

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Window 0

Location 4,347,006 – 4,347,125
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.89
Mean single sequence MFE -27.30
Consensus MFE -24.19
Energy contribution -24.35
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -1.70
Structure conservation index 0.89
SVM decision value 1.68
SVM RNA-class probability 0.971523
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4347006 119 - 22407834
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGGCGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCUCCACACAU-CUCUCCAUCCCUCUCCGACUCAAUGGCUCUUCCACU
.........((((....((.(((((..((((((.((..(((......)))..)).)))))).....((((..........)))-).................))))).))...))))... ( -29.50)
>DroSec_CAF1 15720 119 - 1
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGGCGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCUCCACACAU-CUCUCCAUCCCUCUCUGACUCGCUGGCUCUUCCUCU
.........(((....)))...(((((...((((....(((((.....)))))((((((.......((((.............-.....))))......)).).)))))))...))))). ( -27.89)
>DroSim_CAF1 16480 119 - 1
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGGCGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCUCCACACAU-CUCUCCAUCCCUCUCUGACUCGAUGGCUCUUCCUCU
.........(((.((((.....((((.((((((.((..(((......)))..)).))))))))))....)))).)))......-....(((((............))))).......... ( -30.10)
>DroEre_CAF1 16080 120 - 1
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGACGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCCACACACACGCUCUCCAUCCCUCUCCGACUCAAUGUCUGUUCCUCU
.........((((.........((((.((((((....((.(((.....)))))..)))))).....((((...................))))))))...(((.....)))..))))... ( -24.41)
>DroYak_CAF1 16393 119 - 1
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGACGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCUCCACACAU-CUCGCCAUCCCUCUCCGACUCGCUGUCUCUUCCCCU
.........((((.........((((.((((((....((.(((.....)))))..)))))).....((((..........)))-)........))))...(((.....)))..))))... ( -24.60)
>consensus
ACAAAUAUCGGAAAAUUCCUUUGAGGAUUUGCCACAAAGGCGGAAAAGCCGCUGCGGCAAACCUUUGAUGAUUCUCCACACAU_CUCUCCAUCCCUCUCCGACUCGAUGGCUCUUCCUCU
.......(((((..........((((.((((((.((..(((......)))..)).)))))))))).((((...................))))....))))).................. (-24.19 = -24.35 +   0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,347,045 – 4,347,165
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.00
Mean single sequence MFE -36.24
Consensus MFE -35.04
Energy contribution -35.04
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -1.49
Structure conservation index 0.97
SVM decision value 1.30
SVM RNA-class probability 0.939734
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4347045 120 + 22407834
UGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAAUCAGCAGCAGGAAAACUUGACCGA
..(((((((((.....(((((((((((((.(((......))).)))))))))).))).....).))))))))...(((((.((..((.....)).....)).)))))............. ( -35.90)
>DroSec_CAF1 15759 120 + 1
UGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAGUCAGCAGCAGGAAAACUUGACCGA
..(((((((((.....(((((((((((((.(((......))).)))))))))).))).....).))))))))...(((((.((.(((........))).)).)))))............. ( -38.00)
>DroSim_CAF1 16519 120 + 1
UGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAGUCAGCAGCAGGAAAACUUGACCGA
..(((((((((.....(((((((((((((.(((......))).)))))))))).))).....).))))))))...(((((.((.(((........))).)).)))))............. ( -38.00)
>DroEre_CAF1 16120 120 + 1
UGUGUGGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGUCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAGUCAGCAGCAGGAAAACUUGACCAA
....(((....(((...((((((((((((.(((......))).))))))))))))......(((....)))))).(((((.((.(((........))).)).))))).........))). ( -34.00)
>DroYak_CAF1 16432 120 + 1
UGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGUCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAGUCAGCAGCAGGAAAACUUGACCAA
..(((((((((.....(((((((((((((.(((......))).)))))))))).))).....).))))))))...(((((.((.(((........))).)).)))))............. ( -35.30)
>consensus
UGUGGAGAAUCAUCAAAGGUUUGCCGCAGCGGCUUUUCCGCCUUUGUGGCAAAUCCUCAAAGGAAUUUUCCGAUAUUUGUAGCAGGCAACCAGCAGUCAGCAGCAGGAAAACUUGACCGA
.((.(((....(((...((((((((((((.(((......))).))))))))))))......(((....)))))).(((((.((.(((........))).)).)))))....))).))... (-35.04 = -35.04 +  -0.00)

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 10:06:51 2006