Locus 139

Sequence ID 2R_DroMel_CAF1
Location 1,400,092 – 1,400,252
Length 160
Max. P 0.999924
window298 window299 window300 window301

overview

Window 8

Location 1,400,092 – 1,400,212
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -24.60
Consensus MFE -20.00
Energy contribution -20.60
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.81
SVM decision value 1.66
SVM RNA-class probability 0.970418
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1400092 120 + 20766785
ACUCACACUUCAUUUAGCCAGAUGUUGCACAUCCGAACGGCAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAU
................(((((.(((((.....((....))...((((((((.....(((((....)))))...))))))))......................)))))...))))).... ( -25.30)
>DroSec_CAF1 25896 120 + 1
GCUCACACUUCAUUUAGCCAGAUGUUGCACAUCCGAACGGCAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAU
................(((((.(((((.....((....))...((((((((.....(((((....)))))...))))))))......................)))))...))))).... ( -25.30)
>DroSim_CAF1 30822 120 + 1
GCUCACACUUCAUUUAGCCAGAUGUUGCACAUCCGAACGGCAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAU
................(((((.(((((.....((....))...((((((((.....(((((....)))))...))))))))......................)))))...))))).... ( -25.30)
>DroEre_CAF1 24843 120 + 1
ACUCACACUUCAUUUAGCCAGAUGUUGCACAUCCGAACAGCAAGAGCAACACCAGCAGCAGCAACCUACUGAAUGUUGCUUAUUUUCACUGGCAAAAUAAAAUCAACACAAUCGGUAAAU
...........((((.(((((.(((((..(....)..))))).((((((((....(((.((....)).)))..)))))))).......))))).))))...................... ( -25.10)
>DroYak_CAF1 26682 120 + 1
ACUCACACUUCAUUUAGCCAGAUGUUGCACAUCUAAACGGCAAGAGAAACACCAGAAGCAGCAACCUACUAAAUGUUGCUUAUUUUCACUGGCAAAAUAAAAUAAACACACAUGGUAAAU
...........((((.(((((.(.((((.(........))))).)((((......((((((((..........))))))))..)))).))))).))))...................... ( -22.00)
>consensus
ACUCACACUUCAUUUAGCCAGAUGUUGCACAUCCGAACGGCAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAU
...........((((.(((.((((.....))))..........((((((((.....(((((....)))))...)))))))).........))).))))...................... (-20.00 = -20.60 +   0.60)

alignment

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secondary structure

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Window 9

Location 1,400,092 – 1,400,212
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -34.14
Consensus MFE -32.04
Energy contribution -31.68
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -2.04
Structure conservation index 0.94
SVM decision value 3.36
SVM RNA-class probability 0.999081
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1400092 120 - 20766785
AUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUGCCGUUCGGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGU
(((..(((((...))))(((((((((.(((...(((.(..(((((((((.(((((....)))))...)))))))))..)....)))(((((.....)))))))).))))))))))..))) ( -35.40)
>DroSec_CAF1 25896 120 - 1
AUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUGCCGUUCGGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGC
.((..(((((...))))(((((((((.(((...(((.(..(((((((((.(((((....)))))...)))))))))..)....)))(((((.....)))))))).))))))))))..)). ( -34.80)
>DroSim_CAF1 30822 120 - 1
AUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUGCCGUUCGGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGC
.((..(((((...))))(((((((((.(((...(((.(..(((((((((.(((((....)))))...)))))))))..)....)))(((((.....)))))))).))))))))))..)). ( -34.80)
>DroEre_CAF1 24843 120 - 1
AUUUACCGAUUGUGUUGAUUUUAUUUUGCCAGUGAAAAUAAGCAACAUUCAGUAGGUUGCUGCUGCUGGUGUUGCUCUUGCUGUUCGGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGU
((((((((((...))))(((((((((.(((((((......((((((((.((((((.......)))))))))))))).((((...........)))))).))))).))))))))))))))) ( -36.50)
>DroYak_CAF1 26682 120 - 1
AUUUACCAUGUGUGUUUAUUUUAUUUUGCCAGUGAAAAUAAGCAACAUUUAGUAGGUUGCUGCUUCUGGUGUUUCUCUUGCCGUUUAGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGU
................((((((((((.(((((((......((.((((((.(((((....)))))...)))))).)).(((((((....))).)))))).))))).))))))))))..... ( -29.20)
>consensus
AUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUGCCGUUCGGAUGUGCAACAUCUGGCUAAAUGAAGUGUGAGU
.................(((((((((.(((...(((.(..(((((((((.(((((....)))))...)))))))))..)....)))(((((.....)))))))).)))))))))...... (-32.04 = -31.68 +  -0.36)

alignment

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secondary structure

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Window 0

Location 1,400,132 – 1,400,252
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -26.98
Consensus MFE -23.80
Energy contribution -23.80
Covariance contribution 0.00
Combinations/Pair 1.06
Mean z-score -2.19
Structure conservation index 0.88
SVM decision value 2.76
SVM RNA-class probability 0.996887
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1400132 120 + 20766785
CAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUAG
....((((((.....((((.(((..((((....(((((.((((((((....).)))))))...))))).....((.(((((.........))))).)))))).)))))))..)))))).. ( -26.90)
>DroSec_CAF1 25936 120 + 1
CAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUAG
....((((((.....((((.(((..((((....(((((.((((((((....).)))))))...))))).....((.(((((.........))))).)))))).)))))))..)))))).. ( -26.90)
>DroSim_CAF1 30862 120 + 1
CAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUAG
....((((((.....((((.(((..((((....(((((.((((((((....).)))))))...))))).....((.(((((.........))))).)))))).)))))))..)))))).. ( -26.90)
>DroEre_CAF1 24883 120 + 1
CAAGAGCAACACCAGCAGCAGCAACCUACUGAAUGUUGCUUAUUUUCACUGGCAAAAUAAAAUCAACACAAUCGGUAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUUG
...(((((((...(((((((.((......))..)))))))..........(((....................((((((((.........))))))))((....)))))...))))))). ( -28.40)
>DroYak_CAF1 26722 120 + 1
CAAGAGAAACACCAGAAGCAGCAACCUACUAAAUGUUGCUUAUUUUCACUGGCAAAAUAAAAUAAACACACAUGGUAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUAG
.....((((......((((((((..........))))))))..)))).(((((((..(((.............((((((((.........))))))))((....))..)))..))))))) ( -25.80)
>consensus
CAAGAGCAACACCAGAAGCAGCAACCUGCUAAAUGUUGCUUAUUUUCACAGGCAAAAUAAAAUCAACAAAAUUGGCAAAUUGUUUAAUUGAAUUUACCGCAGAUGCGCUUAAGUUGCUAG
....((((((.....(((((((((..((((((.(((((.((((((((....).)))))))...)))))...))))))..)))))..............((....))))))..)))))).. (-23.80 = -23.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,400,132 – 1,400,252
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -33.20
Consensus MFE -30.66
Energy contribution -30.78
Covariance contribution 0.12
Combinations/Pair 1.05
Mean z-score -2.85
Structure conservation index 0.92
SVM decision value 4.58
SVM RNA-class probability 0.999924
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1400132 120 - 20766785
CUAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUG
..((((((..((((((((((((((((((((.........)))))))).....(((((...(((((((.......))))))).)))))....))))).))).)))).....)))))).... ( -33.70)
>DroSec_CAF1 25936 120 - 1
CUAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUG
..((((((..((((((((((((((((((((.........)))))))).....(((((...(((((((.......))))))).)))))....))))).))).)))).....)))))).... ( -33.70)
>DroSim_CAF1 30862 120 - 1
CUAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUG
..((((((..((((((((((((((((((((.........)))))))).....(((((...(((((((.......))))))).)))))....))))).))).)))).....)))))).... ( -33.70)
>DroEre_CAF1 24883 120 - 1
CAAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUACCGAUUGUGUUGAUUUUAUUUUGCCAGUGAAAAUAAGCAACAUUCAGUAGGUUGCUGCUGCUGGUGUUGCUCUUG
..((((((...((((((....(((((((((.........)))))))))..))))))...........((((((.......((((((.........))))))...)))))))))))).... ( -35.40)
>DroYak_CAF1 26722 120 - 1
CUAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUACCAUGUGUGUUUAUUUUAUUUUGCCAGUGAAAAUAAGCAACAUUUAGUAGGUUGCUGCUUCUGGUGUUUCUCUUG
..((((.(..((((((((((((((((((((.........))))))))((((.(((((((((((((.....)))).)))))))))))))...))))).))).))))..).))))....... ( -29.50)
>consensus
CUAGCAACUUAAGCGCAUCUGCGGUAAAUUCAAUUAAACAAUUUGCCAAUUUUGUUGAUUUUAUUUUGCCUGUGAAAAUAAGCAACAUUUAGCAGGUUGCUGCUUCUGGUGUUGCUCUUG
..((((((..((((((((((((((((((((.........)))))))).....(((((...(((((((.......))))))).)))))....))))).))).)))).....)))))).... (-30.66 = -30.78 +   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 09:29:10 2006