Locus 5518

Sequence ID 2R_DroMel_CAF1
Location 17,660,762 – 17,661,066
Length 304
Max. P 0.999953
window8836 window8837 window8838 window8839 window8840 window8841 window8842 window8843

overview

Window 6

Location 17,660,762 – 17,660,866
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.31
Mean single sequence MFE -45.12
Consensus MFE -33.79
Energy contribution -33.99
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -2.50
Structure conservation index 0.75
SVM decision value 1.24
SVM RNA-class probability 0.934999
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660762 104 + 20766785
GUG----CAGUGGCGGUG------------GCAGCAGCACCAACUUGAUGCAUCAUCCUCGCACCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUG
(..----(((((((((..------------(..(((((.........(((.(((..((((((....))))))))).)))..((((...)))))))))...)..)).)))))))..).... ( -44.10)
>DroSec_CAF1 14216 106 + 1
GUGC--GCAGUGGCAGUG------------GCAGCAGCACCAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUAGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUG
..((--((((((((((..------------(..(((((.........(((.(((..((((((....))))))))).)))..((((...)))))))))...)..)).)))))))))).... ( -47.20)
>DroSim_CAF1 20230 106 + 1
GUGC--GCAGUGGCAGUG------------GCAGCAGCACCAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUACGUUG
..(.--.(((((((((..------------(..(((((.........(((.(((..((((((....))))))))).)))..((((...)))))))))...)..)).)))))))..).... ( -41.80)
>DroEre_CAF1 14554 104 + 1
GU----GCAGUGGCAGUG------------GCAGCAGCACCAACUUGAUGCAUCAUCCUCGCAUCGGCGGGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUCCUGGCUACUGUGCGUUG
(.----.(((((((((..------------(..(((((.((...(((((((.........)))))))..((((((....))))))...))..)))))...)..)).)))))))..).... ( -41.60)
>DroYak_CAF1 26044 120 + 1
GUAUGUCCAGUGGCAGUGGCGGUGGCAGCAGCAGCAGCAUCAACUUGAUGCAUCAUCCUCGCAUCGGCGGGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUG
..(((..(((((((...(((((..(((((.......(((((.....)))))....(((((((....)))))))........((((...)))))))))...))))).)))))))..))).. ( -50.90)
>consensus
GUG___GCAGUGGCAGUG____________GCAGCAGCACCAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUG
......((((((((((((............(((((.(((.(.....).)))....(((((((....)))))))........((((...)))))))))....)))).))))))))...... (-33.79 = -33.99 +   0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,660,786 – 17,660,906
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.08
Mean single sequence MFE -45.48
Consensus MFE -43.28
Energy contribution -43.44
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -3.36
Structure conservation index 0.95
SVM decision value 4.82
SVM RNA-class probability 0.999953
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660786 120 + 20766785
CAACUUGAUGCAUCAUCCUCGCACCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUC
.....(((((((...(((((((....)))))))..............(((((((((((....(((((((...(((......))))))))))...)))))))))))...)))...)))).. ( -46.90)
>DroSec_CAF1 14242 120 + 1
CAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUAGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUC
.......(((((...(((((((....)))))))...............((((((((((....(((((((...(((......))))))))))...))))))))))....)))))....... ( -46.60)
>DroSim_CAF1 20256 120 + 1
CAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUACGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUC
.....(((((((...(((((((....)))))))..............(((((((((((....(((((((((........))...)))))))...)))))))))))...)))...)))).. ( -45.60)
>DroEre_CAF1 14578 120 + 1
CAACUUGAUGCAUCAUCCUCGCAUCGGCGGGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUCCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUAUUCUGCAUAGUCAUC
......(((((.........)))))(((.((((((....))))))...((((((((((.....((((((...(((......)))))))))....))))))))))..........)))... ( -42.30)
>DroYak_CAF1 26084 120 + 1
CAACUUGAUGCAUCAUCCUCGCAUCGGCGGGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUCUUCUGCAUAGUCAUC
......(((((.........)))))(((.((((((....))))))...((((((((((....(((((((...(((......))))))))))...))))))))))..........)))... ( -46.00)
>consensus
CAACUUGAUGCAUCAUCCUCGCAUCGGCGAGGGAUUCAUAUCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUC
.....(((((((...(((((((....)))))))...............((((((((((....(((((((...(((......))))))))))...))))))))))....)))...)))).. (-43.28 = -43.44 +   0.16)

alignment

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secondary structure

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Window 8

Location 17,660,826 – 17,660,946
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.92
Mean single sequence MFE -39.66
Consensus MFE -38.32
Energy contribution -39.12
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -4.72
Structure conservation index 0.97
SVM decision value 3.79
SVM RNA-class probability 0.999615
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660826 120 + 20766785
UCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
.......(((((((((((....(((((((...(((......))))))))))...)))))))))))....((.(((.((((..(((((.....)))))..))))..))).))......... ( -39.20)
>DroSec_CAF1 14282 120 + 1
UCUCCAUAGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
.....(((((((((((((....(((((((...(((......))))))))))...)))))))))......((((((.((((..(((((.....)))))..))))..)))))).)))).... ( -42.30)
>DroSim_CAF1 20296 120 + 1
UCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUACGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
.......(((((((((((....(((((((((........))...)))))))...)))))))))))....((.(((.((((..(((((.....)))))..))))..))).))......... ( -37.90)
>DroEre_CAF1 14618 120 + 1
UCUCCAUCGGAGGCUGUAAUCUCCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUAUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
........((((((((((.....((((((...(((......)))))))))....)))))))))).....((((((.((((..(((((.....)))))..))))..))))))......... ( -37.60)
>DroYak_CAF1 26124 120 + 1
UCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUCUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
........((((((((((....(((((((...(((......))))))))))...)))))))))).....((((((.((((..(((((.....)))))..))))..))))))......... ( -41.30)
>consensus
UCUCCAUCGGAGGCUGUAAUCUGCUGGCUACUGUGCGUUGUCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUU
........((((((((((....(((((((...(((......))))))))))...)))))))))).....((((((.((((..(((((.....)))))..))))..))))))......... (-38.32 = -39.12 +   0.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,660,826 – 17,660,946
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.92
Mean single sequence MFE -30.02
Consensus MFE -27.50
Energy contribution -27.94
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.63
Structure conservation index 0.92
SVM decision value 1.29
SVM RNA-class probability 0.938158
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660826 120 - 20766785
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAGGCAGAACAGAGGCCGCAGGAGCUGGCUGUGACAACGCACAGUAGCCAGCAGAUUACAGCCUCCGAUGGAGA
.................(((((....((((..(.....)..))))............(((((.(.((..((((((((((......)))...)))))))...)).).)))))))))).... ( -29.20)
>DroSec_CAF1 14282 120 - 1
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAACAGAGGCCGCAGGAGCUGGCUGUGACAACGCACAGUAGCCAGCAGAUUACAGCCUCCUAUGGAGA
..((((((.(((((...((((..((((.......))))..))))..)))))......(((((.(.((..((((((((((......)))...)))))))...)).).)))))))))))... ( -33.90)
>DroSim_CAF1 20296 120 - 1
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAGGCAGAACAGAGGCCGCAGGAGCUGGCUGUGACAACGUACAGUAGCCAGCAGAUUACAGCCUCCGAUGGAGA
.................(((((....((((..(.....)..))))............(((((.(.((..((((((((((........)).))))))))...)).).)))))))))).... ( -28.90)
>DroEre_CAF1 14618 120 - 1
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAAUAGAGGCCGCAGGAGCUGGCUGUGACAACGCACAGUAGCCAGGAGAUUACAGCCUCCGAUGGAGA
.................((((..................((...(((.(((........((((((....)).))))((....))))).)))..)).((((........)))))))).... ( -27.20)
>DroYak_CAF1 26124 120 - 1
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAAGAGAGGCCGCAGGAGCUGGCUGUGACAACGCACAGUAGCCAGCAGAUUACAGCCUCCGAUGGAGA
.........(((((...((((..((((.......))))..))))..)))))....(.(((((.(.((..((((((((((......)))...)))))))...)).).))))))........ ( -30.90)
>consensus
AAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAACAGAGGCCGCAGGAGCUGGCUGUGACAACGCACAGUAGCCAGCAGAUUACAGCCUCCGAUGGAGA
.........(((((...((((..((((.......))))..))))..)))))......(((((.(.((..((((((((((......)))...)))))))...)).).)))))......... (-27.50 = -27.94 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,660,866 – 17,660,986
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.08
Mean single sequence MFE -41.93
Consensus MFE -40.74
Energy contribution -41.42
Covariance contribution 0.68
Combinations/Pair 1.03
Mean z-score -3.71
Structure conservation index 0.97
SVM decision value 4.58
SVM RNA-class probability 0.999923
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660866 120 + 20766785
UCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUU
((((.(((((((((.(((((...(((...((.(((.((((..(((((.....)))))..))))..))).))...)))...)))))..((...))))))))))).))))............ ( -39.90)
>DroSec_CAF1 14322 120 + 1
UCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGAUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUU
((((.(((((((((.(((.((..(((...((((((.((((..(((((.....)))))..))))..))))))...)))...(((...))))))))))))))))).))))............ ( -42.30)
>DroSim_CAF1 20336 120 + 1
UCACAGCCAGCUCCUGCGGCCUCUGUUCUGCCUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUU
((((.(((((((((.(((((...(((...((.(((.((((..(((((.....)))))..))))..))).))...)))...)))))..((...))))))))))).))))............ ( -39.90)
>DroEre_CAF1 14658 120 + 1
UCACAGCCAGCUCCUGCGGCCUCUAUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUU
((((.(((((((((.(((((...(((...((((((.((((..(((((.....)))))..))))..))))))...)))...)))))..((...))))))))))).))))............ ( -44.20)
>DroYak_CAF1 26164 120 + 1
UCACAGCCAGCUCCUGCGGCCUCUCUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUU
((((.(((((((((.(((((.........((((((.((((..(((((.....)))))..))))..)))))).........)))))..((...))))))))))).))))............ ( -43.37)
>consensus
UCACAGCCAGCUCCUGCGGCCUCUGUUCUGCAUAGUCAUCCUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUU
((((.(((((((((.(((((...(((...((((((.((((..(((((.....)))))..))))..))))))...)))...)))))..((...))))))))))).))))............ (-40.74 = -41.42 +   0.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,660,866 – 17,660,986
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.08
Mean single sequence MFE -34.60
Consensus MFE -33.23
Energy contribution -33.83
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.93
Structure conservation index 0.96
SVM decision value 4.31
SVM RNA-class probability 0.999866
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660866 120 - 20766785
AAAAACUCCAAGUCACUGCCAACUCCGCACCGCCAGCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAGGCAGAACAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((...))..(((((.........((......((((..((((.......))))..)))).....)).........))))).)))).)))).)))) ( -32.77)
>DroSec_CAF1 14322 120 - 1
AAAAACUCCAAGUCACUGCCAACUCCGCACCGCCAUCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAACAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((.(((((...))).........(((((...((((..((((.......))))..))))..)))))........))..)).)))).)))).)))) ( -33.60)
>DroSim_CAF1 20336 120 - 1
AAAAACUCCAAGUCACUGCCAACUCCGCACCGCCAGCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAGGCAGAACAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((...))..(((((.........((......((((..((((.......))))..)))).....)).........))))).)))).)))).)))) ( -32.77)
>DroEre_CAF1 14658 120 - 1
AAAAAGUCCAAGUCACUGCCAACUCCGCACCGCCAGCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAAUAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((...))..(((((..((((...(((((...((((..((((.......))))..))))..)))))...))))..))))).)))).)))).)))) ( -37.60)
>DroYak_CAF1 26164 120 - 1
AAAAAGUCCAAGUCACUGCCAACUCCGCACCGCCAGCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAAGAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((...))..(((((.........(((((...((((..((((.......))))..))))..))))).........))))).)))).)))).)))) ( -36.27)
>consensus
AAAAACUCCAAGUCACUGCCAACUCCGCACCGCCAGCGGCAAUUAUAGAGCAUAAAACAUCGAUAAUCAUAAUAAUUAAGGAUGACUAUGCAGAACAGAGGCCGCAGGAGCUGGCUGUGA
............((((.((((.((((((...))..(((((.........(((((...((((..((((.......))))..))))..))))).........))))).)))).)))).)))) (-33.23 = -33.83 +   0.60)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,660,906 – 17,661,026
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.00
Mean single sequence MFE -34.14
Consensus MFE -33.42
Energy contribution -34.02
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -1.14
Structure conservation index 0.98
SVM decision value 0.33
SVM RNA-class probability 0.690800
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660906 120 + 20766785
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGCCCAGCCUCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((((...((((((........)))))).))))))..)..))))).)))) ( -37.80)
>DroSec_CAF1 14362 120 + 1
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGAUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGUCCAGCCUCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((((...((((((........)))))).))))))..)..))))).)))) ( -35.10)
>DroSim_CAF1 20376 120 + 1
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGUCCAGCCUCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((((...((((((........)))))).))))))..)..))))).)))) ( -35.10)
>DroEre_CAF1 14698 120 + 1
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUUGGGCGUCUCCCGGCCCAGCCCCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((.....((((((........))))))...))))..)..))))).)))) ( -32.10)
>DroYak_CAF1 26204 120 + 1
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUUGGGCGUCUCCCGGCCCGCCCCCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((......(((((........)))))....))))..)..))))).)))) ( -30.60)
>consensus
CUUAAUUAUUAUGAUUAUCGAUGUUUUAUGCUCUAUAAUUGCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGCCCAGCCUCCAAAAUUGCUGUCUUCAU
..........((((...............(((((...((((((...))))))..))))).(((((..(.((((((...((((((........)))))).))))))..)..))))).)))) (-33.42 = -34.02 +   0.60)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,660,946 – 17,661,066
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -38.84
Consensus MFE -36.62
Energy contribution -37.06
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.12
Structure conservation index 0.94
SVM decision value 0.27
SVM RNA-class probability 0.662966
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660946 120 + 20766785
GCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGCCCAGCCUCCAAAAUUGCUGUCUUCAUUGCGCCUACCUUCUCCUAAGGCCCUUAUCUAAUUGAUAUA
(((...)))(((((((.(..(((((..(.((((((...((((((........)))))).))))))..)..)))))..).)))))))..((((.....))))....((((.....)))).. ( -43.10)
>DroSec_CAF1 14402 120 + 1
GCCGAUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGUCCAGCCUCCAAAAUUGCUGUCUUCAUUGCGCCUACCUUCUCCUAAGGCCCUUACCUAAUUGAUAUA
(((...)))(((((((.(..(((((..(.((((((...((((((........)))))).))))))..)..)))))..).)))))))..((((.....))))................... ( -38.90)
>DroSim_CAF1 20416 120 + 1
GCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGUCCAGCCUCCAAAAUUGCUGUCUUCAUUGCGCCUACCUUCUCCUAAGGCACUUACCUAAUUGAUAUA
(((...((.(((((((.(..(((((..(.((((((...((((((........)))))).))))))..)..)))))..).)))))))........))...))).................. ( -39.20)
>DroEre_CAF1 14738 119 + 1
GCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUUGGGCGUCUCCCGGCCCAGCCCCCAAAAUUGCUGUCUUCAUUGCGCCUACCU-UUCCUAAGGCCCUUACCUAAUUGAUAUA
(((...)))(((((((.(..(((((..(.((((.....((((((........))))))...))))..)..)))))..).)))))))..(((-(....))))................... ( -36.70)
>DroYak_CAF1 26244 120 + 1
GCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGACUUUUUGGGCGUCUCCCGGCCCGCCCCCCAAAAUUGCUGUCUUCAUUGCGCUUGCCUUUUCCUAAGGCCCUUACCUAAUUGAUAUA
(((...)))((((((.(((.(((((..(.((((......(((((........)))))....))))..)..)))))...))).)))..(((((.....)))))....)))........... ( -36.30)
>consensus
GCCGCUGGCGGUGCGGAGUUGGCAGUGACUUGGAGUUUUUGGGCGUCUCCCAGCCCAGCCUCCAAAAUUGCUGUCUUCAUUGCGCCUACCUUCUCCUAAGGCCCUUACCUAAUUGAUAUA
(((...((.((((((.(((.(((((..(.((((((...((((((........)))))).))))))..)..)))))...))).)))..)))....))...))).................. (-36.62 = -37.06 +   0.44)

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 11:47:32 2006