Locus 5039

Sequence ID 3L_DroMel_CAF1
Location 13,799,393 – 13,799,671
Length 278
Max. P 0.999932
window7985 window7986 window7987 window7988 window7989 window7990 window7991 window7992

overview

Window 5

Location 13,799,393 – 13,799,513
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.42
Mean single sequence MFE -21.04
Consensus MFE -17.98
Energy contribution -18.58
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.85
SVM decision value 1.88
SVM RNA-class probability 0.981000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799393 120 + 23771897
UUAUUAAGCUGCCAAAUCAAAUUUUAAACUUCCCAGCUCAAAAGGCCCACUUGACCAAUCUACCAAGGAAAGCUUUCAAAGAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCU
..........((((((......)))..................(((((..(((..........)))((..(((..(.((((....)))).)..)))..)))))))...........))). ( -21.60)
>DroSec_CAF1 36235 120 + 1
UUAUUAACCUGCCAAAUCAAAUUUUAAACUUCCCAGUUCAAAAGGCCCACUUGACCAAUCUACAAAGGAAAGCUUUCAAAGAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCU
..........(((........((((.((((....)))).))))(((((....((....))......((..(((..(.((((....)))).)..)))..)))))))...........))). ( -24.60)
>DroSim_CAF1 32421 120 + 1
UCAUUAACCUGCCAAAUCAAAUUUUAAACUUCCCAGCUCAAAAGGCCCACUUGACCAAUCUACAAAGGAAAGCUUUCAAAGAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAGCCGGCU
..........((((((......)))..........(((.....(((((....((....))......((..(((..(.((((....)))).)..)))..))))))).......))).))). ( -21.50)
>DroEre_CAF1 37126 120 + 1
UUAUAAACCUGCCAAAUCAAAUUUUAAACUUCGCAGCUCAAAAGGCCCACUUGACCAAUCUGCAAAGGAAAGCUUUCAAAGAUCCCAUCCAUUGCUCCCCGGGCCACAUUCAAACUGGCU
..........((((..............((....)).......(((((....((....)).((((.(((...((.....))......))).)))).....)))))..........)))). ( -19.50)
>DroYak_CAF1 34932 120 + 1
AUAUAAACCUGCCAAAUCAAAUUUGAAACUUCCCAGCUGAAAAGACCCACUUGACCAAUCUACAAAGGAUAGCUUUCAAAGAUCCCUUUCAUUGCUCCCCGGGCCACUUGCAAACUGGCU
..........((((..(((....))).....(((..((....))......................((..(((..(.((((....)))).)..)))..)))))............)))). ( -18.00)
>consensus
UUAUUAACCUGCCAAAUCAAAUUUUAAACUUCCCAGCUCAAAAGGCCCACUUGACCAAUCUACAAAGGAAAGCUUUCAAAGAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCU
..........(((...............((....)).......(((((....((....))......((..(((..(.((((....)))).)..)))..)))))))...........))). (-17.98 = -18.58 +   0.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,799,393 – 13,799,513
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.42
Mean single sequence MFE -36.72
Consensus MFE -33.98
Energy contribution -33.94
Covariance contribution -0.04
Combinations/Pair 1.15
Mean z-score -2.23
Structure conservation index 0.93
SVM decision value 3.69
SVM RNA-class probability 0.999532
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799393 120 - 23771897
AGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUCUUUGAAAGCUUUCCUUGGUAGAUUGGUCAAGUGGGCCUUUUGAGCUGGGAAGUUUAAAAUUUGAUUUGGCAGCUUAAUAA
.(((((.(..(((..(((((((..(((..(.((((....)))).)..)))..))((((........))))..))))).((((((((....)))))))))))..).))))).......... ( -38.60)
>DroSec_CAF1 36235 120 - 1
AGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUCUUUGAAAGCUUUCCUUUGUAGAUUGGUCAAGUGGGCCUUUUGAACUGGGAAGUUUAAAAUUUGAUUUGGCAGGUUAAUAA
.(((((.(..(((..(((((((..(((..(.((((....)))).)..)))..))......((....))....))))).((((((((....)))))))))))..).))))).......... ( -38.20)
>DroSim_CAF1 32421 120 - 1
AGCCGGCUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUCUUUGAAAGCUUUCCUUUGUAGAUUGGUCAAGUGGGCCUUUUGAGCUGGGAAGUUUAAAAUUUGAUUUGGCAGGUUAAUGA
..((((((..((...(((((((..(((..(.((((....)))).)..)))..))......((....))....))))).))..)))))).........((((((......))))))..... ( -39.30)
>DroEre_CAF1 37126 120 - 1
AGCCAGUUUGAAUGUGGCCCGGGGAGCAAUGGAUGGGAUCUUUGAAAGCUUUCCUUUGCAGAUUGGUCAAGUGGGCCUUUUGAGCUGCGAAGUUUAAAAUUUGAUUUGGCAGGUUUAUAA
.(((((.(..(((..((((((..((.((((.(..((((.............))))...)..)))).))...)))))).((((((((....)))))))))))..).))))).......... ( -36.82)
>DroYak_CAF1 34932 120 - 1
AGCCAGUUUGCAAGUGGCCCGGGGAGCAAUGAAAGGGAUCUUUGAAAGCUAUCCUUUGUAGAUUGGUCAAGUGGGUCUUUUCAGCUGGGAAGUUUCAAAUUUGAUUUGGCAGGUUUAUAU
.(((((....(((((((((((..((.((((..(((((((((.....))..)))))))....)))).))...))))))((..(....)..)).......)))))..))))).......... ( -30.70)
>consensus
AGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUCUUUGAAAGCUUUCCUUUGUAGAUUGGUCAAGUGGGCCUUUUGAGCUGGGAAGUUUAAAAUUUGAUUUGGCAGGUUAAUAA
.(((((.(..((...(((((((..(((..(.((((....)))).)..)))..))......((....))....)))))(((((((((....)))))))))))..).))))).......... (-33.98 = -33.94 +  -0.04)

alignment

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secondary structure

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Window 7

Location 13,799,473 – 13,799,591
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.55
Mean single sequence MFE -33.72
Consensus MFE -30.08
Energy contribution -29.68
Covariance contribution -0.40
Combinations/Pair 1.06
Mean z-score -1.39
Structure conservation index 0.89
SVM decision value 0.59
SVM RNA-class probability 0.791365
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799473 118 + 23771897
GAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCUAAUUUCCAAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((..........((...((((............))))......((((.....)))).))(((--(((((((((....(((....)))..(((....)))...)))))))).))))))). ( -32.40)
>DroSec_CAF1 36315 118 + 1
GAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCUAAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((..........(((.....)))..((((((...(((.......))).....)))))).(((--(((((((((....(((....)))..(((....)))...)))))))).))))))). ( -33.00)
>DroSim_CAF1 32501 118 + 1
GAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAGCCGGCUAAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((..........(((.....)))..((((((..((((.......)))..)..)))))).(((--(((((((((....(((....)))..(((....)))...)))))))).))))))). ( -33.60)
>DroEre_CAF1 37206 120 + 1
GAUCCCAUCCAUUGCUCCCCGGGCCACAUUCAAACUGGCUAAUUUCCGAAGACUGGAUGCUGUGUGUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((..((((((...((...(((((((.........))))......))).))..)))))).((((.(((((((((....(((....)))..(((....)))...)))))))))))))))). ( -35.70)
>DroYak_CAF1 35012 118 + 1
GAUCCCUUUCAUUGCUCCCCGGGCCACUUGCAAACUGGCUAAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((.................((((((...(((.((.(((.....((((.....)))).)))))--.))).)))))).((((((..((((.(((....))).)))).))))))....))). ( -33.90)
>consensus
GAUCCCUUUCAUUGCUCCCCGGGCCACAUCCAAACCGGCUAAUUUCCGAAGACUGGAUGCUGU__GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCA
(((.................((((((....((...((((.....((((.....)))).))))....))..)))))).((((((..((((.(((....))).)))).))))))....))). (-30.08 = -29.68 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,799,473 – 13,799,591
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.55
Mean single sequence MFE -42.24
Consensus MFE -37.88
Energy contribution -38.64
Covariance contribution 0.76
Combinations/Pair 1.05
Mean z-score -2.37
Structure conservation index 0.90
SVM decision value 3.12
SVM RNA-class probability 0.998505
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799473 118 - 23771897
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUUGGAAAUUAGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUC
(.(((((..((((((((((((((....)))))))).))))))(..(((((.((..--...))((((((...((((.......)))).)))))).)))))..)...))))).)........ ( -41.70)
>DroSec_CAF1 36315 118 - 1
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUUAGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUC
(.(((((..((((((((((((((....)))))))).))))))(..(((((.((..--...))((((((...((((.......)))).)))))).)))))..)...))))).)........ ( -43.70)
>DroSim_CAF1 32501 118 - 1
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUUAGCCGGCUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUC
(.(((((..((((((((((((((....)))))))).))))))(..(((((.((..--...))((((((...((((.......)))).)))))).)))))..)...))))).)........ ( -42.30)
>DroEre_CAF1 37206 120 - 1
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCACACACAGCAUCCAGUCUUCGGAAAUUAGCCAGUUUGAAUGUGGCCCGGGGAGCAAUGGAUGGGAUC
...((((..((((((((((((((....))))))((....)).....))))))))...))))((((((.(((((((......((((.........)))))))))))....))))))..... ( -42.90)
>DroYak_CAF1 35012 118 - 1
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUUAGCCAGUUUGCAAGUGGCCCGGGGAGCAAUGAAAGGGAUC
(.(((((..((((((((((((((....)))))))).))))))(..(((((.(((.--((.((......((....)).....))..)).)))...)))))..)...))))).)........ ( -40.60)
>consensus
UGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC__ACAGCAUCCAGUCUUCGGAAAUUAGCCGGUUUGGAUGUGGCCCGGGGAGCAAUGAAAGGGAUC
(.(((((..((((((((((((((....)))))))).))))))(..((((..(......).((((((((...((((.......)))).))))))))))))..)...))))).)........ (-37.88 = -38.64 +   0.76)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,799,513 – 13,799,631
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.48
Mean single sequence MFE -33.14
Consensus MFE -31.74
Energy contribution -31.58
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -2.33
Structure conservation index 0.96
SVM decision value 3.29
SVM RNA-class probability 0.998942
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799513 118 + 23771897
AAUUUCCAAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAU
....((((.....))))....((--(((((((((....(((....)))..(((....)))...)))))))).)))(((((..(((((..(((......)))..)))))..)))))..... ( -33.60)
>DroSec_CAF1 36355 118 + 1
AAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAU
....((((.....))))....((--(((((((((....(((....)))..(((....)))...)))))))).)))(((((..(((((..(((......)))..)))))..)))))..... ( -32.90)
>DroSim_CAF1 32541 118 + 1
AAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAU
....((((.....))))....((--(((((((((....(((....)))..(((....)))...)))))))).)))(((((..(((((..(((......)))..)))))..)))))..... ( -32.90)
>DroEre_CAF1 37246 120 + 1
AAUUUCCGAAGACUGGAUGCUGUGUGUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUACGUGAUUUACAU
....((((.....))))....(((.(((((((((....(((....)))..(((....)))...))))))))))))(((((..(((((..(((......)))..)))))..)))))..... ( -33.40)
>DroYak_CAF1 35052 118 + 1
AAUUUCCGAAGACUGGAUGCUGU--GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUACGUGAUUUACAU
....((((.....))))....((--(((((((((....(((....)))..(((....)))...)))))))).)))(((((..(((((..(((......)))..)))))..)))))..... ( -32.90)
>consensus
AAUUUCCGAAGACUGGAUGCUGU__GUGCUUGGCCUUGUGCUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAU
....((((.....))))........(((((((((....(((....)))..(((....)))...)))))))))...(((((..(((((..(((......)))..)))))..)))))..... (-31.74 = -31.58 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,799,513 – 13,799,631
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.48
Mean single sequence MFE -35.70
Consensus MFE -35.58
Energy contribution -35.58
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.26
Structure conservation index 1.00
SVM decision value 4.64
SVM RNA-class probability 0.999932
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799513 118 - 23771897
AUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUUGGAAAUU
.(((.(((((..((((((.((........)).))))))..)))))....((((((((((((((....))))))((....)).....)))))))).--...)))(((((...))))).... ( -35.60)
>DroSec_CAF1 36355 118 - 1
AUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUU
((((.(((((..((((((.((........)).))))))..)))))....((((((((((((((....))))))((....)).....)))))))).--...))))....((....)).... ( -35.20)
>DroSim_CAF1 32541 118 - 1
AUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUU
((((.(((((..((((((.((........)).))))))..)))))....((((((((((((((....))))))((....)).....)))))))).--...))))....((....)).... ( -35.20)
>DroEre_CAF1 37246 120 - 1
AUGUAAAUCACGUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCACACACAGCAUCCAGUCUUCGGAAAUU
...(((((((((....)).))))))).(((..((((........)))).((((((((((((((....)))))))).))))))...)))...((.......))......((....)).... ( -36.10)
>DroYak_CAF1 35052 118 - 1
AUGUAAAUCACGUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC--ACAGCAUCCAGUCUUCGGAAAUU
...(((((((((....)).))))))).(((..((((........)))).((((((((((((((....)))))))).))))))...)))...((..--...))......((....)).... ( -36.40)
>consensus
AUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAGCACAAGGCCAAGCAC__ACAGCAUCCAGUCUUCGGAAAUU
.(((.(((((..((((((.((........)).))))))..)))))((..((((((((((((((....))))))((....)).....))))))))...)).)))(((.......))).... (-35.58 = -35.58 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,799,551 – 13,799,671
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.92
Mean single sequence MFE -22.32
Consensus MFE -20.00
Energy contribution -20.40
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.90
SVM decision value 3.06
SVM RNA-class probability 0.998315
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799551 120 + 23771897
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAUGCACACACACACACACACACCCAAGGCAGUCAGUCGUAGC
.....((((.(((....))).))))...((((...(((((..(((((..(((......)))..)))))..)))))...))))......................(((.....)))..... ( -24.40)
>DroSec_CAF1 36393 108 + 1
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAUGCACACA--------CACACCCAAGGCAGU----CAUAGC
(((..((((.(((....))).))))...((((...(((((..(((((..(((......)))..)))))..)))))...)))).....--------.......))).....----...... ( -22.80)
>DroSim_CAF1 32579 108 + 1
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAUGCACACA--------CACACCCAAGGCAGU----CCUAGC
.....((((.(((....))).))))...((((...(((((..(((((..(((......)))..)))))..)))))...)))).....--------........(((....----)))... ( -23.40)
>DroEre_CAF1 37286 95 + 1
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUACGUGAUUUACAUCCACACA--------CACACCCA-----------------
..(((((...(((....)))...(((((((((...........)))).)))))..........))))).(((.........)))...--------........----------------- ( -20.00)
>DroYak_CAF1 35090 106 + 1
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUACGUGAUUUACAUACACACA--------CACACAUA--GCACA----CAUAGC
....(((...(((....)))...(((((((((...........)))).))))).(((((((.((....)))))))))..........--------........--)))..----...... ( -21.00)
>consensus
CUUAUGCAAACCGAAAUCGGCUUGCCAAGCAUUACAAUCAAUUAUGCAUUGGCUUAAAUCAUCGCAUAUGUGAUUUACAUGCACACA________CACACCCAAGGCAGU____CAUAGC
.....((((.(((....))).))))...((((...(((((..(((((..(((......)))..)))))..)))))...))))...................................... (-20.00 = -20.40 +   0.40)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,799,551 – 13,799,671
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.92
Mean single sequence MFE -32.07
Consensus MFE -27.78
Energy contribution -27.86
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -2.18
Structure conservation index 0.87
SVM decision value 2.13
SVM RNA-class probability 0.988665
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13799551 120 - 23771897
GCUACGACUGACUGCCUUGGGUGUGUGUGUGUGUGUGUGCAUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
(((((((..((.(((.((((.(.......((((((((((.((....))))))))))))........).)))).)))...))..)))))..))...((((((((....))))))))..... ( -35.46)
>DroSec_CAF1 36393 108 - 1
GCUAUG----ACUGCCUUGGGUGUG--------UGUGUGCAUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
((...(----((((...(.((((((--------((((((.((....)))))))))))..........(((((.((((.((.....)).)))))))))..))).)...))))).))..... ( -31.80)
>DroSim_CAF1 32579 108 - 1
GCUAGG----ACUGCCUUGGGUGUG--------UGUGUGCAUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
.(((((----.....))))).((((--------((((((.((....))))))))))))......(((((...((((........))))..)))))((((((((....))))))))..... ( -32.40)
>DroEre_CAF1 37286 95 - 1
-----------------UGGGUGUG--------UGUGUGGAUGUAAAUCACGUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
-----------------....((((--------(((.(((...(((((((((....)).)))))))..)))))))))).............((((((((((((....)))))))).)))) ( -30.60)
>DroYak_CAF1 35090 106 - 1
GCUAUG----UGUGC--UAUGUGUG--------UGUGUGUAUGUAAAUCACGUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
...(((----..(((--.....)))--------..)))((((...(((((..((((((.((........)).))))))..)))))...))))...((((((((....))))))))..... ( -30.10)
>consensus
GCUAUG____ACUGCCUUGGGUGUG________UGUGUGCAUGUAAAUCACAUAUGCGAUGAUUUAAGCCAAUGCAUAAUUGAUUGUAAUGCUUGGCAAGCCGAUUUCGGUUUGCAUAAG
......................................((((...(((((..((((((.((........)).))))))..)))))...))))...((((((((....))))))))..... (-27.78 = -27.86 +   0.08)

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 11:40:33 2006