Locus 3680

Sequence ID 3R_DroMel_CAF1
Location 9,978,632 – 9,978,912
Length 280
Max. P 0.982922
window5904 window5905 window5906 window5907 window5908 window5909 window5910 window5911

overview

Window 4

Location 9,978,632 – 9,978,752
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.58
Mean single sequence MFE -28.67
Consensus MFE -12.98
Energy contribution -15.30
Covariance contribution 2.32
Combinations/Pair 1.09
Mean z-score -2.17
Structure conservation index 0.45
SVM decision value -0.02
SVM RNA-class probability 0.520904
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978632 120 + 27905053
CGACGUCGAAUUGCAGAUGUAAAAUAAUCUGUGUGUUUGUGAGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUUACAUCCAUGUAAAUAUU
.......((((.((((((........))))))((((((.((.(((....(((((.(((((((.....))))))).)))))....))))).)))))))))).(((((....)))))..... ( -34.00)
>DroSec_CAF1 61052 120 + 1
CGUCGUCGAAUUGGUGGUGUAAAAUAAUCUGUGUAUUUGUGGAAUUUCAUGCAACUAAUCUGAUCCUCCGAUUAAUUGCAAAACGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUU
...(((.((....((((((...........(..(((((.((((......(((((.(((((.(.....).))))).))))).....)))).)))))..).)))))).)).)))........ ( -26.30)
>DroSim_CAF1 61019 120 + 1
CGUCGUCGAAUUGGAUGUGUAAAAUAAUCUGUGUAUUUGUGGGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUU
...........((((((((...........(..(((((.((((((((..(((((.(((((((.....))))))).))))))))).)))).)))))..)....)))))))).......... ( -35.66)
>DroEre_CAF1 65559 103 + 1
UU---------------AUUAAGAUAAUACGUG--UCUUUGGGAUUUUAUGGAACUAAUCGGAUCCCCCGAGUAACUGCAAUAUUUCCAGGAAUAUGUUCAUAACAUCCAUAUAAAUAUU
..---------------...((((((.....))--))))..((((.(((((((.....((((.....)))).........((((((....)))))).))))))).))))........... ( -20.10)
>DroYak_CAF1 63942 120 + 1
CGACGUCGAAUUGGUGGAGUAAAAUAGUACGAGUAUUUUUGGGAUUUCAUCGAACUAAUCAGAUCCUCCGAUUAAUUGCAAGAUGUCGUGGAAUAUGUUUAUCACAUCCAUAUAAAUAUU
.((((((.((((((.(((......((((.(((..(((.....)))....))).))))......))).))))))........))))))(((((...(((.....))))))))......... ( -27.30)
>consensus
CGACGUCGAAUUGGAGGUGUAAAAUAAUCUGUGUAUUUGUGGGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUU
................................((((((.((((......(((((.(((((((.....))))))).))))).....)))).))))))........................ (-12.98 = -15.30 +   2.32)

alignment

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secondary structure

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dotplot

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Window 5

Location 9,978,632 – 9,978,752
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.58
Mean single sequence MFE -24.37
Consensus MFE -17.24
Energy contribution -18.36
Covariance contribution 1.12
Combinations/Pair 1.20
Mean z-score -1.51
Structure conservation index 0.71
SVM decision value -0.04
SVM RNA-class probability 0.512828
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978632 120 - 27905053
AAUAUUUACAUGGAUGUAAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCUCACAAACACACAGAUUAUUUUACAUCUGCAAUUCGACGUCG
............(((((...(((........((((.(((((((((((((((((.....)))))))))))))..)))).)).))......(((((........)))))...))).))))). ( -29.10)
>DroSec_CAF1 61052 120 - 1
AAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACGUUUUGCAAUUAAUCGGAGGAUCAGAUUAGUUGCAUGAAAUUCCACAAAUACACAGAUUAUUUUACACCACCAAUUCGACGACG
..........(((.(((((......((((..((((..((.(((((((((((.(.....).))))))))))).))...))))..))))...........)))))))).............. ( -22.83)
>DroSim_CAF1 61019 120 - 1
AAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCCCACAAAUACACAGAUUAUUUUACACAUCCAAUUCGACGACG
..........((((((((.((((.(((.((..(((..((.(((((((((((((.....))))))))))))).))..)))............)).)))))))))))))))........... ( -33.54)
>DroEre_CAF1 65559 103 - 1
AAUAUUUAUAUGGAUGUUAUGAACAUAUUCCUGGAAAUAUUGCAGUUACUCGGGGGAUCCGAUUAGUUCCAUAAAAUCCCAAAGA--CACGUAUUAUCUUAAU---------------AA
...........((((.((((((((......(((.(.....).)))....((((.....))))...))).))))).))))......--................---------------.. ( -15.00)
>DroYak_CAF1 63942 120 - 1
AAUAUUUAUAUGGAUGUGAUAAACAUAUUCCACGACAUCUUGCAAUUAAUCGGAGGAUCUGAUUAGUUCGAUGAAAUCCCAAAAAUACUCGUACUAUUUUACUCCACCAAUUCGACGUCG
..........((((((((.....)))).))))((((.(((((.((((((((((.....))))))))))))).)).......((((((.......))))))................)))) ( -21.40)
>consensus
AAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCCCACAAAUACACAGAUUAUUUUACACCACCAAUUCGACGACG
...........(((((((.....)))))))..(((..((.(((((((((((((.....))))))))))))).))..)))......................................... (-17.24 = -18.36 +   1.12)

alignment

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secondary structure

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Window 6

Location 9,978,672 – 9,978,792
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.17
Mean single sequence MFE -30.32
Consensus MFE -24.06
Energy contribution -25.62
Covariance contribution 1.56
Combinations/Pair 1.11
Mean z-score -1.42
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.541990
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978672 120 + 27905053
GAGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUUACAUCCAUGUAAAUAUUUAGGGCAGCGAAUAUGUACUCCUCGGGACUAAUGGAGUAC
.....(((.(((((.(((((((.....))))))).)))))...(((((..((((((...(((.......)))...)))))).)))))..)))...(((((((...........))))))) ( -35.00)
>DroSec_CAF1 61092 120 + 1
GGAAUUUCAUGCAACUAAUCUGAUCCUCCGAUUAAUUGCAAAACGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUAC
.....(((.(((((.(((((.(.....).))))).)))))...(((((..((((((...(((.......)))...)))))).)))))..)))...(((((((...........))))))) ( -30.40)
>DroSim_CAF1 61059 120 + 1
GGGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUAC
...(((((((((((.(((((((.....))))))).)))).....((((((((((((((((..(...(((.((........))))).)..))))))))..))))..))))..))))))).. ( -34.60)
>DroEre_CAF1 65582 120 + 1
GGGAUUUUAUGGAACUAAUCGGAUCCCCCGAGUAACUGCAAUAUUUCCAGGAAUAUGUUCAUAACAUCCAUAUAAAUAUUUAGGGCCGCGAAUAUGUACUCCUCGGGACUUAUGGAGUAC
.((((.(((((((.....((((.....)))).........((((((....)))))).))))))).))))......((((((........))))))(((((((...........))))))) ( -27.60)
>DroYak_CAF1 63982 120 + 1
GGGAUUUCAUCGAACUAAUCAGAUCCUCCGAUUAAUUGCAAGAUGUCGUGGAAUAUGUUUAUCACAUCCAUAUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUUAUGGAGUAC
.....(((..((..((((...((((....))))........(((((.(((((.....))))).)))))...........))))..))..)))...(((((((...........))))))) ( -24.00)
>consensus
GGGAUUUCAUGCAACUAAUCGGAUCCUCCGAUUAAUUGCAAAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUAC
.....(((.(((((.(((((((.....))))))).)))))...(((((..((((((...(((.......)))...)))))).)))))..)))...(((((((...........))))))) (-24.06 = -25.62 +   1.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 9,978,672 – 9,978,792
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.17
Mean single sequence MFE -30.74
Consensus MFE -27.34
Energy contribution -28.46
Covariance contribution 1.12
Combinations/Pair 1.16
Mean z-score -1.77
Structure conservation index 0.89
SVM decision value 1.93
SVM RNA-class probability 0.982922
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978672 120 - 27905053
GUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCUGCCCUAAAUAUUUACAUGGAUGUAAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCUC
...........((((..(((((((....((((.(((((.............))..))).))))..)))))))))))....(((((((((((((.....)))))))))))))......... ( -34.12)
>DroSec_CAF1 61092 120 - 1
GUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUAAAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACGUUUUGCAAUUAAUCGGAGGAUCAGAUUAGUUGCAUGAAAUUCC
(((((((...........)))))))...((((................((.(((((((.....))))))).)).......(((((((((((.(.....).)))))))))))))))..... ( -30.40)
>DroSim_CAF1 61059 120 - 1
GUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUAAAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCCC
(((((((...........)))))))..........................(((((((.....)))))))..(((..((.(((((((((((((.....))))))))))))).))..))). ( -36.80)
>DroEre_CAF1 65582 120 - 1
GUACUCCAUAAGUCCCGAGGAGUACAUAUUCGCGGCCCUAAAUAUUUAUAUGGAUGUUAUGAACAUAUUCCUGGAAAUAUUGCAGUUACUCGGGGGAUCCGAUUAGUUCCAUAAAAUCCC
(((((((...........)))))))..........................((((.((((((((......(((.(.....).)))....((((.....))))...))).))))).)))). ( -25.10)
>DroYak_CAF1 63982 120 - 1
GUACUCCAUAAGUCCCGAGGAGUACAUAUUCGCCGCCCUAAAUAUUUAUAUGGAUGUGAUAAACAUAUUCCACGACAUCUUGCAAUUAAUCGGAGGAUCUGAUUAGUUCGAUGAAAUCCC
(((((((...........))))))).........................((((((((.....)))).))))...((((....((((((((((.....)))))))))).))))....... ( -27.30)
>consensus
GUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUAAAUAUUUACAUGGAUGUGAUGAACAUAUUCCUGGACAUUUUGCAAUUAAUCGGAGGAUCCGAUUAGUUGCAUGAAAUCCC
(((((((...........)))))))..........................(((((((.....)))))))..(((..((.(((((((((((((.....))))))))))))).))..))). (-27.34 = -28.46 +   1.12)

alignment

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secondary structure

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Window 8

Location 9,978,712 – 9,978,832
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.08
Mean single sequence MFE -29.58
Consensus MFE -24.68
Energy contribution -24.68
Covariance contribution -0.00
Combinations/Pair 1.08
Mean z-score -1.53
Structure conservation index 0.83
SVM decision value 0.58
SVM RNA-class probability 0.789399
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978712 120 + 27905053
AAAUGUCCAGGAAUAUGUUCAUUACAUCCAUGUAAAUAUUUAGGGCAGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACUA
..(((..(((((((((...(((.......)))...)))))).(((..(((((((.(((((((...........))))))).)))..))))..)))........)))..)))......... ( -23.90)
>DroSec_CAF1 61132 120 + 1
AAACGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCA
.........((..((((.....((((...((((((....)))(((.((((((((.(((((((...........))))))).)))..))))).)))..)))....))))...))))..)). ( -29.30)
>DroSim_CAF1 61099 120 + 1
AAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCA
.........((..((((.....((((...((((((....)))(((.((((((((.(((((((...........))))))).)))..))))).)))..)))....))))...))))..)). ( -29.30)
>DroEre_CAF1 65622 120 + 1
AUAUUUCCAGGAAUAUGUUCAUAACAUCCAUAUAAAUAUUUAGGGCCGCGAAUAUGUACUCCUCGGGACUUAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGGGUAUCGUGAACCA
((((((....))))))(((((..(.(((((............(((..(((((((.(((((((...........))))))).)))..))))..))).........))))).)..))))).. ( -30.00)
>DroYak_CAF1 64022 120 + 1
AGAUGUCGUGGAAUAUGUUUAUCACAUCCAUAUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUUAUGGAGUACCUAUGCUUGCCUCCCAACAUCAAUUGGGUAUCGUAAACCA
.(((((.(((((...(((.....))))))))...........(((.((((((((.(((((((...........))))))).)))..))))).))).))))).....(((.......))). ( -35.40)
>consensus
AAAUGUCCAGGAAUAUGUUCAUCACAUCCAUGUAAAUAUUUAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCA
.........((.(((((...........))))).........(((.((((((((.(((((((...........))))))).)))..))))).)))......................)). (-24.68 = -24.68 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,978,752 – 9,978,872
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.92
Mean single sequence MFE -34.68
Consensus MFE -32.68
Energy contribution -33.52
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.42
Structure conservation index 0.94
SVM decision value 1.40
SVM RNA-class probability 0.949837
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978752 120 + 27905053
UAGGGCAGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACUAAAUAAACGGAGAAGAGCAGAGCGCUCAAUGAGGCAUAUAU
..(((..(((((((.(((((((...........))))))).)))..))))..))).........(((((.((((...((........))....((((.....)))).)))).)))))... ( -30.70)
>DroSec_CAF1 61172 120 + 1
UAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCAAAUAAACGGAGAAGAGCAGAGCGCUCAAUGAGGCAUAUAU
..(((.((((((((.(((((((...........))))))).)))..))))).))).........(((((.((((...((........))....((((.....)))).)))).)))))... ( -37.50)
>DroSim_CAF1 61139 120 + 1
UAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCAAAUAAACGGAGAAGAGCAGAGCGCUCAAUGAGGCAUAUAU
..(((.((((((((.(((((((...........))))))).)))..))))).))).........(((((.((((...((........))....((((.....)))).)))).)))))... ( -37.50)
>DroEre_CAF1 65662 120 + 1
UAGGGCCGCGAAUAUGUACUCCUCGGGACUUAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGGGUAUCGUGAACCAAAUAAAUGGAAAAGAGCAGGGCGCUCAAUGAGGCAUAGAU
....((((((((((.(((((((...........))))))).)))..))))..((((........))))..((((...(((......)))....((((.....)))).)))))))...... ( -33.10)
>DroYak_CAF1 64062 120 + 1
UAGGGCGGCGAAUAUGUACUCCUCGGGACUUAUGGAGUACCUAUGCUUGCCUCCCAACAUCAAUUGGGUAUCGUAAACCAAGUAAACGGAAAAGAGCAGGGCGCUCAUUGAGGCAUAGAU
..(((.((((((((.(((((((...........))))))).)))..))))).)))....((((((((..........))))............((((.....)))).))))......... ( -34.60)
>consensus
UAGGGCGGCGAAUAUGUACUCCUCGGGACUAAUGGAGUACCUAUGCUUGCCUCCCAUCAUCAAUUGUGUAUCGUAAACCAAAUAAACGGAGAAGAGCAGAGCGCUCAAUGAGGCAUAUAU
..(((.((((((((.(((((((...........))))))).)))..))))).))).........(((((.((((...((........))....((((.....)))).)))).)))))... (-32.68 = -33.52 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,978,752 – 9,978,872
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.92
Mean single sequence MFE -32.46
Consensus MFE -29.96
Energy contribution -29.84
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.12
Structure conservation index 0.92
SVM decision value 0.14
SVM RNA-class probability 0.601056
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978752 120 - 27905053
AUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUAGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAGGUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCUGCCCUA
.....((((((...((((.....))))....(((((...((((((..........)))))).)))))))))))((((((.(((((((...........))))))).)))..)))...... ( -32.90)
>DroSec_CAF1 61172 120 - 1
AUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAGGUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUA
.....((((((...((((.....))))....(((((...(((((.......)).))).....))))))))))).(((((.(((((((...........))))))).)))..))....... ( -31.50)
>DroSim_CAF1 61139 120 - 1
AUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAGGUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUA
.....((((((...((((.....))))....(((((...(((((.......)).))).....))))))))))).(((((.(((((((...........))))))).)))..))....... ( -31.50)
>DroEre_CAF1 65662 120 - 1
AUCUAUGCCUCAUUGAGCGCCCUGCUCUUUUCCAUUUAUUUGGUUCACGAUACCCAAUUGAUGAUGGGAGGCAAGCAUAGGUACUCCAUAAGUCCCGAGGAGUACAUAUUCGCGGCCCUA
.....((((((...((((.....))))....(((((.(((.(((.......))).)))....))))))))))).(((((.(((((((...........))))))).)))..))....... ( -34.50)
>DroYak_CAF1 64062 120 - 1
AUCUAUGCCUCAAUGAGCGCCCUGCUCUUUUCCGUUUACUUGGUUUACGAUACCCAAUUGAUGUUGGGAGGCAAGCAUAGGUACUCCAUAAGUCCCGAGGAGUACAUAUUCGCCGCCCUA
.....((((((...((((.....)))).....(((..((...))..)))....(((((....))))))))))).(((((.(((((((...........))))))).)))..))....... ( -31.90)
>consensus
AUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAGGUACUCCAUUAGUCCCGAGGAGUACAUAUUCGCCGCCCUA
.....((((((...((((.....))))....(((((...((((((..........)))))).))))))))))).(((((.(((((((...........))))))).)))..))....... (-29.96 = -29.84 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,978,792 – 9,978,912
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.67
Mean single sequence MFE -35.48
Consensus MFE -29.64
Energy contribution -29.96
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -1.36
Structure conservation index 0.84
SVM decision value 0.20
SVM RNA-class probability 0.632474
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9978792 120 - 27905053
AAUUGUGACCAUCUUCGUGGGCGGACAUAUGGUCACCACCAUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUAGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAG
....((((((((.((((....))))...)))))))).........((((((...((((.....))))....(((((...((((((..........)))))).)))))))))))....... ( -34.40)
>DroSec_CAF1 61212 120 - 1
AAUCGUGACCAUCUUCGUGGGCGGACAUAUGGUCACCACCAUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAG
....((((((((.((((....))))...)))))))).........((((((...((((.....))))....(((((...(((((.......)).))).....)))))))))))....... ( -34.90)
>DroSim_CAF1 61179 120 - 1
AAUCGUGACCAUCUUCGUGGGCGGACAUAUGGUCACCACCAUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAG
....((((((((.((((....))))...)))))))).........((((((...((((.....))))....(((((...(((((.......)).))).....)))))))))))....... ( -34.90)
>DroEre_CAF1 65702 120 - 1
AACCGUGAGCCUCUUAGUGGGCGGACAUAUGGUCACCACCAUCUAUGCCUCAUUGAGCGCCCUGCUCUUUUCCAUUUAUUUGGUUCACGAUACCCAAUUGAUGAUGGGAGGCAAGCAUAG
...((((((((....((((((.((.((((((((....))))..)))))).....((((.....))))...)))))).....))))))))...((((........))))............ ( -36.00)
>DroYak_CAF1 64102 120 - 1
CAUCGUGACCAUCUUCGUGGGCGGACAUAUGGUUACCACCAUCUAUGCCUCAAUGAGCGCCCUGCUCUUUUCCGUUUACUUGGUUUACGAUACCCAAUUGAUGUUGGGAGGCAAGCAUAG
.((((((((((.....(((((((((((((((((....))))..)))).......((((.....))))...))))))))).))).))))))).((((((....))))))............ ( -37.20)
>consensus
AAUCGUGACCAUCUUCGUGGGCGGACAUAUGGUCACCACCAUAUAUGCCUCAUUGAGCGCUCUGCUCUUCUCCGUUUAUUUGGUUUACGAUACACAAUUGAUGAUGGGAGGCAAGCAUAG
....((((((((.((((....))))...)))))))).........((((((...((((.....))))....(((((...((((((..........)))))).)))))))))))....... (-29.64 = -29.96 +   0.32)

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 11:07:18 2006