Locus 5469

Sequence ID 3R_DroMel_CAF1
Location 14,448,456 – 14,448,842
Length 386
Max. P 0.999788
window8903 window8904 window8905 window8906 window8907 window8908 window8909 window8910

overview

Window 3

Location 14,448,456 – 14,448,576
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -38.80
Consensus MFE -32.74
Energy contribution -34.10
Covariance contribution 1.36
Combinations/Pair 1.10
Mean z-score -2.21
Structure conservation index 0.84
SVM decision value 1.82
SVM RNA-class probability 0.978766
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448456 120 - 27905053
AUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGACGAAGUUCCCCUUCAUGAGUGCCCCGGGGUGACGGCAUUCAGCCAAUUGCACAGACAAUAACCAGGAAUA
..(((((((...((((.(((((((.....)))))))........(((((.(((((.....)))).((((((((....(....)))))))))).))))))))).........))))))).. ( -36.20)
>DroSec_CAF1 5710 120 - 1
AUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCAGGGUGACGGCAUUCAGCCAAUUGCGCAGACAAUAACCAGGAAUG
..(((((((...((((.(((((((.....)))))))........(((((((((((.....)))).((((((((....(....)))))))))))))))))))).........))))))).. ( -42.40)
>DroSim_CAF1 6267 120 - 1
AUUUUUUGGCACGUGCAGUGUCCACUUUCUGGGCACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCAGGGUGACGGCAUUCAGCCAAUUGCGCAGACAAUAACCAGGAAUG
..(((((((...((((.(((((((.....)))))))........(((((((((((.....)))).((((((((....(....)))))))))))))))))))).........))))))).. ( -41.80)
>DroEre_CAF1 5551 97 - 1
AUUUUUCGGCACGUGCAGUGUCCACUUUCUGGACACACCCACAAAAUUGGAGGAGUUCCCCUUCAUGAGUGCCCUGGGGUGACGGCAUUCAGCCAAU-----------------------
.......(((..(((..(((((((.....)))))))...))).....((((((......))))))((((((((....(....))))))))))))...----------------------- ( -37.30)
>DroYak_CAF1 6343 119 - 1
AUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACAAAAUUGGCGGAGUUUGCCUUCAUGACUGCCCAGGGG-GACUGCAUUCAGCCAAUUGCGCAGACAAUAACCACGAAUG
(((.((((((..(((..(((((((.....)))))))...)))..(((((((((((.....)))).(((.(((...((..-..))))).)))))))))))).)))).)))........... ( -36.30)
>consensus
AUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCGGGGUGACGGCAUUCAGCCAAUUGCGCAGACAAUAACCAGGAAUG
............((((.(((((((.....)))))))........(((((((((((.....)))).((((((((....(....)))))))))))))))))))).................. (-32.74 = -34.10 +   1.36)

alignment

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secondary structure

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Window 4

Location 14,448,496 – 14,448,613
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.81
Mean single sequence MFE -41.86
Consensus MFE -33.36
Energy contribution -34.40
Covariance contribution 1.04
Combinations/Pair 1.09
Mean z-score -2.91
Structure conservation index 0.80
SVM decision value 2.40
SVM RNA-class probability 0.993515
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448496 117 + 27905053
ACCCCGGGGCACUCAUGAAGGGGAACUUCGUCAAUUUGGUGGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCAAAA---A
...(((.(((((..((((((.....)))))).......(((.(.(((((((.....)))))))).))))))))......))).(((.((((((((....)))))))).))).....---. ( -41.80)
>DroSec_CAF1 5750 117 + 1
ACCCUGGGGCACUCAUGAAGGGGAACUCCGCCAAUUUGGUGGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUUGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA---A
((((.((((..(((......)))..))))(((.....)))))))(((((((.....))))))).....((((((.............((((((((....)))))))).))))))..---. ( -44.44)
>DroSim_CAF1 6307 117 + 1
ACCCUGGGGCACUCAUGAAGGGGAACUCCGCCAAUUUGGUGGGUGUGCCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA---A
...(((((((((((((.((((((....)).))...)).)))))))).)))))...(((.......)))((((((.............((((((((....)))))))).))))))..---. ( -44.94)
>DroEre_CAF1 5568 117 + 1
ACCCCAGGGCACUCAUGAAGGGGAACUCCUCCAAUUUUGUGGGUGUGUCCAGAAAGUGGACACUGCACGUGCCGAAAAAUGGUUUAGAAAGUGGCCAAAGGCACUUUGUGGCACAA---A
....(((.(((((((..((((((....))))....))..)))))))(((((.....))))).)))...((((((((......)))(.((((((.(....).)))))).))))))..---. ( -38.40)
>DroYak_CAF1 6383 119 + 1
-CCCCUGGGCAGUCAUGAAGGCAAACUCCGCCAAUUUUGUGGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUCGUGGCAAAAAAAA
-((....))..((((((((((((.((.((((.......))))))(((((((.....)))))))......)))).................(((((....)))))))))))))........ ( -39.70)
>consensus
ACCCCGGGGCACUCAUGAAGGGGAACUCCGCCAAUUUGGUGGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA___A
.((((....((....))..))))......((((.(((((((.(((((((((.....)))))...)))).)))))))...........((((((((....)))))))).))))........ (-33.36 = -34.40 +   1.04)

alignment

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secondary structure

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Window 5

Location 14,448,496 – 14,448,613
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.81
Mean single sequence MFE -38.21
Consensus MFE -34.66
Energy contribution -34.58
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -2.55
Structure conservation index 0.91
SVM decision value 4.08
SVM RNA-class probability 0.999788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448496 117 - 27905053
U---UUUUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGACGAAGUUCCCCUUCAUGAGUGCCCCGGGGU
.---....(((..((((((((....))))))))..............((((((((..(((((((.....)))))))...))).........((((.....))))....)))))....))) ( -37.50)
>DroSec_CAF1 5750 117 - 1
U---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACAAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCAGGGU
.---..((((((.((((((((....)))))))).............)))))).....(((((((.....)))))))((((.......(((.((..(((........)))..))))))))) ( -39.25)
>DroSim_CAF1 6307 117 - 1
U---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGGCACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCAGGGU
(---(((.....))))..(((((.((((((((......(((...((((((....)).(((((((.....)))))))......)))).))).((((.....))))..)))))))).))))) ( -38.80)
>DroEre_CAF1 5568 117 - 1
U---UUGUGCCACAAAGUGCCUUUGGCCACUUUCUAAACCAUUUUUCGGCACGUGCAGUGUCCACUUUCUGGACACACCCACAAAAUUGGAGGAGUUCCCCUUCAUGAGUGCCCUGGGGU
.---....(((..((((((((...)).)))))).....(((......((((((((..(((((((.....)))))))...))).....((((((......))))))...))))).)))))) ( -37.60)
>DroYak_CAF1 6383 119 - 1
UUUUUUUUGCCACGAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACAAAAUUGGCGGAGUUUGCCUUCAUGACUGCCCAGGGG-
.......(((.((((((((((....)))))))......(((.....)))..))))))(((((((.....))))))).(((.......(((.(.((((.........)))).))))))).- ( -37.91)
>consensus
U___UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCCACCAAAUUGGCGGAGUUCCCCUUCAUGAGUGCCCCGGGGU
.........((..((((((((....))))))))..............((((((((..(((((((.....)))))))...))).........((((.....))))....)))))...)).. (-34.66 = -34.58 +  -0.08)

alignment

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secondary structure

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Window 6

Location 14,448,536 – 14,448,642
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.77
Mean single sequence MFE -35.73
Consensus MFE -25.90
Energy contribution -26.46
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -2.81
Structure conservation index 0.72
SVM decision value 1.36
SVM RNA-class probability 0.946634
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448536 106 + 27905053
GGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCAAAA---AACAUUAUGUUAUAGACACGG-----------UAUGUCAGU
....(((((((.....)))))))((.(((((((..............((((((((....))))))))(((......---(((.....))).....)))))-----------))))))).. ( -33.90)
>DroSec_CAF1 5790 113 + 1
GGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUUGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA---AACAUUAUGUUAUGGACAUGGGC----ACAUGGAUGUCAGU
..(((((((((.....))))))).))..(((((......(((((((.((((((((....)))))))).))).))))---.....((((((...)))))))))----))............ ( -38.30)
>DroSim_CAF1 6347 113 + 1
GGGUGUGCCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA---AACAUUAUGUUAUGGACAUGGGC----ACAUGGAUGUCGGU
..(((((((((....(((.......)))((((((.............((((((((....)))))))).))))))..---..................)))))----)))).......... ( -37.44)
>DroEre_CAF1 5608 117 + 1
GGGUGUGUCCAGAAAGUGGACACUGCACGUGCCGAAAAAUGGUUUAGAAAGUGGCCAAAGGCACUUUGUGGCACAA---AAAGUGAUGUUAUGGACACAGGAGCGAGCAUGGAUGCCAGU
.((((((((((.....)))))))....(((((((.....((((((..((((((.(....).))))))((((((((.---....)).)))))))))).))....)).)))))...)))... ( -34.80)
>DroYak_CAF1 6422 116 + 1
GGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUCGUGGCAAAAAAAAAAAUUAUGUUAUGGACAUAGGC----ACAUGGAUGUCAGU
..(((((((((.....))))))).))..(((((.................(((((....)))))(((((((((.((.......)).)))))))))....)))----))............ ( -34.20)
>consensus
GGGUGUGUCCAGAAAGUGGACACUGCACGUGCCAAAAAAUGGUUUAGAAAGUGCCCAAAGGCACUUUGUGGCACAA___AACAUUAUGUUAUGGACAUGGGC____ACAUGGAUGUCAGU
...((((((((....(((.......)))((((((.............((((((((....)))))))).)))))).................))))))))..................... (-25.90 = -26.46 +   0.56)

alignment

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secondary structure

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Window 7

Location 14,448,536 – 14,448,642
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.77
Mean single sequence MFE -34.70
Consensus MFE -28.06
Energy contribution -28.14
Covariance contribution 0.08
Combinations/Pair 1.15
Mean z-score -4.42
Structure conservation index 0.81
SVM decision value 3.57
SVM RNA-class probability 0.999401
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448536 106 - 27905053
ACUGACAUA-----------CCGUGUCUAUAACAUAAUGUU---UUUUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCC
...(((((.-----------..)))))..............---...(((.((((((((((....)))))))).....(((.....)))...)))))(((((((.....))))))).... ( -30.60)
>DroSec_CAF1 5790 113 - 1
ACUGACAUCCAUGU----GCCCAUGUCCAUAACAUAAUGUU---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACAAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCC
.........(((((----(((.((((.....))))..((((---(.(((((.(((((...)))))))))).....))))).......))))))))..(((((((.....))))))).... ( -38.30)
>DroSim_CAF1 6347 113 - 1
ACCGACAUCCAUGU----GCCCAUGUCCAUAACAUAAUGUU---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGGCACACCC
.........(((((----(((...(..((.(((.....)))---.))..)...((((((((....))))))))..............))))))))..(((((((.....))))))).... ( -36.60)
>DroEre_CAF1 5608 117 - 1
ACUGGCAUCCAUGCUCGCUCCUGUGUCCAUAACAUCACUUU---UUGUGCCACAAAGUGCCUUUGGCCACUUUCUAAACCAUUUUUCGGCACGUGCAGUGUCCACUUUCUGGACACACCC
....((((..(((..(((....)))..)))...........---..(((((..((((((..(((((.......))))).))))))..))))))))).(((((((.....))))))).... ( -30.90)
>DroYak_CAF1 6422 116 - 1
ACUGACAUCCAUGU----GCCUAUGUCCAUAACAUAAUUUUUUUUUUUGCCACGAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCC
.........(((((----((((((((.....))))).................((((((((....))))))))..............))))))))..(((((((.....))))))).... ( -37.10)
>consensus
ACUGACAUCCAUGU____GCCCAUGUCCAUAACAUAAUGUU___UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACCAUUUUUUGGCACGUGCAGUGUCCACUUUCUGGACACACCC
...(((((..............)))))..................(((((((.((((((((....)))))))).............)))))))....(((((((.....))))))).... (-28.06 = -28.14 +   0.08)

alignment

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secondary structure

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Window 8

Location 14,448,576 – 14,448,682
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.79
Mean single sequence MFE -16.83
Consensus MFE -12.08
Energy contribution -11.72
Covariance contribution -0.36
Combinations/Pair 1.23
Mean z-score -1.84
Structure conservation index 0.72
SVM decision value 0.41
SVM RNA-class probability 0.724486
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448576 106 - 27905053
UCGACCAUUUCUAACUAAAAGCCCCCCCCCCCACACACACACUGACAUA-----------CCGUGUCUAUAACAUAAUGUU---UUUUGCCACAAAGUGCCUUUGGGCACUUUCUAAACC
.................................................-----------..(((.(...(((.....)))---....).)))((((((((....))))))))....... ( -14.20)
>DroSec_CAF1 5830 108 - 1
UCGACCAUUUCAAACUAAAAGCCCCC-----CCCACACACACUGACAUCCAUGU----GCCCAUGUCCAUAACAUAAUGUU---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACA
..........................-----......((((..(((((..((((----.............)))).)))))---.))))....((((((((....))))))))....... ( -19.02)
>DroSim_CAF1 6387 108 - 1
UCGACCAUUUCAAACUAAAAGCCCCC-----CACACACACACCGACAUCCAUGU----GCCCAUGUCCAUAACAUAAUGUU---UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACC
..........................-----......((((..(((((..((((----.............)))).)))))---.))))....((((((((....))))))))....... ( -18.12)
>DroEre_CAF1 5648 106 - 1
UCGACCAUUUCAAACUAAAAGCC-C----------CACACACUGGCAUCCAUGCUCGCUCCUGUGUCCAUAACAUCACUUU---UUGUGCCACAAAGUGCCUUUGGCCACUUUCUAAACC
....................(((-.----------....(((((((....(((..(((....)))..))).(((.......---.))))))....)))).....)))............. ( -15.40)
>DroYak_CAF1 6462 106 - 1
UCGACCAUUUCAAACUAAAAGCCCC----------CACACACUGACAUCCAUGU----GCCUAUGUCCAUAACAUAAUUUUUUUUUUUGCCACGAAGUGCCUUUGGGCACUUUCUAAACC
..........((((..(((((....----------..((((.((.....)))))----)..(((((.....)))))..)))))..))))....((((((((....))))))))....... ( -17.40)
>consensus
UCGACCAUUUCAAACUAAAAGCCCCC_____C_CACACACACUGACAUCCAUGU____GCCCAUGUCCAUAACAUAAUGUU___UUGUGCCACAAAGUGCCUUUGGGCACUUUCUAAACC
...........................................(((((..............)))))..........................((((((((....))))))))....... (-12.08 = -11.72 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,448,642 – 14,448,762
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.96
Mean single sequence MFE -22.65
Consensus MFE -20.68
Energy contribution -21.04
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.91
SVM decision value 1.51
SVM RNA-class probability 0.959772
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448642 120 - 27905053
CCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCGUUGCUUUGUGACUAAAUUGAAUUUAGUGAUCGCUUUUUUAUCGACCAUUUCUAACUAAAAGCCCCCCCCCCCACACACAC
...(((((((......((((....(((....)))..((((.......((((((((((...))))))...))))........))))..))))......)))))))................ ( -21.96)
>DroSec_CAF1 5903 115 - 1
CCCAGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCGUUGCUUUGUGACUAAAUUGAAUUUAGUAAUCGCUUUUUUAUCGACCAUUUCAAACUAAAAGCCCCC-----CCCACACAC
....((((((....((((((....(((....)))..((((.......((((((((((...))))))...))))........))))..))))))....))))))...-----......... ( -20.56)
>DroSim_CAF1 6460 115 - 1
CCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCGUUGCUUUGUGACUAAAUUGAAUUUAGUAAUCGCUUUUUUAUCGACCAUUUCAAACUAAAAGCCCCC-----CACACACAC
...(((((((....((((((....(((....)))..((((.......((((((((((...))))))...))))........))))..))))))....)))))))..-----......... ( -23.96)
>DroEre_CAF1 5725 109 - 1
ACCGGGCUUUAUAAUUGGAAAUCCCACAAAGGUGUUGUCGUUGCUUUGUGACUAAAUUGAAUUUAGUAAUCGCUUUUUUAUCGACCAUUUCAAACUAAAAGCC-C----------CACAC
...(((((((....((((((....(((....)))..((((.......((((((((((...))))))...))))........))))..))))))....))))))-)----------..... ( -23.46)
>DroYak_CAF1 6538 110 - 1
CCCGGGCUUUAUAAUUGGAAAUCCCACAAAGGUGUUUUCGUUGCUUUGUGACUAAAUUGAAUUUAGUAAUCGCUUUUUUAUCGACCAUUUCAAACUAAAAGCCCC----------CACAC
...(((((((....((((((....(((((((............)))))))(((((((...)))))))....................))))))....))))))).----------..... ( -23.30)
>consensus
CCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCGUUGCUUUGUGACUAAAUUGAAUUUAGUAAUCGCUUUUUUAUCGACCAUUUCAAACUAAAAGCCCCC_____C_CACACAC
...(((((((....((((((....(((((((............)))))))(((((((...)))))))....................))))))....)))))))................ (-20.68 = -21.04 +   0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,448,722 – 14,448,842
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -34.92
Consensus MFE -32.20
Energy contribution -32.52
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -1.69
Structure conservation index 0.92
SVM decision value 2.15
SVM RNA-class probability 0.989122
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14448722 120 - 27905053
GCCUUUGGCACUUUGCAUUUUGCCUUUUUGCGGUCUGGGAAAAAAAGAGCUGUGCUGCAUUGACUAGCAUAUUUCUUGCGCCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCG
((((((((((....((.....)).....)))((((((((.....(((((.(((((((.......))))))).)))))...))))))))..................)))))))....... ( -36.30)
>DroSec_CAF1 5978 120 - 1
GCCUUUGGCACUUUGCAUUUUGCCUUUUUGCGGUCUGGGAAAAAAAGAGCUAUGCUGCAUUGACUAGCAUAUUUCUUGCACCCAGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCG
((((((((((....((.....)).....)))((((((((.....(((((.(((((((.......))))))).)))))...))))))))..................)))))))....... ( -35.90)
>DroSim_CAF1 6535 120 - 1
GCCUUUGGCACUUUGCAUUUUGCCUUUUUGCGGUCUGGGAAAAAAAGAGCUGUGCUGCAUUGACUAGCAUAUUUCUUGCGCCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCG
((((((((((....((.....)).....)))((((((((.....(((((.(((((((.......))))))).)))))...))))))))..................)))))))....... ( -36.30)
>DroEre_CAF1 5794 118 - 1
GCCUUUGGCACUUUGCAUUUUGCCUUUUUGCGGUAUGGGAAA--AAGAGCUGUGCUGCAUUGACUAGCAUAUUUCUUUCGACCGGGCUUUAUAAUUGGAAAUCCCACAAAGGUGUUGUCG
(((((((((.....))....((((.......))))(((((.(--(((((.(((((((.......))))))).))))))...((((.........))))...))))))))))))....... ( -31.80)
>DroYak_CAF1 6608 114 - 1
GCCUUUGGCACUU------UUGCCUUUUUGCGGUCUGGGAAAAAAAGAGCUGUGCUGCAUUGACUAGUAUAUUUCUUUCGCCCGGGCUUUAUAAUUGGAAAUCCCACAAAGGUGUUUUCG
((....((((...------.)))).....))((((((((....((((((.(((((((.......))))))).))))))..))))))))........(((((..((.....))..))))). ( -34.30)
>consensus
GCCUUUGGCACUUUGCAUUUUGCCUUUUUGCGGUCUGGGAAAAAAAGAGCUGUGCUGCAUUGACUAGCAUAUUUCUUGCGCCCGGGCUUUAUAAUUGAAAAUCCCACAAAGGUGUUGUCG
((((((((((....((.....)).....)))((((((((.....(((((.(((((((.......))))))).)))))...))))))))..................)))))))....... (-32.20 = -32.52 +   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 11:55:38 2006