Locus 4827

Sequence ID 2L_DroMel_CAF1
Location 13,749,416 – 13,749,691
Length 275
Max. P 0.998574
window7643 window7644 window7645 window7646 window7647 window7648 window7649

overview

Window 3

Location 13,749,416 – 13,749,532
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.52
Mean single sequence MFE -31.27
Consensus MFE -27.92
Energy contribution -28.28
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.34
Structure conservation index 0.89
SVM decision value 0.37
SVM RNA-class probability 0.710746
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749416 116 + 22407834
CA----ACCGGAUUCUGACUGAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAA
..----...((((((.....).)))))......((.((((.((((..(((((..........)))))...)))))))).))...(((((.....(((((.....))))).....))))). ( -31.00)
>DroSec_CAF1 13053 116 + 1
CA----ACCGUAUUCUGACUGAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGAGUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAA
..----.(((((...((.........))...)))))((((.((((..(((((..........)))))...)))))))).....((((((.....(((((.....))))).....)))))) ( -29.60)
>DroAna_CAF1 24871 116 + 1
CAGGAUGCUGGAUG----CUGAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCAAAUGUCUGUAAACUUGCACGUGACUUUGGCCCAACUUGCAAUAUUUGCAGCUAAGGCUAAA
........(((((.----.....))))).....((.((((.((((..(((((..........)))))...)))))))).))...((((((....(((((.....)))))....)))))). ( -32.60)
>DroSim_CAF1 15082 116 + 1
CA----ACCGUAUUCUGACUGAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGAGUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAA
..----.(((((...((.........))...)))))((((.((((..(((((..........)))))...)))))))).....((((((.....(((((.....))))).....)))))) ( -29.60)
>DroEre_CAF1 15109 112 + 1
CA----ACCGGAUUCU----GAAAUCCAUUUUACGGGUGCCAAGUGCCAGACAAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUAUGGCCAAA
..----...(((((..----..)))))......((.((((.((((..((((((........))))))...)))))))).))...(((((.((..(((((.....)))))...))))))). ( -34.20)
>DroYak_CAF1 15890 112 + 1
CG----ACCGGAUUCU----GAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUAAGGCCAAA
..----...(((((..----..)))))......((.((((.((((..(((((..........)))))...)))))))).))...(((((.....(((((.....))))).....))))). ( -30.60)
>consensus
CA____ACCGGAUUCU__CUGAAAUCCAUUUUACGGGUGCCAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAA
.........(((((........)))))......((.((((.((((..(((((..........)))))...)))))))).))..((((((.....(((((.....))))).....)))))) (-27.92 = -28.28 +   0.36)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,749,416 – 13,749,532
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.52
Mean single sequence MFE -35.27
Consensus MFE -30.60
Energy contribution -31.47
Covariance contribution 0.86
Combinations/Pair 1.06
Mean z-score -1.61
Structure conservation index 0.87
SVM decision value 0.48
SVM RNA-class probability 0.752139
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749416 116 - 22407834
UUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUCAGUCAGAAUCCGGU----UG
((((((.(((((((((.....))).))))))))))))((((.((((.((....(((((.....)))))..)).)))).))))..........(((((((......)))))))..----.. ( -38.90)
>DroSec_CAF1 13053 116 - 1
UUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUCAGUCAGAAUACGGU----UG
((((((.(((((((((.....))).)))))))))))).....((((((((...(((((..........)))))..)))).))))(((((.....(((....)))....))))).----.. ( -36.90)
>DroAna_CAF1 24871 116 - 1
UUUAGCCUUAGCUGCAAAUAUUGCAAGUUGGGCCAAAGUCACGUGCAAGUUUACAGACAUUUGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUCAG----CAUCCAGCAUCCUG
....((((.(((((((.....))).))))))))....((((.((((.((....(((((.....)))))..)).)))).))))..........(((((.....----.)))))........ ( -31.30)
>DroSim_CAF1 15082 116 - 1
UUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUCAGUCAGAAUACGGU----UG
((((((.(((((((((.....))).)))))))))))).....((((((((...(((((..........)))))..)))).))))(((((.....(((....)))....))))).----.. ( -36.90)
>DroEre_CAF1 15109 112 - 1
UUUGGCCAUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUUGUCUGGCACUUGGCACCCGUAAAAUGGAUUUC----AGAAUCCGGU----UG
((((((..((((((((.....))).))))).)))))).....((((((((...((((((........))))))..)))).))))........((((((..----..))))))..----.. ( -34.00)
>DroYak_CAF1 15890 112 - 1
UUUGGCCUUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUC----AGAAUCCGGU----CG
((((((..((((((((.....))).))))).))))))((((.((((.((....(((((.....)))))..)).)))).))))..........((((((..----..))))))..----.. ( -33.60)
>consensus
UUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUGGCACCCGUAAAAUGGAUUUCAG__AGAAUCCGGU____UG
((((((.(((((((((.....))).)))))))))))).....((((((((...(((((..........)))))..)))).))))........(((((((......)))))))........ (-30.60 = -31.47 +   0.86)

alignment

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secondary structure

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Window 5

Location 13,749,452 – 13,749,571
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.05
Mean single sequence MFE -29.27
Consensus MFE -25.03
Energy contribution -24.92
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.86
SVM decision value 0.19
SVM RNA-class probability 0.626160
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749452 119 + 22407834
CAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCAACUC-CGGCC
(((((..(((((..........)))))...)))))..((.((.((((((.....(((((.....))))).....)))))).............(((((.......)))))..))-))... ( -26.90)
>DroSec_CAF1 13089 120 + 1
CAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGAGUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCAACUCCCGGCC
(((((..(((((..........)))))...)))))..((.(((((((((.....(((((.....))))).....)))))..............(((((.......))))))))).))... ( -30.20)
>DroAna_CAF1 24907 117 + 1
CAAGUGCCAGACCAAACCAAAUGUCUGUAAACUUGCACGUGACUUUGGCCCAACUUGCAAUAUUUGCAGCUAAGGCUAAAACCAAAACUAAGCUGCCAACAACAAUGGGAGC---GGAGC
(((((..(((((..........)))))...)))))....((..(((((((....(((((.....)))))....)))))))..))...((..(((.(((.......))).)))---..)). ( -30.60)
>DroSim_CAF1 15118 120 + 1
CAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGAGUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCAACUCCCGGCC
(((((..(((((..........)))))...)))))..((.(((((((((.....(((((.....))))).....)))))..............(((((.......))))))))).))... ( -30.20)
>DroEre_CAF1 15141 119 + 1
CAAGUGCCAGACAAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUAUGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCGACUCCUGG-A
(((((..((((((........))))))...)))))....((..((((((.((..(((((.....)))))...))))))))..))...(((((.(((((.......))))).))..)))-. ( -30.20)
>DroYak_CAF1 15922 119 + 1
CAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUAAGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCAACUCCUGG-A
(((((..(((((..........)))))...)))))....((.(((((((((((..........)))).))))))).))...(((......((.(((((.......))))).))..)))-. ( -27.50)
>consensus
CAAGUGCCAGACCAAACCGAAUGUCUGUAAACUUGCACGUGACUUUGGCGCAACUUGCAAUAUUUGCAGCUACGGCCAAAACCAAAACUAAGCUGCCAACAACAAUGGCAACUCCCGGCC
(((((..(((((..........)))))...)))))....((..((((((.....(((((.....))))).....))))))..)).........(((((.......))))).......... (-25.03 = -24.92 +  -0.11)

alignment

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secondary structure

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Window 6

Location 13,749,452 – 13,749,571
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.05
Mean single sequence MFE -41.43
Consensus MFE -38.04
Energy contribution -39.07
Covariance contribution 1.03
Combinations/Pair 1.05
Mean z-score -2.38
Structure conservation index 0.92
SVM decision value 3.15
SVM RNA-class probability 0.998574
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749452 119 - 22407834
GGCCG-GAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUG
.((((-(((((((((.......)))))))...((..((..((((((.(((((((((.....))).))))))))))))..))...)).......(((((.....))))).))))))..... ( -46.20)
>DroSec_CAF1 13089 120 - 1
GGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUG
.((((((((((((((.......))))))))).((..((..((((((.(((((((((.....))).))))))))))))..))...)).......(((((.....)))))..)))))..... ( -45.10)
>DroAna_CAF1 24907 117 - 1
GCUCC---GCUCCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUAGCCUUAGCUGCAAAUAUUGCAAGUUGGGCCAAAGUCACGUGCAAGUUUACAGACAUUUGGUUUGGUCUGGCACUUG
(((..---(((.(((.......))).)))..)))..((..(((.((((.(((((((.....))).)))))))).)))..)).((((.((....(((((.....)))))..)).))))... ( -33.20)
>DroSim_CAF1 15118 120 - 1
GGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUG
.((((((((((((((.......))))))))).((..((..((((((.(((((((((.....))).))))))))))))..))...)).......(((((.....)))))..)))))..... ( -45.10)
>DroEre_CAF1 15141 119 - 1
U-CCAGGAGUCGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCAUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUUGUCUGGCACUUG
.-....((((.((((.......)))).)))).....((..((((((..((((((((.....))).))))).))))))..))....(((((...((((((........))))))..))))) ( -38.10)
>DroYak_CAF1 15922 119 - 1
U-CCAGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCUUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUG
.-....(((((((((.......))))))))).....((..((((((..((((((((.....))).))))).))))))..)).((((.((....(((((.....)))))..)).))))... ( -40.90)
>consensus
GGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUCACGUGCAAGUUUACAGACAUUCGGUUUGGUCUGGCACUUG
......(((((((((.......))))))))).....((..((((((.(((((((((.....))).))))))))))))..)).((((.((....(((((.....)))))..)).))))... (-38.04 = -39.07 +   1.03)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,749,492 – 13,749,611
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.61
Mean single sequence MFE -38.45
Consensus MFE -31.60
Energy contribution -32.47
Covariance contribution 0.86
Combinations/Pair 1.06
Mean z-score -3.23
Structure conservation index 0.82
SVM decision value 1.84
SVM RNA-class probability 0.979735
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749492 119 - 22407834
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUGGCCG-GAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUC
...(((...(((((((.....)))))))..))).((.((((((..-(((((((((.......)))))))))......(((....)))(((((((((.....))).)))))))))))).)) ( -40.10)
>DroSec_CAF1 13129 120 - 1
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUGGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUC
...(((...(((((((.....)))))))..))).(((((((((...(((((((((.......)))))))))......(((....)))(((((((((.....))).))))))))))))))) ( -44.00)
>DroAna_CAF1 24947 117 - 1
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUGCUCC---GCUCCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUAGCCUUAGCUGCAAAUAUUGCAAGUUGGGCCAAAGUC
....((((((((((((.....))))))).....((((....))))---((((...((((((((.((((((.......(((....)))..)))))).))))..))))...))))..))))) ( -32.90)
>DroSim_CAF1 15158 120 - 1
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUGGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAACUC
...(((...(((((((.....)))))))..))).(((((((((...(((((((((.......)))))))))......(((....)))(((((((((.....))).))))))))))))))) ( -44.00)
>DroEre_CAF1 15181 119 - 1
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUU-CCAGGAGUCGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCAUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUC
....(((..((((((((...((((..((((((.((......-)).))))))((((.......)))))))).)))))))).((((((..((((((((.....))).))))).))))))))) ( -34.50)
>DroYak_CAF1 15962 119 - 1
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUU-CCAGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCUUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUC
...(((...(((((((.....)))))))..)))((......-))..(((((((((.......)))))))))......(..((((((..((((((((.....))).))))).))))))..) ( -35.20)
>consensus
AUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUUGGCCGGGAGUUGCCAUUGUUGUUGGCAGCUUAGUUUUGGUUUUGGCCGUAGCUGCAAAUAUUGCAAGUUGCGCCAAAGUC
.(.(((...(((((((.....)))))))..))).)...........(((((((((.......)))))))))......(..((((((.(((((((((.....))).))))))))))))..) (-31.60 = -32.47 +   0.86)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,749,571 – 13,749,691
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.17
Mean single sequence MFE -24.92
Consensus MFE -23.75
Energy contribution -23.92
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.95
SVM decision value 0.98
SVM RNA-class probability 0.893367
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749571 120 + 22407834
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGAAAGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((........((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). ( -24.57)
>DroSec_CAF1 13209 120 + 1
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGAAAGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((........((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). ( -24.57)
>DroAna_CAF1 25024 120 + 1
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUACCAGAAAGUUUUCCAUGCAGGUAUCGUAGACCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((.((.....((((((((.....(((.......)))....))))))))......)).))))))))))).......))))))). ( -27.14)
>DroSim_CAF1 15238 120 + 1
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGAAAGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((........((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). ( -24.57)
>DroEre_CAF1 15260 120 + 1
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGAAAGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((........((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). ( -24.57)
>DroYak_CAF1 16041 119 + 1
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGA-AGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((.......-((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). ( -24.13)
>consensus
AAACUCCUGAAAUCAAAACUAAAAAUUCUGAAAGUCACAUAGCAGAAAGUUUUCCAUGCAGGUAUCGUAGAUCCAACGGAAGACUGCCAAAGUCUGUGACUGUUUGCUUAAAUGAUUUCG
........(((((((.......((((......(((((((........((((((((.....((.(((...)))))...)))))))).........))))))))))).......))))))). (-23.75 = -23.92 +   0.17)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,749,571 – 13,749,691
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 99.17
Mean single sequence MFE -27.98
Consensus MFE -26.34
Energy contribution -26.20
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.17
Structure conservation index 0.94
SVM decision value 0.85
SVM RNA-class probability 0.865848
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13749571 120 - 22407834
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACUUUCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.....((((((..((((((.(((((...))).))...))))))......)))))))))))))...(((((.....)))))))))))........ ( -27.30)
>DroSec_CAF1 13209 120 - 1
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACUUUCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.....((((((..((((((.(((((...))).))...))))))......)))))))))))))...(((((.....)))))))))))........ ( -27.30)
>DroAna_CAF1 25024 120 - 1
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGGUCUACGAUACCUGCAUGGAAAACUUUCUGGUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.(((..((.(((.(((((((((((.......))))).)))))).))).)).))).)))))))...(((((.....)))))))))))........ ( -30.80)
>DroSim_CAF1 15238 120 - 1
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACUUUCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.....((((((..((((((.(((((...))).))...))))))......)))))))))))))...(((((.....)))))))))))........ ( -27.30)
>DroEre_CAF1 15260 120 - 1
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACUUUCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.....((((((..((((((.(((((...))).))...))))))......)))))))))))))...(((((.....)))))))))))........ ( -27.30)
>DroYak_CAF1 16041 119 - 1
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACU-UCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((.....((((((..((((((.(((((...))).))...))))))....-.)))))))))))))...(((((.....)))))))))))........ ( -27.90)
>consensus
CGAAAUCAUUUAAGCAAACAGUCACAGACUUUGGCAGUCUUCCGUUGGAUCUACGAUACCUGCAUGGAAAACUUUCUGCUAUGUGACUUUCAGAAUUUUUAGUUUUGAUUUCAGGAGUUU
.((((((............(((((((......((.(((.((((((.(((((...))).))...)))))).))).)).....)))))))...(((((.....)))))))))))........ (-26.34 = -26.20 +  -0.14)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:34 2006