Locus 5102

Sequence ID 2L_DroMel_CAF1
Location 14,529,812 – 14,529,963
Length 151
Max. P 0.999971
window8120 window8121 window8122 window8123

overview

Window 0

Location 14,529,812 – 14,529,932
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.46
Mean single sequence MFE -36.75
Consensus MFE -32.35
Energy contribution -32.69
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.88
SVM decision value 3.02
SVM RNA-class probability 0.998165
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14529812 120 + 22407834
UUCGGUCGGCCUCAUGCCUCCUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUG
..(((.((((..((((.((((....(((((((((...))).))))))..))))...............(((((((((((.....(....)...)))))))))))...))))..))))))) ( -36.70)
>DroPse_CAF1 67266 108 + 1
UUC--UCGGC----------CUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUUCAACUGACAGUUCUCCAUGUUGGCGCUG
...--(((((----------.....)))))........((.(((((((((((((...............((((((((((.....(....)...))))))))))))))))))))))))).. ( -35.76)
>DroSim_CAF1 47209 120 + 1
UUCGGUCGGCCUCAUGCCUCCUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUG
..(((.((((..((((.((((....(((((((((...))).))))))..))))...............(((((((((((.....(....)...)))))))))))...))))..))))))) ( -36.70)
>DroEre_CAF1 57020 120 + 1
UUCGGUCGGCCUCAUGCCUCCUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCCG
..(((.((((..((((.((((....(((((((((...))).))))))..))))...............(((((((((((.....(....)...)))))))))))...))))..))))))) ( -38.90)
>DroYak_CAF1 52127 120 + 1
UUCGGUCGGCCUCAUGCCUCCUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUG
..(((.((((..((((.((((....(((((((((...))).))))))..))))...............(((((((((((.....(....)...)))))))))))...))))..))))))) ( -36.70)
>DroPer_CAF1 71003 108 + 1
UUC--UCGGC----------CUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUUCAACUGACAGUUCUCCAUGUUGGCGCUG
...--(((((----------.....)))))........((.(((((((((((((...............((((((((((.....(....)...))))))))))))))))))))))))).. ( -35.76)
>consensus
UUCGGUCGGCCUCAUGCCUCCUUAAGUUGACGUGUUACGCUGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUG
....((((((...............)))))).......((.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).))).. (-32.35 = -32.69 +   0.33)

alignment

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secondary structure

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Window 1

Location 14,529,812 – 14,529,932
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.46
Mean single sequence MFE -33.69
Consensus MFE -28.04
Energy contribution -28.04
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.83
SVM decision value -0.01
SVM RNA-class probability 0.530582
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14529812 120 - 22407834
CAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAGGAGGCAUGAGGCCGACCGAA
..((..((.((((((((((((((((((..............))))))))))))((((.......)))))))))).))...)).................((.(((.....)))..))... ( -34.54)
>DroPse_CAF1 67266 108 - 1
CAGCGCCAACAUGGAGAACUGUCAGUUGAAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAG----------GCCGA--GAA
..(.(((..((((((((((((((((((..............))))))))))))((((.......)))))))))).((((..........))))......)----------)))..--... ( -31.34)
>DroSim_CAF1 47209 120 - 1
CAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAGGAGGCAUGAGGCCGACCGAA
..((..((.((((((((((((((((((..............))))))))))))((((.......)))))))))).))...)).................((.(((.....)))..))... ( -34.54)
>DroEre_CAF1 57020 120 - 1
CGGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAGGAGGCAUGAGGCCGACCGAA
((((..((.((((((((((((((((((..............))))))))))))((((.......)))))))))).)).........((.(((..(....)..))).))..))))...... ( -35.84)
>DroYak_CAF1 52127 120 - 1
CAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAGGAGGCAUGAGGCCGACCGAA
..((..((.((((((((((((((((((..............))))))))))))((((.......)))))))))).))...)).................((.(((.....)))..))... ( -34.54)
>DroPer_CAF1 71003 108 - 1
CAGCGCCAACAUGGAGAACUGUCAGUUGAAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAG----------GCCGA--GAA
..(.(((..((((((((((((((((((..............))))))))))))((((.......)))))))))).((((..........))))......)----------)))..--... ( -31.34)
>consensus
CAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACAGCGUAACACGUCAACUUAAGGAGGCAUGAGGCCGACCGAA
..((..((.((((((((((((((((((..............))))))))))))((((.......)))))))))).))...(((.....)))...................))........ (-28.04 = -28.04 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,529,852 – 14,529,963
Length 111
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 90.23
Mean single sequence MFE -30.90
Consensus MFE -28.14
Energy contribution -28.14
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.84
Structure conservation index 0.91
SVM decision value 5.06
SVM RNA-class probability 0.999971
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14529852 111 + 22407834
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUGUCUCUCU----CUCUCUCGCCGAUUCGUUUCGUUU
.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).)...........----.........(((......)))... ( -29.76)
>DroPse_CAF1 67294 102 + 1
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUUCAACUGACAGUUCUCCAUGUUGGCGCUGUCUCUU--------UUUCUUCGUUUC-----GUUU
.(((((((((((((...............((((((((((.....(....)...)))))))))))))))))))))))..........--------............-----.... ( -31.66)
>DroSec_CAF1 61910 107 + 1
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUGUCUCC--------CUCUAGCCGAUUCGUUUCGUUU
.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).)((((.....--------...))))(((......)))... ( -32.06)
>DroSim_CAF1 47249 107 + 1
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUGUCUCC--------CUCUAGCCGAUUCGUUUCGUUU
.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).)((((.....--------...))))(((......)))... ( -32.06)
>DroEre_CAF1 57060 115 + 1
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCCGUCUCUCUCUUUCUCUCUCGCCGAUUCGUCUCGUUU
.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).)........................(((......)))... ( -28.96)
>consensus
UGUCAGCAUGGAGAAAACCUCAAUUUCAAACUGUCAGUUUAUAUGUCAGCUCCAACUGACAGUUCUCCAUGUUGUCGCUGUCUCU________CUCUCGCCGAUUCGUUUCGUUU
.(.(((((((((((...............((((((((((.....(....)...))))))))))))))))))))).)....................................... (-28.14 = -28.14 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,529,852 – 14,529,963
Length 111
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 90.23
Mean single sequence MFE -30.16
Consensus MFE -25.70
Energy contribution -26.10
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.85
SVM decision value 2.90
SVM RNA-class probability 0.997635
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14529852 111 - 22407834
AAACGAAACGAAUCGGCGAGAGAG----AGAGAGACAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
............((((((.(.(((----(((.........((..((....((((((((((((..............)))))))))))).....))..))))))))).)))))).. ( -29.24)
>DroPse_CAF1 67294 102 - 1
AAAC-----GAAACGAAGAAA--------AAGAGACAGCGCCAACAUGGAGAACUGUCAGUUGAAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
....-----............--------..........(.((.((((((((((((((((((..............))))))))))))((((.......)))))))))).)).). ( -25.54)
>DroSec_CAF1 61910 107 - 1
AAACGAAACGAAUCGGCUAGAG--------GGAGACAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
............(((((.....--------(((((.(((..(((......((((((((((((..............))))))))))))....)))..))).)))))..))))).. ( -32.44)
>DroSim_CAF1 47249 107 - 1
AAACGAAACGAAUCGGCUAGAG--------GGAGACAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
............(((((.....--------(((((.(((..(((......((((((((((((..............))))))))))))....)))..))).)))))..))))).. ( -32.44)
>DroEre_CAF1 57060 115 - 1
AAACGAGACGAAUCGGCGAGAGAGAAAGAGAGAGACGGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
............((((((.(.(((((((........(....)..((....((((((((((((..............)))))))))))).....))...)))))))).)))))).. ( -31.14)
>consensus
AAACGAAACGAAUCGGCGAGAG________AGAGACAGCGACAACAUGGAGAACUGUCAGUUGGAGCUGACAUAUAAACUGACAGUUUGAAAUUGAGGUUUUCUCCAUGCUGACA
...(((......)))..........................((.((((((((((((((((((..............))))))))))))((((.......)))))))))).))... (-25.70 = -26.10 +   0.40)

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 11:36:03 2006