Locus 6302

Sequence ID 2L_DroMel_CAF1
Location 17,562,290 – 17,562,425
Length 135
Max. P 0.997464
window10065 window10066 window10067

overview

Window 5

Location 17,562,290 – 17,562,396
Length 106
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 88.04
Mean single sequence MFE -35.80
Consensus MFE -32.82
Energy contribution -32.35
Covariance contribution -0.47
Combinations/Pair 1.12
Mean z-score -2.88
Structure conservation index 0.92
SVM decision value 2.86
SVM RNA-class probability 0.997464
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17562290 106 + 22407834
----GUCCUUCGUCAUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCCACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGCAGUUCUACAA
----((((..........)).))((((..(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).))).))))............ ( -31.30)
>DroVir_CAF1 93224 110 + 1
UCGUGAGUGCCGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUCUAUGAAUUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAA
..((((((((((.....)))).(((((..(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).))).)))))..)))).)).. ( -40.70)
>DroWil_CAF1 135788 100 + 1
----------AGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGCAGGCCUAUAUGUUAUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAAUUCUACAA
----------..(((((((..........(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).)))))))))).......... ( -34.10)
>DroMoj_CAF1 90595 110 + 1
CCGUGAGUGACGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUCUAUGAAUUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAA
..((((((....(((((((..........(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).)))))))))).)))).)).. ( -39.50)
>DroAna_CAF1 85134 106 + 1
----CUUUUGUGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAA
----...(((((..((((.((.((((((.....((((((.((((((..((((.((((.........))))))))..)))))).)))))))))))).)).))))..))))) ( -35.80)
>DroPer_CAF1 84037 102 + 1
--------CUCGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGGACGAAACUCUACUA
--------.(((((((.....))......(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).)))..))))).......... ( -33.40)
>consensus
____G__UGUCGUCGUUUGGUACGUUUUUCUCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAA
..............((..(((.(((((..(((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).))).)))))..)))..)).. (-32.82 = -32.35 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,562,290 – 17,562,396
Length 106
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 88.04
Mean single sequence MFE -33.27
Consensus MFE -27.52
Energy contribution -27.97
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.35
Structure conservation index 0.83
SVM decision value 0.76
SVM RNA-class probability 0.843951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17562290 106 - 22407834
UUGUAGAACUGCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUGGAAAUACAUAUAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAAUGACGAAGGAC----
((((.....((((((..(((((((.((((((.(...((((((((((....)).)))).))))...).)))))).)))))))...)))))).......)))).....---- ( -32.40)
>DroVir_CAF1 93224 110 - 1
UUGUAGAGUUUCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCAAAAUUCAUAGAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAACGACGGCACUCACGA
((((.((((.((((...(((((((.((((((.(...(((((((((.......)))).)))))...).)))))).))))))).....(((.....))))))).)))))))) ( -36.10)
>DroWil_CAF1 135788 100 - 1
UUGUAGAAUUUCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCAAAUAACAUAUAGGCCUGCAGUGGAUACCAGGAGAAAAACGUACCAAACGACU----------
((((.......((((..(((((((.((((((.(((.((((((((.........)))).)))).))).)))))).)))))))...))))......))))..---------- ( -34.62)
>DroMoj_CAF1 90595 110 - 1
UUGUAGAGUUUCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCAAAAUUCAUAGAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAACGACGUCACUCACGG
.(((.((((..(((...(((((((.((((((.(...(((((((((.......)))).)))))...).)))))).))))))).....(((.....))))))..))))))). ( -34.90)
>DroAna_CAF1 85134 106 - 1
UUGUAGAGUUUCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCGAAAUACAUAUAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAACGACACAAAAG----
((((...((((((((..(((((((.((((((.(...((((((((.........)))).))))...).)))))).)))))))...))))....))))...))))...---- ( -31.10)
>DroPer_CAF1 84037 102 - 1
UAGUAGAGUUUCGUCCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCGAAAUACAUAUAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAACGACGAG--------
..........(((((..(((((((.((((((.(...((((((((.........)))).))))...).)))))).)))))))......((.....))))))).-------- ( -30.50)
>consensus
UUGUAGAGUUUCGUUCGCUCUUGGCAUUCACCGCGUGCCUUAUGGUCAAAAUACAUAUAGGCCUACAGUGGAUACCAGGAGAAAAACGUACCAAACGACGAAA__C____
..((...((((((((..(((((((.((((((.(...((((((((.........)))).))))...).)))))).)))))))...))))....)))).))........... (-27.52 = -27.97 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,562,316 – 17,562,425
Length 109
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 80.14
Mean single sequence MFE -26.55
Consensus MFE -25.54
Energy contribution -25.18
Covariance contribution -0.36
Combinations/Pair 1.08
Mean z-score -2.32
Structure conservation index 0.96
SVM decision value 1.73
SVM RNA-class probability 0.974434
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17562316 109 + 22407834
UCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCCACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGCAGUUCUACAAAUU--ACUCAUACCCAAUAAUAG--ACAGAAAG
...((((((.((((((..((((.((((.........))))))))..)))))).))))))(((((.......))))).......--..................--........ ( -28.00)
>DroVir_CAF1 93254 112 + 1
UCCUGGUAUCCACUGUAGGCCUCUAUGAAUUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAAUUAACAAAAAUAACAAACGACCUG-ACAAAAAG
...((((((.((((((..((((.((((.........))))))))..)))))).))))))((((.........))))............................-........ ( -25.90)
>DroPse_CAF1 83832 106 + 1
UCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGGACGAAACUCUACUA-UC--AAAAACAGCAAACGAC----GCCAAAAG
((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).))(((..((...........-..--............)).)----))...... ( -26.61)
>DroWil_CAF1 135808 105 + 1
UCCUGGUAUCCACUGCAGGCCUAUAUGUUAUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAAUUCUACAAAA---ACCAAAACGCAAAAAUAU--AAAAA---
((.((((((.((((((..((((.((((.........))))))))..)))))).)))))).))(((.................---.......)))........--.....--- ( -27.46)
>DroMoj_CAF1 90625 107 + 1
UCCUGGUAUCCACUGUAGGCCUCUAUGAAUUUUGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAA------AAUCCAACAAGCGACCUCUAAAAAAAG
...((((((.((((((..((((.((((.........))))))))..)))))).))))))((((.........))))....------........................... ( -25.90)
>DroAna_CAF1 85160 102 + 1
UCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAAACU--ACA-------AAUGACAU--AUUAAAAA
...((((((.((((((..((((.((((.........))))))))..)))))).))))))((((.........)))).......--...-------........--........ ( -25.40)
>consensus
UCCUGGUAUCCACUGUAGGCCUAUAUGUAUUUCGACCAUAAGGCACGCGGUGAAUGCCAAGAGCGAACGAAACUCUACAAAU___AAAAACAACAAACGACAU__ACAAAAAG
...((((((.((((((..((((.((((.........))))))))..)))))).))))))((((.........))))..................................... (-25.54 = -25.18 +  -0.36)

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 12:07:41 2006