Locus 8552

Sequence ID 3L_DroMel_CAF1
Location 22,331,321 – 22,331,453
Length 132
Max. P 0.993639
window14017 window14018 window14019 window14020

overview

Window 7

Location 22,331,321 – 22,331,423
Length 102
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 94.98
Mean single sequence MFE -21.94
Consensus MFE -21.58
Energy contribution -21.58
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.65
Structure conservation index 0.98
SVM decision value 2.41
SVM RNA-class probability 0.993639
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22331321 102 + 23771897
CAGUACGCACGAUUUGUAGUCGUUCGUGCUGCGCCAAAGUUUCCUUCUCU--UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAA
(((((((.(((((.....))))).))))))).((((((............--....................)))))).........((((((.....)))))) ( -21.65)
>DroSec_CAF1 10668 101 + 1
CAGUACGCACGAUUUGUAGUCGUUCGUGCUGCGCCAAAGUUU-CUUCUCU--UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAA
(((((((.(((((.....))))).))))))).((((((....-.......--....................)))))).........((((((.....)))))) ( -21.68)
>DroEre_CAF1 8599 101 + 1
CAGUACGCACGAUUUGUAGUCGUUCGUGCUGCGCCAAAGUUUCCUUCUCU---UUUUUAUUCCACCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAA
(((((((.(((((.....))))).))))))).((((((............---...................)))))).........((((((.....)))))) ( -21.68)
>DroYak_CAF1 8014 104 + 1
CAGUACGCACGAUUUGUAGUCGUUCGUGCUGCGCCAAAGUUUCCUUAUAUUUUUUUUUAUAUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAA
(((((((.(((((.....))))).))))))).((((((.......((((........))))...........)))))).........((((((.....)))))) ( -22.77)
>consensus
CAGUACGCACGAUUUGUAGUCGUUCGUGCUGCGCCAAAGUUUCCUUCUCU__UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAA
(((((((.(((((.....))))).))))))).((((((..................................)))))).........((((((.....)))))) (-21.58 = -21.58 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,331,321 – 22,331,423
Length 102
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 94.98
Mean single sequence MFE -18.66
Consensus MFE -18.04
Energy contribution -18.10
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.38
Structure conservation index 0.97
SVM decision value 0.10
SVM RNA-class probability 0.584094
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22331321 102 - 23771897
UUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAGA--AGAGAAGGAAACUUUGGCGCAGCACGAACGACUACAAAUCGUGCGUACUG
.......(((................(((.........)))...........--...((((....))))..))).((((((...........))))))...... ( -20.60)
>DroSec_CAF1 10668 101 - 1
UUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAGA--AGAGAAG-AAACUUUGGCGCAGCACGAACGACUACAAAUCGUGCGUACUG
.....((((.................)))).........(((.....((((.--.......-...))))..))).((((((...........))))))...... ( -16.33)
>DroEre_CAF1 8599 101 - 1
UUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGUGGAAUAAAAA---AGAGAAGGAAACUUUGGCGCAGCACGAACGACUACAAAUCGUGCGUACUG
.....((((.................))))........((((.........---.(.((((....))))..)...((((((...........)))))).)))). ( -19.13)
>DroYak_CAF1 8014 104 - 1
UUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAUAUAAAAAAAAAUAUAAGGAAACUUUGGCGCAGCACGAACGACUACAAAUCGUGCGUACUG
.......(((................(((.........))).................(((....)))...))).((((((...........))))))...... ( -18.60)
>consensus
UUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAAA__AGAGAAGGAAACUUUGGCGCAGCACGAACGACUACAAAUCGUGCGUACUG
.......(((................(((.........)))................((((....))))..))).((((((...........))))))...... (-18.04 = -18.10 +   0.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,331,361 – 22,331,453
Length 92
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 93.73
Mean single sequence MFE -11.15
Consensus MFE -10.30
Energy contribution -11.05
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.92
SVM decision value 1.61
SVM RNA-class probability 0.967679
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22331361 92 + 23771897
UUCCUUCUCU--UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAAUAUAAAUAACAUUUUCAGCGUUGAAAAAUU
..........--...........(((.........)))......((((((((..(((..(((((............)))))))).)))))))). ( -13.30)
>DroSec_CAF1 10708 91 + 1
UU-CUUCUCU--UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAAUAUAAAUAACAUUUUCAGCGUUGAAAAAUU
..-.......--...........(((.........)))......((((((((..(((..(((((............)))))))).)))))))). ( -13.30)
>DroEre_CAF1 8639 91 + 1
UUCCUUCUCU---UUUUUAUUCCACCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAAUAUAAAUAACAUUUUCAGCGUUGAACAAUU
..........---......................................(((((.(.(((((............)))))..).))))).... (  -7.10)
>DroYak_CAF1 8054 94 + 1
UUCCUUAUAUUUUUUUUUAUAUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAAUAUAAAUAACAUUUUCAGCGUUGAACAAUU
.......................(((.........))).............(((((.(.(((((............)))))..).))))).... ( -10.90)
>consensus
UUCCUUCUCU__UCUUUUAUUUCGCCUUUUUAUUUGGCUCUUCUAUUUUUCGUUCGCCAUGAAAUAUAAAUAACAUUUUCAGCGUUGAAAAAUU
.......................(((.........)))......((((((((..(((..(((((............)))))))).)))))))). (-10.30 = -11.05 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,331,361 – 22,331,453
Length 92
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 93.73
Mean single sequence MFE -13.00
Consensus MFE -11.91
Energy contribution -12.22
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.92
SVM decision value 1.28
SVM RNA-class probability 0.939988
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22331361 92 - 23771897
AAUUUUUCAACGCUGAAAAUGUUAUUUAUAUUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAGA--AGAGAAGGAA
.(((((((..((((..((((((.....))))))...))))...)))))))......(((.........)))...........--.......... ( -13.70)
>DroSec_CAF1 10708 91 - 1
AAUUUUUCAACGCUGAAAAUGUUAUUUAUAUUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAGA--AGAGAAG-AA
.(((((((..((((..((((((.....))))))...))))...)))))))......(((.........)))...........--.......-.. ( -13.70)
>DroEre_CAF1 8639 91 - 1
AAUUGUUCAACGCUGAAAAUGUUAUUUAUAUUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGUGGAAUAAAAA---AGAGAAGGAA
..((((((..((((..((((((.....))))))...))))................(((.........))).))))))...---.......... ( -12.00)
>DroYak_CAF1 8054 94 - 1
AAUUGUUCAACGCUGAAAAUGUUAUUUAUAUUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAUAUAAAAAAAAAUAUAAGGAA
..((((((..((.(((((.(((.....))))))))))..))))))...........(((.........)))....................... ( -12.60)
>consensus
AAUUGUUCAACGCUGAAAAUGUUAUUUAUAUUUCAUGGCGAACGAAAAAUAGAAGAGCCAAAUAAAAAGGCGAAAUAAAAAA__AGAGAAGGAA
.(((((((..((((..((((((.....))))))...))))...)))))))......(((.........)))....................... (-11.91 = -12.22 +   0.31)

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 13:18:54 2006