Locus 7043

Sequence ID X_DroMel_CAF1
Location 17,625,730 – 17,625,851
Length 121
Max. P 0.981527
window11509 window11510 window11511

overview

Window 9

Location 17,625,730 – 17,625,821
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 88.81
Mean single sequence MFE -21.85
Consensus MFE -18.58
Energy contribution -19.07
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.85
SVM decision value 1.89
SVM RNA-class probability 0.981527
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17625730 91 + 22224390
GUUGUUGCUGCCGCCUGUUGUUGAUUAAAAAUUGAUCAAAAAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUUUAAAUGCGUGUGUUG
...............((((.(((((((.....)))))))..))))....((((((((...(((((....)))))........)))))))). ( -19.70)
>DroSec_CAF1 21700 87 + 1
---GUUGCUGCCGCAUGUUGUUGAUUAAAAAUUGAUCAA-AAACAUAAAACCACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUG
---...((....))(((((.(((((((.....)))))))-.))))).....((((((.(((.((((((....))))))))).))))))... ( -23.00)
>DroEre_CAF1 24122 74 + 1
----------------GUUGUUGAUUAAAAAUUGAUCAA-AAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUG
----------------(((.(((((((.....)))))))-.))).....((((((((.(((.((((((....))))))))).)))))))). ( -22.80)
>DroYak_CAF1 23151 88 + 1
---GUUGCUGCCGCCUGUUGUUGAUUAAAAAUUGAUCAAAAAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUG
---............((((.(((((((.....)))))))..))))....((((((((.(((.((((((....))))))))).)))))))). ( -21.90)
>consensus
___GUUGCUGCCGCCUGUUGUUGAUUAAAAAUUGAUCAA_AAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUG
................(((..((((((.....))))))...))).....((((((((.(((.((((((....))))))))).)))))))). (-18.58 = -19.07 +   0.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,625,746 – 17,625,851
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 97.93
Mean single sequence MFE -30.32
Consensus MFE -28.74
Energy contribution -28.80
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -3.00
Structure conservation index 0.95
SVM decision value 1.53
SVM RNA-class probability 0.961784
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17625746 105 + 22224390
GUUGUUGAUUAAAAAUUGAUCAAAAAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUUUAAAUGCGUGUGUUGCGCGUGUGUGGGUGGCGCUGAAUUGAUUAA
....(((((((.....)))))))....(((....(((((((......((((((((((......))))))))))....)))))))..)))................ ( -29.80)
>DroSec_CAF1 21713 104 + 1
GUUGUUGAUUAAAAAUUGAUCAA-AAACAUAAAACCACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUGCGCGUGUGUGGGUGGCGCUGAAUUGAUUAA
(((.(((((((.....)))))))-.)))......(((((((......((((((((((......))))))))))......)))))))................... ( -31.30)
>DroEre_CAF1 24122 104 + 1
GUUGUUGAUUAAAAAUUGAUCAA-AAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUGCGCGUGUGUGGGUGGCGCUGAAUUGGUUAA
(((.(((((((.....)))))))-.)))......(((((((......((((((((((......))))))))))....)))))))...((((.(......))))). ( -30.40)
>DroYak_CAF1 23164 105 + 1
GUUGUUGAUUAAAAAUUGAUCAAAAAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUGCGCGUGUGUGGGUGGCGCUGAAUUGAUUAA
....(((((((.....)))))))....(((....(((((((......((((((((((......))))))))))....)))))))..)))................ ( -29.80)
>consensus
GUUGUUGAUUAAAAAUUGAUCAA_AAACAUAAAAACACACGAAUUAUGCAUGCGCGUAUGUAAAUGCGUGUGUUGCGCGUGUGUGGGUGGCGCUGAAUUGAUUAA
...............((((((((....(((....(((((((......((((((((((......))))))))))....)))))))..)))........)))))))) (-28.74 = -28.80 +   0.06)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,625,746 – 17,625,851
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 97.93
Mean single sequence MFE -18.67
Consensus MFE -15.73
Energy contribution -16.22
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.84
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17625746 105 - 22224390
UUAAUCAAUUCAGCGCCACCCACACACGCGCAACACACGCAUUUAAAUACGCGCAUGCAUAAUUCGUGUGUUUUUAUGUUUUUUGAUCAAUUUUUAAUCAACAAC
...(((((....((((...........)))).......((((..(((((((((.((.....)).)))))))))..))))...))))).................. ( -20.50)
>DroSec_CAF1 21713 104 - 1
UUAAUCAAUUCAGCGCCACCCACACACGCGCAACACACGCAUUUACAUACGCGCAUGCAUAAUUCGUGUGGUUUUAUGUUU-UUGAUCAAUUUUUAAUCAACAAC
...(((((..((((((...........))))..((((((.(((..(((......)))...))).))))))......))...-))))).................. ( -17.80)
>DroEre_CAF1 24122 104 - 1
UUAACCAAUUCAGCGCCACCCACACACGCGCAACACACGCAUUUACAUACGCGCAUGCAUAAUUCGUGUGUUUUUAUGUUU-UUGAUCAAUUUUUAAUCAACAAC
............((((...........))))((((((((.(((..(((......)))...))).)))))))).....(((.-(((((.........))))).))) ( -17.80)
>DroYak_CAF1 23164 105 - 1
UUAAUCAAUUCAGCGCCACCCACACACGCGCAACACACGCAUUUACAUACGCGCAUGCAUAAUUCGUGUGUUUUUAUGUUUUUUGAUCAAUUUUUAAUCAACAAC
............((((...........))))((((((((.(((..(((......)))...))).))))))))....((((..((((.......))))..)))).. ( -18.60)
>consensus
UUAAUCAAUUCAGCGCCACCCACACACGCGCAACACACGCAUUUACAUACGCGCAUGCAUAAUUCGUGUGUUUUUAUGUUU_UUGAUCAAUUUUUAAUCAACAAC
............((((...........))))((((((((.(((..(((......)))...))).))))))))....((((..((((.......))))..)))).. (-15.73 = -16.22 +   0.50)

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 12:28:52 2006