Locus 6526

Sequence ID X_DroMel_CAF1
Location 16,349,278 – 16,349,405
Length 127
Max. P 0.999648
window10654 window10655 window10656

overview

Window 4

Location 16,349,278 – 16,349,369
Length 91
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 75.84
Mean single sequence MFE -16.62
Consensus MFE -9.79
Energy contribution -9.35
Covariance contribution -0.44
Combinations/Pair 1.19
Mean z-score -3.21
Structure conservation index 0.59
SVM decision value 3.83
SVM RNA-class probability 0.999648
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16349278 91 + 22224390
CAUAUAUAUAUAUAAAACAUAUACUAUGCAUAU--AGCUAUGGCAUAGUUUAGCUAUACCAUAUAGCUGCGACCCACUAUAUGUACACGAACA
......((((((((........((((((((((.--...))).))))))).((((((((...))))))))........))))))))........ ( -18.30)
>DroSec_CAF1 16720 85 + 1
CAUAU------AUAAAACAUAUACUAUGCAUAU--AGCUAUGGCAUAGUUUAGCUAUACUAUAUAGCUGCGACCCACUAUAUGUACACGAACA
.....------.....((((((((((((((((.--...))).))))))..((((((((...))))))))........)))))))......... ( -17.90)
>DroEre_CAF1 10969 72 + 1
CAUAU------AUAAAACAUAUACUAUGCAUAUAC---------------UAGCUAUGCCAUGUAGCUGCGACCCAUUAUAUGUACACGAACA
.....------.....(((((((..(((.......---------------(((((((.....))))))).....))))))))))......... ( -11.00)
>DroYak_CAF1 12136 80 + 1
CAUAU------AUAUAGUAUAUAUAAAACAUAUAUAGCUAUAGC----UAUAGCUAUAAUAUAUAGCUGCGACCCACUAUAUGUACGCGA---
..(((------(((((((..............((((((....))----))))((((((...))))))........)))))))))).....--- ( -19.30)
>consensus
CAUAU______AUAAAACAUAUACUAUGCAUAU__AGCUAUGGC____UUUAGCUAUACCAUAUAGCUGCGACCCACUAUAUGUACACGAACA
................(((((((.............((....))......(((((((.....)))))))........)))))))......... ( -9.79 =  -9.35 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,349,278 – 16,349,369
Length 91
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 75.84
Mean single sequence MFE -19.55
Consensus MFE -9.80
Energy contribution -9.30
Covariance contribution -0.50
Combinations/Pair 1.17
Mean z-score -2.25
Structure conservation index 0.50
SVM decision value 0.59
SVM RNA-class probability 0.791510
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16349278 91 - 22224390
UGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUGGUAUAGCUAAACUAUGCCAUAGCU--AUAUGCAUAGUAUAUGUUUUAUAUAUAUAUAUG
......(((.((((((((.(((....))).((((((((((.....)))))))))))))--))))).)))((((((((.....))))))))... ( -25.20)
>DroSec_CAF1 16720 85 - 1
UGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUAGUAUAGCUAAACUAUGCCAUAGCU--AUAUGCAUAGUAUAUGUUUUAU------AUAUG
....((((((((((((((........))))))).(((((((((..........)))))--)))).....)))))))......------..... ( -20.10)
>DroEre_CAF1 10969 72 - 1
UGUUCGUGUACAUAUAAUGGGUCGCAGCUACAUGGCAUAGCUA---------------GUAUAUGCAUAGUAUAUGUUUUAU------AUAUG
....((((((((((((....((.(((..(((.((((...))))---------------)))..)))))..))))))).....------))))) ( -12.80)
>DroYak_CAF1 12136 80 - 1
---UCGCGUACAUAUAGUGGGUCGCAGCUAUAUAUUAUAGCUAUA----GCUAUAGCUAUAUAUGUUUUAUAUAUACUAUAU------AUAUG
---...((((.((((((((......((((((((((((((((....----))))))).)))))).))).......))))))))------.)))) ( -20.12)
>consensus
UGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUAGUAUAGCUAAA____GCCAUAGCU__AUAUGCAUAGUAUAUGUUUUAU______AUAUG
.....(((..(((...)))...)))((((((.....))))))..................((((((...)))))).................. ( -9.80 =  -9.30 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,349,296 – 16,349,405
Length 109
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 75.38
Mean single sequence MFE -26.23
Consensus MFE -14.16
Energy contribution -13.85
Covariance contribution -0.31
Combinations/Pair 1.17
Mean z-score -2.05
Structure conservation index 0.54
SVM decision value 0.58
SVM RNA-class probability 0.790017
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16349296 109 - 22224390
CUUCUG----CCACUGGCAUAUACUCGUACUCGUUCUUCAUGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUGGUAUAGCUAAACUAUGCCAUAGCU--AUAUGCAUAGUAUAU
...(((----(.(((.((.((((...((((.((..(.....)..)).)))).)))))).))).))))...((((((((((.....))))))))))(((--((....))))).... ( -32.20)
>DroSec_CAF1 16732 113 - 1
CUUCUGCCUGCCAGUGGCAUAUACUCGUACUCGUUCCCCAUGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUAGUAUAGCUAAACUAUGCCAUAGCU--AUAUGCAUAGUAUAU
....((((.......))))((((((.((((.((..(.....)..)).))))(((((((........))))))))))))).....(((((((.(((...--.)))))))))).... ( -29.00)
>DroEre_CAF1 10981 89 - 1
CCUCUG----C-UCUGGCAUAUACUCG------UUCUCCCUGUUCGUGUACAUAUAAUGGGUCGCAGCUACAUGGCAUAGCUA---------------GUAUAUGCAUAGUAUAU
....((----(-(...(((((((((.(------((..((.(((..(((..(((...)))...)))....))).))...))).)---------------))))))))..))))... ( -21.40)
>DroYak_CAF1 12148 98 - 1
CUUCUG----CCUGUGGCAUAUACUCG------UUCUCUA---UCGCGUACAUAUAGUGGGUCGCAGCUAUAUAUUAUAGCUAUA----GCUAUAGCUAUAUAUGUUUUAUAUAU
.....(----(.((((((...((((((------(......---..))).......)))).))))))))((((((..(((..((((----((....))))))..)))..)))))). ( -22.31)
>consensus
CUUCUG____CCACUGGCAUAUACUCG______UUCUCCAUGUUCGUGUACAUAUAGUGGGUCGCAGCUAUAUAGUAUAGCUAAA____GCCAUAGCU__AUAUGCAUAGUAUAU
................((((((.......................(((..(((...)))...)))((((((.....))))))..................))))))......... (-14.16 = -13.85 +  -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 12:16:00 2006