Locus 6764

Sequence ID X_DroMel_CAF1
Location 16,804,439 – 16,804,574
Length 135
Max. P 0.942673
window11076 window11077 window11078

overview

Window 6

Location 16,804,439 – 16,804,536
Length 97
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 84.98
Mean single sequence MFE -18.50
Consensus MFE -15.05
Energy contribution -16.17
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -2.64
Structure conservation index 0.81
SVM decision value 1.33
SVM RNA-class probability 0.942673
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16804439 97 + 22224390
CUUGGUUUAGUUCUCGCUAAAGCACACCAAUUCCCCCCACAUAUGUACAUAUAUACAUAUGUAUAAAACAUAUGUGU-CCUGAUCCAAUGCGAUCGAU
..((.((((((....)))))).)).............(((((((((((((((....)))))).....))))))))).-..(((((......))))).. ( -21.30)
>DroSim_CAF1 14000 97 + 1
CUUGGUUUAGUUCUCGCUAAAGCACACCAAUUCCCCCCACAUAUGUACAUAUAUACAUAUGUAUAAAACAUAUGUGU-CCUGAUCCAAUGCGAUCGAU
..((.((((((....)))))).)).............(((((((((((((((....)))))).....))))))))).-..(((((......))))).. ( -21.30)
>DroEre_CAF1 13076 81 + 1
----GUUUAGUUCUCGCUAAAGCACACCAAAUCCC-CCGCAUAUGUAAAUA------------UAAAACAUAUGUAUACCUGAUCCAAUGCGAUCGAU
----.((((((....))))))..............-..((((((((.....------------....)))))))).....(((((......))))).. ( -12.90)
>consensus
CUUGGUUUAGUUCUCGCUAAAGCACACCAAUUCCCCCCACAUAUGUACAUAUAUACAUAUGUAUAAAACAUAUGUGU_CCUGAUCCAAUGCGAUCGAU
..((.((((((....)))))).)).............(((((((((...((((((....))))))..)))))))))....(((((......))))).. (-15.05 = -16.17 +   1.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,804,439 – 16,804,536
Length 97
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 84.98
Mean single sequence MFE -24.00
Consensus MFE -19.82
Energy contribution -20.10
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.83
SVM decision value 0.53
SVM RNA-class probability 0.770495
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16804439 97 - 22224390
AUCGAUCGCAUUGGAUCAGG-ACACAUAUGUUUUAUACAUAUGUAUAUAUGUACAUAUGUGGGGGGAAUUGGUGUGCUUUAGCGAGAACUAAACCAAG
...((((......)))).((-.(((((((((..(((((....))))).....))))))))).......(((((.(((....)))...))))).))... ( -26.50)
>DroSim_CAF1 14000 97 - 1
AUCGAUCGCAUUGGAUCAGG-ACACAUAUGUUUUAUACAUAUGUAUAUAUGUACAUAUGUGGGGGGAAUUGGUGUGCUUUAGCGAGAACUAAACCAAG
...((((......)))).((-.(((((((((..(((((....))))).....))))))))).......(((((.(((....)))...))))).))... ( -26.50)
>DroEre_CAF1 13076 81 - 1
AUCGAUCGCAUUGGAUCAGGUAUACAUAUGUUUUA------------UAUUUACAUAUGCGG-GGGAUUUGGUGUGCUUUAGCGAGAACUAAAC----
.(((..(((((..((((.......(((((((....------------.....)))))))...-..))))..)))))......))).........---- ( -19.00)
>consensus
AUCGAUCGCAUUGGAUCAGG_ACACAUAUGUUUUAUACAUAUGUAUAUAUGUACAUAUGUGGGGGGAAUUGGUGUGCUUUAGCGAGAACUAAACCAAG
.(((..(((((..(.((.....(((((((((..((((........))))...)))))))))....)).)..)))))......)))............. (-19.82 = -20.10 +   0.28)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,804,479 – 16,804,574
Length 95
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 84.44
Mean single sequence MFE -20.35
Consensus MFE -12.20
Energy contribution -14.07
Covariance contribution 1.88
Combinations/Pair 1.09
Mean z-score -2.50
Structure conservation index 0.60
SVM decision value 0.62
SVM RNA-class probability 0.801273
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16804479 95 - 22224390
UAAAGACAAGUCCCAGGCUUGCAAAGCCCCCUAUGUAUAUCGAUCGCAUUGGAUCAGG-ACACAUAUGUUUUAUACAUAUGUAUAUAUGUACAUAU
....(.(((((.....)))))).........(((((((((.((((......))))...-..((((((((.....))))))))....))))))))). ( -24.00)
>DroSim_CAF1 14040 95 - 1
UAAAGACAAGUCCCAGGCUUGCAAAGCCCCCUAUGUAUAUCGAUCGCAUUGGAUCAGG-ACACAUAUGUUUUAUACAUAUGUAUAUAUGUACAUAU
....(.(((((.....)))))).........(((((((((.((((......))))...-..((((((((.....))))))))....))))))))). ( -24.00)
>DroEre_CAF1 13111 80 - 1
UAAAGACAAGUCCCAGGCUUGCAAAACCCCCUA----UAUCGAUCGCAUUGGAUCAGGUAUACAUAUGUUUUA------------UAUUUACAUAU
....(.(((((.....)))))).........((----((((((((......)))).)))))).((((((....------------.....)))))) ( -14.60)
>DroYak_CAF1 12740 80 - 1
UAAAGACAAGUCCCAGGCUUGCAAAGCCCCCUA----UACCGAUCGCAUUGGAUCAGGUAAACAUAUGUCUUA------------UAUAUACAUAU
..((((((.......((((.....)))).....----((((((((......)))).))))......)))))).------------........... ( -18.80)
>consensus
UAAAGACAAGUCCCAGGCUUGCAAAGCCCCCUA____UAUCGAUCGCAUUGGAUCAGG_ACACAUAUGUUUUA____________UAUGUACAUAU
..((((((.......((((.....))))...(((((.((((((((......)))).)))).)))))))))))........................ (-12.20 = -14.07 +   1.88)

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 12:22:23 2006