Locus 3375

Sequence ID 2L_DroMel_CAF1
Location 9,788,922 – 9,789,036
Length 114
Max. P 0.963999
window5343 window5344

overview

Window 3

Location 9,788,922 – 9,789,036
Length 114
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 91.28
Mean single sequence MFE -27.30
Consensus MFE -21.00
Energy contribution -22.33
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.32
Structure conservation index 0.77
SVM decision value 0.12
SVM RNA-class probability 0.591633
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9788922 114 + 22407834
AAAGGGAGGUGGAA-AAAUGAUUUAUCAUGUAGCCACCAAGGAGGGCGAAAUGUUCAAGAUCAGAUGGAAAACUAUGGGCCAAAGGAUGAUUCCUGAGAGCCAAGCAAGAAUCUG
.......(((((..-..((((....))))....))))).....((((.....)))).....(((((......((...((((..((((....))))..).))).)).....))))) ( -27.60)
>DroSec_CAF1 6087 114 + 1
UGAG-GAGGUGAAAAAGAUUAUUGAUCAUGUAGGCACCAAGGAGGGCGAAAUGAUCAAGAUCAGAUGGAAAACUAUGGAUCAAAGGAUCAUUCCUGAGAACCAAGCAAGAAUCUG
....-...........((((.((((((((....((.((.....))))...))))))))))))((((......((.(((.((..((((....))))..)).))))).....)))). ( -27.00)
>DroSim_CAF1 6127 114 + 1
UGAG-GAGGUGAAAAAAAUUAUUGAUCAUAUAGCCACCAAGGAGGGCGAAAUGAUCAAGAUCAGAUGGAAAACUAUGGAUCAAAGGAUCAUUCCUGAGAACCAAGCAAGAAUCUG
....-................((((((((...(((.(....)..)))...))))))))...(((((......((.(((.((..((((....))))..)).))))).....))))) ( -27.30)
>consensus
UGAG_GAGGUGAAAAAAAUUAUUGAUCAUGUAGCCACCAAGGAGGGCGAAAUGAUCAAGAUCAGAUGGAAAACUAUGGAUCAAAGGAUCAUUCCUGAGAACCAAGCAAGAAUCUG
.....................((((((((...(((.(....)..)))...))))))))...(((((......((.(((.((..((((....))))..)).))))).....))))) (-21.00 = -22.33 +   1.33)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 9,788,922 – 9,789,036
Length 114
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 91.28
Mean single sequence MFE -26.30
Consensus MFE -22.59
Energy contribution -23.37
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -3.56
Structure conservation index 0.86
SVM decision value 1.56
SVM RNA-class probability 0.963999
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9788922 114 - 22407834
CAGAUUCUUGCUUGGCUCUCAGGAAUCAUCCUUUGGCCCAUAGUUUUCCAUCUGAUCUUGAACAUUUCGCCCUCCUUGGUGGCUACAUGAUAAAUCAUUU-UUCCACCUCCCUUU
(((((....(((.((((...((((....))))..))))...))).....))))).......................(((((..(.((((....)))).)-..)))))....... ( -24.30)
>DroSec_CAF1 6087 114 - 1
CAGAUUCUUGCUUGGUUCUCAGGAAUGAUCCUUUGAUCCAUAGUUUUCCAUCUGAUCUUGAUCAUUUCGCCCUCCUUGGUGCCUACAUGAUCAAUAAUCUUUUUCACCUC-CUCA
(((((....((((((.((..((((....))))..)).))).))).....)))))...((((((((...((((.....)).))....))))))))................-.... ( -26.50)
>DroSim_CAF1 6127 114 - 1
CAGAUUCUUGCUUGGUUCUCAGGAAUGAUCCUUUGAUCCAUAGUUUUCCAUCUGAUCUUGAUCAUUUCGCCCUCCUUGGUGGCUAUAUGAUCAAUAAUUUUUUUCACCUC-CUCA
(((((....((((((.((..((((....))))..)).))).))).....)))))...((((((((...(((..(....).)))...))))))))................-.... ( -28.10)
>consensus
CAGAUUCUUGCUUGGUUCUCAGGAAUGAUCCUUUGAUCCAUAGUUUUCCAUCUGAUCUUGAUCAUUUCGCCCUCCUUGGUGGCUACAUGAUCAAUAAUUUUUUUCACCUC_CUCA
(((((....((((((.((..((((....))))..)).))).))).....)))))...((((((((.(((((......)))))....))))))))..................... (-22.59 = -23.37 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:57 2006