Locus 2247

Sequence ID 2R_DroMel_CAF1
Location 8,286,702 – 8,286,876
Length 174
Max. P 0.690038
window3696 window3697 window3698

overview

Window 6

Location 8,286,702 – 8,286,822
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.17
Mean single sequence MFE -25.96
Consensus MFE -20.62
Energy contribution -20.66
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.42
Structure conservation index 0.79
SVM decision value 0.33
SVM RNA-class probability 0.690038
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8286702 120 + 20766785
UAUUUCAUUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCCGGCACGCCGUCUGCGCCAUCCAUCGUUCCCAUCCCAUCCCUGCACAUCCCAACCCUUCCCCUAC
..........((((((.(((.(((((((((.((((....))))))))))(((((....)).)))))).))).))).....................)))..................... ( -28.89)
>DroSec_CAF1 9730 97 + 1
UAUUUCAUUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA---------UCCCAACCAUGCCGAUCCC--------------
........(((((..((((.((.((((((......)))))))))))).((((.(.(((....))).)...))))....---------.........)).)))....-------------- ( -26.10)
>DroSim_CAF1 8071 97 + 1
UAUUUCAUUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA---------UCCCAACCAUGCCCAUCCC--------------
..........(((..((((.((.((((((......)))))))))))).((((.(.(((....))).)...))))....---------.........))).......-------------- ( -25.90)
>DroYak_CAF1 8716 96 + 1
UAUUUCACUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGUCAUCCA---------UCCUUCCCAUUCCC-UUCC--------------
.............(((((((...(((((((.((((....)))))))))))...)).(((.....)))...)))))...---------..............-....-------------- ( -27.30)
>DroAna_CAF1 8468 94 + 1
UAUUUCAUUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCUGCUUCACCGCC--CAUAGACCA---------CCCUCCCCUCUCCC-ACUC--------------
..........((..(((.((.(.(((((((.((((....)))))))))))....).)).)))..)).--.........---------..............-....-------------- ( -21.60)
>consensus
UAUUUCAUUCGCAAUGACGCUGACAGGACAAUGCGGUCCUGCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA_________UCCCAACCAUGCCCAUCCC______________
..........((......((...(((((((.((((....)))))))))))...)).((....))))...................................................... (-20.62 = -20.66 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,286,742 – 8,286,851
Length 109
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 79.28
Mean single sequence MFE -18.23
Consensus MFE -16.70
Energy contribution -17.03
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score 0.04
Structure conservation index 0.92
SVM decision value 0.01
SVM RNA-class probability 0.537411
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8286742 109 + 20766785
GCAUGUCCUGGCUGCCGGCACGCCGUCUGCGCCAUCCAUCGUUCCCAUCCCAUCCCUGCACAUCCCAACCCUUCCCCUACAGCUGUCCGCUCCUGGCAUCCUUUGCCUG
(((((...((((.((.(((.....))).))))))..))).))......................................(((.....)))...((((.....)))).. ( -17.60)
>DroSec_CAF1 9770 86 + 1
GCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA---------UCCCAACCAUGCCGAUCCC--------------AGCUUUCCGCUCCUGGCAUCCUUUGCCUG
(((((...((((.(.(((....))).)...))))....---------.......))))).......--------------(((.....)))...((((.....)))).. ( -18.54)
>DroSim_CAF1 8111 86 + 1
GCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA---------UCCCAACCAUGCCCAUCCC--------------AGCUCUCCGCUCCUGGCAUCCUUUGCCUG
(((((...((((.(.(((....))).)...))))....---------.......))))).......--------------(((.....)))...((((.....)))).. ( -18.54)
>consensus
GCAUGUCCUGGCUGCCGGCUCGCCGCCUCCGCCAUCCA_________UCCCAACCAUGCCCAUCCC______________AGCUCUCCGCUCCUGGCAUCCUUUGCCUG
(((((...((((.(.(((....))).)...))))....................))))).....................(((.....)))...((((.....)))).. (-16.70 = -17.03 +   0.33)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,286,782 – 8,286,876
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 78.16
Mean single sequence MFE -26.03
Consensus MFE -17.10
Energy contribution -18.10
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.66
SVM decision value 0.11
SVM RNA-class probability 0.589174
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8286782 94 + 20766785
GUUCCCAUCCCAUCCCUGCACAUCCCAACCCUUCCCCUACAGCUGUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGUCGG
....((...((((((((((((..........(......)..((((...((....((((.....)))).)).)))).))))).).))))))..)) ( -26.50)
>DroSec_CAF1 9808 73 + 1
-------UCCCAACCAUGCCGAUCCC--------------AGCUUUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGUAUGGGCGG
-------..((..((((((((((.((--------------((..........)))).)))....((((((...)))).))..).))))))..)) ( -21.80)
>DroSim_CAF1 8149 73 + 1
-------UCCCAACCAUGCCCAUCCC--------------AGCUCUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGGCGG
-------.........((((((((((--------------(((.((..(((...((((.....)))).....))))).)).)).))))))))). ( -29.80)
>consensus
_______UCCCAACCAUGCCCAUCCC______________AGCUCUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGGCGG
........((((.((((((.............................((.....)).......((((((...)))).)))))))).))))... (-17.10 = -18.10 +   1.00)

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 10:24:48 2006