Locus 1008

Sequence ID 2R_DroMel_CAF1
Location 4,210,757 – 4,210,916
Length 159
Max. P 0.749457
window1782 window1783

overview

Window 2

Location 4,210,757 – 4,210,876
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.40
Mean single sequence MFE -27.71
Consensus MFE -21.25
Energy contribution -21.77
Covariance contribution 0.52
Combinations/Pair 1.10
Mean z-score -1.64
Structure conservation index 0.77
SVM decision value 0.21
SVM RNA-class probability 0.633896
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4210757 119 - 20766785
GCUUGAAGGACCUUCUGCAAUCA-AAUCGGCGGCUUAAGCUGAACAUAAAUCUUGCAUUGAAUGGCGGGAGAACUUUCACCUGCUCCGCCAUAAAUUUCCAUUGCAAUUCCACCACUCAA
.......(((.....((((((.(-(((.(((((....((.((((......((((((........)))))).....)))).))...)))))....))))..))))))..)))......... ( -25.70)
>DroSec_CAF1 22497 119 - 1
GCUUGAAGGACCUCCUGCAAUCA-AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUCGAAUGGCGGGAGAACUUUCACCUGCUCCGCCAUAAAUUUCCAUUCCAAUUCCACCACUCAA
((.((((((..(((((((..((.-.....(((((....))))).((.......))....))...)))))))..))))))...)).................................... ( -27.70)
>DroSim_CAF1 53050 119 - 1
GCUUGAAGGCCCUCCUGCAAUCA-AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUCGAAUGGCGGGAGAACUUUCACCUGCUCCGCCAUAAAUUUCCAUUCCAAUUCCACCACUCAA
((.((((((..(((((((..((.-.....(((((....))))).((.......))....))...)))))))..))))))...)).................................... ( -28.00)
>DroEre_CAF1 24403 118 - 1
GCUUAGACGACCUUCUGCACUCAGAAUCUGCGGCUUUAGCCACACAUAAAUCUUGCAUUGAAUGGCGGGA-AACUUUCACCUGCUCCGCCAUUAGUUUCCAUUCCA-UUCUACCACUCAA
((..(((.....(((((....)))))..((.(((....))).))......))).))...((((((..(((-((((..................)))))))...)))-))).......... ( -26.57)
>DroYak_CAF1 25085 120 - 1
GCUUGGAGAACCUUCUGCAAUCAGAAUCUGCGGCUUAAGCUGCACAUAAAUCUUGCACUGAAUGGCGGGAGAACUUUCACCUGCUCCGCCAUUAAUUUUCAUUCCAAUUCAACCACUCAA
..((((((.......(((((........((((((....))))))........)))))...(((((((((((.........)).).))))))))........))))))............. ( -30.59)
>consensus
GCUUGAAGGACCUUCUGCAAUCA_AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUUGAAUGGCGGGAGAACUUUCACCUGCUCCGCCAUAAAUUUCCAUUCCAAUUCCACCACUCAA
.......(((.....(((((.........(((((....))))).........)))))....((((((((...............)))))))).....))).................... (-21.25 = -21.77 +   0.52) 

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 4,210,797 – 4,210,916
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.37
Mean single sequence MFE -32.99
Consensus MFE -24.63
Energy contribution -25.63
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -1.86
Structure conservation index 0.75
SVM decision value 0.47
SVM RNA-class probability 0.749457
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4210797 119 - 20766785
GUAAGUGAAUUCAUUUUGCCCCCAAGCCGAAAACUAAGCGGCUUGAAGGACCUUCUGCAAUCA-AAUCGGCGGCUUAAGCUGAACAUAAAUCUUGCAUUGAAUGGCGGGAGAACUUUCAC
....(((((.........((..(((((((.........)))))))..))..(((((((..(((-(.(((((.......))))).((.......))..))))...)))))))....))))) ( -33.30)
>DroSec_CAF1 22537 119 - 1
GUAAGUGAAUUCAUUUUGCCCCCAAGCCGAAAACUAAGCGGCUUGAAGGACCUCCUGCAAUCA-AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUCGAAUGGCGGGAGAACUUUCAC
....(((((.........((..(((((((.........)))))))..))..(((((((..((.-.....(((((....))))).((.......))....))...)))))))....))))) ( -36.50)
>DroSim_CAF1 53090 119 - 1
GUAAGUGAAUUCAUUUUGCCCCCAAGCCGAAAACUAAGCGGCUUGAAGGCCCUCCUGCAAUCA-AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUCGAAUGGCGGGAGAACUUUCAC
....(((((........(((..(((((((.........)))))))..))).(((((((..((.-.....(((((....))))).((.......))....))...)))))))....))))) ( -39.40)
>DroEre_CAF1 24442 110 - 1
---------UUCAUUUCGCCCUCAAGCCGAAACCUAAGCCGCUUAGACGACCUUCUGCACUCAGAAUCUGCGGCUUUAGCCACACAUAAAUCUUGCAUUGAAUGGCGGGA-AACUUUCAC
---------....(..((((.((((((........(((((((..(((.....(((((....)))))))))))))))..................)).))))..))))..)-......... ( -24.87)
>DroYak_CAF1 25125 111 - 1
---------UUCAUUUCGCCCCCAAGCCGAAACCUAAGCCGCUUGGAGAACCUUCUGCAAUCAGAAUCUGCGGCUUAAGCUGCACAUAAAUCUUGCACUGAAUGGCGGGAGAACUUUCAC
---------(((.(..((((.((((((.(.........).))))))......((((((((........((((((....))))))........)))))..))).))))..))))....... ( -30.89)
>consensus
GUAAGUGAAUUCAUUUUGCCCCCAAGCCGAAAACUAAGCGGCUUGAAGGACCUUCUGCAAUCA_AAUCGGCGGCUUAAGCUGCACAUAAAUCUUGCAUUGAAUGGCGGGAGAACUUUCAC
.........(((.(((((((..(((((((.........)))))))..........(((((.........(((((....))))).........)))))......))))))))))....... (-24.63 = -25.63 +   1.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:57 2006