Locus 8845

Sequence ID	3R_DroMel_CAF1
Location	23,721,553 – 23,721,681
Length	128
Max. P	0.944163

overview

Window 2

Location	23,721,553 – 23,721,645
Length	92
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	78.19
Mean single sequence MFE	-29.15
Consensus MFE	-16.65
Energy contribution	-16.65
Covariance contribution	0.00
Combinations/Pair	1.35
Mean z-score	-1.78
Structure conservation index	0.57
SVM decision value	0.37
SVM RNA-class probability	0.710635
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23721553 92 + 27905053
------AGCCACACGCACACUGGCACAUGAUUCACAUGGGUAGUCAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUG
------.((((.........)))).(((.(((((....(((((.....(((((.....))))).)))))....((((((....))))))))))).))) ( -32.30)
>DroPse_CAF1 184574 92 + 1
GGGACUGCUAACCCAUACUCUGGCACA-GAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUC-----CG
((((((....((((((..((((...))-)).....))))))))))..........(((((.(((((((......))))))))))))....)-----). ( -25.80)
>DroSec_CAF1 169159 92 + 1
------AGCCACACGCACACUGGCACAUGAUCCACAUGGAUAGUCAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUG
------.((((.........)))).(((.(((((..(((.(((.....(((((.....))))).))))))...((((((....))))))))))).))) ( -32.40)
>DroEre_CAF1 178516 92 + 1
------GAACACACGCACACUGGCACAUGAUCCACAUGGGUAGCUAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUG
------........((......)).(((.(((((....(((((.....(((((.....))))).)))))....((((((....))))))))))).))) ( -31.40)
>DroAna_CAF1 175425 80 + 1
----------CCACCCACAC-------UGAUCCACAUGGGUAGUCAUUGUAAGUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUGG-UGGUG
----------(((((.(((.-------((((((.....))..)))).))).((..(((((.(((((((......))))))))))))..))))-))).. ( -26.70)
>DroPer_CAF1 180824 92 + 1
GGAACUGCUAACCCAUACUCUGGCAGA-GAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUC-----CG
(((.((((((..........)))))).-..........((((((((........))))..((((((((......))))))))...))))))-----). ( -26.30)
>consensus
______GCCCACACGCACACUGGCACAUGAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUACGCUGCCAAAUGGCGGCAUGUGCCGCCUGG_UGGUG
................(((.((((.....((((....)))).)))).))).......................((((((....))))))......... (-16.65 = -16.65 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	23,721,575 – 23,721,681
Length	106
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	79.90
Mean single sequence MFE	-33.32
Consensus MFE	-21.11
Energy contribution	-20.42
Covariance contribution	-0.69
Combinations/Pair	1.29
Mean z-score	-2.62
Structure conservation index	0.63
SVM decision value	1.34
SVM RNA-class probability	0.944163
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23721575 106 + 27905053
GAUUCACAUGGGUAGUCAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUGCAC--ACAAUGGCAGAAACUGAAUCGGAAU-ACUCGAAU
........((((((.((...(((((.....)))))(((((((...((((((....))))))......((....--))..)))))))..........)).)-)))))... ( -33.30)
>DroPse_CAF1 184601 90 + 1
GAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUC-----CGCAC--ACAAUGGCAA----UCCAUUGGAAA-G-------
..((((.((((((.((((((((...........(((((((......)))))))((((......-----.))))--)))))))).)----)))))))))..-.------- ( -34.90)
>DroSim_CAF1 169004 106 + 1
GAUCCACAUGGAUAGUCAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUGCAC--ACAAUGGCAGAAACUGAAUCGGAAU-ACUCGAAU
.((((....))))..((...(((.((((((.....(((((((...((((((....))))))......((....--))..)))))))......)))))).)-))..)).. ( -33.00)
>DroEre_CAF1 178538 106 + 1
GAUCCACAUGGGUAGCUAUUGUAAUUUGAUAUUACUCUGCCAAAUGGCGGCAUGUGCCGCCUGGAUGGUGCAC--ACAAUGGCAGAAACUGAAUCGAAAU-ACUCGAAU
.((((....)))).......(((.((((((.....(((((((...((((((....))))))......((....--))..)))))))......)))))).)-))...... ( -32.70)
>DroAna_CAF1 175436 108 + 1
GAUCCACAUGGGUAGUCAUUGUAAGUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUGG-UGGUGCACACACAACGCCACAAUCGGAAUCAGAACCGAGCGAAU
.((((....))))..((.((((..((((.....(((((((......)))))))((((((((...-.)))).)))).))))...))))((((........))))..)).. ( -31.10)
>DroPer_CAF1 180851 90 + 1
GAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUAUGCUGCGAAAUGGCGGCAUGUGUUGCCUC-----CGCAC--ACAAUGGCAA----UCCAUUGGAAA-G-------
..((((.((((((.((((((((...........(((((((......)))))))((((......-----.))))--)))))))).)----)))))))))..-.------- ( -34.90)
>consensus
GAUCCACAUGGGUAGUCAUUGUAAUUUGAUAUUACGCUGCCAAAUGGCGGCAUGUGCCGCCUGG_UGGUGCAC__ACAAUGGCAGAAACUGAAUCGGAAU_ACUCGAAU
.((((....)))).((((((((...............(((.....((((((....))))))........)))...)))))))).......................... (-21.11 = -20.42 +  -0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:07 2006