Locus 6681

Sequence ID	X_DroMel_CAF1
Location	16,689,325 – 16,689,430
Length	105
Max. P	0.898526

overview

Window 8

Location	16,689,325 – 16,689,430
Length	105
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	81.42
Mean single sequence MFE	-32.53
Consensus MFE	-24.66
Energy contribution	-25.75
Covariance contribution	1.09
Combinations/Pair	1.19
Mean z-score	-2.30
Structure conservation index	0.76
SVM decision value	1.00
SVM RNA-class probability	0.898526
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16689325 105 + 22224390
UAUGCGGCGUAUGCGUAAUAUU-UGGGCAUGCAUUCCGCGCAUUGCGCAUUCGCCACUUGGGCCGCAGC---UAGAA-AUAUUAAACCCUCAAU----UA-AGCGGAAAUCUUGU
..((((((((((((.((.....-)).)))))).....((((...)))).....((....))))))))..---.....-........((((....----..-)).))......... ( -28.50)
>DroSec_CAF1 6009 106 + 1
UAUGCGGCGUAUGCGUAAUAUU-UGGGUAUGCAUUCCGCACAUUGCGCAUACGCCACUUGGUCGGCAGC---UAGAAAAGAUUGAACCCUCAAU----UA-AGCGGAAAUCUUGU
..(((((((((((((((((.(.-((((.......)))).).))))))))))))))..(((((.....))---)))....((((((....)))))----).-.))).......... ( -33.80)
>DroSim_CAF1 3174 105 + 1
UAUGCGGCGUAUGCGUAAUAUU-UGGGCAUGCAUUUCGCACAUUGCGCAUACGCCACUUGGGCCGCAGC---UAGAA-AUAUUGAACCCUCAAU----UA-AGCGGAAAUCUUGU
.....((((((((((((((...-...((.........))..))))))))))))))((..((.((((...---((...-.))((((....)))).----..-.))))...))..)) ( -32.50)
>DroEre_CAF1 5542 102 + 1
GACGCGGCGUAUGCGUAAUAUU-CGGGCUUGCAUUCCGCGCAUUGCGCAUACGCCACUUGGGCC---GC---UAGAA-AUAUUGAACCCUCAAU----UA-GGCGGAAAUCUUGU
.....((((((((((((((...-((((.......))))...))))))))))))))((..((.((---((---(....-..(((((....)))))----..-)))))...))..)) ( -38.20)
>DroYak_CAF1 5883 106 + 1
AACGCGGCGUAUGCGUAAUAUUUUGGGCAUGCAUUCCGCGCAUUGCGCAUACGCCACUUGGUCCGCAGC---UAGAA-AUAUUGAACCCUCAAU----UA-AGCGGAAAUCUUGU
.....((((((((((((((....((((.......))))...))))))))))))))......(((((...---((...-.))((((....)))).----..-.)))))........ ( -34.50)
>DroAna_CAF1 10094 103 + 1
CACACGGCGUAUGCGUAAUAUU-CAAG---GCAUUCC-CCUAUUACGUAUACGCCACC------GAAAAAAAAUGAA-ACAAAAAACCUACAAGUAUUUAAGGGGGAAAACUUGU
.....((((((((((((((...-..((---(......-)))))))))))))))))...------.............-...........((((((.(((......))).)))))) ( -27.70)
>consensus
UACGCGGCGUAUGCGUAAUAUU_UGGGCAUGCAUUCCGCGCAUUGCGCAUACGCCACUUGGGCCGCAGC___UAGAA_AUAUUGAACCCUCAAU____UA_AGCGGAAAUCUUGU
..(((((((((((((((((....((((.......))))...)))))))))))))).........................(((((....)))))........))).......... (-24.66 = -25.75 +   1.09)

alignment

secondary structure

dotplot

Window 9

Location	16,689,325 – 16,689,430
Length	105
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	81.42
Mean single sequence MFE	-30.88
Consensus MFE	-21.00
Energy contribution	-21.08
Covariance contribution	0.09
Combinations/Pair	1.17
Mean z-score	-1.72
Structure conservation index	0.68
SVM decision value	0.35
SVM RNA-class probability	0.698477
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16689325 105 - 22224390
ACAAGAUUUCCGCU-UA----AUUGAGGGUUUAAUAU-UUCUA---GCUGCGGCCCAAGUGGCGAAUGCGCAAUGCGCGGAAUGCAUGCCCA-AAUAUUACGCAUACGCCGCAUA
.........((((.-..----...((((........)-)))..---...)))).....((((((.(((((.((((...((.........)).-..)))).))))).))))))... ( -27.10)
>DroSec_CAF1 6009 106 - 1
ACAAGAUUUCCGCU-UA----AUUGAGGGUUCAAUCUUUUCUA---GCUGCCGACCAAGUGGCGUAUGCGCAAUGUGCGGAAUGCAUACCCA-AAUAUUACGCAUACGCCGCAUA
..((((((.((.((-(.----...)))))...)))))).....---............((((((((((((.(((((..((.........)).-.))))).))))))))))))... ( -33.50)
>DroSim_CAF1 3174 105 - 1
ACAAGAUUUCCGCU-UA----AUUGAGGGUUCAAUAU-UUCUA---GCUGCGGCCCAAGUGGCGUAUGCGCAAUGUGCGAAAUGCAUGCCCA-AAUAUUACGCAUACGCCGCAUA
.........((((.-..----...((((........)-)))..---...)))).....((((((((((((.((((((((.......)))...-.))))).))))))))))))... ( -32.00)
>DroEre_CAF1 5542 102 - 1
ACAAGAUUUCCGCC-UA----AUUGAGGGUUCAAUAU-UUCUA---GC---GGCCCAAGUGGCGUAUGCGCAAUGCGCGGAAUGCAAGCCCG-AAUAUUACGCAUACGCCGCGUC
.........((((.-..----((((......))))..-.....---))---)).....((((((((((((.((((..(((.........)))-..)))).))))))))))))... ( -34.80)
>DroYak_CAF1 5883 106 - 1
ACAAGAUUUCCGCU-UA----AUUGAGGGUUCAAUAU-UUCUA---GCUGCGGACCAAGUGGCGUAUGCGCAAUGCGCGGAAUGCAUGCCCAAAAUAUUACGCAUACGCCGCGUU
........(((((.-..----...((((........)-)))..---...)))))....((((((((((((..(((((.....))))).............))))))))))))... ( -33.16)
>DroAna_CAF1 10094 103 - 1
ACAAGUUUUCCCCCUUAAAUACUUGUAGGUUUUUUGU-UUCAUUUUUUUUC------GGUGGCGUAUACGUAAUAGG-GGAAUGC---CUUG-AAUAUUACGCAUACGCCGUGUG
((((((.((........)).))))))...........-.............------...(((((((.(((((((.(-((....)---))..-..))))))).)))))))..... ( -24.70)
>consensus
ACAAGAUUUCCGCU_UA____AUUGAGGGUUCAAUAU_UUCUA___GCUGCGGCCCAAGUGGCGUAUGCGCAAUGCGCGGAAUGCAUGCCCA_AAUAUUACGCAUACGCCGCAUA
..........................................................((((((((((((.((((...((........)).....)))).))))))))))))... (-21.00 = -21.08 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:53 2006