Locus 3096

Sequence ID	3L_DroMel_CAF1
Location	8,972,013 – 8,972,111
Length	98
Max. P	0.948776

overview

Window 6

Location	8,972,013 – 8,972,111
Length	98
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	69.23
Mean single sequence MFE	-22.88
Consensus MFE	-6.60
Energy contribution	-6.64
Covariance contribution	0.04
Combinations/Pair	1.27
Mean z-score	-1.74
Structure conservation index	0.29
SVM decision value	-0.05
SVM RNA-class probability	0.509719
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8972013 98 + 23771897
--------------CUCAGUUGAGCAGCAAAGCUGCCCUAGGUUCGAUGCCGUGCUCAUGCAGCGCGGA-CUCAAACCACGGUUUUAGCUAGAAAAUUGCCAACAAAAAUGAU
--------------....((((.((((...(((((((...((((.((..(((((((.....))))))).-.)).))))..)))...))))......))))))))......... ( -30.20)
>DroSec_CAF1 11124 98 + 1
--------------ACAAAACAAACAAUAAAGCUACCCUGGGUUCGAGACCCUGCUAACGCAGCAAGGA-CUUAACCCAGUGUUUUAGCUAGAAAAUUGCCAACAAAAAUGAU
--------------................((((((.(((((((.(((.((((((....))))...)).-)))))))))).))...))))....................... ( -24.80)
>DroSim_CAF1 11775 98 + 1
--------------AUAAAACAAACAACAAAGCUACCCUGGGUUCUAGACCCUGCUAACGCAGCACGGA-CUCAACCCACUUUUUUAGCUAGAAAAUUGUCAACAAAAAUGAU
--------------................(((((...((((((..((.((((((....))))...)).-)).))))))......)))))....................... ( -19.00)
>DroEre_CAF1 11479 98 + 1
--------------UCUGGCUGUGCAUCAAAGCAGCCCUGGGUUCGAAACCGAGCUGAUACAGCGAAGA-CACAAACCACCACUCUAGCUAGAAAAUAGCUAACCGAAAUGAU
--------------...((((((........)))))).(((..(((....)))((((...)))).....-......)))......((((((.....))))))........... ( -23.20)
>DroYak_CAF1 12003 105 + 1
AUGUUAAUGAAAUGUUUAGGUAU--------GUAGCCCUGGGUUCGAAACCGUGCUAAAGCAGCGUAGACCACAAACCAUUGUUCUAGCUAGAAAAUAGCCAACUAAAAUGAU
..(((.(((...(((((.(((((--------(.((((...))))......)))))).))))).))).))).......((((......((((.....)))).......)))).. ( -17.22)
>consensus
______________AUAAGAUAAACAACAAAGCUGCCCUGGGUUCGAAACCGUGCUAACGCAGCGAGGA_CUCAAACCACUGUUUUAGCUAGAAAAUUGCCAACAAAAAUGAU
..............................(((((.....(((.....)))..(((.....))).....................)))))....................... ( -6.60 =  -6.64 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	8,972,013 – 8,972,111
Length	98
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	69.23
Mean single sequence MFE	-29.36
Consensus MFE	-9.30
Energy contribution	-9.70
Covariance contribution	0.40
Combinations/Pair	1.20
Mean z-score	-2.18
Structure conservation index	0.32
SVM decision value	1.38
SVM RNA-class probability	0.948776
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8972013 98 - 23771897
AUCAUUUUUGUUGGCAAUUUUCUAGCUAAAACCGUGGUUUGAG-UCCGCGCUGCAUGAGCACGGCAUCGAACCUAGGGCAGCUUUGCUGCUCAACUGAG--------------
.(((......(((((.........)))))......(((((((.-.(((.(((.....))).)))..)))))))..(((((((...)))))))...))).-------------- ( -31.80)
>DroSec_CAF1 11124 98 - 1
AUCAUUUUUGUUGGCAAUUUUCUAGCUAAAACACUGGGUUAAG-UCCUUGCUGCGUUAGCAGGGUCUCGAACCCAGGGUAGCUUUAUUGUUUGUUUUGU--------------
............((((((.....(((((...(.(((((((.((-.((((((((...)))))))).))..)))))))).)))))..))))))........-------------- ( -32.40)
>DroSim_CAF1 11775 98 - 1
AUCAUUUUUGUUGACAAUUUUCUAGCUAAAAAAGUGGGUUGAG-UCCGUGCUGCGUUAGCAGGGUCUAGAACCCAGGGUAGCUUUGUUGUUUGUUUUAU--------------
............((((((.....(((((......((((((.((-.((.(((((...))))).)).))..))))))...)))))..))))))........-------------- ( -27.70)
>DroEre_CAF1 11479 98 - 1
AUCAUUUCGGUUAGCUAUUUUCUAGCUAGAGUGGUGGUUUGUG-UCUUCGCUGUAUCAGCUCGGUUUCGAACCCAGGGCUGCUUUGAUGCACAGCCAGA--------------
(((((((..(((((.......)))))..)))))))((((.(((-(..(((..(...(((((((((.....)))..)))))))..))).))))))))...-------------- ( -29.40)
>DroYak_CAF1 12003 105 - 1
AUCAUUUUAGUUGGCUAUUUUCUAGCUAGAACAAUGGUUUGUGGUCUACGCUGCUUUAGCACGGUUUCGAACCCAGGGCUAC--------AUACCUAAACAUUUCAUUAACAU
....((((((((((.......))))))))))....(((.((((((((..((((...))))..(((.....)))..)))))))--------).))).................. ( -25.50)
>consensus
AUCAUUUUUGUUGGCAAUUUUCUAGCUAAAACAGUGGUUUGAG_UCCGCGCUGCAUUAGCACGGUCUCGAACCCAGGGCAGCUUUGUUGCUUAUCUAAA______________
....((((.(((((.......))))).))))....((((((....((..(((.....)))..))...))))))........................................ ( -9.30 =  -9.70 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:25 2006