Locus 2233

Sequence ID X_DroMel_CAF1
Location 6,030,552 – 6,030,656
Length 104
Max. P 0.888180
window3620 window3621

overview

Window 0

Location 6,030,552 – 6,030,656
Length 104
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 92.97
Mean single sequence MFE -16.28
Consensus MFE -15.65
Energy contribution -16.21
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.66
Structure conservation index 0.96
SVM decision value 0.95
SVM RNA-class probability 0.888180
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6030552 104 + 22224390
UGUCGGAACUUUUGCUUUCUACCCUUCC-CCAAAAAUUCCUCUUCCGUUGGAAAGUUUUAUGCUUUCUCUUUUUUAUUUUGCUGUUUGGCAAUUUUAACCAGCGC
....((((.(((((..............-.))))).)))).....(((((((((((.....))))))...........(((((....))))).......))))). ( -19.36)
>DroSec_CAF1 42801 104 + 1
UGUCGGAACUUUUGCUUUCUACCCUUCC-CCAAAAAUUCCACUUCCGUUGGAACGUUUUAUGCUUUCUCUUUUUUAUUUUGCUGUUUGGCAAUUUUAACCAGCGC
....((((.(((((..............-.))))).)))).....((((((...((.....))...............(((((....)))))......)))))). ( -17.16)
>DroEre_CAF1 38534 101 + 1
UGUCGGAACUUUUGCUUUCUACCCUUUCCCCAAAAAUUCCUCUUCCGUUGGAAACUUUUAUACUUUCUCUUUUU----UUGCUAUUUGGCAAUUUUAACCAGCGC
....((((.(((((................))))).)))).....((((((((....))...............----(((((....)))))......)))))). ( -13.39)
>DroYak_CAF1 40660 103 + 1
UGUCGGAACUUUUGCUUUCUACCCUUUU-CCAAAAAUUCCUCUUCCGUUGGAAACUUUUAUGCUUUCUUUUUUUUGU-UUGCUGUUUGGCAAUUUUAACCAGCGC
....((((.(((((..............-.))))).)))).....((((((((((....................))-))(((....)))........)))))). ( -15.21)
>consensus
UGUCGGAACUUUUGCUUUCUACCCUUCC_CCAAAAAUUCCUCUUCCGUUGGAAACUUUUAUGCUUUCUCUUUUUUAU_UUGCUGUUUGGCAAUUUUAACCAGCGC
....((((.(((((................))))).)))).....(((((((((((.....))))))...........(((((....))))).......))))). (-15.65 = -16.21 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,030,552 – 6,030,656
Length 104
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 92.97
Mean single sequence MFE -18.09
Consensus MFE -16.34
Energy contribution -16.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.90
SVM decision value 0.25
SVM RNA-class probability 0.651472
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6030552 104 - 22224390
GCGCUGGUUAAAAUUGCCAAACAGCAAAAUAAAAAAGAGAAAGCAUAAAACUUUCCAACGGAAGAGGAAUUUUUGG-GGAAGGGUAGAAAGCAAAAGUUCCGACA
((..((((.......))))....))...........(.(((((.......))))))..(....).((((((((((.-..............)))))))))).... ( -19.16)
>DroSec_CAF1 42801 104 - 1
GCGCUGGUUAAAAUUGCCAAACAGCAAAAUAAAAAAGAGAAAGCAUAAAACGUUCCAACGGAAGUGGAAUUUUUGG-GGAAGGGUAGAAAGCAAAAGUUCCGACA
..(((..(((...((.((.....((.................)).(((((.((((((.(....)))))))))))))-).))...)))..)))............. ( -18.93)
>DroEre_CAF1 38534 101 - 1
GCGCUGGUUAAAAUUGCCAAAUAGCAA----AAAAAGAGAAAGUAUAAAAGUUUCCAACGGAAGAGGAAUUUUUGGGGAAAGGGUAGAAAGCAAAAGUUCCGACA
((..((((.......))))....))..----.....(.((((.(.....).)))))..(....).((((((((((................)))))))))).... ( -17.09)
>DroYak_CAF1 40660 103 - 1
GCGCUGGUUAAAAUUGCCAAACAGCAA-ACAAAAAAAAGAAAGCAUAAAAGUUUCCAACGGAAGAGGAAUUUUUGG-AAAAGGGUAGAAAGCAAAAGUUCCGACA
((..((((.......))))....))..-..........(.((((......)))).)..(....).((((((((((.-..............)))))))))).... ( -17.16)
>consensus
GCGCUGGUUAAAAUUGCCAAACAGCAA_AUAAAAAAGAGAAAGCAUAAAACUUUCCAACGGAAGAGGAAUUUUUGG_GAAAGGGUAGAAAGCAAAAGUUCCGACA
((..((((.......))))....))...........................((((...))))..((((((((((................)))))))))).... (-16.34 = -16.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:24 2006