Locus 7849

Sequence ID	3L_DroMel_CAF1
Location	20,995,812 – 20,995,948
Length	136
Max. P	0.999975

overview

Window 8

Location	20,995,812 – 20,995,908
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	97.29
Mean single sequence MFE	-27.22
Consensus MFE	-26.96
Energy contribution	-26.96
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.27
Structure conservation index	0.99
SVM decision value	5.14
SVM RNA-class probability	0.999975
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20995812 96 - 23771897
UAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUGUGCUGUGUUUAGAACAGUUUC
.....((((((((.......))))))))(((((((((..(..(..(((.....)))..)..)..)))))).)))..(((((.......)))))... ( -27.20)
>DroSec_CAF1 13411 96 - 1
UAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUGUGCUGUGACUAGAACAGUUCC
....(((((....((((.(((((...(((((((((((..(..(..(((.....)))..)..)..)))))).)))))...))))))))).))))).. ( -27.60)
>DroSim_CAF1 20836 96 - 1
UAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUGUGCUGUGACUAGAACAGUUCC
....(((((....((((.(((((...(((((((((((..(..(..(((.....)))..)..)..)))))).)))))...))))))))).))))).. ( -27.60)
>DroEre_CAF1 22099 95 - 1
UAAAAGCUGAAUAU-UGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUUUGCUGUGACUAGAACAGUUCC
.....((((((((.-.....))))))))(((((((((..(..(..(((.....)))..)..)..)))))).)))..(((((.......)))))... ( -27.10)
>DroYak_CAF1 19513 96 - 1
UAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUUUGCUGUGACUAGAACAGUCCC
.....((((((((.......))))))))(((((((((..(..(..(((.....)))..)..)..)))))).)))..(((((.......)))))... ( -26.60)
>consensus
UAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCUGCUGAUGUGUUGUGCUGUGACUAGAACAGUUCC
.....((((((((.......))))))))(((((((((..(..(..(((.....)))..)..)..)))))).)))..(((((.......)))))... (-26.96 = -26.96 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	20,995,845 – 20,995,948
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	95.73
Mean single sequence MFE	-23.76
Consensus MFE	-20.64
Energy contribution	-21.04
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.12
Structure conservation index	0.87
SVM decision value	2.32
SVM RNA-class probability	0.992328
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20995845 103 - 23771897
ACAUACAGAUCCCAAGCUCUCGAAAAGAACAACCUAAUGCUAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
.............((((.((.((((((.((((((....(((((..((((((((.......)))))))).....)))))))))))..)))))).))..)))).. ( -25.00)
>DroSec_CAF1 13444 103 - 1
AAAUACAGAUCCUAACCGCUCGAAAAGAACAACCUAAUGCUAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
.............(((.(((.((((((.((((((....(((((..((((((((.......)))))))).....)))))))))))..)))))).))).)))... ( -26.60)
>DroSim_CAF1 20869 103 - 1
AAAUACAGAUCCCAAGCGCUCGAAAAGAACAACCUAAUGCUAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
.............(((((((.((((((.((((((....(((((..((((((((.......)))))))).....)))))))))))..)))))).)).))))).. ( -26.30)
>DroEre_CAF1 22132 102 - 1
AAAUACAAAUCACAAGCUCACAAAAAGAACAACCUAAUGCUAAAAGCUGAAUAU-UGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
..............((((....(((((.((((((....(((((..((((((((.-.....)))))))).....)))))))))))..)))))..))))...... ( -20.70)
>DroYak_CAF1 19546 103 - 1
AAAUACAAAUCCCAAGCUCACAAAAAGAACAACCUAAUGCUAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
..............((((....(((((.((((((....(((((..((((((((.......)))))))).....)))))))))))..)))))..))))...... ( -20.20)
>consensus
AAAUACAGAUCCCAAGCUCUCGAAAAGAACAACCUAAUGCUAAAAGCUGAAUAUUUGUGUUAUUUAGCAACUAUUAGUGGUUGUGGCUUUUCUAGUUGUUUCU
.....................((((((.((((((....(((((..((((((((.......)))))))).....)))))))))))..))))))........... (-20.64 = -21.04 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:36 2006