Locus 7498

Sequence ID 2L_DroMel_CAF1
Location 20,800,070 – 20,800,185
Length 115
Max. P 0.999023
window12052 window12053

overview

Window 2

Location 20,800,070 – 20,800,185
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -29.62
Consensus MFE -26.40
Energy contribution -27.96
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -2.30
Structure conservation index 0.89
SVM decision value 3.33
SVM RNA-class probability 0.999023
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20800070 115 + 22407834
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGAUGGGUGAACAAAAGAAGUUCAUCGCUGGUGACGGCUCAGUAAAAAAUUUACAAAAAGAACAGCACAACCAGAACAAGAGGAAU-----
...(((((((...(.(.((((.(((....(((..(((((((.......)))))))((((....)))))))((((.....))))......)))..)))).)).)))))))......----- ( -31.40)
>DroSec_CAF1 23336 120 + 1
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGAUGGGUGAACAAAAGAAGUUAAUCGCUGGCGACGGUUCAGUAAAAGAUUUACAAAAAGAACAGUACGACCAGAACAAGAGGAAUAUAGU
....(((((((((.((.((((......)))).))))))))))).....(((..((.((((((((.((((.((((.....)))).....)))).)).)).)))).....))..)))..... ( -26.30)
>DroSim_CAF1 26920 115 + 1
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGAUGGGUGAACAAAAGAAGUUCAUCGCUGGCGACGGCUCAGUAAAAAAUUUACAAAAAGAACAGCACGACCAGAACAAGAGGAAU-----
...(((((((....((.(((..(((....(((..(((((((.......)))))))((((....)))))))((((.....))))......))).)))))....)))))))......----- ( -31.60)
>DroEre_CAF1 26804 114 + 1
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGACGGGUGAGCAACAGAAGUUCAUCGCUGGUGACGGUUCAGUAAAAAAUGUACAA-AAGAACAGCACAACCAGAACAAGAGGAAU-----
...(((((((...(.(.((((.(((....((((((((((((.......)))))))((((....))))...........))).)).-...)))..)))).)).)))))))......----- ( -28.90)
>DroYak_CAF1 24324 115 + 1
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGAUGGGUGAACAAAAGAAGUUCAUCGCUGGUGACGGUUCAGUAAAAAAUUUACAAAAAGAAUAGCAAAACCAGAACAAGAGGAAU-----
...(((((((.((((...))))((((...(((..(((((((.......)))))))((((....)))))))((((.....))))........)))).......)))))))......----- ( -29.90)
>consensus
UAACUUGUUCGCCGCGAUGUGGGUUAAUAUGAUGGGUGAACAAAAGAAGUUCAUCGCUGGUGACGGUUCAGUAAAAAAUUUACAAAAAGAACAGCACAACCAGAACAAGAGGAAU_____
...(((((((..(((...)))((((....(((..(((((((.......)))))))((((....)))))))((((.....))))..............)))).)))))))........... (-26.40 = -27.96 +   1.56)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 20,800,070 – 20,800,185
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -23.02
Consensus MFE -21.57
Energy contribution -21.49
Covariance contribution -0.08
Combinations/Pair 1.11
Mean z-score -1.42
Structure conservation index 0.94
SVM decision value 1.34
SVM RNA-class probability 0.944157
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20800070 115 - 22407834
-----AUUCCUCUUGUUCUGGUUGUGCUGUUCUUUUUGUAAAUUUUUUACUGAGCCGUCACCAGCGAUGAACUUCUUUUGUUCACCCAUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
-----......(((((((((((.(.((.((((.....((((.....)))).)))).)))))))(((((((((.......)))))...................))))...)))))))... ( -23.50)
>DroSec_CAF1 23336 120 - 1
ACUAUAUUCCUCUUGUUCUGGUCGUACUGUUCUUUUUGUAAAUCUUUUACUGAACCGUCGCCAGCGAUUAACUUCUUUUGUUCACCCAUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
...........((((((((((.((.((.((((.....((((.....)))).)))).)))))))(((((..........((.........))...........)))))...)))))))... ( -22.30)
>DroSim_CAF1 26920 115 - 1
-----AUUCCUCUUGUUCUGGUCGUGCUGUUCUUUUUGUAAAUUUUUUACUGAGCCGUCGCCAGCGAUGAACUUCUUUUGUUCACCCAUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
-----......(((((((..((((((.(((.......((((.....))))(((...((((....))))((((.......)))).....))).........))).)))))))))))))... ( -25.10)
>DroEre_CAF1 26804 114 - 1
-----AUUCCUCUUGUUCUGGUUGUGCUGUUCUU-UUGUACAUUUUUUACUGAACCGUCACCAGCGAUGAACUUCUGUUGCUCACCCGUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
-----......(((((((((((.(.((.((((..-..(((.......))).)))).)))))))(((((((((....)))((......))............))))))...)))))))... ( -24.40)
>DroYak_CAF1 24324 115 - 1
-----AUUCCUCUUGUUCUGGUUUUGCUAUUCUUUUUGUAAAUUUUUUACUGAACCGUCACCAGCGAUGAACUUCUUUUGUUCACCCAUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
-----......(((((((((((...((..(((.....((((.....)))).)))..)).))))(((((((((.......)))))...................))))...)))))))... ( -19.80)
>consensus
_____AUUCCUCUUGUUCUGGUUGUGCUGUUCUUUUUGUAAAUUUUUUACUGAACCGUCACCAGCGAUGAACUUCUUUUGUUCACCCAUCAUAUUAACCCACAUCGCGGCGAACAAGUUA
...........((((((((((.((.((.((((.....((((.....)))).)))).)))))))((((((................................))))))...)))))))... (-21.57 = -21.49 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:19 2006