Locus 5826

Sequence ID	3R_DroMel_CAF1
Location	15,244,762 – 15,244,974
Length	212
Max. P	0.746520

overview

Window 0

Location	15,244,762 – 15,244,872
Length	110
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	77.73
Mean single sequence MFE	-34.92
Consensus MFE	-21.68
Energy contribution	-23.20
Covariance contribution	1.52
Combinations/Pair	1.28
Mean z-score	-1.58
Structure conservation index	0.62
SVM decision value	0.46
SVM RNA-class probability	0.746520
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15244762 110 - 27905053
GAGAACUCGGUAUUCACUGCUUUUUCAUUGGCUGCAGUUGCCUUGCCACGAAAUCGUAUUUUUGUGAAACAGGAUAUUUGCAUGUGGGGCACGCUUCGGCGAAAGCCAGC
(((((..((((....))))..))))).((((((.....(((((..((((((((......))))))).....(.(....).)..)..)))))(((....)))..)))))). ( -35.50)
>DroPse_CAF1 11645 92 - 1
CACCACCAGACAUGCAGCUCUCUAAA-----AUGCAGUUCC------AGGGCUUUGGUUUUCGGU-----UGGCCAUUUGCAUGUGGAGCACGCUCCACCGAAUGCCG--
.(((((((((..((((..........-----.))))(((..------..)))))))))....)))-----.(((.(((((...((((((....)))))))))))))).-- ( -26.60)
>DroSec_CAF1 6362 108 - 1
CAGAACUCGGUAUUCAGUGCUUUCACACUGGUUGCAGUUGCCUUGCCACGAAAUCGUAUUUUUGUGAAACAGGAUAUUUGCAUGUGGGGCACGCUUAGGCGAAUGCCA--
........(((((((.((((((.((((.....(((((...(((...(((((((......)))))))....)))....)))))))))))))))((....))))))))).-- ( -36.60)
>DroSim_CAF1 6413 108 - 1
CAGAACUCGGUAUUCAGUGCUUUCACACUGGUUGCAGUUGCCUUGCCACGAAAACGUAUUUUUGUGAAACAGGAUAUUUGCAUGUGGGGCACGCUUCGGCGAAUGCCA--
........(((((((.((((((.((((.....(((((...(((...((((((((....))))))))....)))....)))))))))))))))((....))))))))).-- ( -39.30)
>DroEre_CAF1 4031 108 - 1
CGGAACUCGGUAUUCACUGCUUUUCCGCUGGCUGCAGUUGCUUUGCCUAGGAAUCGUAUUUUUGUGGAACAGGAUAUUUGCAUGUGGGGCACGCUUCGGCGAGUGCCA--
.((.((((.((.((((((((..((((...(((.((....))...)))..))))......(((((.....))))).....))).)))))..))((....)))))).)).-- ( -33.90)
>DroYak_CAF1 2751 106 - 1
--GAACUCGGCAUUCGCUGCUUUUCCGCUGGUUGCAGUUGCUUUGCCUCGAAAUCGUAUUUUUGUGGAACAGGAUAUUUGCAUGUGGGGCACGCUUCGGCGAGUGCCA--
--......((((((((((((..((((((....(((((...(((..((.(((((......))))).))...)))....))))).))))))...))...)))))))))).-- ( -37.60)
>consensus
CAGAACUCGGUAUUCACUGCUUUUACACUGGUUGCAGUUGCCUUGCCACGAAAUCGUAUUUUUGUGAAACAGGAUAUUUGCAUGUGGGGCACGCUUCGGCGAAUGCCA__
........(((((((..(((((...(((....(((((...(((...(((((((......)))))))....)))....))))).)))))))).((....)))))))))... (-21.68 = -23.20 +   1.52)

alignment

secondary structure

dotplot

Window 1

Location	15,244,872 – 15,244,974
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	80.21
Mean single sequence MFE	-27.47
Consensus MFE	-18.03
Energy contribution	-19.25
Covariance contribution	1.22
Combinations/Pair	1.05
Mean z-score	-1.32
Structure conservation index	0.66
SVM decision value	0.00
SVM RNA-class probability	0.534375
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15244872 102 - 27905053
UUCGAGCCAUCACGUAAGUGGAAAUGGCCAAGACCACGGACUGUUUUGUAAGCCAAUAUGUCCGUCACUUGGCUCAGUGCUCAGUGCUCGGUGCUCAGUUCU
.(((((((.((((....))))...((((((((...((((((....(((.....)))...))))))..)))))).)).......).))))))........... ( -33.80)
>DroSec_CAF1 6470 95 - 1
UUCGAGCCAUCACGUAAGUGGAAAUGGCCAAGUCCACGGACUGUUUUGUAAGCCAAUAUGUCCGUCAGUUGGCUCAG-------UGCUCGGUGCUCAGUUCU
.(((((((.((((....))))...(((((((.(..((((((....(((.....)))...)))))).).))))).)))-------.))))))........... ( -31.10)
>DroSim_CAF1 6521 95 - 1
UUCGAGCCAUCACGUAAGUGGAAAUGGCCAAGUCCACGGACUGUUUUGUAAGCCAAUAUGUCCGUCAGUUGGCUCAG-------UGCUCGGUGCUCAGUUCU
.(((((((.((((....))))...(((((((.(..((((((....(((.....)))...)))))).).))))).)))-------.))))))........... ( -31.10)
>DroEre_CAF1 4139 81 - 1
UUCGAGCCAUCACGUAA--------------GUCCACGGACUGUUUUGUAAGCCAAUAUGUCCGUCAGUUGGCUCAC-------UGCUCAGUCCUCAAACCU
...((......((....--------------))....((((((....((.(((((((.((.....))))))))).))-------....))))))))...... ( -22.10)
>DroYak_CAF1 2857 90 - 1
UUCGAGCCAUCACGUAAGUGGAAAUGGCCAAGUCCACGAACUGUUUUGUAAGCCAAUAUGUCCGUUAGUUGGCUCAG-------UGCUCAGUCCUCA-----
...(((((.((((....))))...(((((((.(..(((.((....(((.....)))...)).))).).))))).)))-------.))))........----- ( -22.40)
>DroAna_CAF1 8204 85 - 1
CCGAAGCGAUCACGUAAGUGGAAAUGGCCGAGUCCACGGAAUGUUUUGUAAGCCAAUAUGUCCUGCAGCUGGCUUAG-------AGCUGAGG----------
((..(((...(((....)))(((((..(((......)))...))))).(((((((...((.....))..))))))).-------.)))..))---------- ( -24.30)
>consensus
UUCGAGCCAUCACGUAAGUGGAAAUGGCCAAGUCCACGGACUGUUUUGUAAGCCAAUAUGUCCGUCAGUUGGCUCAG_______UGCUCAGUGCUCAGUUCU
...((((((((((....))))..............((((((....(((.....)))...))))))....))))))........................... (-18.03 = -19.25 +   1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:42 2006