Locus 614

Sequence ID	3R_DroMel_CAF1
Location	2,278,600 – 2,278,694
Length	94
Max. P	0.937772

overview

Window 5

Location	2,278,600 – 2,278,694
Length	94
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	76.30
Mean single sequence MFE	-32.12
Consensus MFE	-24.03
Energy contribution	-21.78
Covariance contribution	-2.24
Combinations/Pair	1.54
Mean z-score	-1.54
Structure conservation index	0.75
SVM decision value	1.26
SVM RNA-class probability	0.937772
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2278600 94 + 27905053
---UCGCAGUCAAGUGAUUGCUGCUUGCUCAACAAGUUGGGUCUUUGCUUCAUCCGAGUCAACCCGGGACUAGCGAAGCAAUUUU---GACUGGGAUUCG
---((.(((((((..(((((((....((((((....))))))..(((((...((((.(....).))))...))))))))))))))---))))).)).... ( -33.00)
>DroPse_CAF1 42116 100 + 1
CCAUCGCAGUCAAGGGAUUGCUGUUUGGCCAGCAGACUAGAACGUUGCCGCAUCCGUGUGACGCCAGGACUGGCAAAGCAAUUUUGUUGAUUGGAAUUUG
...((.((((((((((((((((.....(((((....((....(((..(((....)).)..)))..))..)))))..))))))))).)))))))))..... ( -31.40)
>DroSim_CAF1 15074 94 + 1
---UCGCAGUCAAGUGAUUGCUGCUUGCUCAACAAGUUGGGUCUUUGCUUCAUCCGAGUCAGGCCGGGACUAGCGAAGCAAUUUU---GACUGGGAUUCG
---((.(((((((..(((((((....((((((....))))))..(((((...((((.(.....)))))...))))))))))))))---))))).)).... ( -33.10)
>DroYak_CAF1 14465 94 + 1
---UCGCAGUCAAGUGAUUGCUGCUUGCUCAACAUGUUGGAUCUUUGCUUCAUCCUAGUCAAGCCGGGACUAGCGAAGCAAUUUU---GACUGGGAUUCG
---((.((((((((.((((((.....)).(((....))))))).(((((((...((((((.......)))))).))))))).)))---))))).)).... ( -30.60)
>DroAna_CAF1 14637 94 + 1
---UCGCAAUCCAAAGACUGUUGCUUGCUUAGCAGACUGCUCCGCUGUUUCAUUCUGGUGAGGCCCGGGCUGGCGAAACAGUUCU---GGUUGGGAUUCG
---((.(((.(((..((((((((((.((..(((.....)))(((..(((((((....))))))).))))).)))..))))))).)---))))).)).... ( -30.00)
>DroPer_CAF1 42071 100 + 1
CCAUCGCAGUCAAGGGAUUGCUGUUUGGUCAGCAGACUAGAACGUUGCCGCAUCCGCGUGACGCCAGGACUGGCAAAGCAAUUUUGUUGAUUGGAAUUUG
...((.((((((((((((((((.(((((((....)))))))..((..(.((....)))..))((((....))))..))))))))).)))))))))..... ( -34.60)
>consensus
___UCGCAGUCAAGUGAUUGCUGCUUGCUCAACAGACUGGAUCGUUGCUUCAUCCGAGUCAAGCCGGGACUAGCGAAGCAAUUUU___GACUGGGAUUCG
...((.(((((..(..(((((((((((.....))))).......(((((...(((..(.....)..)))..)))))))))))..)...))))).)).... (-24.03 = -21.78 +  -2.24)

alignment

secondary structure

dotplot

Window 6

Location	2,278,600 – 2,278,694
Length	94
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	76.30
Mean single sequence MFE	-28.17
Consensus MFE	-16.24
Energy contribution	-15.43
Covariance contribution	-0.80
Combinations/Pair	1.35
Mean z-score	-1.72
Structure conservation index	0.58
SVM decision value	0.57
SVM RNA-class probability	0.785748
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2278600 94 - 27905053
CGAAUCCCAGUC---AAAAUUGCUUCGCUAGUCCCGGGUUGACUCGGAUGAAGCAAAGACCCAACUUGUUGAGCAAGCAGCAAUCACUUGACUGCGA---
....((.(((((---((..((((((((......(((((....))))).)))))))).........((((((......))))))....))))))).))--- ( -27.60)
>DroPse_CAF1 42116 100 - 1
CAAAUUCCAAUCAACAAAAUUGCUUUGCCAGUCCUGGCGUCACACGGAUGCGGCAACGUUCUAGUCUGCUGGCCAAACAGCAAUCCCUUGACUGCGAUGG
..................(((((...((((....))))((((...(((((((....))).......(((((......)))))))))..)))).))))).. ( -29.40)
>DroSim_CAF1 15074 94 - 1
CGAAUCCCAGUC---AAAAUUGCUUCGCUAGUCCCGGCCUGACUCGGAUGAAGCAAAGACCCAACUUGUUGAGCAAGCAGCAAUCACUUGACUGCGA---
....((.(((((---((..((((((((((((((.......)))).)).)))))))).........((((((......))))))....))))))).))--- ( -27.00)
>DroYak_CAF1 14465 94 - 1
CGAAUCCCAGUC---AAAAUUGCUUCGCUAGUCCCGGCUUGACUAGGAUGAAGCAAAGAUCCAACAUGUUGAGCAAGCAGCAAUCACUUGACUGCGA---
....((.(((((---((..((((((((((((((.......))))))..))))))))..........(((((......))))).....))))))).))--- ( -28.60)
>DroAna_CAF1 14637 94 - 1
CGAAUCCCAACC---AGAACUGUUUCGCCAGCCCGGGCCUCACCAGAAUGAAACAGCGGAGCAGUCUGCUAAGCAAGCAACAGUCUUUGGAUUGCGA---
(((((((.....---(((.(((((((((..((....)).(((......)))....))))))))))))(((.....)))..........))))).)).--- ( -25.10)
>DroPer_CAF1 42071 100 - 1
CAAAUUCCAAUCAACAAAAUUGCUUUGCCAGUCCUGGCGUCACGCGGAUGCGGCAACGUUCUAGUCUGCUGACCAAACAGCAAUCCCUUGACUGCGAUGG
.....((((.((((....((((((..((((....))))((((.(((((((((....)))....)))))))))).....))))))...)))).)).))... ( -31.30)
>consensus
CGAAUCCCAAUC___AAAAUUGCUUCGCCAGUCCCGGCCUCACUCGGAUGAAGCAAAGAUCCAACCUGCUGAGCAAGCAGCAAUCACUUGACUGCGA___
....((.(((((......((((((.((((.((((.((.....)).))))..))).......(((....))).....).)))))).....))))).))... (-16.24 = -15.43 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:28 2006