Locus 5802

Sequence ID	2R_DroMel_CAF1
Location	18,372,995 – 18,373,093
Length	98
Max. P	0.744160

overview

Window 4

Location	18,372,995 – 18,373,093
Length	98
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	78.38
Mean single sequence MFE	-30.58
Consensus MFE	-18.34
Energy contribution	-18.01
Covariance contribution	-0.33
Combinations/Pair	1.14
Mean z-score	-1.72
Structure conservation index	0.60
SVM decision value	0.46
SVM RNA-class probability	0.744160
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18372995 98 + 20766785
CGCUUGGCAUAUCCUUUG----CC----GGCUUGCUUGUGUGCAAUAAAUUUGCUGACAAAAGAGGGAUUAUUGCUGGAUCAUGCCGCUGUUGCUGCAGCGCGGGA
(((..(((((((((...(----(.----..((..(((.(((((((.....))))..))).)))..))......)).)))).)))))(((((....))))))))... ( -33.10)
>DroVir_CAF1 12348 92 + 1
UCCUUGGCAUAUCCUUUUG--GGCGGCGUGUUUGUUUGCUAGCAAUAAAUUUGCUGACAAAAGAAGGAUUAUUGCUGGAUCAUACCGCAGCCCC------------
..................(--(((.(((.((.((....((((((((((.(((.((......)).))).))))))))))..)).))))).)))).------------ ( -28.60)
>DroPse_CAF1 17177 98 + 1
CUCCUGGCAUGUCCUUUG----GU----CGUUUGUUUGCGUGCAAUAAAUUUGCUGACAAAAGAAGGAUUAUUGCUGGAUCAUGCCGCUGUCGCCGCUGCUCAGCC
.....(((((((((..((----((----(.(((.((((((.((((.....)))))).)))).))).))))).....))).))))))((((..((....)).)))). ( -32.30)
>DroGri_CAF1 14491 94 + 1
UCCUUGGCAUAUCCUUUGGGCGGCGGCGUGUUUGUUUGUGUGCAAUAAAUUUGCUGACAAAAGAAGGAUUAUUGCUGGCUCAUACCGCUGUCAC------------
.(((.((.....))...))).(((((((.((.((...((..(((((((.(((.((......)).))).)))))))..)).)).)))))))))..------------ ( -25.50)
>DroAna_CAF1 9130 98 + 1
CGCUUGGCAUAUCCUUUG----GU----CGUUUGUUUGUGUGCAAUAAAUUUGCUGACAAAAGAGGGAUUAUUGCUGGAUCAUGCCGCUGUUGCUGCAGUUUGCUC
.((..(((((((((..((----((----(.(((.(((((..((((.....))))..))))).))).))))).....)))).)))))(((((....)))))..)).. ( -31.70)
>DroPer_CAF1 17523 98 + 1
CUCCUGGCAUGUCCUUUG----GU----CGUUUGUUUGCGUGCAAUAAAUUUGCUGACAAAAGAAGGAUUAUUGCUGGAUCAUGCCGCUGUCGCCGCUGCUCAGCC
.....(((((((((..((----((----(.(((.((((((.((((.....)))))).)))).))).))))).....))).))))))((((..((....)).)))). ( -32.30)
>consensus
CCCUUGGCAUAUCCUUUG____GC____CGUUUGUUUGCGUGCAAUAAAUUUGCUGACAAAAGAAGGAUUAUUGCUGGAUCAUGCCGCUGUCGC_GC_GCUC_G_C
...(..(((.(((((((.............((((((.....((((.....)))).)))))).)))))))...)))..)............................ (-18.34 = -18.01 +  -0.33)

alignment

secondary structure

dotplot

Window 5

Location	18,372,995 – 18,373,093
Length	98
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	78.38
Mean single sequence MFE	-24.80
Consensus MFE	-16.16
Energy contribution	-15.55
Covariance contribution	-0.61
Combinations/Pair	1.24
Mean z-score	-1.46
Structure conservation index	0.65
SVM decision value	0.39
SVM RNA-class probability	0.715707
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18372995 98 - 20766785
UCCCGCGCUGCAGCAACAGCGGCAUGAUCCAGCAAUAAUCCCUCUUUUGUCAGCAAAUUUAUUGCACACAAGCAAGCC----GG----CAAAGGAUAUGCCAAGCG
...(((((((......))))((((((.(((.(((((((.......((((....)))).)))))))......((.....----.)----)...)))))))))..))) ( -30.30)
>DroVir_CAF1 12348 92 - 1
------------GGGGCUGCGGUAUGAUCCAGCAAUAAUCCUUCUUUUGUCAGCAAAUUUAUUGCUAGCAAACAAACACGCCGCC--CAAAAGGAUAUGCCAAGGA
------------.((((.(((((.((..(.((((((((.......((((....)))).)))))))).)....)).)).))).)))--)....((.....))..... ( -23.00)
>DroPse_CAF1 17177 98 - 1
GGCUGAGCAGCGGCGACAGCGGCAUGAUCCAGCAAUAAUCCUUCUUUUGUCAGCAAAUUUAUUGCACGCAAACAAACG----AC----CAAAGGACAUGCCAGGAG
.((((.((....))..))))((((((.(((.(((((((.......((((....)))).))))))).((........))----..----....)))))))))..... ( -29.00)
>DroGri_CAF1 14491 94 - 1
------------GUGACAGCGGUAUGAGCCAGCAAUAAUCCUUCUUUUGUCAGCAAAUUUAUUGCACACAAACAAACACGCCGCCGCCCAAAGGAUAUGCCAAGGA
------------(((...((((..((.(....)............(((((..((((.....))))..)))))....))..)))))))((...((.....))..)). ( -15.90)
>DroAna_CAF1 9130 98 - 1
GAGCAAACUGCAGCAACAGCGGCAUGAUCCAGCAAUAAUCCCUCUUUUGUCAGCAAAUUUAUUGCACACAAACAAACG----AC----CAAAGGAUAUGCCAAGCG
..((........((....))((((((.(((.(((((((.......((((....)))).))))))).......(....)----..----....)))))))))..)). ( -21.60)
>DroPer_CAF1 17523 98 - 1
GGCUGAGCAGCGGCGACAGCGGCAUGAUCCAGCAAUAAUCCUUCUUUUGUCAGCAAAUUUAUUGCACGCAAACAAACG----AC----CAAAGGACAUGCCAGGAG
.((((.((....))..))))((((((.(((.(((((((.......((((....)))).))))))).((........))----..----....)))))))))..... ( -29.00)
>consensus
G_C_GAGC_GC_GCGACAGCGGCAUGAUCCAGCAAUAAUCCUUCUUUUGUCAGCAAAUUUAUUGCACACAAACAAACG____AC____CAAAGGAUAUGCCAAGAG
............((....))((((((.((((....).........(((((..((((.....))))..)))))....................)))))))))..... (-16.16 = -15.55 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:48 2006