Locus 2649

Sequence ID	X_DroMel_CAF1
Location	7,084,773 – 7,084,915
Length	142
Max. P	0.730926

overview

Window 8

Location	7,084,773 – 7,084,881
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.31
Mean single sequence MFE	-51.60
Consensus MFE	-28.55
Energy contribution	-28.66
Covariance contribution	0.11
Combinations/Pair	1.26
Mean z-score	-2.17
Structure conservation index	0.55
SVM decision value	0.42
SVM RNA-class probability	0.730926
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7084773 108 + 22224390
UGCCCUUCAGCGUGCCCUCGACUCUGGAGAAGCACAUGCGCAAGUGCGUUGUCAACCAGGGCAAGGCGGCGGCGGCUG---CA---------AAUGCGGUGGCCGCCGCUCAGGCGGCAC
(((((((.(((..(((...(.((((((....(((.(((((....))))))))...)))))))..)))((((((.((((---(.---------...))))).))))))))).))).)))). ( -55.20)
>DroGri_CAF1 173272 119 + 1
UGCCCUUCAGCGUCCCCUCCACCCUCGAGAAGCACAUGCGCAAGUGUGUCGUCAAUCAGGGCAAGGCGGCAGCAGCUGCUGCAAAUGCGGCCAAUGCUGUUGCCGCUGCCCAAGCCGCC-
.........(((..............((...((((((((....)))))).))...)).(((((..(((((((((((.(((((....)))))....))))))))))))))))....))).- ( -53.40)
>DroWil_CAF1 168047 105 + 1
UGCCAUUCAGUGUGCCCUCCACCCUGGAGAAGCAUAUGCGAAAAUGUGUGGUCAAUCAGGGUAAGGCAGCGGCG---G---CA---------AAUGCCGUGGCGGCGGCCCAAGCAGCCC
.(((........((((....(((((((.((.((((((......))))))..))..)))))))..))))((.(((---(---(.---------...))))).)))))(((.......))). ( -44.30)
>DroYak_CAF1 77262 108 + 1
UGCCAUUCAGUGUGCCCUCGACGCUGGAGAAGCACAUGCGCAAGUGCGUCGUCAAUCAGGGCAAGGCGGCGGCGGCUG---CC---------AAUGCGGUUGCUGCCGCUCAGGCGGCAC
((((........((((((((((((((........)).((....))))))))......)))))).((((((((((((((---(.---------...))))))))))))))).....)))). ( -54.90)
>DroMoj_CAF1 177633 119 + 1
UGCCCUUCAGCGUGCCCUCCACCCUCGAGAAGCACAUGCGCAAGUGCGUCGUCAACCAGGGCAAGGCGGCGGCCGCUGCGGCGAACGCGGCGAAUGCUGUGGCUGCUGCCCAGGCAGCC-
((((((.....((((.(((.......)))..))))..((((....))))........))))))..((((((..(((((((.....)))))))..))))))(((((((.....)))))))- ( -55.30)
>DroAna_CAF1 118131 108 + 1
UGCCCUUCAGCGUCCCCUCCACCCUCGAGAAGCACAUGCGCAAGUGCGUCGUCAACCAGGGCAAGGCCGCCGCGGCCG---CC---------AAUGCCGUGGCAGCUGCCCAAGCGGCCC
((((((...(((.(..(((.......)))..((((........))))).))).....)))))).((((((((((((..---..---------...)))))))).(((.....))))))). ( -46.50)
>consensus
UGCCCUUCAGCGUGCCCUCCACCCUCGAGAAGCACAUGCGCAAGUGCGUCGUCAACCAGGGCAAGGCGGCGGCGGCUG___CA_________AAUGCCGUGGCCGCUGCCCAAGCGGCCC
.........((((((.(((.......)))..))))..((((....)))).........((((..((((((.((.((...................)).)).))))))))))..))..... (-28.55 = -28.66 +   0.11)

alignment

secondary structure

dotplot

Window 9

Location	7,084,813 – 7,084,915
Length	102
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.00
Mean single sequence MFE	-52.08
Consensus MFE	-27.93
Energy contribution	-28.77
Covariance contribution	0.84
Combinations/Pair	1.31
Mean z-score	-2.17
Structure conservation index	0.54
SVM decision value	0.38
SVM RNA-class probability	0.713222
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7084813 102 + 22224390
CAAGUGCGUUGUCAACCAGGGCAAGGCGGCGGCGGCUGCAAAUGCGGUGGCCGCCGCUCAGGCGGCACAGGCUGCAGCGCAGCACAUCCAGGCCGCUG------CCCA
..................((((..(((((((((.(((((....))))).)))))))))..((((((....(((((...)))))........)))))))------))). ( -57.10)
>DroPse_CAF1 26310 102 + 1
GAAGUGUGUCGUGAACCAGGGCAAGGCGGCAGCCGCCGCCAAUGCCGUGGCCGCUGCCCAGGCCGCCCAAGCCGCCGCCCAGCAGCUCCAGGCAGCCG------CCCA
..................((((..((((((.(((((.((....)).))))).))))))..(((.(((..(((.((......)).)))...))).))))------))). ( -48.30)
>DroWil_CAF1 168087 99 + 1
AAAAUGUGUGGUCAAUCAGGGUAAGGCAGCGGCG---GCAAAUGCCGUGGCGGCGGCCCAAGCAGCCCAGGCGGCUGCCCAACAGAUCCAGGCGGCGG------CCCA
......((.(((......((((...((.((.(((---((....))))).)).)).)))).....)))))(((.((((((...........)))))).)------)).. ( -43.20)
>DroYak_CAF1 77302 102 + 1
CAAGUGCGUCGUCAAUCAGGGCAAGGCGGCGGCGGCUGCCAAUGCGGUUGCUGCCGCUCAGGCGGCACAGGCUGCAGCGCAACACAUCCAGGCCGCCG------CCCA
..................((((..(((((((((((((((....)))))))))))))))..((((((...((.((..........)).))..)))))))------))). ( -52.60)
>DroAna_CAF1 118171 108 + 1
CAAGUGCGUCGUCAACCAGGGCAAGGCCGCCGCGGCCGCCAAUGCCGUGGCAGCUGCCCAAGCGGCCCAGGCGGCCGCCCAGCAACUGCAGGCGGCGGCAGCCGUCCA
..................((((..(((.((((((((((((...((((((((....)))...)))))...)))))))(((..((....)).))).))))).))))))). ( -58.40)
>DroPer_CAF1 24247 102 + 1
GAAGUGUGUCGUGAACCAGGGCAAGGCGGCAGCCGCCGCCAAUGCCGUGGCCGCUGCCCAGGCCGCCCAAGCUGCCGCCCAGCAGCUCCAGGCAGCCG------CCCA
..................((((..((((((.(((((.((....)).))))).))))))..(((.(((..((((((......))))))...))).))))------))). ( -52.90)
>consensus
CAAGUGCGUCGUCAACCAGGGCAAGGCGGCGGCGGCCGCCAAUGCCGUGGCCGCUGCCCAGGCGGCCCAGGCUGCCGCCCAGCAGAUCCAGGCAGCCG______CCCA
.....(((((........((((..((((((....))))))...((((((((.(((.....))).)))...))))).))))..........))).))............ (-27.93 = -28.77 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:04 2006