Locus 5372

Sequence ID	3R_DroMel_CAF1
Location	14,116,632 – 14,116,725
Length	93
Max. P	0.977292

overview

Window 4

Location	14,116,632 – 14,116,725
Length	93
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	81.78
Mean single sequence MFE	-47.78
Consensus MFE	-39.73
Energy contribution	-41.20
Covariance contribution	1.47
Combinations/Pair	1.07
Mean z-score	-2.83
Structure conservation index	0.83
SVM decision value	1.44
SVM RNA-class probability	0.954438
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14116632 93 + 27905053
--UGC-ACCGGCAUUGCCGCUGCUCAGGCCGUAGACACGAUUUUCCGCUGCAGCCUUGGAAGCAGCGGCGGAUGCCGUGGACGUCG------ACUUCUUGCG
--.((-(..((((((((((((((((((((.((((...((......)))))).))))..).))))))))).))))))((.(....).------))....))). ( -41.60)
>DroVir_CAF1 1401 96 + 1
GGAGGACACGGCAUGGCCGCUGCUCAGGCCGUAGACGCGACUCUGCACUGCGGCCUUGGAAGCAGCGGUCGUUGCCGUUCCCGAUG------ACUUCUUGCG
.(.(((.(((((((((((((((((((((((((((..(((....))).)))))))))..).))))))))))).))))))))))....------.......... ( -52.10)
>DroPse_CAF1 5505 93 + 1
--CGU-CCCGGCAUGGCCGCUGCUCAGGCCGUAGACGCGACUCUGCACUGCGGCCUUGGAAGCAGCAGCCGCUGCCGUGGACGAUG------UCUUCUUGCG
--(((-(((((((((((.((((((((((((((((..(((....))).)))))))))..).)))))).)))).))))).)))))...------.......... ( -53.40)
>DroEre_CAF1 3835 96 + 1
------GCCGGCAUUGCCGCUGCUCAGGCCGUAGACGCGAUUUUCCGCUGCGGCCUUGGAAGCAGCGGCGGAUGCCGUGGACGUGGACGUCGACUUCUUGCG
------((.(((((((((((((((((((((((((.((.(.....))))))))))))..).))))))))).))))))((.((((....)))).)).....)). ( -55.70)
>DroMoj_CAF1 1374 96 + 1
AGAGGACACGGCAUGACCGCUGCUCAGGCCGUAGACGCGAGUUUGCGCUGCGGCCUUGGAAGCAGCAGCCGUUGCCGUGGCCGACG------ACUUCUUGCG
...((.(((((((((.(.((((((((((((((((.((((....)))))))))))))..).)))))).).)).))))))).))....------.......... ( -48.50)
>DroAna_CAF1 3991 90 + 1
------UUCGGAAUGACCGCUGCUCAGACCGUAGACGCGACUCUGCGCUGCGGCCUUGGAAGCAGCGGCCGCUGCCGUCGACGUUG------ACUUCUUGCG
------...((..((.(((((((((((.((((((.((((....)))))))))).))..).)))))))).))...))((((....))------))........ ( -35.40)
>consensus
___G__CCCGGCAUGGCCGCUGCUCAGGCCGUAGACGCGACUCUGCGCUGCGGCCUUGGAAGCAGCGGCCGAUGCCGUGGACGAUG______ACUUCUUGCG
........((((((((((((((((((((((((((.((((....)))))))))))))..).))))))))))).)))))......................... (-39.73 = -41.20 +   1.47)

alignment

secondary structure

dotplot

Window 5

Location	14,116,632 – 14,116,725
Length	93
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	81.78
Mean single sequence MFE	-48.05
Consensus MFE	-41.74
Energy contribution	-41.72
Covariance contribution	-0.02
Combinations/Pair	1.21
Mean z-score	-3.70
Structure conservation index	0.87
SVM decision value	1.79
SVM RNA-class probability	0.977292
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14116632 93 - 27905053
CGCAAGAAGU------CGACGUCCACGGCAUCCGCCGCUGCUUCCAAGGCUGCAGCGGAAAAUCGUGUCUACGGCCUGAGCAGCGGCAAUGCCGGU-GCA--
(....)....------....(..(.((((((..((((((((((...((((((..(((......))).....)))))))))))))))).))))))).-.).-- ( -42.90)
>DroVir_CAF1 1401 96 - 1
CGCAAGAAGU------CAUCGGGAACGGCAACGACCGCUGCUUCCAAGGCCGCAGUGCAGAGUCGCGUCUACGGCCUGAGCAGCGGCCAUGCCGUGUCCUCC
(....)....------....((((((((((..(.(((((((((...((((((.(((((......))).)).))))))))))))))))..)))))).)))).. ( -46.70)
>DroPse_CAF1 5505 93 - 1
CGCAAGAAGA------CAUCGUCCACGGCAGCGGCUGCUGCUUCCAAGGCCGCAGUGCAGAGUCGCGUCUACGGCCUGAGCAGCGGCCAUGCCGGG-ACG--
(....)....------...(((((.(((((..(((((((((((...((((((.(((((......))).)).))))))))))))))))).)))))))-)))-- ( -55.90)
>DroEre_CAF1 3835 96 - 1
CGCAAGAAGUCGACGUCCACGUCCACGGCAUCCGCCGCUGCUUCCAAGGCCGCAGCGGAAAAUCGCGUCUACGGCCUGAGCAGCGGCAAUGCCGGC------
.((........((((....))))..((((((..((((((((((...((((((.(((((.....).)).)).)))))))))))))))).))))))))------ ( -49.60)
>DroMoj_CAF1 1374 96 - 1
CGCAAGAAGU------CGUCGGCCACGGCAACGGCUGCUGCUUCCAAGGCCGCAGCGCAAACUCGCGUCUACGGCCUGAGCAGCGGUCAUGCCGUGUCCUCU
(....)....------....((.(((((((..(((((((((((...((((((.(((((......))).)).))))))))))))))))).))))))).))... ( -52.30)
>DroAna_CAF1 3991 90 - 1
CGCAAGAAGU------CAACGUCGACGGCAGCGGCCGCUGCUUCCAAGGCCGCAGCGCAGAGUCGCGUCUACGGUCUGAGCAGCGGUCAUUCCGAA------
(....)..((------(......)))((.((.(((((((((((...((((((.(((((......))).)).))))))))))))))))).))))...------ ( -40.90)
>consensus
CGCAAGAAGU______CAACGUCCACGGCAACGGCCGCUGCUUCCAAGGCCGCAGCGCAAAGUCGCGUCUACGGCCUGAGCAGCGGCCAUGCCGGG__C___
(....)...................(((((..(((((((((((...((((((.(((((......))).)).))))))))))))))))).)))))........ (-41.74 = -41.72 +  -0.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:10 2006