Frequency of Tandem Repeats in Cyanobacteria

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Frequency of Tandem Repeats in Cyanobacteria
Nostoc punctiforme
Anabaena PCC 7120
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Tandem Repeats in CyanobacteriaWhat are they?
Total observed heptamers in chromosome 1110
Total types of heptamers
1170
If random, predict 1 observed heptamer per type
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Observed Number of Repeats per Type
Heptameric / octomeric repeats come in families
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Observed Number of Repeats per TypeMajor types
Anabaena Nostoc
Family Rank Observed Rank Observed
STRR1 AATCCCC 3 101 18 21 AGTCCCC 4 69 23 15 AT
TCCCC 25 9 5 58
AdTCCCC 179 94
Nomenclature and first observation by Mazel
et al (1990) J Bacteriol 1722755-2761
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Observed Number of Repeats per TypeMajor types
Anabaena Nostoc
Superfamily Rank Observed Rank Observed
STRR1 AdTCCCC 179 94 STRR2 AATGACh 80 290 ACT
GACh 141 4 STRR7 AAAATyy 121 78 STRR9 ArGGGTGT
119 1 STRR5 AATTACG 17 65 STRR6 AGCAGGGG 8
59 STRR8 ACTChTA 1 65
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Location of heptamers/octamers in genome
Number of hepta-/octamers
1 gt6
chromosome 6414 kb
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Location of 9-mers/12-mers in genome
Number of 9-/12-mers
1 gt6
chromosome 6414 kb
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MiniTransposon in genome of Anabaena
Transposon in genome of Anabaena
Iterated sequence in genome of Anabaena
Strr9 direct
Strr9 complement
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Alignment of NIS-1
(271 more)
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Filters Information reducersBuild secondary
repeats filter
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Filters Information reducersBuild secondary
repeats filter
Distance 2
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Filters Information reducersBuild secondary
repeats filter
B CTTGTACTGAGCGTAGCCGAAGTA C GTTCGACTGAGCGTAGTCG
AAGTC
Do for all pairs of subfamilies
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Relationship between related repeats in
genome(sequences within NIS-1 repeat family)
Diameter Copies of exact repeats
Distance Number of mismatches
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