Specifications
==============

Sequence source file: "/home/zmahmoud/github-projects/africandsi-megassr/laptop_run_20261012/work/megassr-local-21/megassr/results/hub_GCA_049634765.1/fasta/hub_GCA_049634765.1_genomic.fa"

Definement of microsatellites (unit size / minimum number of repeats):
(1/20) (2/6) (3/5) (4/4) (5/3) (6/3) 

Maximal number of bases interrupting 2 SSRs in a compound microsatellite:  100



RESULTS OF MICROSATELLITE SEARCH
================================

Total number of sequences examined:              17122
Total size of examined sequences (bp):           12479049
Total number of identified SSRs:                 244
Number of SSR containing sequences:              231
Number of sequences containing more than 1 SSR:  12
Number of SSRs present in compound formation:    7


Distribution to different repeat type classes
---------------------------------------------

Unit size	Number of SSRs
2	34
3	39
4	41
5	96
6	34

Frequency of identified SSR motifs
----------------------------------

Repeats	3	4	5	6	7	8	9	10	11	12	total
AC	-	-	-				1	1			2
AG	-	-	-	2	3						5
AT	-	-	-	3							3
CA	-	-	-	1	1						2
CT	-	-	-	1						1	2
GA	-	-	-	1	1	2	1				5
GT	-	-	-		1			1			2
TA	-	-	-	3	1	1					5
TC	-	-	-	3	1	1	1				6
TG	-	-	-	1		1					2
AAG	-	-	2	2	1	1					6
AAT	-	-	1								1
ACC	-	-	1								1
ATA	-	-	1								1
ATC	-	-	1								1
ATG	-	-	3								3
ATT	-	-	1								1
CAC	-	-		1							1
CTT	-	-	2			1					3
GCA	-	-	1								1
TAA	-	-			1	1					2
TAT	-	-	1								1
TCA	-	-	1								1
TCT	-	-	1	1	2						4
TGA	-	-	1								1
TGT	-	-	1								1
TTA	-	-	3								3
TTC	-	-	2	2	2	1					7
AAAT	-	3	1								4
AATT	-	1									1
ACAG	-	1									1
ACTT	-	1									1
ATAA	-	1	1								2
ATCA	-	1									1
ATGA	-		2								2
ATGC	-	1									1
ATTA	-	1									1
ATTT	-	4	2								6
CCTT	-	1									1
CTAT	-	1									1
CTTA	-	1									1
GTTT	-	1									1
TAAA	-	5									5
TAAG	-	1	2								3
TATT	-	2									2
TTAA	-	1									1
TTAT	-	1									1
TTTA	-	3									3
TTTG	-	2									2
AAAAC	1										1
AAAAG	1										1
AAAAT	1	1									2
AAAGT	2										2
AAATA	1	1									2
AAATT	1										1
AACGC	1										1
AAGAA	3										3
AATGA	1										1
AATTT	2										2
ACAAA	1										1
ACTAT	2										2
AGAAG	1										1
AGACA	1										1
AGATA	1										1
AGCCG		1									1
AGCTT	1										1
ATAAT	1										1
ATTAA	2										2
ATTTG	1										1
ATTTT	1										1
CAAAC	1										1
CAATA	1										1
CACCA	1										1
CAGCG	1										1
CATTA	1										1
CCTGC	1										1
CTAAT	1										1
CTGAT			1								1
CTTAG	1										1
GAAAA	1										1
GAAAG	1										1
GAACA	1										1
GAAGT	1										1
GAATA	1										1
GACTT	1										1
GATCT	1										1
GGATT	1										1
GTGAA	1										1
GTTCA	2										2
GTTGA	1										1
TAAAA	5										5
TAAAT		1									1
TAATA	1										1
TAATG	1										1
TAATT	1										1
TATAT		1									1
TATGG	1										1
TATTG		1									1
TATTT	3										3
TCTTG	1										1
TGAAG	1										1
TGTAT		1									1
TGTTA	1										1
TGTTT	1										1
TTAAA	4										4
TTAAT	2										2
TTAGT	1										1
TTCAT	1										1
TTCTT	1										1
TTTAA	5										5
TTTAT	4										4
TTTCT	2										2
TTTTA	4	1									5
TTTTC	1										1
AAAAAT	1										1
AAATAA	1										1
AATAAA	1										1
AATTAA	2										2
ACTATT		1									1
AGAAAT	1										1
AGTAAA	1										1
AGTCGT	1										1
ATACTA	1										1
ATCACT	1										1
ATGTGG	1										1
ATTGAA	1										1
ATTGTT	1										1
ATTTGT		1									1
ATTTTA	2										2
CCACAG	1										1
CTAGTC	1										1
CTTAAC	1										1
GATGAA	1										1
GCTGTT		1									1
GGAGGC	1										1
GTTAAA	1										1
TAAAAC	1										1
TATAAA	1										1
TCTAAA	1										1
TTAAAA	2										2
TTACCG	1										1
TTAGTT	1										1
TTCGAC	1										1
TTTTCA	1										1
TTTTTA	1										1

Frequency of classified repeat types (considering sequence complementary)
-------------------------------------------------------------------------

Repeats	3	4	5	6	7	8	9	10	11	12	total
AC/GT	-	-	-	2	2	1	1	2			8
AG/CT	-	-	-	7	5	3	2			1	18
AT/AT	-	-	-	6	1	1					8
AAC/GTT	-	-	1								1
AAG/CTT	-	-	7	5	5	3					20
AAT/ATT	-	-	7		1	1					9
ACC/GGT	-	-	1	1							2
AGC/CTG	-	-	1								1
ATC/ATG	-	-	6								6
AAAC/GTTT	-	3									3
AAAT/ATTT	-	19	4								23
AAGG/CCTT	-	1									1
AAGT/ACTT	-	3	2								5
AATC/ATTG	-	1									1
AATG/ATTC	-		2								2
AATT/AATT	-	3									3
ACAG/CTGT	-	1									1
AGAT/ATCT	-	1									1
ATGC/ATGC	-	1									1
AAAAC/GTTTT	3										3
AAAAG/CTTTT	9										9
AAAAT/ATTTT	19	3									22
AAACC/GGTTT	1										1
AAACT/AGTTT	1										1
AAAGG/CCTTT	1										1
AAAGT/ACTTT	2										2
AAATC/ATTTG	1										1
AAATG/ATTTC	2										2
AAATT/AATTT	17	1									18
AACAG/CTGTT	1										1
AACAT/ATGTT	1										1
AACGC/CGTTG	1										1
AACTC/AGTTG	1										1
AACTG/AGTTC	2										2
AAGAC/CTTGT	2										2
AAGAG/CTCTT	1										1
AAGAT/ATCTT	1										1
AAGCT/AGCTT	2										2
AAGTC/ACTTG	1										1
AAGTG/ACTTC	3										3
AATAC/ATTGT	1	2									3
AATAG/ATTCT	1										1
AATAT/ATATT	2	1									3
AATCC/ATTGG	1										1
AATCT/AGATT	1										1
AATGT/ACATT	2										2
ACACC/GGTGT	1										1
ACCAT/ATGGT	1										1
ACTAT/AGTAT	2										2
AGATC/ATCTG	1		1								2
AGCCG/CGGCT		1									1
AGCGC/CGCTG	1										1
AGGGC/CCCTG	1										1
AAAAAT/ATTTTT	4										4
AAAACT/AGTTTT	2										2
AAAAGT/ACTTTT	1										1
AAAATG/ATTTTC	1										1
AAAATT/AATTTT	6										6
AAAGTT/AACTTT	1										1
AAATAC/ATTTGT		1									1
AAATAG/ATTTCT	1										1
AAATAT/ATATTT	1										1
AAATCT/AGATTT	1										1
AAATTG/AATTTC	1										1
AACAAT/ATTGTT	1										1
AACAGC/CTGTTG		1									1
AACCTT/AAGGTT	1										1
AACGGT/ACCGTT	1										1
AAGATG/ATCTTC	1										1
AAGTCG/ACTTCG	1										1
AATACT/AGTATT	1										1
AATAGT/ACTATT		1									1
ACAGCC/CTGTGG	1										1
ACATCC/ATGTGG	1										1
ACGACT/AGTCGT	1										1
ACTAGG/AGTCCT	1										1
ACTATC/AGTGAT	1										1
AGGCGG/CCGCCT	1										1
