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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_026724375.1/fasta/hub_GCA_026724375.1_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:              558
Total size of examined sequences (bp):           8658390
Total number of identified SSRs:                 575
Number of SSR containing sequences:              89
Number of sequences containing more than 1 SSR:  55
Number of SSRs present in compound formation:    50


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

Unit size	Number of SSRs
1	1
2	121
3	44
4	38
5	238
6	133

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

Repeats	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-			1	1
AC	-	-	-			1															1
AT	-	-	-	22	11	9	4	1													47
CG	-	-	-		2																2
CT	-	-	-	1																	1
GT	-	-	-			1															1
TA	-	-	-	32	18	14	1	2													67
TC	-	-	-	1																	1
TG	-	-	-	1																	1
AAC	-	-	2	1																	3
AAT	-	-	8																		8
ACT	-	-		1																	1
AGG	-	-	1																		1
AGT	-	-	1																		1
ATA	-	-	2		1																3
ATT	-	-	2																		2
CAA	-	-	2																		2
CAC	-	-		1																	1
CAT	-	-	3																		3
CTA	-	-	1																		1
GAA	-	-	1																		1
GAT	-	-	1	1																	2
GTT	-	-		1																	1
TAA	-	-	2	1																	3
TAG	-	-	2																		2
TAT	-	-	3																		3
TCA	-	-			1																1
TCC	-	-	1																		1
TGT	-	-	1																		1
TTA	-	-	1																		1
TTC	-	-	2																		2
AAAT	-	7	1																		8
AATA	-	2	1																		3
AATT	-	5	1																		6
ACTT	-	1																			1
ATAA	-	1																			1
ATTA	-	1																			1
ATTT	-	4																			4
GCCC	-		1																		1
GTAT	-	1																			1
TAAA	-	1																			1
TAAC	-	1																			1
TAAT	-	2																			2
TATT	-	2																			2
TGTT	-	1																			1
TTAA	-	3																			3
TTTA	-	2																			2
AAAAT	14																				14
AAATA	3	1																			4
AACAA		1																			1
AAGAA	1																				1
AAGTA	1																				1
AATAA	2																				2
AATGT	2																				2
AATTA	3																				3
ACATT	1																				1
ACCAT	1																				1
ACTAT	2	1																			3
AGAAG	1																				1
AGTAT	3																				3
ATAAA	3																				3
ATAAT	1																				1
ATACT	4																				4
ATAGT	11	1																			12
ATATA	3	1																			4
ATATC	1																				1
ATATT	2																				2
ATGTA	7																				7
ATTAA	2																				2
ATTAC	31	3																			34
ATTAT	2																				2
ATTTA	4																				4
ATTTT	2																				2
CAAAA	2																				2
CAACA	1																				1
CATTA	1																				1
CTATA	2																				2
GAATT	1																				1
GAGTG	1																				1
GGCGC	1																				1
GGGGT	1																				1
GTAAT	10																				10
GTATA	2	1																			3
GTATG	2																				2
GTTCA			1																		1
TAAAA	5																				5
TAAAT	3																				3
TAAGT	2																				2
TAATA	2																				2
TAATG	2																				2
TACTA	10	1																			11
TAGTA	2																				2
TATAA	4																				4
TATAC	3																				3
TATAG	5																				5
TATAT	7																				7
TATGT	3																				3
TATTC	1																				1
TATTT	7																				7
TGTGT	1																				1
TTAAA	3																				3
TTAAT	2	1																			3
TTACA		1																			1
TTAGA	4																				4
TTATA	1																				1
TTATC	1																				1
TTATG	1																				1
TTATT	4																				4
TTGGT			3																		3
TTGTG	1																				1
TTTAA	2																				2
TTTAT	7	1																			8
TTTCT	1																				1
TTTTA	6																				6
AAAAAT	1																				1
AAAAGA	1																				1
AAAATA	1																				1
AAATAT	2																				2
AAATGA	1																				1
AAATTA	1																				1
AACACT	1																				1
AACCTG		1																			1
AAGAAA	2																				2
AATACT	2																				2
AATAGT	1																				1
AATTTT		1																			1
ACACTA		1																			1
ACCAAT		1																			1
ACTAAG	1																				1
ACTATA					1																1
ACTATT	1																				1
AGAATG	1																				1
AGGGAG	3																				3
AGTGGT	1																				1
AGTTCC	1																				1
AGTTTG	1																				1
ATAAAT	1																				1
ATACCA	1																				1
ATACTA	1																				1
ATATAA	1																				1
ATATTT			1																		1
ATTATA	1																				1
CAAAAA	1																				1
CAAACT	1			1																	2
CAACCA	1																				1
CAACCT	1			1																	2
CAACTT			1																		1
CCACTA						1															1
CCTCAG		1																			1
CTATCT		1																			1
CTCAAA		2																			2
CTCCCT	6																				6
CTCCTA	1																				1
CTCTCC	1																				1
CTCTTA	1																				1
CTTACT	1																				1
GAAGTA	1																				1
GACCTT	1																				1
GAGCCT	1																				1
GAGGAA	1																				1
GAGTTA	1																				1
GAGTTG	1																				1
GATGAC	1																				1
GCAACT	1																				1
GGAGAA	1																				1
GGGAGA	2																				2
GGTGGA	1																				1
GGTTGA	2																				2
GGTTGT		3																			3
GTATTA	1																				1
GTGGAG	1																				1
GTGGTT	1																				1
GTGTTA	1																				1
GTGTTG		1																			1
GTTGAG	1																				1
GTTGTA	1																				1
GTTGTG	1																				1
GTTTGG	1																				1
GTTTTG	1																				1
TAAAAA	1																				1
TAATGA	1																				1
TACTAT	2	1																			3
TAGTAT	1			1																	2
TATAAA	1																				1
TATATT	2																				2
TATGAA	1																				1
TATGAT	1																				1
TATTAC					1																1
TATTAG	1																				1
TCAACC	1		1																		2
TCACAA	1																				1
TCATCC	2																				2
TCTCAC		1																			1
TCTCCC	1																				1
TCTGAA	2																				2
TCTGAG	1																				1
TCTGCT	1																				1
TCTTCA	1																				1
TGAAGA			1																		1
TGACAG	1																				1
TGAGAA	2																				2
TGAGGT	1																				1
TGATGT	1																				1
TGGGTG	1																				1
TGTATA	1																				1
TTAATT	1																				1
TTACTA	1																				1
TTAGTC		1																			1
TTATCT	1																				1
TTCAGG	1																				1
TTCATC		1																			1
TTCATT		1																			1
TTCCTT	1																				1
TTGAGG	2																				2
TTGTGG			1																		1
TTTATT	3																				3
TTTTAT	1																				1
TTTTTA	2																				2

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

Repeats	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-			1	1
AC/GT	-	-	-	1		2															3
AG/CT	-	-	-	2																	2
AT/AT	-	-	-	54	29	23	5	3													114
CG/CG	-	-	-		2																2
AAC/GTT	-	-	5	2																	7
AAG/CTT	-	-	3																		3
AAT/ATT	-	-	18	1	1																20
ACC/GGT	-	-		1																	1
ACT/AGT	-	-	4	1																	5
AGG/CCT	-	-	2																		2
ATC/ATG	-	-	4	1	1																6
AAAC/GTTT	-	1																			1
AAAT/ATTT	-	19	2																		21
AACT/AGTT	-	1																			1
AAGT/ACTT	-	1																			1
AATT/AATT	-	11	1																		12
ACAT/ATGT	-	1																			1
CCCG/CGGG	-		1																		1
AAAAC/GTTTT	2	1																			3
AAAAG/CTTTT	2																				2
AAAAT/ATTTT	53	2																			55
AAACC/GGTTT			3																		3
AAAGT/ACTTT	1																				1
AAATT/AATTT	19	1																			20
AACAC/GTGTT	3																				3
AACAT/ATGTT	4																				4
AACTG/AGTTC			1																		1
AACTT/AAGTT	2																				2
AAGAG/CTCTT	1																				1
AAGAT/ATCTT	1																				1
AATAG/ATTCT	1																				1
AATAT/ATATT	22	1																			23
AATCT/AGATT	4																				4
AATGT/ACATT	54	4																			58
AATTC/AATTG	1																				1
ACCAT/ATGGT	3																				3
ACCCC/GGGGT	1																				1
ACTAT/AGTAT	44	4																			48
ACTCC/AGTGG	1																				1
ATATC/ATATG	1																				1
CCGCG/CGCGG	1																				1
AAAAAC/GTTTTT	1																				1
AAAAAG/CTTTTT	3																				3
AAAAAT/ATTTTT	9																				9
AAAACC/GGTTTT	1																				1
AAAAGG/CCTTTT	1																				1
AAAATG/ATTTTC	1	1																			2
AAAATT/AATTTT	2	1																			3
AAACCC/GGGTTT	1																				1
AAACTC/AGTTTG	2	2		1																	5
AAAGAT/ATCTTT	1																				1
AAATAT/ATATTT	7		1																		8
AACACC/GGTGTT		1																			1
AACACT/AGTGTT	2	1																			3
AACATC/ATGTTG	1																				1
AACCAC/GGTTGT	3	3	1																		7
AACCTC/AGGTTG	8		1	1																	10
AACCTG/AGGTTC	1	1																			2
AACTAC/AGTTGT	1																				1
AACTAT/AGTTAT					1																1
AACTCC/AGTTGG	1																				1
AACTCT/AGAGTT	1																				1
AACTGC/AGTTGC	1																				1
AACTGG/AGTTCC	1																				1
AACTTC/AAGTTG			1																		1
AAGACT/AGTCTT	1	1																			2
AAGAGG/CCTCTT	1																				1
AAGAGT/ACTCTT	2																				2
AAGATG/ATCTTC	1	1	1																		3
AAGCAG/CTGCTT	1																				1
AAGGAG/CCTTCT	1																				1
AAGGTC/ACCTTG	1																				1
AAGTAG/ACTTCT	1																				1
AATACC/ATTGGT	1	1																			2
AATACT/AGTATT	6			1																	7
AATAGT/ACTATT	5	1			1																7
AATATG/ATATTC	1																				1
AATCAC/ATTGTG	1																				1
AATCAT/ATGATT	1																				1
AATCTG/AGATTC	2																				2
AATGAG/ATTCTC	3																				3
AATGAT/ATCATT	1																				1
AATTAT/AATTAT	1																				1
ACACCC/GGGTGT	1																				1
ACAGTG/ACTGTC	1																				1
ACATAT/ATATGT	1																				1
ACCACT/AGTGGT	1					1															2
ACCTCC/AGGTGG	2																				2
ACGATG/ATCGTC	1																				1
ACTCAG/AGTCTG	1																				1
ACTCCT/AGGAGT	1																				1
ACTCTC/AGAGTG		1																			1
AGAGAT/ATCTCT		1																			1
AGAGGG/CCCTCT	13																				13
AGCCTC/AGGCTG		1																			1
AGCCTG/AGGCTC	1																				1
AGGATG/ATCCTC	2																				2
