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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_001650055.1/fasta/hub_GCA_001650055.1_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:              234
Total size of examined sequences (bp):           6630005
Total number of identified SSRs:                 388
Number of SSR containing sequences:              104
Number of sequences containing more than 1 SSR:  61
Number of SSRs present in compound formation:    58


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

Unit size	Number of SSRs
2	197
3	64
4	49
5	45
6	33

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	23	24	25	26	27	28	29	30	31	32	33	34	35	36	37	38	39	40	total
AC	-	-	-	4	2		1								2	1	1	2																					13
AG	-	-	-	1	1			1			1							1		1				1															7
AT	-	-	-	14	17	29	22	9	1			1																											93
CA	-	-	-	1	2	1						2	1																										7
CT	-	-	-	1		2																																	3
GA	-	-	-			1			1																														2
GT	-	-	-	2		1				1					1																								5
TA	-	-	-	19	11	12	7	2																															51
TC	-	-	-		1							1				1																						1	4
TG	-	-	-	1	2	2	1	1		1	2		1					1																					12
AAC	-	-	1																																				1
AAG	-	-		1																																			1
AAT	-	-	4	1																																			5
ACT	-	-													1																								1
AGG	-	-	2																																				2
ATA	-	-	4	2																																			6
ATC	-	-	2			2																																	4
ATT	-	-	2																																				2
CAA	-	-	1	1			1																																3
CTC	-	-	1	1																																			2
CTT	-	-	1																							1	1												3
GAA	-	-	1																																				1
GAG	-	-				1																																	1
GAT	-	-	1																																				1
GCT	-	-	2																																				2
GTA	-	-	1	1																																			2
TAA	-	-	3				1																																4
TAG	-	-	1																																				1
TAT	-	-	5	3	1																																		9
TCA	-	-		1																																			1
TCT	-	-	1	1											1																								3
TGA	-	-	1																																				1
TTA	-	-	3	1	1																																		5
TTC	-	-	1	1																																			2
TTG	-	-	1																																				1
AAAT	-	2																																					2
AACA	-	1																																					1
AATA	-	1	1																																				2
AATC	-	1																																					1
AATG	-	1																																					1
AATT	-	2																																					2
ACAT	-	1																																					1
ATAA	-				2																																		2
ATTA	-	1	1																																				2
ATTT	-	2			1																																		3
CAAC	-	7		1	1																																		9
CATA	-	1																																					1
CTGC	-												1																										1
CTGT	-	1						1																															2
GACA	-		1																																				1
GTTA	-		1																																				1
GTTT	-		1																																				1
TAAT	-	1																																					1
TACC	-	1																																					1
TATT	-	1																																					1
TCTG	-				1																																		1
TCTT	-								1																														1
TGCC	-		1																																				1
TGTA	-	1																																					1
TTAA	-	1																																					1
TTAT	-		1		1																																		2
TTCT	-	1		1																																			2
TTGT	-		1																																				1
TTTA	-	2																																					2
TTTG	-	1																																					1
AAAAC			1																																				1
AAAAT		1																																					1
AAATA	2																																						2
AATAT			1																																				1
ACACA	1																																						1
ACCCT	1																																						1
ATAAA	1																																						1
ATAAT	1																																						1
ATAGT	1	6	5																																				12
ATATA	1		1		1																																		3
ATGTA	1																																						1
ATTTC	1																																						1
CTATA	1																																						1
GAAAA		1																																					1
GCACA	1																																						1
TAATA	1																																						1
TACTA	1																																						1
TAGTA		1																																					1
TATAG	1																																						1
TATAT	1																																						1
TATTA		2																																					2
TGTTG	1																																						1
TGTTT	1																																						1
TTAAA	1																																						1
TTATA	2																																						2
TTTAA	1																																						1
TTTCT	1																																						1
TTTGG	1																																						1
TTTTG	1																																						1
AATATA	1																																						1
AATGAT	1																																						1
ACAGAG	1																																						1
AGGGAC	1																																						1
AGGGGC	1																																						1
AGGTCA		1																																					1
AGTATC	1																																						1
AGTTCT			1																																				1
ATATAA		1																																					1
ATATGT	1																																						1
ATGAGG	1																																						1
ATGTGT		1																																					1
ATTTGT		1																																					1
CAAATA	1																																						1
CCTATA	1																																						1
CCTTAT	1																																						1
CTATCC	1			1																																			2
GAGGAA			1																																				1
GGCGGG	1																																						1
GGTATA	1																																						1
GTATAT	2																																						2
TAAATA	1																																						1
TACATA	1																																						1
TATATC	1																																						1
TCTTCA	1																																						1
TCTTCC	1																																						1
TGAAAT	1																																						1
TTATAG			1																																				1
TTATTC	1																																						1
TTTAGG	1																																						1
TTTTTC		1																																					1

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	23	24	25	26	27	28	29	30	31	32	33	34	35	36	37	38	39	40	total
AC/GT	-	-	-	8	6	4	2	1		2	2	2	2		3	1	1	3																					37
AG/CT	-	-	-	2	2	3		1	1		1	1				1		1		1				1														1	16
AT/AT	-	-	-	33	28	41	29	11	1			1																											144
AAC/GTT	-	-	3	1			1																																5
AAG/CTT	-	-	4	3											1											1	1												10
AAT/ATT	-	-	21	7	2		1																																31
ACT/AGT	-	-	2	1											1																								4
AGC/CTG	-	-	2																																				2
AGG/CCT	-	-	3	1		1																																	5
ATC/ATG	-	-	4	1		2																																	7
AAAC/GTTT	-	2	2																																				4
AAAG/CTTT	-	1		1					1																														3
AAAT/ATTT	-	8	2		4																																		14
AACC/GGTT	-	7		1	1																																		9
AACT/AGTT	-		1																																				1
AATC/ATTG	-	1																																					1
AATG/ATTC	-	1																																					1
AATT/AATT	-	5	1																																				6
ACAG/CTGT	-	1	1		1			1																															4
ACAT/ATGT	-	3																																					3
ACCT/AGGT	-	1																																					1
AGGC/CCTG	-		1										1																										2
AAAAC/GTTTT	2		1																																				3
AAAAG/CTTTT	1	1																																					2
AAAAT/ATTTT	3	1																																					4
AAACC/GGTTT	1																																						1
AAATG/ATTTC	1																																						1
AAATT/AATTT	2																																						2
AACAC/GTGTT	2																																						2
AATAT/ATATT	6	2	2		1																																		11
AATGT/ACATT	1																																						1
ACAGC/CTGTG	1																																						1
ACCCT/AGGGT	1																																						1
ACTAT/AGTAT	4	7	5																																				16
AAAAAG/CTTTTT		1																																					1
AAACCT/AGGTTT	1																																						1
AAATAC/ATTTGT	1	1																																					2
AAATAT/ATATTT	2	1																																					3
AAATTG/AATTTC	1																																						1
AACTAG/AGTTCT			1																																				1
AACTAT/AGTTAT			1																																				1
AAGAAT/ATTCTT	1																																						1
AAGAGG/CCTCTT	1		1																																				2
AAGATG/ATCTTC	1																																						1
AAGGAT/ATCCTT	1																																						1
AAGGTC/ACCTTG		1																																					1
AATGAT/ATCATT	1																																						1
ACACAT/ATGTGT		1																																					1
ACAGAG/CTCTGT	1																																						1
ACAGGG/CCCTGT	1																																						1
ACATAT/ATATGT	4																																						4
ACCTAT/AGGTAT	2																																						2
ACTGAT/AGTATC	1																																						1
AGATAT/ATATCT	1																																						1
AGGATG/ATCCTC	1																																						1
AGGGAT/ATCCCT	1			1																																			2
AGGGGC/CCCCTG	1																																						1
CCCCCG/CGGGGG	1																																						1
