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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_018247455.1/fasta/hub_GCA_018247455.1_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:              7120
Total size of examined sequences (bp):           2032540
Total number of identified SSRs:                 357
Number of SSR containing sequences:              268
Number of sequences containing more than 1 SSR:  53
Number of SSRs present in compound formation:    59


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

Unit size	Number of SSRs
1	72
2	95
3	21
4	52
5	70
6	47

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	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		2	3	4	2					1		1		1	1					1									1		1				1																			1	20
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-						1		1						1																																									3
G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	1		2		5	2	1		2				1						2									1						1																					18
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	3	3	2	3	2	2	1	1	3			1		1	1			1		1	1	1		1		1														1							1								31
AC	-	-	-	1	1				1											1																																																				4
AG	-	-	-	9	2	5	1																																																																	17
AT	-	-	-	8		2	1	2	1	1		1																																																												16
CT	-	-	-	5	3	3			1			1					1																																																							14
GA	-	-	-	3	2	2																																																																		7
GC	-	-	-				1																																																																	1
GT	-	-	-	1																																																																				1
TA	-	-	-	4	4	2	1		1		1		1																																																											14
TC	-	-	-	7	2	3	2																																																																	14
TG	-	-	-	4	1	1																	1																																																	7
AAC	-	-	1																																																																					1
AAG	-	-	1		1																																																																			2
AAT	-	-	1																																																																					1
AGA	-	-	1																																																																					1
ATA	-	-	1																																																																					1
ATC	-	-	1																																																																					1
ATT	-	-	2	1																																																																				3
CTA	-	-	1																																																																					1
GAA	-	-		1																																																																				1
GCG	-	-	1																																																																					1
GCT	-	-	1																																																																					1
GGA	-	-			1																																																																			1
TAT	-	-	1																																																																					1
TCA	-	-	1																																																																					1
TGT	-	-	1																																																																					1
TTA	-	-	2																																																																					2
TTC	-	-	1																																																																					1
AAAG	-	1																																																																						1
AAAT	-	3	1																																																																					4
AACA	-	2																																																																						2
AATA	-	3																																																																						3
AATG	-	1																																																																						1
AATT	-	1																																																																						1
ACTT	-	1																																																																						1
AGAA	-	1																																																																						1
ATAC	-	2																																																																						2
ATAG	-	1																																																																						1
ATTT	-	2																																																																						2
CCCG	-	1																																																																						1
GAAA	-	1																1																																																						2
GACA	-	2	1																																																																					3
GGTG	-	1																																																																						1
GTCA	-	1																																																																						1
GTTA	-	1																																																																						1
GTTC	-	1																																																																						1
TAAA	-	3																																																																						3
TACA	-	1																																																																						1
TATC	-	1																																																																						1
TATG	-	4																																																																						4
TATT	-	2																																																																						2
TCTG	-	1																																																																						1
TGAA	-	1																																																																						1
TGAC	-	1																																																																						1
TGTA	-	1																																																																						1
TGTT	-	1																																																																						1
TTAT	-	1		1																																																																				2
TTCA	-				1																																																																			1
TTTA	-	1																																																																						1
TTTC	-	1	1																																																																					2
TTTG	-				1																																																																			1
AAAAT	1																																																																							1
AAAGG												1																																																												1
AAATT	1																																																																							1
AACGT	1																																																																							1
AATTA	2																																																																							2
AATTT	1	1																																																																						2
ACCAA	1																																																																							1
ACCTA								1																																																																1
AGGTT		1																																																																						1
ATAAT	1																																																																							1
ATCAA	1																																																																							1
ATCTG	1																																																																							1
ATGTC	1																																																																							1
ATTAT	3																																																																							3
ATTTA	1																																																																							1
ATTTG	1																																																																							1
ATTTT	3																																																																							3
CACTG	1																																																																							1
CCACT	1																																																																							1
CCTTA	1																																																																							1
CGATA	1																																																																							1
CGGAA							1																																																																	1
CGGAT								1																																																																1
CTAGA	1																																																																							1
GAAAG													1																																																											1
GAACT	1																																																																							1
GCAAA	1																																																																							1
GCTTC	3																																																																							3
GGTTA	1											1																																																												2
GTATT		1																																																																						1
GTGAC	1																																																																							1
GTTAG						1																																																																		1
GTTTA	1																																																																							1
TAAAA	1																																																																							1
TAACC			1																																																																					1
TAGAC	2																																																																							2
TAGTG	1																																																																							1
TATAA	1																																																																							1
TATAG	1																																																																							1
TATAT		1																																																																						1
TATTT	1																																																																							1
TCTAC		1																																																																						1
TCTGG	1																																																																							1
TCTTT	1																																																																							1
TGGAA	1																																																																							1
TGTCA	1																																																																							1
TTAAT	1																																																																							1
TTAGG	1																																																																							1
TTATT	1																																																																							1
TTCGC	1																																																																							1
TTCTC	1																																																																							1
TTCTT	1																																																																							1
TTGAT	1																																																																							1
TTTCG		1																																																																						1
TTTCT	2																																																																							2
TTTTA	2																																																																							2
TTTTC	1																																																																							1
TTTTG	1																																																																							1
AAAATT	2																																																																							2
AAAGCC	1																																																																							1
AATGTC	1																																																																							1
ACATTT	1																																																																							1
ATATAC					1																																																																			1
ATTTGT	1																																																																							1
CACCTT	1																																																																							1
CAGCTT	1																																																																							1
CAGTGA	1									1																																																														2
CCTGTC	2			1	1	1																																																																		5
CGTCTC								1	2																																																															3
CGTGGA	1																																																																							1
CTCCGT	1																																																																							1
CTGTCA	1																																																																							1
GACACT			1																																																																					1
GAGAAG								1																																																																1
GAGGAA	2																																																																							2
TACATA			1																																																																					1
TAGTAC	1																																																																							1
TCAGCT	1																																																																							1
TCTCCT	1																																																																							1
TCTTTC	3																																																																							3
TCTTTG	1																																																																							1
TCTTTT				1																																																																				1
TGACAG	3																																																																							3
TGCGGT		1																																																																						1
TGTCAC	1																																																																							1
TGTCCT	1																																																																							1
TGTTAT	1																																																																							1
TTATCA	1																																																																							1
TTGTTT	1																																																																							1
TTTCTT		1																																																																						1
TTTTAA	1																																																																							1
TTTTTA	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	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	3	5	5	7	4	2	1	1	3	1		2		2	2			1		2	1	1		1		1			1		1				1					1							1							1	51
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	1		2		5	3	1	1	2				1	1					2									1						1																					21
AC/GT	-	-	-	6	2	1			1											1			1																																																	12
AG/CT	-	-	-	24	9	13	3		1			1					1																																																							52
AT/AT	-	-	-	12	4	4	2	2	2	1	1	1	1																																																											30
CG/CG	-	-	-				1																																																																	1
AAC/GTT	-	-	2																																																																					2
AAG/CTT	-	-	3	1	1																																																																			5
AAT/ATT	-	-	7	1																																																																				8
ACT/AGT	-	-	1																																																																					1
AGC/CTG	-	-	1																																																																					1
AGG/CCT	-	-			1																																																																			1
ATC/ATG	-	-	2																																																																					2
CCG/CGG	-	-	1																																																																					1
AAAC/GTTT	-	3			1																																																																			4
AAAG/CTTT	-	4	1															1																																																						6
AAAT/ATTT	-	15	1	1																																																																				17
AACG/CGTT	-	1																																																																						1
AACT/AGTT	-	1																																																																						1
AAGT/ACTT	-	1																																																																						1
AATG/ATTC	-	2			1																																																																			3
AATT/AATT	-	1																																																																						1
ACAG/CTGT	-	3	1																																																																					4
ACAT/ATGT	-	8																																																																						8
ACCC/GGGT	-	1																																																																						1
ACTG/AGTC	-	2																																																																						2
AGAT/ATCT	-	2																																																																						2
CCCG/CGGG	-	1																																																																						1
AAAAC/GTTTT	1																																																																							1
AAAAG/CTTTT	5																																																																							5
AAAAT/ATTTT	9																																																																							9
AAACC/GGTTT	1																																																																							1
AAACG/CGTTT		1																																																																						1
AAACT/AGTTT	1																																																																							1
AAAGC/CTTTG	1																																																																							1
AAAGG/CCTTT												1	1																																																											2
AAATC/ATTTG	3																																																																							3
AAATT/AATTT	6	1																																																																						7
AACCT/AGGTT	2	1	1			1		1				1																																																												7
AACGG/CCGTT							1																																																																	1
AACGT/ACGTT	1																																																																							1
AACTG/AGTTC	1																																																																							1
AAGAG/CTCTT	1																																																																							1
AAGCG/CGCTT	4																																																																							4
AAGGT/ACCTT	1																																																																							1
AATAC/ATTGT		1																																																																						1
AATAT/ATATT	5	1																																																																						6
AATGG/ATTCC	1																																																																							1
ACACT/AGTGT	1																																																																							1
ACATG/ATGTC	2																																																																							2
ACCAG/CTGGT	1																																																																							1
ACGAT/ATCGT	1																																																																							1
ACGTC/ACGTG	1																																																																							1
ACTAG/AGTCT	3																																																																							3
ACTAT/AGTAT	1																																																																							1
ACTCC/AGTGG	1																																																																							1
ACTCT/AGAGT		1																																																																						1
ACTGC/AGTGC	1																																																																							1
AGATC/ATCTG	1																																																																							1
ATCCG/ATCGG								1																																																																1
AAAAAC/GTTTTT	1																																																																							1
AAAAAG/CTTTTT		1		1																																																																				2
AAAAAT/ATTTTT	1																																																																							1
AAAATT/AATTTT	3																																																																							3
AAAGAC/CTTTGT	1																																																																							1
AAAGAG/CTCTTT	3																																																																							3
AAAGCC/CTTTGG	1																																																																							1
AAATAC/ATTTGT	1																																																																							1
AAATGT/ACATTT	1																																																																							1
AACAAT/ATTGTT	1																																																																							1
AACCGC/CGGTTG		1																																																																						1
AAGAGG/CCTCTT	2																																																																							2
AAGCTG/AGCTTC	2																																																																							2
AAGGAC/CCTTGT	1																																																																							1
AAGGAG/CCTTCT	1							1																																																																2
AAGGTG/ACCTTC	1																																																																							1
AATGAT/ATCATT	1																																																																							1
AATGTC/ACATTG	1																																																																							1
ACACTG/AGTGTC			1																																																																					1
ACAGGG/CCCTGT	2			1	1	1																																																																		5
ACAGTG/ACTGTC	6									1																																																														7
ACATAT/ATATGT			1		1																																																																			2
ACGGAG/CCGTCT	1							1	2																																																															4
ACGTCC/ACGTGG	1																																																																							1
ACTAGT/ACTAGT	1																																																																							1
