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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_018245975.1/fasta/hub_GCA_018245975.1_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:              10092
Total size of examined sequences (bp):           3887442
Total number of identified SSRs:                 755
Number of SSR containing sequences:              581
Number of sequences containing more than 1 SSR:  112
Number of SSRs present in compound formation:    123


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

Unit size	Number of SSRs
1	63
2	243
3	60
4	113
5	237
6	39

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	74	75	76	77	78	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	4	2	4	1	3		1	2		1	1	1									2													1				1																					1	25
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	1	1	1					1																																																				4
G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-																												1																																1
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	5	2	2	2	1	4	1		3			1		1			1			1	1	1	2							2		1										1										1								33
AC	-	-	-	5	2		3	2		1					1																																																														14
AG	-	-	-	2	2	2			1																																																																				7
AT	-	-	-	21	13	15	12	10	5	1	1		1	1				1																																																											81
CA	-	-	-	5			2	1			1																																																																		9
CT	-	-	-	5	1		2			1	1		1							1			1																																																						13
GA	-	-	-	1			1			1																																																																			3
GC	-	-	-	1																																																																									1
GT	-	-	-	6	4		2	1										1														1																																													15
TA	-	-	-	26	8	10	9	5	2	4	1	2	2	1	1		1																																																												72
TC	-	-	-	4		1	1	1	1	1			1																																																																10
TG	-	-	-	6	6	2	2	2																																																																					18
AAC	-	-	1																																																																										1
AAG	-	-	2	1																																																																									3
AAT	-	-	2	1			1																																																																						4
ACA	-	-	1																																																																										1
AGA	-	-	1																																																																										1
ATA	-	-	4	2																																																																									6
ATG	-	-	1																																																																										1
ATT	-	-	2	2																																																																									4
CTA	-	-	1																																																																										1
CTC	-	-	3																																																																										3
GAA	-	-	2	2																																																																									4
GAG	-	-	1																																																																										1
GTT	-	-	1	2																																																																									3
TAA	-	-	1	5																																																																									6
TAC	-	-	1																																																																										1
TAG	-	-	1																																																																										1
TAT	-	-	3		1	1																																																																							5
TCA	-	-	1																																																																										1
TCT	-	-	1																																																																										1
TGA	-	-	3																																																																										3
TTA	-	-	6	3																																																																									9
AAAC	-	1																																																																											1
AAAG	-	1																																																																											1
AAAT	-	3	1		1																																																																								5
AAGA	-	1																																																																											1
AATA	-	5	2			1																																																																							8
AATT	-		1																																																																										1
ACAG	-	2	2																																																																										4
ACAT	-	1	1																																																																										2
ACTT	-	1																																																																											1
AGAA	-		2																																																																										2
AGAC	-	1																																																																											1
AGAT	-		1																																																																										1
ATAA	-	4		2																																																																									6
ATAC	-	1	1																																																																										2
ATAG	-	1																																																																											1
ATGA	-		1																																																																										1
ATGT	-	1																																																																											1
ATTA	-	1																																																																											1
ATTC	-	1																																																																											1
ATTT	-	1																																																																											1
CAAA	-	2																																																																											2
CAAG	-	1																																																																											1
CCTA	-	1																																																																											1
GAAA	-	1																																																																											1
GAAT	-	2																																																																											2
GACA	-		1																																																																										1
GATG	-	1																																																																											1
GTAA	-		1																																																																										1
GTAT	-		1																																																																										1
GTCC	-			1																																																																									1
GTTT	-	1																																																																											1
TAAA	-	1	1																																																																										2
TAAT	-	2																																																																											2
TACA	-	1																																																																											1
TACT	-			1																																																																									1
TAGA	-		2		1								1					1																																																											5
TATC	-	1																																																																											1
TATG	-	1																																																																											1
TATT	-	2																																																																											2
TCAG	-	1																																																																											1
TCAT	-					1																																																																							1
TCTA	-		1																																																																										1
TCTG	-	2	1	1																																																																									4
TGAC	-			1																																																																									1
TGTA	-	2	1							1																																																																			4
TGTC	-	2	1																																																																										3
TGTT	-	1	1																																																																										2
TTAA	-	1																																																																											1
TTAT	-	5																																																																											5
TTTA	-	4	4																																																																										8
TTTC	-	6	4	2																																																																									12
AAAAT	2																																																																												2
AAACA	1																																																																												1
AAATA	6	1																																																																											7
AAATC	1																																																																												1
AAATT	1																																																																												1
AACCT	1	1																																																																											2
AAGCG	1																																																																												1
AAGCT	1																																																																												1
AAGTG	1																																																																												1
AATAA	1																																																																												1
AATAG	1																																																																												1
AATCT	1																																																																												1
AATTC	1																																																																												1
AATTT	1																																																																												1
ACAAA	1																																																																												1
ACCTA	1	4	2	4	2	3	1	1				1	1																																																																20
ACGCA	1																																																																												1
AGGAC	1																																																																												1
AGGTT	1	2	1			1																																																																							5
ATAAT	2																																																																												2
ATACA		1																																																																											1
ATATA	2																																																																												2
ATCTT	1																																																																												1
ATGAA	2																																																																												2
ATTAA	2																																																																												2
ATTTC	3									1																																																																			4
ATTTT	1																																																																												1
CCCTC	1																																																																												1
CCTAA	1	2	1			1		1	2																																																																				8
CGTAC	1																																																																												1
CTAAC	3	12	3	1		1		1																																																																					21
CTAAT	1																																																																												1
CTTTT	1	1																																																																											2
GAAAA	3																																																																												3
GAACC	1																																																																												1
GAAGA			1																																																																										1
GAAGG	1																																																																												1
GAATA	1		1																																																																										2
GAGGT	1																																																																												1
GATAA		1																																																																											1
GATGA	1																																																																												1
GGTTA	5	3	1		1	1	1	1				1																																																																	14
GTTAG	1		1	1	1		2	1																																																																					7
GTTTA	1																																																																												1
GTTTT	1																																																																												1
TAACC	7	1	1			3																																																																							12
TAACT	2																																																																												2
TAATA	1																																																																												1
TAATT	1																																																																												1
TACAG	1																																																																												1
TAGGT	6	3	4	3	2			1		2																																																																			21
TATAA	1																																																																												1
TATAT	4																																																																												4
TATCA	1																																																																												1
TATGG	1																																																																												1
TATTA	1																																																																												1
TATTT	2																																																																												2
TCTAA	1																																																																												1
TGAAA	1	1	1																																																																										3
TGAAT	1																																																																												1
TGGAT	1																																																																												1
TGGGT			1																																																																										1
TGTAT	1																																																																												1
TTAAA	1																																																																												1
TTAAT	1																																																																												1
TTAGG	5	7	1	1	1		4	2			1	1	1		1																																																														25
TTATA	2																																																																												2
TTATG	1																																																																												1
TTCGA	1																																																																												1
TTCGT	1																																																																												1
TTCTA	1	1																																																																											2
TTCTT	1																																																																												1
TTGTA		2																																																																											2
TTTAA	1																																																																												1
TTTAC	1																																																																												1
TTTAT	1	1																																																																											2
TTTCT	1																																																																												1
TTTTA	3			1																																																																									4
TTTTC	2																																																																												2
AAAAAG	1																																																																												1
AAATTC		1																																																																											1
AATAAA	1																																																																												1
AATTTA	1																																																																												1
ACCTGG			1																																																																										1
ACTCTC	1																																																																												1
AGAAAA	1																																																																												1
AGAAAT	1				1		1																																																																						3
AGGCAG	1																																																																												1
AGTTCC	1																																																																												1
ATTTTT	1																																																																												1
CCTCTC	1																																																																												1
CGAAAT	1																																																																												1
CTCCTT	1		1																																																																										2
CTCTCA	1																																																																												1
GAAATC	1																																																																												1
GAATTT	1																																																																												1
GCCAAG	1																																																																												1
GCTGCC				1																																																																									1
GTCTTG	1	1																																																																											2
TACTAT	1																																																																												1
TAGAAA	1																																																																												1
TATTCA	1																																																																												1
TGGTCT		1																																																																											1
TGTCAA				2					1		1																																																																		4
TGTCAG	1																																																																												1
TTAAAA	1																																																																												1
TTAAAT	1																																																																												1
TTCTTT	1																																																																												1
TTGTAT	1																																																																												1
TTTGAG	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	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	74	75	76	77	78	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	9	4	6	3	4	4	2	2	3	1	1	2		1			1			1	3	1	2							2		1		1				1				1										1							1	58
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	1	1	1					1																				1																																5
AC/GT	-	-	-	22	12	2	9	6		1	1				1			1														1																																													56
AG/CT	-	-	-	12	3	3	4	1	2	3	1		2							1			1																																																						33
AT/AT	-	-	-	47	21	25	21	15	7	5	2	2	3	2	1		1	1																																																											153
CG/CG	-	-	-	1																																																																									1
AAC/GTT	-	-	3	2																																																																									5
AAG/CTT	-	-	6	3																																																																									9
AAT/ATT	-	-	18	13	1	1	1																																																																						34
ACT/AGT	-	-	3																																																																										3
AGG/CCT	-	-	4																																																																										4
ATC/ATG	-	-	5																																																																										5
AAAC/GTTT	-	5	1																																																																										6
AAAG/CTTT	-	9	6	2																																																																									17
AAAT/ATTT	-	25	8	2	1	1																																																																							37
AAGC/CTTG	-	1																																																																											1
AAGT/ACTT	-	1	1	1																																																																									3
AATG/ATTC	-	3	1			1																																																																							5
AATT/AATT	-	4	1																																																																										5
ACAG/CTGT	-	7	5	1																																																																									13
ACAT/ATGT	-	7	4							1																																																																			12
ACCT/AGGT	-	1																																																																											1
ACGG/CCGT	-			1																																																																									1
ACTG/AGTC	-	1		1																																																																									2
AGAT/ATCT	-	2	4		1								1					1																																																											9
ATCC/ATGG	-	1																																																																											1
AAAAC/GTTTT	3																																																																												3
AAAAG/CTTTT	8	1																																																																											9
AAAAT/ATTTT	16	2		1																																																																									19
AAACG/CGTTT	1																																																																												1
AAACT/AGTTT	1																																																																												1
AAAGT/ACTTT	1																																																																												1
AAATC/ATTTG	1																																																																												1
AAATG/ATTTC	6	1	1							1																																																																			9
AAATT/AATTT	8																																																																												8
AACAT/ATGTT	1																																																																												1
AACCC/GGGTT			1																																																																										1
AACCG/CGGTT	1																																																																												1
AACCT/AGGTT	31	35	15	10	7	10	8	8	2	2	1	3	2		1																																																														135
AACGC/CGTTG	1																																																																												1
AACTT/AAGTT	2																																																																												2
AAGAG/CTCTT			1																																																																										1
AAGAT/ATCTT	1	1																																																																											2
AAGCG/CGCTT	1																																																																												1
AAGCT/AGCTT	1																																																																												1
AAGGG/CCCTT	1																																																																												1
AAGTG/ACTTC	1																																																																												1
AATAC/ATTGT	1	3																																																																											4
AATAG/ATTCT	3	1	1																																																																										5
AATAT/ATATT	13																																																																												13
AATCC/ATTGG	1																																																																												1
AATCG/ATTCG	1																																																																												1
AATCT/AGATT	3																																																																												3
AATTC/AATTG	2																																																																												2
ACAGG/CCTGT	1																																																																												1
ACAGT/ACTGT	1																																																																												1
ACCAT/ATGGT	1																																																																												1
ACCGT/ACGGT	1																																																																												1
ACCTC/AGGTG	1																																																																												1
AGATG/ATCTC	1																																																																												1
AGGGG/CCCCT	1																																																																												1
ATATC/ATATG	1																																																																												1
AAAAAG/CTTTTT	3	1																																																																											4
AAAAAT/ATTTTT	2																																																																												2
AAAATT/AATTTT	1																																																																												1
AAACTC/AGTTTG	1																																																																												1
AAATAC/ATTTGT	1																																																																												1
AAATAG/ATTTCT	2				1		1																																																																						4
AAATCG/ATTTCG	2																																																																												2
AAATTC/AATTTG	1	1																																																																											2
AAATTT/AAATTT	2																																																																												2
AACTGG/AGTTCC	1																																																																												1
AAGACC/CTTGGT	1	2																																																																											3
AAGGAG/CCTTCT	1		1																																																																										2
AAGGCC/CCTTGG	1																																																																												1
AATAGT/ACTATT	1																																																																												1
AATATG/ATATTC	1																																																																												1
AATGTC/ACATTG				2					1		1																																																																		4
ACACTG/AGTGTC	1																																																																												1
ACCTGG/AGGTCC			1																																																																										1
ACTCTC/AGAGTG	2																																																																												2
AGAGGC/CCTCTG	1																																																																												1
AGAGGG/CCCTCT	1																																																																												1
AGCGGC/CCGCTG				1																																																																									1
