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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_001593465.1/fasta/hub_GCA_001593465.1_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:              119
Total size of examined sequences (bp):           9107739
Total number of identified SSRs:                 1763
Number of SSR containing sequences:              91
Number of sequences containing more than 1 SSR:  82
Number of SSRs present in compound formation:    354


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

Unit size	Number of SSRs
1	109
2	365
3	779
4	103
5	107
6	300

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	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	11	4	7	2	6	4	2	2	2	2	1	4				3		1			1	1																							1					1							1	56
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		1	1	2			1																																																			5
G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		1		1		1	1																																																			4
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	6	6	3	1	6		4	3	1	1	3	1	2	1	2	1	1				1																												1									44
AG	-	-	-	3	3	1	1		1																																																																		9
AT	-	-	-	62	31	15	26	14	14	15	5	14	6	2	1	4	2	4		1	1	1																																																					218
CA	-	-	-	3																																																																							3
CG	-	-	-	1																																																																							1
CT	-	-	-	1	1																																																																						2
GA	-	-	-	2	2	1	1	2														1																																																					9
GT	-	-	-					1																																																																			1
TA	-	-	-	37	11	8	10	7	6	8	5	4	4	3	4	5	2	1																																																									115
TC	-	-	-	5	1																																																																						6
TG	-	-	-	1																																																																							1
AAC	-	-	1																																																																								1
AAG	-	-	5	2	2	1																																																																					10
AAT	-	-	32	17	11	8	7	2	4	1		1		3				1																																																									87
ACA	-	-	2	1	1		1								1		1																																																										7
ACC	-	-	1	1																																																																							2
ACT	-	-	9	2	1	3	1							1																																																													17
AGA	-	-	4				1						1											1																																																			7
AGC	-	-	1	1	1	1																																																																					4
AGG	-	-	1				1																																																																				2
AGT	-	-	4	1			1																																																																				6
ATA	-	-	17	9	10	5	7	1	2	3					1					2																																																							57
ATC	-	-	8	5	1		1																																																																				15
ATG	-	-	5	4	2	1			1	1			1																																																														15
ATT	-	-	25	19	13	4	3	3	2	1	1																																																																71
CAA	-	-	5	5	2			1							1																																																												14
CAC	-	-	1	1		1																																																																					3
CAT	-	-	1	1	1			1	2	1																																																																	7
CCA	-	-					1																																																																				1
CCT	-	-	2		2																																																																						4
CTA	-	-	8	1	1		2								1																																																												13
CTC	-	-	4	2	1																																																																						7
CTG	-	-	1																																																																								1
CTT	-	-	2	1		1																																																																					4
GAA	-	-	9	1	2	1			1				1																																																														15
GAG	-	-	2	2	1				1																																																																		6
GAT	-	-	11	1	2	1		2	2																																																																		19
GCA	-	-	1		1																																																																						2
GCT	-	-	1			1																																																																					2
GGA	-	-	3						1																																																																		4
GGT	-	-		1	2			2																																																																			5
GTA	-	-	10	6	3	2	1		2	1											1				1																																																		27
GTG	-	-	1			2	1																																																																				4
GTT	-	-	2	1		1	1		2	1					1			1																																																									10
TAA	-	-	27	20	7	6	6	6	3	5	1									1																																																							82
TAC	-	-	4		2	1																																																																					7
TAG	-	-	2	1	1	1	1			1																																																																	7
TAT	-	-	20	13	12	6	4	4	1	2	5	2	2				1		2	1				2																																																			77
TCA	-	-	11		1			1																																																																			13
TCC	-	-	4	5		1					1																																																																11
TCT	-	-	5	3	4	1	3	1		1						1					1																																																						20
TGA	-	-	3	6	2	2	1		1																																																																		15
TGC	-	-		2																																																																							2
TGT	-	-	2	1	3	2		1	1	1									1																																																								12
TTA	-	-	33	10	8	1	4	1	4		3				1																																																												65
TTC	-	-	5		2	1		1																																																																			9
TTG	-	-	4	3	2	1																																																																					10
AAAG	-	1																																																																									1
AAAT	-	8	2	2		1	1																																																																				14
AACC	-		1																																																																								1
AAGA	-	1																																																																									1
AATA	-	3		2		2																																																																					7
AATG	-		1																																																																								1
AATT	-	5																																																																									5
AGAA	-	2																																																																									2
AGAT	-	1																																																																									1
AGGG	-	1																																																																									1
ATAA	-	2	1		1		1																																																																				5
ATAC	-	1																																																																									1
ATGA	-	1																																																																									1
ATGC	-	5	2																																																																								7
ATTA	-	4																																																																									4
ATTG	-	1																																																																									1
ATTT	-	7	1		1																																																																						9
CATG	-	1																																																																									1
TAAA	-	3		1																																																																							4
TAAT	-	2	1																																																																								3
TATC	-		1																																																																								1
TATT	-	12		1			1																																																																				14
TGCA	-	7	3	1																																																																							11
TTAT	-	1	2																																																																								3
TTTA	-	1	1																																																																								2
TTTC	-	1																																																																									1
TTTG	-	1																																																																									1
AAAAC	3																																																																										3
AAAAG	1	1																																																																									2
AAAAT	8	1																																																																									9
AAAGA	2																																																																										2
AAAGG	1																																																																										1
AAATA	4																																																																										4
AAATT	6																																																																										6
AAGGG	1																																																																										1
AATAA	3		1																																																																								4
AATTA	1																																																																										1
AGAAA	2																																																																										2
ATAAT	3																																																																										3
ATATA	4						1																																																																				5
ATATT	1																																																																										1
ATTAA	1																																																																										1
ATTTA	1																																																																										1
ATTTT	4																																																																										4
CAAAA	1																																																																										1
CGAGA	2																																																																										2
CTATA	1																																																																										1
CTTTC	1																																																																										1
CTTTT	2																																																																										2
GAAAA	2																																																																										2
GAAAT	1																																																																										1
GAATT	3																																																																										3
GGGAA	1																																																																										1
GTAAA	1																																																																										1
TAAAA	1																																																																										1
TAAAT	1																																																																										1
TAATA	1																																																																										1
TAATT	1																																																																										1
TATGA	1																																																																										1
TATTA	1																																																																										1
TATTT	3	1																																																																									4
TCTTT	2																																																																										2
TGTTA	1																																																																										1
TGTTG	1	1																																																																									2
TTAAA	2																																																																										2
TTAAT	4																																																																										4
TTATT	4	2																																																																									6
TTCAA	2																																																																										2
TTCTC	1																																																																										1
TTGAA		1																																																																									1
TTGAT	1																																																																										1
TTTCT	1																																																																										1
TTTTA	5																																																																										5
TTTTC	3																																																																										3
TTTTG	1																																																																										1
AAAAAC	1																																																																										1
AAAAAG			1																																																																								1
AAAATC		1																																																																									1
AAACCT	1	2	1		1																																																																						5
AAAGAG	1				1			1																																																																			3
AAATGA	1																																																																										1
AACAAA	2																																																																										2
AACAAT		1																																																																									1
AACCTA		1	1																																																																								2
AACTGC	1																																																																										1
AAGACA	1																																																																										1
AAGAGA		1																																																																									1
AAGAGG	1																																																																										1
AAGGAC	1																																																																										1
AAGTGC	1																																																																										1
AATAAA	1																																																																										1
AATACT	1																																																																										1
AATATA		1																																																																									1
AATCAG		1																																																																									1
AATTCT	1																																																																										1
ACAAAA			1																																																																								1
ACAAGA	1																																																																										1
ACATCA		1																																																																									1
ACCACA			1																																																																								1
ACCTAA	1																																																																										1
ACTACA	1																																																																										1
ACTACC	1		1																																																																								2
ACTTCA					1																																																																						1
AGAACG								1																																																																			1
AGAGAA			1																																																																								1
AGAGAT	1																																																																										1
AGATCC		1																																																																									1
AGATGT	1																																																																										1
AGCCTG	1																																																																										1
AGCTTG	1																																																																										1
AGGAAC	1		1																																																																								2
AGGAAG					1																																																																						1
AGGCTC	1																																																																										1
AGGGGG	1																																																																										1
AGTATT	1																																																																										1
AGTTGG	1																																																																										1
AGTTTG	1																																																																										1
ATAAAA	1																																																																										1
ATATAA	1																																																																										1
ATATTT	2																																																																										2
ATCAGG	1																																																																										1
ATCATG	1																																																																										1
ATCCTA	1																																																																										1
ATCTTG	1																																																																										1
ATGATA		1																																																																									1
ATGATC		2																																																																									2
ATTAGA			1																																																																								1
ATTATC	4																																																																										4
ATTCCC			1																																																																								1
ATTCTA	1																																																																										1
ATTTTG	1																																																																										1
CAAATT		1																																																																									1
CAACAG	2	2																																																																									4
CAACAT	1																																																																										1
CAAGAA		1																																																																									1
CAATAA	1																																																																										1
CAGGAA				1																																																																							1
CAGGAC	1																																																																										1
CAGGAT	1																																																																										1
CAGGGA	1																																																																										1
CATCAC	1																																																																										1
CATCCC	1																																																																										1
CATCTC		1																																																																									1
CATGAG	1																																																																										1
CATTGG	1																																																																										1
CCAACC	1																																																																										1
CCAATG	1																																																																										1
CCATCA		1																																																																									1
CCGTGA	1																																																																										1
CCTAAA	7	5	3	1	1		2																																																																				19
CCTCTA	1																																																																										1
CCTGAA	1				1																																																																						2
CCTGAT		1																																																																									1
CCTTCT	1																																																																										1
CCTTGC	1																																																																										1
CTAAAC	1																																																																										1
CTAGAT	1																																																																										1
CTGAAA	1																																																																										1
CTGCTC		1																																																																									1
CTGGTA		1																																																																									1
CTGGTC							1																																																																				1
CTGTAC		1																																																																									1
CTTCCT		1				1																																																																					2
CTTGAA	1																																																																										1
CTTGAT									1																																																																		1
CTTGTT		1																																																																									1
CTTTAG	1																																																																										1
CTTTGG		1																																																																									1
GAAAAA																						1																																																					1
GAAAAT		1																																																																									1
GAAACA	1																																																																										1
GAAAGA			1																																																																								1
GAAATA	1																																																																										1
GAACAA					1																																																																						1
GAACGA		1																																																																									1
GAACTA		1																																																																									1
GAAGAT	1	1																																																																									2
GAAGGA		1																																																																									1
GAAGGG					1																																																																						1
GAAGTT	1																																																																										1
GAATCT		1																																																																									1
GAATGG				1																																																																							1
GACTCA	1																																																																										1
GACTCT	1																																																																										1
GAGGAA	1																																																																										1
GAGTTT			1																																																																								1
GATCAA	1																																																																										1
GATGAA	1																																																																										1
GATGCA		1																																																																									1
GATGTG	1																																																																										1
GATTCT			1																																																																								1
GCAGCT	1																																																																										1
GCTCCA		1																																																																									1
GGAACA		1																																																																									1
GGAACG																	1																																																										1
GGAACT	1																																																																										1
GGAAGA	1											1																																																															2
GGAATG	1																																																																										1
GGAGCA	1																																																																										1
GGTACA	1																																																																										1
GGTGCA	1																																																																										1
GGTTTA	4	2	2	1																																																																							9
GTAATG	1																																																																										1
GTACTA	1																																																																										1
GTAGAA		1																																																																									1
GTAGAT	1																																																																										1
GTAGTG	1	1	1																																																																								3
GTAGTT	1						1																																																																				2
GTGGTA								1																																																																			1
GTTGTA	3																																																																										3
GTTGTG	1																																																																										1
GTTTAG		1			1																																																																						2
GTTTCA	1																																																																										1
TAATAC	1																																																																										1
TAATAG	1																																																																										1
TAGTAT	1																																																																										1
TATATT	1																																																																										1
TATCAT	1																																																																										1
TATTAA	4																																																																										4
TATTAG	1																																																																										1
TATTTA	1																																																																										1
TATTTT	1																																																																										1
TCAAGA	1																																																																										1
TCAAGT		1																																																																									1
TCAGAA	1																																																																										1
TCATCC				1																																																																							1
TCATCG	1	1																																																																									2
TCATCT				1																																																																							1
TCATGA	1																																																																										1
TCCAGA	1																																																																										1
TCCTCT	1																																																																										1
TCCTGA	2	1																																																																									3
TCCTTC		1																																																																									1
TCTCTA	1																																																																										1
TCTGAT	1																																																																										1
TCTTCA		1																																																																									1
TCTTCC	2		1			1		1																																																																			5
TCTTGA	1																																																																										1
TCTTGT	1	1	1																																																																								3
TGAACG	1																																																																										1
TGACTT		1																																																																									1
TGAGCC		1																																																																									1
TGATAA													1																																																														1
TGATCA	2																																																																										2
TGATCC	1	1																																																																									2
TGATCT	1																																																																										1
TGATTC	1																																																																										1
TGCATG	1																																																																										1
TGCCTG			1																																																																								1
TGCTGT	1																																																																										1
TGGAAT	1	1																																																																									2
TGGCAT	1																																																																										1
TGGTGT	1																																																																										1
TGGTTT	2	1																																																																									3
TGTTCC				2																																																																							2
TGTTCT	2																																																																										2
TGTTGA	1																																																																										1
TGTTGC		1																																																																									1
TGTTGG	2																																																																										2
TTAATA	1																																																																										1
TTAGGT		1		1																																																																							2
TTATAT		1																																																																									1
TTATTG	1																																																																										1
TTCAAA	2																																																																										2
TTCAGA	1																																																																										1
TTCATC						1																																																																					1
TTCCAG	1																																																																										1
TTCCCC					1																																																																						1
TTCCTC	1																																																																										1
TTCTTG		1																																																																									1
TTGAAC		1																																																																									1
TTGGCA	1	1																																																																									2
TTGGTC	1																																																																										1
TTGTTA	1																																																																										1
TTGTTC		1																																																																									1
TTTAGG	1	1	1	1		2																																																																					6
TTTATA	1																																																																										1
TTTCAA	1																																																																										1
TTTCTC	1	1	1	1																																																																							4
TTTGGC	1																																																																										1
TTTGGT	1																																																																										1
TTTTAC	1																																																																										1
TTTTCA	1	1																																																																									2
TTTTTA	2	1																																																																									3
TTTTTC	3																																																																										3

Frequency of classified repeat types (considering sequence complementary)
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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	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	17	10	10	3	12	4	6	5	3	3	4	5	2	1	2	4	1	1			2	1																							1				1	1							1	100
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		2	1	3		1	2																																																			9
AC/GT	-	-	-	4				1																																																																			5
AG/CT	-	-	-	11	7	2	2	2	1													1																																																					26
AT/AT	-	-	-	99	42	23	36	21	20	23	10	18	10	5	5	9	4	5		1	1	1																																																					333
CG/CG	-	-	-	1																																																																							1
AAC/GTT	-	-	16	11	8	4	2	2	3	2					3		1	1	1																																																								54
AAG/CTT	-	-	30	7	10	5	4	2	1	1			2			1					1			1																																																			65
AAT/ATT	-	-	154	88	61	30	31	17	16	12	10	3	2	3	2		1	1	2	4				2																																																			439
ACC/GGT	-	-	3	3	2	3	2	2																																																																			15
ACT/AGT	-	-	37	11	8	7	6		2	2				1	1						1				1																																																		77
AGC/CTG	-	-	4	3	2	2																																																																					11
AGG/CCT	-	-	16	9	4	1	1		2		1																																																																34
ATC/ATG	-	-	39	17	9	4	2	4	6	2			1																																																														84
AAAC/GTTT	-	1																																																																									1
AAAG/CTTT	-	5																																																																									5
AAAT/ATTT	-	37	7	6	2	3	3																																																																				58
AACC/GGTT	-		1																																																																								1
AATC/ATTG	-	1																																																																									1
AATG/ATTC	-	1	1																																																																								2
AATT/AATT	-	11	1																																																																								12
ACAT/ATGT	-	1																																																																									1
AGAT/ATCT	-	1	1																																																																								2
AGGG/CCCT	-	1																																																																									1
ATGC/ATGC	-	13	5	1																																																																							19
AAAAC/GTTTT	5																																																																										5
AAAAG/CTTTT	15	1																																																																									16
AAAAT/ATTTT	32	4	1																																																																								37
AAAGG/CCTTT	2																																																																										2
AAAGT/ACTTT	1																																																																										1
AAATC/ATTTG	1																																																																										1
AAATG/ATTTC	1																																																																										1
AAATT/AATTT	17																																																																										17
AACAC/GTGTT	1	1																																																																									2
AACAT/ATGTT	1																																																																										1
AAGAG/CTCTT	1																																																																										1
AAGGG/CCCTT	2																																																																										2
AATAT/ATATT	10						1																																																																				11
AATTC/AATTG	5	1																																																																									6
ACGAG/CGTCT	2																																																																										2
ACTAT/AGTAT	1																																																																										1
ATATC/ATATG	1																																																																										1
AAAAAC/GTTTTT	3		1																																																																								4
AAAAAG/CTTTTT	3		1																			1																																																					5
AAAAAT/ATTTTT	5	1																																																																									6
AAAACC/GGTTTT	3	1																																																																									4
AAAAGT/ACTTTT	1																																																																										1
AAAATC/ATTTTG	1	1																																																																									2
AAAATG/ATTTTC	2	2																																																																									4
AAACAG/CTGTTT	1																																																																										1
AAACCT/AGGTTT	15	13	8	4	3	2	2																																																																				47
AAACTC/AGTTTG	1		1																																																																								2
AAACTG/AGTTTC	2																																																																										2
AAAGAC/CTTTGT	1																																																																										1
AAAGAG/CTCTTT	2	2	3	1	1			1																																																																			10
AAAGCC/CTTTGG	1	1																																																																									2
AAAGCT/AGCTTT	1																																																																										1
AAAGTC/ACTTTG		1																																																																									1
AAATAG/ATTTCT	1																																																																										1
AAATAT/ATATTT	6	2																																																																									8
AAATTC/AATTTG	2	1																																																																									3
AAATTG/AATTTC	1																																																																										1
AACAAG/CTTGTT	4	5	1		1																																																																						11
AACAAT/ATTGTT	3	1																																																																									4
AACACC/GGTGTT	3																																																																										3
AACAGC/CTGTTG	3	3																																																																									6
AACAGG/CCTGTT	1	1	1	3																																																																							6
AACATC/ATGTTG	2	1																																																																									3
AACCAC/GGTTGT	1		1																																																																								2
AACCCC/GGGGTT	1																																																																										1
AACCTG/AGGTTC	1				1																																																																						2
AACGAG/CGTTCT		1						1																																																																			2
AACGGG/CCCGTT																	1																																																										1
AACGTG/ACGTTC	1																																																																										1
AACTAC/AGTTGT	5						1																																																																				6
AACTAG/AGTTCT		1																																																																									1
AACTCC/AGTTGG	1																																																																										1
AACTGC/AGTTGC	1																																																																										1
AACTGG/AGTTCC	2																																																																										2
AACTTC/AAGTTG	1				1																																																																						2
AACTTG/AAGTTC	1	2																																																																									3
AAGACC/CTTGGT	1																																																																										1
AAGAGG/CCTCTT	7	1	1		1	2		1				1																																																															14
AAGATC/ATCTTG	5								1																																																																		6
AAGATG/ATCTTC	2	2		1		1																																																																					6
AAGCTC/AGCTTG	1																																																																										1
AAGGAC/CCTTGT	1																																																																										1
AAGGAG/CCTTCT	1	2																																																																									3
AAGGGC/CCCTTG	1																																																																										1
AAGGGG/CCCCTT					2																																																																						2
AAGTAG/ACTTCT		1																																																																									1
AAGTGC/ACTTGC	1																																																																										1
AATACT/AGTATT	5																																																																										5
AATAGT/ACTATT	1																																																																										1
AATATT/AATATT	5																																																																										5
AATCAG/ATTCTG	3	1	1																																																																								5
AATCCT/AGGATT	1																																																																										1
AATCTG/AGATTC	1	1																																																																									2
AATGAT/ATCATT	5	1											1																																																														7
AATGCC/ATTGGC	4	1																																																																									5
AATGGG/ATTCCC	1		1	1																																																																							3
AATGGT/ACCATT	1																																																																										1
AATTAG/AATTCT	2		1																																																																								3
AATTCC/AATTGG	1	1																																																																									2
ACAGGC/CCTGTG			1																																																																								1
ACAGGG/CCCTGT	1																																																																										1
ACAGGT/ACCTGT	1	1																																																																									2
ACATCC/ATGTGG	1																																																																										1
ACATCT/AGATGT	2																																																																										2
ACATGC/ATGTGC	1																																																																										1
ACCACT/AGTGGT	2	1	2					1																																																																			6
ACCAGG/CCTGGT	1						1																																																																				2
ACCAGT/ACTGGT		1																																																																									1
ACCATC/ATGGTG	1	1																																																																									2
ACCGTG/ACGGTC	1																																																																										1
ACCTCT/AGAGGT	1																																																																										1
ACCTGC/AGGTGC	1																																																																										1
ACGATG/ATCGTC	1	1																																																																									2
ACTAGT/ACTAGT	1																																																																										1
ACTCAG/AGTCTG	1																																																																										1
ACTCTG/AGAGTC	1																																																																										1
AGAGAT/ATCTCT	2																																																																										2
AGATCC/ATCTGG	1	1																																																																									2
AGATCT/AGATCT	1																																																																										1
AGATGC/ATCTGC		1																																																																									1
AGATGG/ATCTCC		1																																																																									1
AGCAGG/CCTGCT	1	1																																																																									2
AGCATG/ATGCTC	1																																																																										1
AGCCTG/AGGCTC	2	1																																																																									3
AGCTCC/AGCTGG		1																																																																									1
AGCTGC/AGCTGC	1																																																																										1
AGGATC/ATCCTG	5	3																																																																									8
AGGATG/ATCCTC				1																																																																							1
AGGGGG/CCCCCT	1																																																																										1
ATCATG/ATCATG	4	2																																																																									6
ATCCCC/ATGGGG	1																																																																										1
