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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_001835735.1/fasta/hub_GCA_001835735.1_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:              1438
Total size of examined sequences (bp):           8965616
Total number of identified SSRs:                 843
Number of SSR containing sequences:              419
Number of sequences containing more than 1 SSR:  172
Number of SSRs present in compound formation:    107


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

Unit size	Number of SSRs
1	86
2	276
3	256
4	45
5	80
6	100

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	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	4	7	8	9	3	3	1	3		1	1	1			1	2				1	45
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	7	7	4	3	4	2	5	1	2	3	1			1		1					41
AC	-	-	-	2																																		2
AG	-	-	-				1																															1
AT	-	-	-	56	33	12	5	11	5	2	3	1	4	3	1	1																						137
CA	-	-	-	2	1	1																																4
CT	-	-	-	1																																		1
TA	-	-	-	57	17	11	6	6	8	2	6	6	1	3	4	1	1																					129
TG	-	-	-	1									1																									2
AAG	-	-	2																																			2
AAT	-	-	3		2	4	1	2		1	1																											14
ACC	-	-	1	3	1																																	5
AGC	-	-			2	1	1																															4
AGG	-	-	1																																			1
ATA	-	-	10	4		2	1	1	1	1	1			1	1																							23
ATC	-	-	1	2							1		1																									5
ATG	-	-		1	1									2																								4
ATT	-	-	8	2	1	1		1	1	2																												16
CAA	-	-	1								1																											2
CAC	-	-	2																																			2
CAG	-	-	2	2				1		1																												6
CAT	-	-	3	2														1																				6
CCA	-	-		1																																		1
CCT	-	-	1	1																																		2
CTA	-	-	1																																			1
CTC	-	-	1																																			1
CTG	-	-	2		1	2	2		1	1																												9
CTT	-	-			1	1																																2
GAA	-	-			3									1																								4
GAT	-	-	3	1	1	1	1												1																			8
GCA	-	-	5		1	1	1																															8
GCT	-	-	1		1			1																														3
GGT	-	-	1																																			1
GTA	-	-							1																													1
GTT	-	-	1																																			1
TAA	-	-	15	6	1	3	1	3	2	1																												32
TAT	-	-	15	8	3	2	1			1			1		1												1											33
TCA	-	-	1	1										1									1															4
TCC	-	-		1			1																															2
TCT	-	-		2																																		2
TGA	-	-	3	2										1																								6
TGC	-	-	7	2	2	2																																13
TGT	-	-				1																																1
TTA	-	-	13	1	5	2	2			2	1		1				1																					28
TTC	-	-		1	1																																	2
TTG	-	-	1																																			1
AAAT	-	3		1																																		4
AATA	-	1																																				1
AATT	-	1																																				1
AGCT	-		1																																			1
ATAA	-	2				1	1																															4
ATAG	-	1																																				1
ATGC	-	1																																				1
ATTT	-	3																																				3
CATG	-	1	1																																			2
CTAG	-	1																																				1
GCAT	-	1	1		1																																	3
GTAT	-		1																																			1
TAAA	-	1	3	1																																		5
TACA	-		1																																			1
TAGC	-	1		2																																		3
TATG	-	1																																				1
TATT	-	2																																				2
TGCA	-	2																																				2
TTAA	-	2																																				2
TTAT	-	1																																				1
TTTA	-	2	1	2																																		5
AAAAG	2																																					2
AAAAT	4	1																																				5
AAATA	2																																					2
AAATT	1																																					1
AACAG	1																																					1
AAGAA	2																																					2
AATAA	9		1																																			10
AGATA	1																																					1
ATAAT	1																																					1
ATATA	3		1																																			4
ATATT	1																																					1
ATTAT	1																																					1
ATTTG		1																																				1
ATTTT	2																																					2
CAATA	2																																					2
GAAAA	3																																					3
GAGAC	1																																					1
GTCTC	1																																					1
GTTTA	1																																					1
TAAAA	4																																					4
TAATA	1																																					1
TAATC		1																																				1
TATAA	2																																					2
TATAT	3																																					3
TATTA	3																																					3
TATTT	3	1																																				4
TCTAA	1																																					1
TGTTT	1																																					1
TTAAA	1																																					1
TTAAT	1																																					1
TTATT	3																																					3
TTCTT	1																																					1
TTGTT	1																																					1
TTTAT	1																																					1
TTTTA	8																																					8
TTTTC	1	1																																				2
AAAAAT	1																																					1
AAAATA	1																																					1
AAACAT							1																															1
AAATAC	1																																					1
AAGATG	2																																					2
AATACA			1																																			1
AATTAG		1																																				1
ACAAGC	1																																					1
ACAAGG	1																																					1
ACTAAC		1																																				1
AGAATC	2																																					2
AGATAA	1																																					1
AGTAAT	1																																					1
ATAAAC	1																																					1
ATAAAG		1		1																																		2
ATAATC				1																																		1
ATAGTA	1																																					1
ATCTTT	1																																					1
ATGAAG	1																																					1
ATGATA	1																																					1
ATGATT	1																																					1
ATTGGG			1																																			1
ATTTTT	1																																					1
CACAAG					1																																	1
CAGCAA	1																																					1
CATCAC	1																																					1
CATTAT	1																																					1
CCACCT	1																																					1
CCTCAA	1																																					1
CCTCAG			1																																			1
CTAATA	1																																					1
CTCCAC	1																																					1
CTCCTA			1																																			1
CTGAGA	1																																					1
CTGCAG	1																																					1
CTTCAT	1	1																																				2
GAACAG			1																																			1
GAAGAT	1																																					1
GAATCA	3																																					3
GAATCT					1																																	1
GAGGAA	1																																					1
GGGATT				1																																		1
GTAGTT	1																																					1
GTATTA		1																																				1
GTGATA	1																																					1
GTTGTA	4	1																																				5
TAAAAA	2			1																																		3
TAAAGA	1																																					1
TAATGA	1																																					1
TACAAA	1																																					1
TACCCA						1																																1
TACTCC		1																																				1
TACTTC	1																																					1
TATAAG	1																																					1
TATAAT	1																																					1
TATATT	1																																					1
TATGCA	1																																					1
TATGTG	1	1																																				2
TATTGT		1																																				1
TCACCA					1																																	1
TCACTA		1																																				1
TCTTAT	1																																					1
TCTTCA	2		1																																			3
TCTTGT			1										1																									2
TCTTTA	1																																					1
TGTTGA	1																																					1
TTAAAG				1																																		1
TTACTC	1																																					1
TTAGAA	2	1																																				3
TTATAT	1																																					1
TTCTGG		1	1																																			2
TTGTAG	1																																					1
TTTAAT	1																																					1
TTTACC						1																																1
TTTAGA		1																																				1
TTTATA	1																																					1
TTTCTC	1																																					1
TTTGTC	1																																					1
TTTGTT			1																																			1
TTTTCA	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	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	11	14	12	12	7	5	6	4	2	4	2	1		1	1	3				1	86
AC/GT	-	-	-	5	1	1							1																									8
AG/CT	-	-	-	1			1																															2
AT/AT	-	-	-	113	50	23	11	17	13	4	9	7	5	6	5	2	1																					266
AAC/GTT	-	-	3			1					1																											5
AAG/CTT	-	-	2	3	5	1								1																								12
AAT/ATT	-	-	64	21	12	14	6	7	4	8	3		2	1	2		1										1											146
ACC/GGT	-	-	4	4	1																																	9
ACT/AGT	-	-	1						1																													2
AGC/CTG	-	-	17	4	7	6	4	2	1	2																												43
AGG/CCT	-	-	3	2			1																															6
ATC/ATG	-	-	11	9	2	1	1				1		1	4				1	1				1															33
AAAT/ATTT	-	15	4	4		1	1																															25
AATT/AATT	-	3																																				3
ACAT/ATGT	-	1	2																																			3
AGAT/ATCT	-	1																																				1
AGCT/AGCT	-	2	1	2																																		5
ATGC/ATGC	-	5	2		1																																	8
AAAAC/GTTTT	2																																					2
AAAAG/CTTTT	9	1																																				10
AAAAT/ATTTT	36	2	1																																			39
AAACT/AGTTT	1																																					1
AAATC/ATTTG		1																																				1
AAATT/AATTT	3																																					3
AACAG/CTGTT	1																																					1
AAGAT/ATCTT	1																																					1
AATAC/ATTGT	2																																					2
AATAT/ATATT	15		1																																			16
AATCT/AGATT	1	1																																				2
ACGAG/CGTCT	2																																					2
AAAAAC/GTTTTT			1																																			1
AAAAAT/ATTTTT	6			1																																		7
AAAATG/ATTTTC	1																																					1
AAAATT/AATTTT	1																																					1
AAACAT/ATGTTT	1						1																															2
AAAGAC/CTTTGT	1																																					1
AAAGAG/CTCTTT	1																																					1
AAAGAT/ATCTTT	4	1		1																																		6
AAAGGT/ACCTTT						1																																1
AAAGTT/AACTTT				1																																		1
AAATAC/ATTTGT	2		1																																			3
AAATAT/ATATTT	3																																					3
AAATCT/AGATTT		1																																				1
AACAAG/CTTGTT			1										1																									2
AACAAT/ATTGTT		1																																				1
AACACT/AGTGTT		1																																				1
AACAGC/CTGTTG	1																																					1
AACAGG/CCTGTT			1																																			1
AACATC/ATGTTG	1																																					1
AACCAG/CTGGTT		1	1																																			2
AACCTC/AGGTTG	1																																					1
AACTAC/AGTTGT	6	1																																				7
AAGAAT/ATTCTT	1																																					1
AAGAGG/CCTCTT	1																																					1
AAGAGT/ACTCTT	1																																					1
AAGATG/ATCTTC	7	1	1																																			9
AAGCAC/CTTGTG	1				1																																	2
AAGGAC/CCTTGT	1																																					1
AAGTAG/ACTTCT	1																																					1
AAGTAT/ACTTAT	1																																					1
AATACT/AGTATT	1	1																																				2
AATAGT/ACTATT	2																																					2
AATCAG/ATTCTG	5																																					5
AATCAT/ATGATT	1			1																																		2
AATCCC/ATTGGG			1	1																																		2
AATCTG/AGATTC					1																																	1
AATGAT/ATCATT	3																																					3
AATTAG/AATTCT	2	2																																				4
AATTAT/AATTAT	1																																					1
ACACAT/ATGTGT	1	1																																				2
ACCATC/ATGGTG	1				1																																	2
ACCCAT/ATGGGT						1																																1
ACCTCC/AGGTGG	2																																					2
ACTATC/AGTGAT	1	1																																				2
ACTCCT/AGGAGT		1	1																																			2
ACTGAG/AGTCTC	1																																					1
AGCCTC/AGGCTG			1																																			1
AGCTGC/AGCTGC	1																																					1
ATATGC/ATATGC	1																																					1
