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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_900233925.1/fasta/hub_GCA_900233925.1_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:              248
Total size of examined sequences (bp):           2035038
Total number of identified SSRs:                 202
Number of SSR containing sequences:              120
Number of sequences containing more than 1 SSR:  42
Number of SSRs present in compound formation:    19


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

Unit size	Number of SSRs
1	24
2	58
3	64
4	3
5	35
6	18

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	4		1	2	1																																																						12
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	2	3	1	1			2	1	1				1																																															12
AC	-	-	-			1				1																																																																			2
AG	-	-	-	6	5	3	1																											1																																											16
AT	-	-	-	9	1		2																																																																						12
CA	-	-	-	1	1																																																																								2
CG	-	-	-	1																																																																									1
CT	-	-	-	1	1	1																																																																							3
GA	-	-	-	1				1										1																							1																																			1	5
GT	-	-	-		1																																																																								1
TA	-	-	-	2	1	1																																																																							4
TC	-	-	-	4	2		1											1																																																											8
TG	-	-	-	2	1							1																																																																	4
AAC	-	-		3																																																																									3
AAG	-	-	3																																																																										3
AAT	-	-	2																																																																										2
ACA	-	-			1																																																																								1
ACC	-	-		1																																																																									1
AGA	-	-	5	4																																																																									9
ATC	-	-	1			1																																																																							2
ATG	-	-			1	1																																																																							2
CAA	-	-		1																																																																									1
CAC	-	-	1																																																																										1
CAT	-	-		1																																																																									1
CCA	-	-	1																																																																										1
CTC	-	-	2																																																																										2
CTT	-	-	4	2	1						1																																																																		8
GAA	-	-	6		1																																																																								7
GAT	-	-	1																																																																										1
GCT	-	-	3																																																																										3
GGA	-	-	1																																																																										1
GTT	-	-	2																																																																										2
TCA	-	-																1																																																											1
TCC	-	-				1																																																																							1
TCT	-	-	2			1																																																																							3
TGA	-	-		1																																																																									1
TTC	-	-	4	1																																																																									5
TTG	-	-	1			1																																																																							2
ATCA	-	1																																																																											1
ATTT	-	1																																																																											1
TTAA	-	1																																																																											1
AAAAC	1																																																																												1
AAAAT		1																																																																											1
AAACA	1																																																																												1
AAAGC	1																																																																												1
AAGCA	1																																																																												1
AGAAG	1																																																																												1
ATAAA	1																																																																												1
ATAAG	1																																																																												1
ATTAA	1																																																																												1
ATTTT		1																																																																											1
CAAAG	2																																																																												2
CATTC	2																																																																												2
GAAGA	1																																																																												1
GACCC	1																																																																												1
GTAGT	1																																																																												1
GTTTT	1																																																																												1
TAAAA	1																																																																												1
TAATA	1																																																																												1
TATTT	1																																																																												1
TCTCT	1																																																																												1
TCTTT	1																																																																												1
TGCAT	1																																																																												1
TTCAA	1																																																																												1
TTCAC	1																																																																												1
TTCAT	1																																																																												1
TTCTA	2																																																																												2
TTGTG				1																																																																									1
TTTAA	1																																																																												1
TTTAT	1																																																																												1
TTTTC	2	1																																																																											3
AAAAAC	1																																																																												1
AAATTA		1																																																																											1
CAACCA	1																																																																												1
CATCTC										1																																																																			1
CCTCAT	2																																																																												2
CTCTCC					1																																																																								1
CTTATT	1																																																																												1
GATCAT	1																																																																												1
GGGGGT	1																																																																												1
TCAGAT	1																																																																												1
TCATCC	2			2																																																																									4
TCCTCA	1																																																																												1
TGAACA	1																																																																												1
TTCTTA	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	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	6	7	1	2	2	1	2	1	1				1																																															24
AC/GT	-	-	-	3	3	1				1		1																																																																	9
AG/CT	-	-	-	12	8	4	2	1										2																1							1																																			1	32
AT/AT	-	-	-	11	2	1	2																																																																						16
CG/CG	-	-	-	1																																																																									1
AAC/GTT	-	-	3	4	1	1																																																																							9
AAG/CTT	-	-	24	7	2	1					1																																																																		35
AAT/ATT	-	-	2																																																																										2
ACC/GGT	-	-	2	1																																																																									3
AGC/CTG	-	-	3																																																																										3
AGG/CCT	-	-	3			1																																																																							4
ATC/ATG	-	-	2	2	1	2												1																																																											8
AAAT/ATTT	-	1																																																																											1
AATC/ATTG	-	1																																																																											1
AATT/AATT	-	1																																																																											1
AAAAC/GTTTT	3																																																																												3
AAAAG/CTTTT	3	1																																																																											4
AAAAT/ATTTT	4	2																																																																											6
AAAGC/CTTTG	4																																																																												4
AAATG/ATTTC	1																																																																												1
AAATT/AATTT	2																																																																												2
AACAC/GTGTT				1																																																																									1
AAGAG/CTCTT	3																																																																												3
AAGAT/ATCTT	1																																																																												1
AAGTG/ACTTC	1																																																																												1
AATAG/ATTCT	2																																																																												2
AATAT/ATATT	1																																																																												1
AATGC/ATTGC	1																																																																												1
AATGG/ATTCC	2																																																																												2
AATTC/AATTG	1																																																																												1
ACACT/AGTGT	1																																																																												1
ACCCG/CGGGT	1																																																																												1
AAAAAC/GTTTTT	1																																																																												1
AAAATT/AATTTT		1																																																																											1
AACATG/ATGTTC	1																																																																												1
AACCAC/GGTTGT	1																																																																												1
AAGAAT/ATTCTT	2																																																																												2
AATCTG/AGATTC	1																																																																												1
ACCCCC/GGGGGT	1																																																																												1
AGAGGG/CCCTCT					1																																																																								1
AGATGG/ATCTCC										1																																																																			1
AGGATG/ATCCTC	5			2																																																																									7
ATCATG/ATCATG	1																																																																												1
