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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_018230945.1/fasta/hub_GCA_018230945.1_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:              11643
Total size of examined sequences (bp):           5012390
Total number of identified SSRs:                 948
Number of SSR containing sequences:              761
Number of sequences containing more than 1 SSR:  123
Number of SSRs present in compound formation:    101


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

Unit size	Number of SSRs
1	256
2	205
3	95
4	160
5	177
6	55

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	79	80	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	4	4	6	5	1	2	3	1	3		1		2		1										1						1				2		1										1			1											1	41
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	2	10	4	4	5	5	5	5	3	3	4	2			2	2	1	3	1	1	3			1	1		1		1		3	2	1	1	1											2								1	2	1						83
G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	8	6	9	6	3	6	4	1	2	4	1		3	3	1	3	2		2	1	3	3		3												1		1			2					1	2	1							6	1						89
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	3	9	5	2	2	2	1	2		1	1		1			1			1	1	2	1		1							1				2						1							1						1					1			43
AC	-	-	-	10	1	3		2	1		2	2	1	1		1		1																																																													25
AG	-	-	-	1										1																																																																	2
AT	-	-	-	12	7	4	1	4		2			1				1																																																														32
CA	-	-	-	6	2	1			1	1	1	3	1			1							1																																																								18
CG	-	-	-	1																																																																											1
CT	-	-	-	1																																																																											1
GA	-	-	-	2	4																																																																										6
GC	-	-	-			1																																																																									1
GT	-	-	-	16	5	3	4	1		1	1	2	1									1																																																									35
TA	-	-	-	11	5		4	2		3	2	3																																																																			30
TC	-	-	-	2	2	4			1			2					1																																																														12
TG	-	-	-	15	4	3	5		2	3	2	1	3	1	1			2																																																													42
AAC	-	-	3																																																																												3
AAG	-	-		2																																																																											2
AAT	-	-	3	1	2	2																																																																									8
ACA	-	-	1	1																																																																											2
AGA	-	-		1																																																																											1
ATA	-	-	4	1																																																																											5
ATT	-	-	2	1																																																																											3
CAA	-	-	1																																																																												1
CCG	-	-														1																																																															1
CGC	-	-	1																																																																												1
CGG	-	-	1			1																																																																									2
CTA	-	-	1																																																																												1
CTG	-	-	1																																																																												1
CTT	-	-	1																																																																												1
GAA	-	-	1																																																																												1
GCG	-	-	1										1																																																																		2
GGA	-	-	1																																																																												1
GGC	-	-	1																																																																												1
GGT	-	-	2	1																																																																											3
GTG	-	-	1																																																																												1
GTT	-	-	1																																																																												1
TAA	-	-	8			2	1		1																																																																						12
TAT	-	-	7		1		1																																																																								9
TCA	-	-	1	1																																																																											2
TCT	-	-			1																																																																										1
TGA	-	-		1	1	1																																																																									3
TGC	-	-		1																																																																											1
TGG	-	-	1	3																																																																											4
TGT	-	-	2	3	1																																																																										6
TTA	-	-	7			1																																																																									8
TTC	-	-	1																																																																												1
TTG	-	-	2	2	1	1																																																																									6
AAAG	-										1																																																																				1
AAAT	-	2	1			1																																																																									4
AAGA	-	1																																																																													1
AATA	-	10	3			1																																																																									14
AATG	-	1																																																																													1
ACAA	-	2																																																																													2
ACAG	-	1																																																																													1
ACAT	-	4																																																																													4
ACTT	-	1																																																																													1
AGAA	-		2																																																																												2
AGAT	-	1																																																																													1
AGTC	-	1																																																																													1
AGTG	-	1	1																																																																												2
ATAA	-	5	3		1	1																																																																									10
ATAC	-	2	1																																																																												3
ATTA	-	1																																																																													1
ATTC	-	3																																																																													3
ATTG	-	1																																																																													1
ATTT	-	5	2	1																																																																											8
CAAC	-	1																																																																													1
CAAT	-	1																																																																													1
CATA	-		1																																																																												1
CATC	-					1																																																																									1
CGGG	-	1																																																																													1
GAAA	-		1																																																																												1
GATG	-	2																																																																													2
GATT	-		1																																																																												1
GCGT	-	1																																																																													1
GCTC	-	1																																																																													1
GTAT	-	3																																																																													3
GTCA	-		1																																																																												1
GTTT	-	1	1																																																																												2
TAAA	-	9		2																																																																											11
TAAC	-	1																																																																													1
TACA	-	1																																																																													1
TAGA	-	1	1																																																																												2
TAGT	-	1			1																																																																										2
TATC	-	1																																																																													1
TATG	-	3																																																																													3
TATT	-	5	2	1	1	1																																																																									10
TCTA	-	1	1						1																																																																						3
TCTG	-			1																																																																											1
TCTT	-	1																																																																													1
TGTA	-	2																																																																													2
TGTC	-	3	1																																																																												4
TGTT	-	1																																																																													1
TTAT	-	8	1	1																																																																											10
TTGT	-	1																																																																													1
TTTA	-	14	2	1		2																																																																									19
TTTC	-	5	2	2																																																																											9
AAAAG	1																																																																														1
AAAAT	4																																																																														4
AAACA	1																																																																														1
AAAGT	1																																																																														1
AAATA	4																																																																														4
AAATC	1																																																																														1
AAATG	1							1																																																																							2
AAATT		1																																																																													1
AAGCC		1																																																																													1
AAGTG	1																																																																														1
AATAA	4																																																																														4
AATCG	1																																																																														1
AATGT	1																																																																														1
AATTC	1																																																																														1
AATTT	1																																																																														1
ACACA	1																																																																														1
ACATT	1																																																																														1
ACCTA			2				1	1	1																																																																						5
ACGTC	1																																																																														1
AGAAT	1																																																																														1
AGACA	1																																																																														1
AGGTT				1																																																																											1
AGTAA	1																																																																														1
AGTTT	1																																																																														1
ATAAA	3																																																																														3
ATAAT	1																																																																														1
ATACA	1	1																																																																													2
ATATA	1																																																																														1
ATCCA	1																																																																														1
ATCGG	1																																																																														1
ATTCT			1																																																																												1
ATTGT	1																																																																														1
ATTTA	1																																																																														1
ATTTC	1																																																																														1
ATTTT	3																																																																														3
CAAAA	1	1																																																																													2
CAAAC	1																																																																														1
CAACG	1																																																																														1
CAATT			1																																																																												1
CACAA	1																																																																														1
CACCC	1																																																																														1
CACTA		2																																																																													2
CAGAA	1																																																																														1
CCAAT		1																																																																													1
CCACA	1																																																																														1
CCGCC	1																																																																														1
CCGCG	1																																																																														1
CCTAA	1							1																																																																							2
CGACC	1																																																																														1
CTAAC	3			2																																																																											5
CTATT	1		1																																																																												2
GAAAA	1																																																																														1
GAATG		1																																																																													1
GAGAC	1																																																																														1
GAGAG	1																																																																														1
GATTT	1		1																																																																												2
GCGAG			2																																																																												2
GGCGC	1																																																																														1
GGGGT	1																																																																														1
GGGTG	2																																																																														2
GGTGG	1																																																																														1
GGTGT			1																																																																												1
GGTTA	1			1		1																																																																									3
GTATA	1	1																																																																													2
GTGGT	1																																																																														1
GTGTG	1																																																																														1
GTTAG	1			1				1																																																																							3
GTTGG		1																																																																													1
GTTGT	1																																																																														1
TAAAA	3																																																																														3
TAACC		1	1	1																																																																											3
TAATA	2																																																																														2
TACAA	2																																																																														2
TAGAA	1																																																																														1
TAGGT	1																																																																														1
TATAT	1																																																																														1
TATTC	1	1							1																																																																						3
TATTG		1																																																																													1
TATTT	6				1																																																																										7
TCAAA	1																																																																														1
TCACA	1																																																																														1
TCATT	1							1																																																																							2
TCGAA		1																																																																													1
TCTTA	1																																																																														1
TCTTT	1																																																																														1
TGAAA	1																																																																														1
TGACA	1																																																																														1
TGTCA	1																																																																														1
TGTTG	1																																																																														1
TTAAA	1																																																																														1
TTAAT	1																																																																														1
TTAGG		1	1	1		1			1																																																																						5
TTCAA	1																																																																														1
TTCAT	1																																																																														1
TTCCT	1																																																																														1
TTCTA		1				1																																																																									2
TTCTT	2																																																																														2
TTGAT		1																																																																													1
TTGTA		1	1																																																																												2
TTGTG	3																																																																														3
TTGTT	1																																																																														1
TTTAT	4																																																																														4
TTTCA	3																																																																														3
TTTCT	1																																																																														1
TTTGA	1																																																																														1
TTTGG	1																																																																														1
TTTGT	2																																																																														2
TTTTA	3																																																																														3
TTTTC	1																																																																														1
TTTTG	1																																																																														1
AAAATA	2																																																																														2
AAAGTC	1																																																																														1
AACACT	1																																																																														1
AAGGGG	1																																																																														1
ATAAAA	2																																																																														2
ATCTTC	1																																																																														1
ATGATT	1																																																																														1
ATTAAA	1																																																																														1
ATTTTT	1																																																																														1
CAAGAC	1																																																																														1
CATTTA		1																																																																													1
CCGAAA	1																																																																														1
CCTCCG	1																																																																														1
GCAATA	1																																																																														1
GCGAAT	1																																																																														1
GCTTCA	1																																																																														1
GGCTAC	1																																																																														1
GGTAGA	1																																																																														1
GTAAAT	1																																																																														1
GTCTTG	1	1																																																																													2
GTGCGT		1																																																																													1
GTGTTG	1																																																																														1
GTGTTT	1																																																																														1
TATAAA	1																																																																														1
TATCTA	1																																																																														1
TATGCA	1																																																																														1
TATTTG		1																																																																													1
TCCAAA	1																																																																														1
TCCACT	1	1																																																																													2
TCCTGT	2																																																																														2
TGGTCT		1																																																																													1
TTAAAA	2																																																																														2
TTATTC	1																																																																														1
TTATTT	1																																																																														1
TTCAAA	2																																																																														2
TTGACA	1																																																																														1
TTGATG	1																																																																														1
TTGCTT	1																																																																														1
TTGTCA	1																																																																														1
TTTATA	1																																																																														1
TTTATC			1																																																																												1
TTTATT	1																																																																														1
TTTGAA		1																																																																													1
TTTGAC	1																																																																														1
TTTGAT	2																																																																														2
TTTTTA	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	79	80	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	7	13	11	7	3	4	4	3	3	1	2		3		1	1			1	1	2	1		1	1						2				4		1				1						1	1		1				1					1		1	84
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	10	16	13	10	8	11	9	6	5	7	5	2	3	3	3	5	3	3	3	2	6	3		4	1		1		1		3	2	1	1	1	1		1			2					3	2	1						1	8	2						172
AC/GT	-	-	-	47	12	10	9	3	4	5	6	8	6	2	1	2		3				1	1																																																								120
AG/CT	-	-	-	6	6	4			1			2		1			1																																																														21
AT/AT	-	-	-	23	12	4	5	6		5	2	3	1				1																																																														62
CG/CG	-	-	-	1		1																																																																									2
AAC/GTT	-	-	10	6	2	1																																																																									19
AAG/CTT	-	-	3	3	1																																																																										7
AAT/ATT	-	-	31	3	3	5	2		1																																																																						45
ACC/GGT	-	-	4	4																																																																											8
ACT/AGT	-	-	1																																																																												1
AGC/CTG	-	-	1	1																																																																											2
AGG/CCT	-	-	1																																																																												1
ATC/ATG	-	-	1	2	1	1																																																																									5
CCG/CGG	-	-	4			1							1			1																																																															7
AAAC/GTTT	-	5	1																																																																												6
AAAG/CTTT	-	7	5	2							1																																																																				15
AAAT/ATTT	-	58	14	6	2	6																																																																									86
AACC/GGTT	-	1																																																																													1
AACT/AGTT	-	2			1																																																																										3
AAGT/ACTT	-	1																																																																													1
AATC/ATTG	-	2	1																																																																												3
AATG/ATTC	-	4																																																																													4
AATT/AATT	-	1																																																																													1
ACAG/CTGT	-	4	1	1																																																																											6
ACAT/ATGT	-	15	2																																																																												17
ACGC/CGTG	-	1																																																																													1
ACTC/AGTG	-	1	1																																																																												2
ACTG/AGTC	-	1	1																																																																												2
AGAT/ATCT	-	4	2						1																																																																						7
AGCG/CGCT	-	1																																																																													1
ATCC/ATGG	-	2				1																																																																									3
CCCG/CGGG	-	1																																																																													1
AAAAC/GTTTT	6	1																																																																													7
AAAAG/CTTTT	7																																																																														7
AAAAT/ATTTT	34				1																																																																										35
AAACC/GGTTT	2																																																																														2
AAACT/AGTTT	1																																																																														1
AAAGG/CCTTT	1																																																																														1
AAAGT/ACTTT	2																																																																														2
AAATC/ATTTG	4	1	1																																																																												6
AAATG/ATTTC	8							2																																																																							10
AAATT/AATTT	4	1																																																																													5
AACAC/GTGTT	7																																																																														7
AACAG/CTGTT	1																																																																														1
AACCC/GGGTT		1																																																																													1
AACCT/AGGTT	7	2	4	7		2	1	3	2																																																																						28
AACGC/CGTTG	1																																																																														1
AAGAC/CTTGT	1																																																																														1
AAGAT/ATCTT	1																																																																														1
AAGCC/CTTGG		1																																																																													1
AAGTG/ACTTC	1																																																																														1
AATAC/ATTGT	4	3	1																																																																												8
AATAG/ATTCT	4	2	2			1			1																																																																						10
AATAT/ATATT	5																																																																														5
AATCC/ATTGG	1	1																																																																													2
AATCG/ATTCG	1	1																																																																													2
AATGG/ATTCC		1																																																																													1
AATGT/ACATT	2																																																																														2
AATTC/AATTG	2		1																																																																												3
ACACC/GGTGT	3		1																																																																												4
ACACT/AGTGT		2																																																																													2
ACATC/ATGTG	1																																																																														1
ACATG/ATGTC	2																																																																														2
ACCCC/GGGGT	5																																																																														5
ACCCG/CGGGT	1																																																																														1
ACGAG/CGTCT	1																																																																														1
ACGTC/ACGTG	1																																																																														1
ACTAT/AGTAT	1	1																																																																													2
AGAGG/CCTCT	1																																																																														1
AGGCG/CCTCG			2																																																																												2
ATCCG/ATCGG	1																																																																														1
CCCCG/CGGGG	1																																																																														1
CCGCG/CGCGG	2																																																																														2
AAAAAG/CTTTTT	1																																																																														1
AAAAAT/ATTTTT	8																																																																														8
AAAAGC/CTTTTG	1																																																																														1
AAAATC/ATTTTG	2																																																																														2
AAAATT/AATTTT	3																																																																														3
AAACAC/GTGTTT	1																																																																														1
AAACCG/CGGTTT	1																																																																														1
AAAGAT/ATCTTT			1																																																																												1
AAAGTC/ACTTTG	2																																																																														2
AAATAC/ATTTGT		1																																																																													1
AAATAT/ATATTT	2																																																																														2
AAATCC/ATTTGG	1																																																																														1
AAATGT/ACATTT	1	1																																																																													2
AAATTC/AATTTG	2	1																																																																													3
AACACC/GGTGTT	1																																																																														1
AACACT/AGTGTT	1																																																																														1
AACAGG/CCTGTT	2																																																																														2
AACATC/ATGTTG	1																																																																														1
AAGAAT/ATTCTT	1																																																																														1
AAGACC/CTTGGT	2	2																																																																													4
AAGATG/ATCTTC	1																																																																														1
AAGCTG/AGCTTC	1																																																																														1
AAGGGG/CCCCTT	1																																																																														1
AAGTGG/ACTTCC	1	1																																																																													2
AATAGC/ATTGCT	1																																																																														1
AATCAT/ATGATT	1																																																																														1
AATGAC/ATTGTC	1																																																																														1
AATGCG/ATTCGC	1																																																																														1
AATGTC/ACATTG	1																																																																														1
ACACGC/CGTGTG		1																																																																													1
ACCTCT/AGAGGT	1																																																																														1
ACGGCT/AGCCGT	1																																																																														1
AGATAT/ATATCT	1																																																																														1
AGGCGG/CCGCCT	1																																																																														1
ATATGC/ATATGC	1																																																																														1
