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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_002093595.1/fasta/hub_GCA_002093595.1_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:              1076
Total size of examined sequences (bp):           9111587
Total number of identified SSRs:                 1849
Number of SSR containing sequences:              446
Number of sequences containing more than 1 SSR:  285
Number of SSRs present in compound formation:    352


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

Unit size	Number of SSRs
1	77
2	384
3	869
4	111
5	119
6	289

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	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	8	1	4	2	3	3	3		1			1	2	2	1		1													1	33
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	8	4	3	3	4	5	4	1	3	3	1			2	1	2															44
AC	-	-	-	1																																												1
AG	-	-	-	4	1	3							1																																			9
AT	-	-	-	61	32	25	27	18	12	13	18	8	5	7	8	3	1	1	1		2																											242
CT	-	-	-	1													1					1																										3
GA	-	-	-	3			1	1																																								5
GC	-	-	-	3																																												3
GT	-	-	-					1																																								1
TA	-	-	-	32	10	12	13	11	9	5	3	2	2	6	2	1	1	1			1				1																							112
TC	-	-	-	4	3																																											7
TG	-	-	-		1																																											1
AAC	-	-	1	2																																												3
AAG	-	-	6	1			2																																									9
AAT	-	-	35	17	17	11	8	2	3	4	1	1	2	3	2	1																																107
ACA	-	-	3	3		2	1																																									9
ACT	-	-	9	6	4	3	2	1																																								25
AGA	-	-	1	2	1				1																																							5
AGG	-	-	1	1	2	1																																										5
AGT	-	-	4	1		1									1																																	7
ATA	-	-	15	15	10	9	3	2	1	1	1			1																																		58
ATC	-	-	10		3	1	2																																									16
ATG	-	-	5	5	1						1																																					12
ATT	-	-	25	14	10	10	6	2	3	1	2	1		1	1																																	76
CAA	-	-	4	2	4																																											10
CAC	-	-	1				1				2																																					4
CAT	-	-	4	1	1			1	1		2																																					10
CCA	-	-	3	1																																												4
CCT	-	-	3	2					1																																							6
CTA	-	-	8	2	2	1	1																																									14
CTC	-	-	2	1	1																																											4
CTG	-	-	1																																													1
CTT	-	-	3	1	1	1	1			1																																						8
GAA	-	-	13	3	4		2			2	1																																					25
GAG	-	-	1	1	1					1																																						4
GAT	-	-	13	4		1		1	2	1		1																																				23
GCA	-	-		1																																												1
GCT	-	-	3		1	1																																										5
GGA	-	-	2	2	1	1	1																																									7
GGT	-	-							1	1																																						2
GTA	-	-	18		3	4		1							1																																	27
GTG	-	-	2				1																																									3
GTT	-	-	7	6	3	2		1			1	1																																				21
TAA	-	-	31	21	7	8	5	6	1		5		1	2	1					1																												89
TAC	-	-	1	1	1		2	1																																								6
TAG	-	-	4	2	1	1					1	2																																				11
TAT	-	-	24	9	15	9	6	4	4	3	2	3	1	1												1																						82
TCA	-	-	17	6	2	5		1		1																																						32
TCC	-	-	4		1			2																																								7
TCT	-	-	8	5	2	2		3					1																																			21
TGA	-	-	7	3	1	2																																										13
TGC	-	-	1				1																																									2
TGG	-	-	2	1	1																																											4
TGT	-	-	13	1	3	1																																										18
TTA	-	-	21	13	5	7		3	1	1	1																																					52
TTC	-	-	6	3		1		1																																								11
TTG	-	-	7		3																																											10
AAAG	-	1																																														1
AAAT	-	8	3	2	1																																											14
AACA	-	1																																														1
AAGA	-	1																																														1
AAGG	-	1																																														1
AATA	-	5	4																																													9
AATT	-	2	1	1		1																																										5
ATAA	-	3																																														3
ATGA	-	1																																														1
ATGC	-	7	1	1																																												9
ATGT	-			1																																												1
ATTA	-	3																																														3
ATTG	-	1			1																																											2
ATTT	-	5																																														5
CTTC	-	1																																														1
CTTT	-	1					1																																									2
GAAA	-	2																																														2
TAAA	-	3																																														3
TAAT	-	3																																														3
TAGA	-	1																																														1
TATT	-	7	2	1				1																																								11
TCTA	-	1																																														1
TGCA	-	8	1	1																																												10
TTAA	-	3	1																																													4
TTAT	-	4	1																																													5
TTGA	-	1																																														1
TTTA	-	8			1																																											9
TTTC	-	1																																														1
TTTG	-	1																																														1
AAAAC	4																																															4
AAAAG	1																																															1
AAAAT	5	2																																														7
AAAGA	3																																															3
AAAGG	1	1																																														2
AAATA	3																																															3
AAATT	2																																															2
AAGAG	1																																															1
AATAA	3																																															3
AATAT	3																																															3
AATCA	1																																															1
AATCC	1																																															1
AATTA	1																																															1
AATTT	3																																															3
AGAAA	1																																															1
AGACG	1																																															1
ATAAT	4																																															4
ATATA	3																																															3
ATATC	1																																															1
ATATT	1																																															1
ATCAA	1																																															1
ATTAA	4																																															4
ATTGT	1																																															1
ATTTA	1																																															1
ATTTC	1																																															1
ATTTT	2	1																																														3
CAAAA	1																																															1
CAATT	1																																															1
CGTCT	1																																															1
CTATA	1																																															1
CTTTC	1																																															1
CTTTT	3																																															3
GAAAA	2																																															2
GAATT	1																																															1
GATTG	1																																															1
TAAAA	1	1																																														2
TAAAT	1																																															1
TAATT	1																																															1
TATAA	1																																															1
TATAT	1						1																																									2
TATTA	1																																															1
TATTG	1																																															1
TATTT	4																																															4
TCATA	1																																															1
TCTTT	1																																															1
TGAAT	2																																															2
TGTTA									2																																							2
TGTTG		1																																														1
TTAAA	3																																															3
TTAAG	1																																															1
TTAAT	5																																															5
TTATA	1																																															1
TTATT	3																																															3
TTCCC	1																																															1
TTCTC	1																																															1
TTGAT	3																																															3
TTTAC	1																																															1
TTTAT	2	1																																														3
TTTCT	1																																															1
TTTTA	3	1																																														4
TTTTC	2																																															2
TTTTG	1																																															1
AAAAAT	1																																															1
AAAATA	1	1																																														2
AAAATG				1																																												1
AAACCT	1	2	1		1																																											5
AAAGAC		1																																														1
AAAGGA	1																																															1
AAATGA		1																																														1
AACAAG	1						1																																									2
AACCTA	1		1																																													2
AAGAAA	1																																															1
AAGAGA	1																																															1
AAGATG		1																																														1
AATACT	1																																															1
AATAGC	1																																															1
AATATA	1																																															1
AATATT	2																																															2
AATCCA	1																																															1
AATGAT		1																																														1
ACAACT	2																																															2
ACCTAA		1																																														1
ACTACC	1	2		1																																												4
ACTTCA	1	1																																														2
AGAAAA		1																																														1
AGAAAG	1																																															1
AGAAAT	1																																															1
AGAAGT	1																																															1
AGAATC			1																																													1
AGAGAA	1																																															1
AGAGAT								1																																								1
AGATCA		1																																														1
AGATCC		1	1																																													2
AGCCAG							1																																									1
AGGAAT	2																																															2
AGGAGT		1																																														1
AGGATT				1																																												1
AGGTTC	1																																															1
ATAAAA	1																																															1
ATAAAT	2																																															2
ATAATC	1																																															1
ATAATG	1																																															1
ATACAT	1																																															1
ATAGGC		1																																														1
ATATTT	2																																															2
ATCAAA		1																																														1
ATCAAG	2																																															2
ATCAGA		1																																														1
ATCAGG		1																																														1
ATCATG	1																																															1
ATCATT	1																																															1
ATCTAA	1																																															1
ATCTCG	1																																															1
ATCTTC	1																																															1
ATGACC		1																																														1
ATGCCA		1																																														1
ATGTCC	1																																															1
ATTATC		1																																														1
ATTATG	1																																															1
ATTCCA	1																																															1
ATTCCC		1																																														1
ATTCTG	1																																															1
ATTGTA	1																																															1
ATTTAT	1																																															1
ATTTTT	3																																															3
CAAAAG	1																																															1
CAAAGC	1																																															1
CAACAG	1																																															1
CAACAT	1																																															1
CAAGAA	1		1				1																																									3
CAAGAT	2																																															2
CAATAA	1																																															1
CAATAC	1																																															1
CACATC	1																																															1
CAGAAC				1																																												1
CAGCAA	2																																															2
CAGGAA	1		1		1																																											3
CAGGAT		1		1																																												2
CATCTA		1																																														1
CATCTT	1																																															1
CATTGG		1																																														1
CCAACA		1																																														1
CCACCT		1																																														1
CCAGCC	1																																															1
CCATCA	1																																															1
CCTAAA	2		1	1	1			1																																								6
CCTGAT	1																																															1
CCTGTT	1																																															1
CCTTTC	1																																															1
CGATGA			1																																													1
CTAAAG	1																																															1
CTACAT	1																																															1
CTAGAT		1																																														1
CTATTA	1																																															1
CTGAAA			1																																													1
CTGAGC			1																																													1
CTGCTC					1																																											1
CTGGTC	1	1																																														2
CTTCCT		1																																														1
CTTGAA		1																																														1
CTTTCT				1																																												1
GAAAGA		1																																														1
GAAATA	1																																															1
GAACAA	2																																															2
GAAGAG	1																																															1
GAGGAT	1																																															1
GAGGTG	1																																															1
GATAAT		1																																														1
GATCAA		1																																														1
GATCAG	1																																															1
GATCTG			1																																													1
GATTCA			1	1																																												2
GATTCT		1																																														1
GATTTG				1																																												1
GCAGCT	1																																															1
GCAGGA	1																																															1
GCAGTT	1																																															1
GCCTGA			1																																													1
GCTCCA	1																																															1
GCTCCT		1																																														1
GCTTGA		1																																														1
GGAGCT	1																																															1
GGATGA		1																																														1
GGGAGG	1																																															1
GGTTTA	1	3	1	1		1		1																																								8
GGTTTT		1																																														1
GTAATG	1																																															1
GTACTT	1																																															1
GTAGAA	1																																															1
GTAGTG					1				1																																							2
GTAGTT	2																																															2
GTCCTT			1																																													1
GTGATC			1																																													1
GTGATT		1																																														1
GTGGTA	1	1																																														2
GTTCTA		1																																														1
GTTGTA	1																																															1
GTTGTG	1		1	1																																												3
GTTTTG		1																																														1
TAAATA		1																																														1
TAACAA	1																																															1
TAATAC	1																																															1
TAATAT	1																																															1
TACTAT		1																																														1
TAGTAT		1																																														1
TATAAA	1																																															1
TATAAC		1																																														1
TATATT	3	1																																														4
TATCAT	1																																															1
TATTAG	1																																															1
TATTCA	1																																															1
TATTTA	1																																															1
TCAAGA	1																																															1
TCAAGT	1																																															1
TCAGAT	2	1																																														3
TCAGGG		1																																														1
TCATCT	1		2																																													3
TCATGA		1																																														1
TCATTA						1																																										1
TCCAAT	1																																															1
TCCAGA	1																																															1
TCCAGC	1	1																																														2
TCCATG	1																																															1
TCCTCT	1																																															1
TCCTGT			1																																													1
TCTCTA		1																																														1
TCTCTT		1																																														1
TCTGAA		1																																														1
TCTTCA	1																																															1
TCTTCC	2	1																																														3
TCTTGA			1																																													1
TCTTGT	1																																															1
TGAAAC	1																																															1
TGAACC	1																																															1
TGACGA	1																																															1
TGAGCC				1	1																																											2
TGAGGA		1																																														1
TGATCA	1																																															1
TGATCT	1	1																																														2
TGCATG	1																																															1
TGCTGT			1																																													1
TGGAGC		1																																														1
TGGTAA	1																																															1
TGGTTT	1																																															1
TGTAGT	1																																															1
TGTTAC		1																																														1
TGTTAT		1																																														1
TGTTCC	1																																															1
TTAATA	2																																															2
TTACCA	1																																															1
TTAGGT	1																																															1
TTATGA	1																																															1
TTATTG	1																																															1
TTATTT	2																																															2
TTCAAA		1																																														1
TTCAAG							1																																									1
TTCATC	1																																															1
TTCATT	1																																															1
TTCCAA	1																																															1
TTCCAG	1	1																																														2
TTCCTG	1																																															1
TTCTCG					1																																											1
TTCTTG			1																																													1
TTGAAC	1																																															1
TTGTTC	2																																															2
TTTAGG	5	5	4	1			1	1																																								17
TTTCAA	1																																															1
TTTCAT	1																																															1
TTTCTG	1																																															1
TTTGTT	1																																															1
TTTTCT	1																																															1
TTTTGG		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	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	16	5	7	5	7	8	7	1	4	3	1	1	2	4	2	2	1													1	77
AC/GT	-	-	-	1	1			1																																								3
AG/CT	-	-	-	12	4	3	1	1					1				1					1																										24
AT/AT	-	-	-	93	42	37	40	29	21	18	21	10	7	13	10	4	2	2	1		3				1																							354
CG/CG	-	-	-	3																																												3
AAC/GTT	-	-	35	14	13	5	1	1			1	1																																				71
AAG/CTT	-	-	37	15	8	4	5	4	1	3	1		1																																			79
AAT/ATT	-	-	151	89	64	54	28	19	13	10	12	5	4	8	4	1				1						1																						464
ACC/GGT	-	-	8	2	1		2		1	1	2																																					17
ACT/AGT	-	-	44	12	11	10	5	3			1	2			2																																	90
AGC/CTG	-	-	5	1	1	1	1																																									9
AGG/CCT	-	-	13	7	6	2	1	2	1	1																																						33
ATC/ATG	-	-	56	19	8	9	2	3	3	2	3	1																																				106
AAAC/GTTT	-	2																																														2
AAAG/CTTT	-	6					1																																									7
AAAT/ATTT	-	43	10	3	2			1																																								59
AAGG/CCTT	-	2																																														2
AATC/ATTG	-	2			1																																											3
AATG/ATTC	-	1																																														1
AATT/AATT	-	11	2	1		1																																										15
ACAT/ATGT	-			1																																												1
AGAT/ATCT	-	2																																														2
ATGC/ATGC	-	15	2	2																																												19
AAAAC/GTTTT	6																																															6
AAAAG/CTTTT	14																																															14
AAAAT/ATTTT	26	6																																														32
AAAGG/CCTTT	2	1																																														3
AAAGT/ACTTT	1																																															1
AAATC/ATTTG	5																																															5
AAATG/ATTTC	1																																															1
AAATT/AATTT	21																																															21
AACAC/GTGTT		1																																														1
AACAT/ATGTT									2																																							2
AACTT/AAGTT	1																																															1
AAGAG/CTCTT	2																																															2
AAGGG/CCCTT	1																																															1
AATAC/ATTGT	2																																															2
AATAT/ATATT	15						1																																									16
AATCC/ATTGG	2																																															2
AATTC/AATTG	4																																															4
ACGAG/CGTCT	2																																															2
ACTAT/AGTAT	1																																															1
ATATC/ATATG	2																																															2
AAAAAC/GTTTTT	1																																															1
AAAAAG/CTTTTT	2	1																																														3
AAAAAT/ATTTTT	8	1																																														9
AAAACC/GGTTTT	1	3																																														4
AAAAGC/CTTTTG	1																																															1
AAAAGG/CCTTTT	1																																															1
AAAATC/ATTTTG		1																																														1
AAAATG/ATTTTC	2	1		1																																												4
AAACAG/CTGTTT	1																																															1
AAACCT/AGGTTT	11	11	8	3	2	1	1	3																																								40
AAACTG/AGTTTC	1		1																																													2
AAAGAC/CTTTGT		1																																														1
AAAGAG/CTCTTT	3	2		1																																												6
AAAGCC/CTTTGG	1																																															1
AAAGCT/AGCTTT	1																																															1
AAAGGG/CCCTTT	1																																															1
AAATAG/ATTTCT	2																																															2
AAATAT/ATATTT	11	2																																														13
AAATCC/ATTTGG	1			1																																												2
AAATCT/AGATTT	1																																															1
AAATTC/AATTTG		1																																														1
AAATTG/AATTTC	1																																															1
AACAAG/CTTGTT	7		2				2																																									11
AACAAT/ATTGTT	3	1																																														4
AACACC/GGTGTT		1																																														1
AACAGC/CTGTTG	3		1																																													4
AACAGG/CCTGTT	4		2		1																																											7
AACAGT/ACTGTT		1																																														1
AACATC/ATGTTG	1																																															1
AACCAC/GGTTGT	1		1	1																																												3
AACCAG/CTGGTT				1																																												1
AACCTG/AGGTTC	2																																															2
AACGAG/CGTTCT					1																																											1
AACTAC/AGTTGT	6																																															6
AACTAG/AGTTCT		1																																														1
AACTAT/AGTTAT		1																																														1
AACTGC/AGTTGC	1																																															1
AACTGG/AGTTCC	1	1																																														2
AACTTC/AAGTTG	1	1																																														2
AACTTG/AAGTTC	2	1					1																																									4
AAGAGG/CCTCTT	4	2																																														6
AAGATC/ATCTTG	6	3	1																																													10
AAGATG/ATCTTC	5	1	2																																													8
AAGCTC/AGCTTG		1																																														1
AAGGAC/CCTTGT			1																																													1
AAGTAC/ACTTGT	1																																															1
AAGTAG/ACTTCT	2																																															2
AATACC/ATTGGT	1																																															1
AATACT/AGTATT	3	1																																														4
AATAGC/ATTGCT	1																																															1
AATAGG/ATTCCT	2																																															2
AATAGT/ACTATT	1	1																																														2
AATATG/ATATTC	1																																															1
AATATT/AATATT	5																																															5
AATCAC/ATTGTG		1																																														1
AATCAG/ATTCTG	1	2	1																																													4
AATCAT/ATGATT	3																																															3
AATCCT/AGGATT				1																																												1
AATCTG/AGATTC	2	2	1	1																																												6
AATGAT/ATCATT	3	3				1																																										7
AATGCC/ATTGGC		2																																														2
AATGGG/ATTCCC		1																																														1
AATGGT/ACCATT	3																																															3
AATTAC/AATTGT	1																																															1
AATTCC/AATTGG	3																																															3
ACATAT/ATATGT	1																																															1
ACATCC/ATGTGG	1																																															1
ACATCT/AGATGT	1	1																																														2
ACATGC/ATGTGC	1																																															1
ACATGG/ATGTCC	2																																															2
ACCACT/AGTGGT	2	3		1	1				1																																							8
ACCAGG/CCTGGT	1	1																																														2
ACCATC/ATGGTG	1																																															1
ACCATG/ATGGTC		1																																														1
ACCCTG/AGGGTC		1																																														1
ACCTCC/AGGTGG	1	1																																														2
ACGATC/ATCGTG			1																																													1
ACGATG/ATCGTC	1		1																																													2
ACTCCT/AGGAGT		1																																														1
AGAGAT/ATCTCT		1						1																																								2
AGAGCC/CTCTGG							1																																									1
AGATCC/ATCTGG	1	1	2																																													4
AGATCG/ATCTCG	1																																															1
AGATCT/AGATCT		1																																														1
AGCAGG/CCTGCT	1	1			1																																											3
AGCCCC/CTGGGG	1																																															1
AGCCTG/AGGCTC			2	1	1																																											4
AGCTCC/AGCTGG	3	2																																														5
AGCTGC/AGCTGC	1																																															1
AGGATC/ATCCTG	2	2		1																																												5
AGGATG/ATCCTC	1	2																																														3
AGGCAT/ATGCCT		1																																														1
AGGGGG/CCCCCT	1																																															1
ATCATG/ATCATG	2	1																																														3
