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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_001945495.1/fasta/hub_GCA_001945495.1_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:              13
Total size of examined sequences (bp):           9040288
Total number of identified SSRs:                 1498
Number of SSR containing sequences:              13
Number of sequences containing more than 1 SSR:  13
Number of SSRs present in compound formation:    285


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

Unit size	Number of SSRs
1	56
2	234
3	714
4	85
5	102
6	307

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	total
A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	9	6	4		4	1		1			1															1	27
T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	6	6	4	2	2	3			2		2							1	1								29
AG	-	-	-	2	2						1		1																															6
AT	-	-	-	62	29	15	15	9	2	5	1	1			1																													140
CA	-	-	-	2																																								2
CT	-	-	-	2					1																																			3
GA	-	-	-	2	3	1	1		2																																			9
GC	-	-	-	1																																								1
GT	-	-	-					1																																				1
TA	-	-	-	31	13	7	3	3	4	1																																		62
TC	-	-	-	4	3	1																																						8
TG	-	-	-	2																																								2
AAC	-	-							1								1																											2
AAG	-	-	4	2	1	1																																						8
AAT	-	-	32	14	14	6	3	2	1	2	2			1						1																								78
ACA	-	-	5	1	3								1																															10
ACT	-	-	12	1	3	3								1																														20
AGA	-	-	3			1	1	2																																				7
AGC	-	-	1																																									1
AGG	-	-	3																																									3
AGT	-	-	5				1																																					6
ATA	-	-	14	11	7	4	3	1		1																																		41
ATC	-	-	9	4			1	1																																				15
ATG	-	-	5	5	2																																							12
ATT	-	-	28	17	10	3	2	4	1	2				1																														68
CAA	-	-	2	2	4	2		1		1																														1				13
CAC	-	-	1	1		2																																						4
CAT	-	-	2	1		1	1	3		3	1																																	12
CCA	-	-		1		2																																						3
CCT	-	-	1		3		1																																					5
CTA	-	-	9	1	1	1		1										1																										14
CTC	-	-	2	2	1																																							5
CTG	-	-	1																																									1
CTT	-	-	3	2	1	1																										1												8
GAA	-	-	6		3	1			1	1		1																																13
GAG	-	-	1					1																																				2
GAT	-	-	9	1	2	1		3	1																																			17
GCA	-	-					1																																					1
GCT	-	-	1	1	1	2																																						5
GGA	-	-	4																																									4
GGT	-	-		1	1		1																																					3
GTA	-	-	10	2	1	2		2			1	2																		1														21
GTG	-	-	1																																									1
GTT	-	-	2	2		2				1	1	1						1											1															11
TAA	-	-	27	18	3	7	4	1	2		1	2																																65
TAC	-	-	2	1	2				1																																			6
TAG	-	-	4	1		1	1																																					7
TAT	-	-	23	15	19	4	6	2	1	1	1	1	1																															74
TCA	-	-	9	1	1			1	1																																			13
TCC	-	-	3	5	1	1																																						10
TCT	-	-	7	2	3	2			1	1										1																								17
TGA	-	-	3	5	3	1	1																																					13
TGC	-	-		1																																								1
TGG	-	-	1																																									1
TGT	-	-	7	1	1	3		2																																				14
TTA	-	-	29	13	11	1	2	2	3		1	1																																63
TTC	-	-	5	1																																								6
TTG	-	-	5	4	1																																							10
AAAG	-	1																																										1
AAAT	-	8	1	2																																								11
AATA	-	8							1																																			9
AATG	-		1																																									1
AATT	-	6	1			1																																						8
AGAT	-	1																																										1
AGGG	-		1																																									1
ATAA	-	2																																										2
ATAC	-	1	1																																									2
ATCT	-			1																																								1
ATGC	-	6	2																																									8
ATTA	-	2																																										2
ATTG	-	1																																										1
ATTT	-	2	2	1	1																																							6
CTTT	-	1																																										1
TAAA	-	1		1																																								2
TAAT	-	2																																										2
TATC	-	1																																										1
TATT	-	1	3	1																																								5
TGCA	-	6	2	1																																								9
TTAA	-	1																																										1
TTAT	-	1	1																																									2
TTCA	-	1																																										1
TTCT	-	2																																										2
TTGG	-		1																																									1
TTTA	-	1	1																																									2
TTTC	-	1																																										1
TTTG	-	1																																										1
AAAAC	1																																											1
AAAAG	1																																											1
AAAAT	6	2																																										8
AAAGA	1																																											1
AAATA	3																																											3
AAATT	3																																											3
AAGAA	1																																											1
AATAA	1																																											1
AATAT	1																																											1
AATTA	1																																											1
AATTC	1																																											1
AATTT	3																																											3
AGAAA	2																																											2
ATAAT	3																																											3
ATATA	3																																											3
ATATT	1																																											1
ATCAA	1																																											1
ATTAA	3																																											3
ATTAT	1																																											1
ATTTT	2																																											2
CAAAA	1																																											1
CAATT	1																																											1
CGAGA	1																																											1
CGTCT	1																																											1
CTTTC	1																																											1
CTTTT	2																																											2
GAAAA	1																																											1
GAAAT	1																																											1
GAATT	1																																											1
GTTTT	2																																											2
TAAAA	3																																											3
TAAAT	1																																											1
TAATT	1																																											1
TATAG	1																																											1
TATTA	2																																											2
TATTT	6	1																																										7
TCATA	1																																											1
TCTTT	2																																											2
TGTTA	1																																											1
TGTTG	1	1																																										2
TTAAA	1																																											1
TTAAT	3																																											3
TTATA	1																																											1
TTATT	5																																											5
TTCAA	2																																											2
TTCCC	1																																											1
TTCTC	1																																											1
TTGAA		1																																										1
TTTAA	1																																											1
TTTAC	1																																											1
TTTAT	2																																											2
TTTCT	1																																											1
TTTTA	2																																											2
TTTTC	4	1																																										5
TTTTG	1																																											1
AAAAAC	1																																											1
AAAATA	2	1																																										3
AAACCA	1	1																																										2
AAACCT	5	1	2			2		1					1																															12
AAAGAG	1	1			1																																							3
AAATAT	1																																											1
AACAAA	1																																											1
AACAAT		1																																										1
AACCTA	3	1	1																																									5
AACTCA	1																																											1
AAGAAA	1																																											1
AAGAAC	1																																											1
AAGAGA		1																																										1
AAGGAC	1																																											1
AATAAA	1																																											1
AATACT	1																																											1
AATATA	2																																											2
AATCAG		1																																										1
AATGAA	1																																											1
AATTCT		1																																										1
ACAAGA			1																																									1
ACATCA		1																																										1
ACCACA	1																																											1
ACCTAA			1				1																																					2
ACCTGT	1																																											1
ACTACA	2																																											2
ACTACC	1		1																																									2
ACTTGC	1																																											1
AGAAAG						1																																						1
AGAATC	1																																											1
AGAGAA			1																																									1
AGAGAT	1																																											1
AGATCA	1																																											1
AGATCC	1																																											1
AGCCTG			1																																									1
AGCTTG	1																																											1
AGGAAC				1																																								1
AGGAAG		1																																										1
AGTATT	1																																											1
AGTGGT				1																																								1
AGTTGG	1																																											1
ATAAAA	1																																											1
ATAAAT	1																																											1
ATAATG																	1																											1
ATATAA		1																																										1
ATATTT	1																																											1
ATCAGA	1																																											1
ATCATG	1																																											1
ATCATT		1																																										1
ATCTTG	1																																											1
ATGAAA	1																																											1
ATGATC	1	1																																										2
ATGTCC	1																																											1
ATTAGA		1																																										1
ATTATC	2																																											2
ATTCCC		1																																										1
ATTCTA	1																																											1
CAAAAC	1																																											1
CAAAGC		1																																										1
CAAATT		1																																										1
CAACAG	3	1																																										4
CAACAT	1																																											1
CAAGAC	1																																											1
CAATAA	1																																											1
CACATC	1																																											1
CACCAA	1																																											1
CAGGAA		1		2																																								3
CAGGAC				1																																								1
CAGGAT		1																																										1
CAGTTC	1																																											1
CAGTTG	1																																											1
CATCAC	1																																											1
CATCTC	1																																											1
CATGAG	1																																											1
CATTGG	1																																											1
CCAATG	1																																											1
CCACTA		1																																										1
CCGTGA	1																																											1
CCTAAA	6	4	7	3	1	1	1	2					1																															26
CCTCAA		1																																										1
CCTCAG	1																																											1
CCTCCC		1																																										1
CCTCTA	1																																											1
CCTGAA		1		1																																								2
CCTGAT	1																																											1
CCTGTC		1																																										1
CCTTCT	1																																											1
CCTTGC	1																																											1
CTAAAG	1																																											1
CTACAT	1																																											1
CTAGAT	1																																											1
CTATTA	1																																											1
CTCAAA		1																																										1
CTGAAA	1																																											1
CTGGAT	1																																											1
CTGGTA		1																																										1
CTGTAC			1																																									1
CTTCCT	1																																											1
CTTGAA	1																																											1
CTTGAT								1																																				1
CTTGTT			1																																									1
CTTTGG	1																																											1
GAAACA	1																																											1
GAAAGA		1																																										1
GAAATA	1																																											1
GAACAA	1	1					1																																					3
GAAGAG	1				1																																							2
GAAGAT	1			1																																								2
GAAGGG		1																																										1
GAATCT		1																																										1
GAGGAA	2																																											2
GATAAT	2																																											2
GATCAA	1																																											1
GATCAC	1																																											1
GATCAT	1																																											1
GATGAA	1																																											1
GATGAG	1																																											1
GATGCA		1																																										1
GATGGG		1																																										1
GATGGT	1																																											1
GATTCT				1																																								1
GATTTT		1																																										1
GCAGCT	1																																											1
GCAGGA			1																																									1
GCTCCA		1																																										1
GGAATG	1																																											1
GGATCA	1	2																																										3
GGTGCA	1																																											1
GGTTTA	5		3																																									8
GTAATG	1																																											1
GTACTA	1																																											1
GTAGAA		1																																										1
GTAGAT	1																																											1
GTAGTG				1																																								1
GTAGTT	2																																											2
GTCAGA	1																																											1
GTGGTT	1																																											1
GTTCTA		1																																										1
GTTGTA	1																																											1
GTTGTG	3		1																																									4
GTTTAG					1		1																																					2
TAAACC	2				1																																							3
TAACAA	1																																											1
TAATAC	1																																											1
TACTAA	1																																											1
TAGTAT	1																																											1
TATAAA	1																																											1
TATCAT	1																																											1
TATTAA	2																																											2
TATTAC	1																																											1
TCAAAA	1																																											1
TCAACT		1																																										1
TCAAGA	2																																											2
TCAAGT		1																																										1
TCATCC							1																																					1
TCATCG						1																																						1
TCATCT		1																																										1
TCATGA	1																																											1
TCCTCT	1																																											1
TCCTGA	3	1																																										4
TCCTGG											1																																	1
TCCTTC			1																																									1
TCTGAT	1																																											1
TCTTCA				1																																								1
TCTTCC	1	3																																										4
TCTTGT	1																																											1
TGAAAC	1																																											1
TGACTT		1																																										1
TGAGCC	2	1																																										3
TGAGTC	1																																											1
TGCATG	1																																											1
TGCCTG		1																																										1
TGGAAT	1	1																																										2
TGGAGA	1																																											1
TGGCTT	1																																											1
TGGGGT	1																																											1
TGGTGT	1																																											1
TGTTCC	1																																											1
TGTTCT	1																																											1
TGTTGA	1																																											1
TGTTGC			1																																									1
TGTTGG	1																																											1
TTAATA	3																																											3
TTAGGA	1																																											1
TTATTG	1																																											1
TTCAAA		1																																										1
TTCAAC	1																																											1
TTCAGA	1																																											1
TTCATT	1																																											1
TTCCAG	1																																											1
TTCCCC			1																																									1
TTCTTG		1		1																																								2
TTCTTT		1	1																																									2
TTGAAC	1																																											1
TTGAAT	1																																											1
TTGGCA	1		1																																									2
TTTAGG	1	2	4						1			1						1																										10
TTTCAA	1																																											1
TTTCAT	1																																											1
TTTGGT	1																																											1
TTTGTC	1																																											1
TTTTAC	1																																											1
TTTTCA	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	total
A/T	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	15	12	8	2	6	4		1	2		3							1	1							1	56
AC/GT	-	-	-	4				1																																				5
AG/CT	-	-	-	10	8	2	1		3		1		1																															26
AT/AT	-	-	-	93	42	22	18	12	6	6	1	1			1																													202
CG/CG	-	-	-	1																																								1
AAC/GTT	-	-	21	10	9	7		3	1	2	1	1	1				1	1											1											1				60
AAG/CTT	-	-	28	7	8	6	1	2	2	2		1								1												1												59
AAT/ATT	-	-	153	88	64	25	20	12	8	6	5	4	1	2						1																								389
ACC/GGT	-	-	3	3	1	4	1																																					12
ACT/AGT	-	-	42	6	7	7	2	3	1		1	2		1				1												1														74
AGC/CTG	-	-	3	2	1	2	1																																					9
AGG/CCT	-	-	14	7	5	1	1	1																																				29
ATC/ATG	-	-	37	17	8	3	3	8	2	3	1																																	82
AAAC/GTTT	-	1																																										1
AAAG/CTTT	-	5																																										5
AAAT/ATTT	-	24	8	5	1				1																																			39
AACC/GGTT	-		1																																									1
AATC/ATTG	-	1																																										1
AATG/ATTC	-	1	1																																									2
AATT/AATT	-	11	1			1																																						13
ACAT/ATGT	-	1	1																																									2
AGAT/ATCT	-	2		1																																								3
AGGG/CCCT	-		1																																									1
ATGC/ATGC	-	12	4	1																																								17
AAAAC/GTTTT	5																																											5
AAAAG/CTTTT	15	1																																										16
AAAAT/ATTTT	30	3																																										33
AAAGG/CCTTT	1																																											1
AAAGT/ACTTT	1																																											1
AAATC/ATTTG	1																																											1
AAATG/ATTTC	1																																											1
AAATT/AATTT	17																																											17
AACAC/GTGTT	1	1																																										2
AACAT/ATGTT	1																																											1
AAGAG/CTCTT	1																																											1
AAGGG/CCCTT	1																																											1
AATAT/ATATT	12																																											12
AATTC/AATTG	5	1																																										6
ACGAG/CGTCT	2																																											2
ACTAT/AGTAT	1																																											1
ATATC/ATATG	1																																											1
AAAAAC/GTTTTT	2																																											2
AAAAAG/CTTTTT	1	1	1																																									3
AAAAAT/ATTTTT	4	1																																										5
AAAACC/GGTTTT	3	1																																										4
AAAAGT/ACTTTT	1																																											1
AAAATC/ATTTTG	1	1																																										2
AAAATG/ATTTTC	5																																											5
AAACAG/CTGTTT	1																																											1
AAACCT/AGGTTT	22	8	18	3	3	3	3	3	1			1	2					1																										68
AAACTC/AGTTTG	1	1																																										2
AAACTG/AGTTTC	2																																											2
AAAGAC/CTTTGT	1																																											1
AAAGAG/CTCTTT	1	3	1		1	1																																						7
AAAGCC/CTTTGG	2	1																																										3
AAAGCT/AGCTTT	1																																											1
AAAGTC/ACTTTG		1																																										1
AAATAG/ATTTCT	1																																											1
AAATAT/ATATTT	6	1																																										7
AAATTC/AATTTG	1	2																																										3
AAATTG/AATTTC	1																																											1
AACAAG/CTTGTT	4	2	2	1			1																																					10
AACAAT/ATTGTT	3	1																																										4
AACACC/GGTGTT	3																																											3
AACAGC/CTGTTG	3	1	1																																									5
AACAGG/CCTGTT	1	1		3																																								5
AACATC/ATGTTG	2	1																																										3
AACCAC/GGTTGT	5		1																																									6
AACCCC/GGGGTT	1																																											1
AACCTC/AGGTTG		1																																										1
AACCTG/AGGTTC		1		1																																								2
AACTAC/AGTTGT	5																																											5
AACTAG/AGTTCT		1																																										1
AACTCC/AGTTGG	1																																											1
AACTGC/AGTTGC	1																																											1
AACTGG/AGTTCC	2																																											2
AACTTC/AAGTTG	1	1																																										2
AACTTG/AAGTTC	2	1																																										3
AAGACC/CTTGGT	1																																											1
AAGAGG/CCTCTT	6	4			1																																							11
AAGATC/ATCTTG	5							1																																				6
AAGATG/ATCTTC	2	1		2																																								5
AAGCTC/AGCTTG	1																																											1
AAGGAC/CCTTGT	1																																											1
AAGGAG/CCTTCT	1		1																																									2
AAGGGC/CCCTTG	1																																											1
AAGGGG/CCCCTT		1	1																																									2
AAGTAG/ACTTCT		1																																										1
AAGTGC/ACTTGC	1																																											1
AATACT/AGTATT	5																																											5
AATAGT/ACTATT	2																																											2
AATATT/AATATT	5																																											5
AATCAG/ATTCTG	3	1		1																																								5
AATCCT/AGGATT	1																																											1
AATCTG/AGATTC	1	1																																										2
AATGAT/ATCATT	5	1															1																											7
AATGCC/ATTGGC	3		1																																									4
AATGGG/ATTCCC	1	1																																										2
AATGGT/ACCATT	1																																											1
AATTAG/AATTCT	1	2																																										3
AATTCC/AATTGG	1	1																																										2
ACAGGC/CCTGTG		1																																										1
ACAGGG/CCCTGT		1																																										1
ACAGGT/ACCTGT	1		1																																									2
ACATCC/ATGTGG	1																																											1
ACATCT/AGATGT	2																																											2
ACATGC/ATGTGC	1																																											1
ACATGG/ATGTCC	1																																											1
ACCACT/AGTGGT	1	1	1	2																																								5
ACCAGG/CCTGGT				1							1																																	2
ACCAGT/ACTGGT		1																																										1
ACCATC/ATGGTG	2																																											2
ACCGTG/ACGGTC	1																																											1
ACCTCT/AGAGGT	1																																											1
ACCTGC/AGGTGC	1																																											1
ACGATC/ATCGTG	1																																											1
ACGATG/ATCGTC						1																																						1
ACTAGT/ACTAGT	1																																											1
ACTCAG/AGTCTG	1																																											1
ACTCTG/AGAGTC	1																																											1
AGAGAT/ATCTCT	1																																											1
AGATCC/ATCTGG	2																																											2
AGATCT/AGATCT	1																																											1
AGATGC/ATCTGC		1																																										1
AGATGG/ATCTCC	2																																											2
AGCAGG/CCTGCT			1																																									1
AGCATG/ATGCTC	1																																											1
AGCCTC/AGGCTG	1																																											1
AGCCTG/AGGCTC	2	1	1																																									4
AGCTCC/AGCTGG		1																																										1
AGCTGC/AGCTGC	1																																											1
AGGATC/ATCCTG	5	4																																										9
AGGATG/ATCCTC	1						1																																					2
AGGGGG/CCCCCT		1																																										1
ATCATG/ATCATG	4	1																																										5
ATCCCC/ATGGGG		1																																										1
