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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_026724335.1/fasta/hub_GCA_026724335.1_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:              215
Total size of examined sequences (bp):           8330065
Total number of identified SSRs:                 505
Number of SSR containing sequences:              59
Number of sequences containing more than 1 SSR:  40
Number of SSRs present in compound formation:    59


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

Unit size	Number of SSRs
2	104
3	49
4	37
5	204
6	111

Frequency of identified SSR motifs
----------------------------------

Repeats	3	4	5	6	7	8	9	10	11	total
AC	-	-	-	1		1				2
AT	-	-	-	14	15	2			2	33
CA	-	-	-	1						1
GC	-	-	-					1		1
TA	-	-	-	30	21	10	3	2		66
TC	-	-	-	1						1
AAT	-	-	3							3
ACT	-	-	2							2
AGA	-	-	2	1						3
AGG	-	-	2							2
ATA	-	-	2	1						3
ATT	-	-	6	1						7
CCG	-	-	1							1
GAA	-	-	3							3
TAA	-	-	5	1						6
TAG	-	-	2							2
TAT	-	-	5							5
TCA	-	-	2							2
TCC	-	-	1							1
TCT	-	-	2							2
TTA	-	-	4		1					5
TTC	-	-	2							2
AAAT	-	4	1							5
AATA	-	3								3
AATT	-	5								5
ATAA	-	3								3
ATTA	-	3								3
ATTT	-	3	1							4
TAAA	-	2								2
TAAT	-	2								2
TATT	-	1								1
TGTT	-	1								1
TTAA	-	3								3
TTAT	-	1								1
TTTA	-	3	1							4
AAAAG	1									1
AAAAT	7									7
AAATA	5									5
AACAT	1									1
AAGAA	1									1
AATAA	3									3
AATAT	4									4
AATGT	1									1
AATTT	3									3
ACACA	1									1
ACAGT	1									1
ACATA	1									1
ACCAA	1									1
ACTAA	1									1
ACTAT	9									9
AGTAT	3									3
ATAAA	6									6
ATAAT	3									3
ATACC	1									1
ATACT	5									5
ATAGT	12									12
ATATA	2									2
ATATT	4									4
ATGTA	4									4
ATTAA	2									2
ATTAC	4									4
ATTAG	2									2
ATTAT	3									3
ATTTA	3									3
ATTTT	7									7
CATAC	1									1
CCCCA	1									1
CGCGC	1									1
CTAAA	1									1
CTAAT	2									2
CTATA			1							1
GAATT	1									1
GAGTG	1									1
GATTA	1									1
GTAAT	2									2
GTATA	4									4
TAAAA	4									4
TAAAT	2									2
TAATA	2									2
TAATG	2									2
TACTA	7									7
TAGTA	6									6
TATAC	5	1								6
TATAG	10		1	2	1			1		15
TATAT	6									6
TATGG	1									1
TATGT	2									2
TATTA	1									1
TATTC	1									1
TATTT	2	1								3
TGTAA	1									1
TTAAA	1									1
TTAAT	3									3
TTAGA	1									1
TTAGT	1									1
TTATA		1								1
TTATC	1									1
TTATG	1									1
TTATT	5	1								6
TTTAA	4									4
TTTAT	4	1								5
TTTTA	2									2
TTTTG	1	1								2
AAACCG	1									1
AAATAT	1									1
AAATGA	1									1
AAATTA	1									1
AACACT	1									1
AACCTT	1									1
AAGGAA	1									1
AATAAA	1									1
AATACT	1									1
AATATA	1									1
AATTTT	1									1
ACACTA	1									1
ACCTCA	1									1
ACTAAG	1									1
ACTATA	1									1
AGAGAT	1									1
AGATAA	1									1
AGCTCA			1							1
AGGGAG	3	1								4
AGTCCT	1									1
ATAAAA	2									2
ATAAAG	1									1
ATAAAT				1						1
ATAACA		1								1
ATACTA	1									1
ATAGTA				1						1
ATAGTG			1							1
ATTAAA	1									1
ATTGGA			1							1
ATTTTT	2									2
CAAACA	1									1
CAAACT	1									1
CAACCA	1									1
CAACTC	1									1
CAACTT	1									1
CATCAG	1									1
CATGAA	1									1
CCACAA		1								1
CGGTGG	1									1
CTAATA	1									1
CTCAAA	1									1
CTCAAC	2									2
CTCAGC	1									1
CTCCCT	2									2
CTTTCT		1								1
GAACCT	1									1
GAAGTA	1									1
GACCTT	1									1
GAGATG	1									1
GAGCCT	1									1
GATTGG	1									1
GCTCCT	1									1
GCTGAG		1								1
GGAATG	1									1
GGTGGA	1									1
GGTTGA	3									3
GGTTGT		1								1
GTAATA	1									1
GTATTG			1							1
GTTGTG	1									1
TAAATT	1									1
TAACAA			1							1
TAATAG	1	1								2
TACTAT	1									1
TAGTAT	1									1
TATACA	2									2
TATATC	1									1
TATATT	1									1
TATCTG		1								1
TATCTT	1									1
TATTAA	1									1
TCAAAT	1									1
TCAACA		1								1
TCAACC	1	1								2
TCATCC			1							1
TCATTG						1				1
TCTCAC	1									1
TCTGAA	1									1
TCTGAG	1									1
TGAACC		1								1
TGAAGA	1									1
TGCAGT	1									1
TGGTTG		1		1						2
TGTATA		1								1
TGTATG		1								1
TGTGTA	1									1
TGTTAG		1								1
TTAAAA	1									1
TTATAT	1									1
TTCTCC	1									1
TTGAGT		1								1
TTTAAT	1									1
TTTATT	2									2
TTTTAA	1									1
TTTTCA			1							1
TTTTTA	2									2

Frequency of classified repeat types (considering sequence complementary)
-------------------------------------------------------------------------

Repeats	3	4	5	6	7	8	9	10	11	total
AC/GT	-	-	-	2		1				3
AG/CT	-	-	-	1						1
AT/AT	-	-	-	44	36	12	3	2	2	99
CG/CG	-	-	-					1		1
AAG/CTT	-	-	9	1						10
AAT/ATT	-	-	25	3	1					29
ACT/AGT	-	-	4							4
AGG/CCT	-	-	3							3
ATC/ATG	-	-	2							2
CCG/CGG	-	-	1							1
AAAC/GTTT	-	1								1
AAAT/ATTT	-	20	3							23
AATT/AATT	-	13								13
AAAAC/GTTTT	1	1								2
AAAAG/CTTTT	2									2
AAAAT/ATTTT	45	3								48
AAACC/GGTTT	1									1
AAACT/AGTTT	3									3
AAATT/AATTT	18									18
AACAC/GTGTT	1									1
AACAT/ATGTT	5									5
AAGAT/ATCTT	1									1
AATAG/ATTCT	1									1
AATAT/ATATT	25	1								26
AATCT/AGATT	6									6
AATGT/ACATT	14									14
AATTC/AATTG	1									1
ACAGT/ACTGT	1									1
ACCAT/ATGGT	3									3
ACCCC/GGGGT	1									1
ACTAT/AGTAT	61	1	2	2	1			1		68
ACTCC/AGTGG	1									1
CCGCG/CGCGG	1									1
AAAAAT/ATTTTT	9									9
AAAAGG/CCTTTT	1									1
AAAATG/ATTTTC	1		1							2
AAAATT/AATTTT	6									6
AAACAC/GTGTTT	1									1
AAACCG/CGGTTT	1									1
AAACTC/AGTTTG	2	1								3
AAAGAG/CTCTTT		1								1
AAAGAT/ATCTTT	3									3
AAATAT/ATATTT	4			1						5
AAATTC/AATTTG	1									1
AAATTT/AAATTT	1									1
AACAAT/ATTGTT		1	1							2
AACACT/AGTGTT	2	1								3
AACATC/ATGTTG		1								1
AACATG/ATGTTC	1									1
AACCAC/GGTTGT	2	3		1						6
AACCTC/AGGTTG	7	1								8
AACCTG/AGGTTC	1	1								2
AACCTT/AAGGTT	1									1
AACTAT/AGTTAT	1									1
AACTCC/AGTTGG	1									1
AACTGC/AGTTGC	1									1
AACTTC/AAGTTG	1									1
AAGACT/AGTCTT	1									1
AAGATG/ATCTTC	1									1
AAGCTC/AGCTTG			1							1
AAGGAG/CCTTCT	1									1
AAGGTC/ACCTTG	1									1
AAGTAG/ACTTCT	1									1
AATACC/ATTGGT			1							1
AATACT/AGTATT	4									4
AATAGT/ACTATT	3	1		1						5
AATATT/AATATT	1									1
AATCCC/ATTGGG	1									1
AATCTG/AGATTC	1									1
AATGAC/ATTGTC						1				1
AATGGG/ATTCCC	1									1
AATTCC/AATTGG			1							1
ACACAT/ATGTGT	1	1								2
ACAGAT/ATCTGT		1								1
ACATAT/ATATGT	2	1								3
ACCGCC/CGGTGG	1									1
ACCTCC/AGGTGG	1									1
ACTAGG/AGTCCT	1									1
ACTATC/AGTGAT			1							1
ACTCAG/AGTCTG	1									1
ACTCTC/AGAGTG	1									1
AGAGAT/ATCTCT	1									1
AGAGGG/CCCTCT	5	1								6
AGATAT/ATATCT	1									1
AGATGG/ATCTCC	1									1
AGCAGG/CCTGCT	1									1
AGCATC/ATGCTG	1									1
AGCCTC/AGGCTG	1	1								2
AGCCTG/AGGCTC	1									1
AGGATG/ATCCTC			1							1
