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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_014884865.1/fasta/hub_GCA_014884865.1_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:              135
Total size of examined sequences (bp):           8272435
Total number of identified SSRs:                 481
Number of SSR containing sequences:              59
Number of sequences containing more than 1 SSR:  41
Number of SSRs present in compound formation:    42


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

Unit size	Number of SSRs
2	101
3	42
4	31
5	175
6	132

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

Repeats	3	4	5	6	7	8	9	10	11	total
AC	-	-	-	1						1
AT	-	-	-	16	11	5	1	1	1	35
CA	-	-	-	1						1
GA	-	-	-	1						1
GT	-	-	-			1				1
TA	-	-	-	31	18	7	4	2		62
AAT	-	-	7							7
ACT	-	-	1							1
AGA	-	-	1							1
AGG	-	-	1							1
ATA	-	-	1	2						3
ATC	-	-	1							1
ATT	-	-	3							3
GAA	-	-	1							1
GAG	-	-	1							1
GTT	-	-		1						1
TAA	-	-	5							5
TAG	-	-	1							1
TAT	-	-	4							4
TCA	-	-	1							1
TCC	-	-	1							1
TCT	-	-	3							3
TTA	-	-	5		1					6
TTC	-	-	1							1
AAAT	-	1								1
AACA	-	1								1
AATA	-	1	1							2
AATT	-	3								3
ATAA	-	2								2
ATTA	-	4								4
ATTT	-	5								5
TAAA	-	2								2
TAAT	-	3								3
TATT	-	1								1
TTAA	-	2								2
TTTA	-	5								5
AAAAT	10	1								11
AAATA	2									2
AAATT	2									2
AATAA	6									6
AATGT	1									1
AATTA	1									1
ACACA	1									1
ACTAT	3									3
ACTGT	1									1
AGTAT	1	1								2
ATAAA	4									4
ATAAC	1									1
ATAAT	2									2
ATACT	4									4
ATAGT	17									17
ATATA	2									2
ATATT	7									7
ATCTA	1									1
ATGTT	1									1
ATTAA	3									3
ATTAG	1									1
ATTAT	1									1
ATTTA	2									2
ATTTG	1									1
ATTTT	6									6
CAAAA	1									1
CTAAA	1									1
CTATA	1									1
GAATT	1									1
GAGTG	1									1
GATTA	1									1
GATTT	1									1
GGTAT	1									1
GTATA	3		1							4
GTATG	1									1
TAAAA	3									3
TAAAT	2									2
TAAGA	2									2
TAATA	2									2
TACCA	1									1
TACTA	3									3
TAGTA	8									8
TATAC	8									8
TATAG	8									8
TATAT	7									7
TATGT	3									3
TATTA	1									1
TATTC	1									1
TATTT	4									4
TGTAA	1									1
TTAAT	3									3
TTATA		1								1
TTATT	2	1								3
TTCTT	1									1
TTGGT	1									1
TTTAA	4									4
TTTAT	2	1								3
TTTCT	1									1
TTTTA	8									8
AAAAAT	1									1
AAATAT	1									1
AAATGA	1									1
AAATTA	1									1
AAGGAA	1									1
AAGGTT	1									1
AATAAA	1									1
AATAGT	1									1
AATATA	1									1
AATTTT	1									1
ACAACC		2								2
ACTAAT	1									1
ACTATA	1									1
ACTCAG	1									1
AGAGAA	2									2
AGAGAT	1									1
AGAGGG	1									1
AGATGA		1								1
AGGGAG	7									7
AGGTTC	1									1
AGTAGC	1									1
ATAAAG	1									1
ATAAAT	1									1
ATACAC	1									1
ATACTA	2									2
ATAGTA	1			1						2
ATAGTG			1							1
ATATAA	2									2
ATCAGA	1									1
ATTGGA				1						1
ATTGGT					1					1
ATTTAT	2									2
ATTTGT	1									1
ATTTTT	1									1
CAAACT	2									2
CAACCA	2									2
CAACTC	1									1
CAACTG	1									1
CATACA		1								1
CATCAG	1									1
CATGTT	1									1
CCACAA	2									2
CCTCAG		1								1
CTAATA	1									1
CTCAAC	2									2
CTCCCT	2									2
CTCCTA	1									1
CTGTTA	1									1
GAAGTA	1									1
GACCTT	1									1
GAGCCT	1									1
GAGGAT			1							1
GAGGGA	2									2
GATAAT	1									1
GATCTA			1							1
GATTGG	1									1
GGAATG				1						1
GGAGAA	1									1
GGCGGA	1									1
GGTGGA	1									1
GGTTGA	3									3
GTATTA	1									1
GTGTTA	1									1
GTTATT	1									1
GTTTCG	1									1
TAAAAA	3									3
TAAATA	2									2
TAACAA		1								1
TAACAC	1									1
TAACTA	1									1
TAATAG	1									1
TAATTT	1									1
TACTAT		1								1
TAGTAA	1									1
TAGTAT	1									1
TAGTGT	1									1
TATACA	1	1								2
TATATC	1									1
TATTAC	2									2
TCAACC	2									2
TCCATC	1									1
TCGTCA	1									1
TCTCAC	1									1
TCTTAG	1									1
TGAACC		1								1
TGGGTG	1									1
TGGTTG	1			1						2
TGTTAG		1								1
TTAAAA	1									1
TTATAT	1									1
TTATCT	1									1
TTCAGG	1	1								2
TTCATC	1									1
TTCATT		1								1
TTGAAG	1									1
TTGAAT	1									1
TTGAGG		1								1
TTGAGT	1									1
TTTAAA	1									1
TTTATT	2									2
TTTGAG	1									1
TTTTAA	1									1
TTTTAT	1									1

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	-	-	-	47	29	12	5	3	1	97
AAC/GTT	-	-		1						1
AAG/CTT	-	-	6							6
AAT/ATT	-	-	25	2	1					28
ACT/AGT	-	-	2							2
AGG/CCT	-	-	3							3
ATC/ATG	-	-	2							2
AAAC/GTTT	-	1								1
AAAT/ATTT	-	17	1							18
AATT/AATT	-	12								12
AAAAC/GTTTT	1									1
AAAAG/CTTTT	2									2
AAAAT/ATTTT	47	3								50
AAACC/GGTTT	1									1
AAACT/AGTTT	1									1
AAATC/ATTTG	2									2
AAATT/AATTT	17									17
AACAC/GTGTT	1									1
AACAT/ATGTT	5									5
AAGAT/ATCTT	2									2
AATAG/ATTCT	1									1
AATAT/ATATT	22	1								23
AATCT/AGATT	3									3
AATGT/ACATT	2									2
AATTC/AATTG	1									1
ACAGT/ACTGT	1									1
ACCAT/ATGGT	3									3
ACTAT/AGTAT	56	1	1							58
ACTCC/AGTGG	1									1
AAAAAT/ATTTTT	9									9
AAAAGG/CCTTTT	1									1
AAAATG/ATTTTC	1	1								2
AAAATT/AATTTT	5									5
AAACCG/CGGTTT	1									1
AAACTC/AGTTTG	4									4
AAAGAG/CTCTTT	2									2
AAAGAT/ATCTTT	2									2
AAATAC/ATTTGT	1									1
AAATAT/ATATTT	10									10
AAATTC/AATTTG	1									1
AAATTT/AAATTT	1									1
AACAAT/ATTGTT	1	1								2
AACACT/AGTGTT	3	1								4
AACAGT/ACTGTT	1									1
AACATG/ATGTTC	1									1
AACCAC/GGTTGT	5	2		1						8
AACCTC/AGGTTG	7	1								8
AACCTG/AGGTTC	2	2								4
AACCTT/AAGGTT	1									1
AACTAT/AGTTAT	2									2
AACTCC/AGTTGG	1									1
AACTGC/AGTTGC	1									1
AACTTC/AAGTTG	1									1
AAGACT/AGTCTT	1									1
AAGATG/ATCTTC	1	1								2
AAGGAG/CCTTCT	1									1
AAGGTC/ACCTTG	1									1
AAGTAG/ACTTCT	1									1
AATACC/ATTGGT					1					1
AATACT/AGTATT	6									6
AATAGT/ACTATT	6	1		1						8
AATCAG/ATTCTG	1									1
AATCCC/ATTGGG	1									1
AATGAT/ATCATT	1									1
AATGGG/ATTCCC				1						1
AATTCC/AATTGG				1						1
ACACAT/ATGTGT	1	1								2
ACACCC/GGGTGT	1									1
ACATAT/ATATGT	1	1								2
ACCTCC/AGGTGG	1									1
ACGATG/ATCGTC	1									1
ACTATC/AGTGAT			1							1
ACTCAG/AGTCTG	1									1
ACTCCT/AGGAGT	1									1
ACTCTC/AGAGTG	1									1
ACTGCT/AGCAGT	1									1
AGAGAT/ATCTCT	1									1
AGAGGG/CCCTCT	12									12
AGATAT/ATATCT	1									1
AGATCT/AGATCT			1							1
AGATGG/ATCTCC	1									1
AGCATC/ATGCTG	1									1
AGCCTC/AGGCTG		1								1
AGCCTG/AGGCTC	1									1
AGGATG/ATCCTC			1							1
AGGCGG/CCGCCT	1									1
