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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_014884895.1/fasta/hub_GCA_014884895.1_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:              126
Total size of examined sequences (bp):           8363850
Total number of identified SSRs:                 498
Number of SSR containing sequences:              51
Number of sequences containing more than 1 SSR:  40
Number of SSRs present in compound formation:    48


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

Unit size	Number of SSRs
2	116
3	31
4	28
5	186
6	137

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

Repeats	3	4	5	6	7	8	9	10	total
AT	-	-	-	17	10	5	2	1	35
CA	-	-	-	1					1
GT	-	-	-	1					1
TA	-	-	-	36	21	18	2		77
TG	-	-	-	2					2
AAT	-	-	6						6
ACT	-	-		1					1
ATA	-	-	1						1
ATT	-	-	3	1					4
CAA	-	-	1						1
GAA	-	-	4						4
GAG	-	-	1						1
GAT	-	-	1						1
TAA	-	-	2						2
TAT	-	-	3						3
TCC	-	-	1						1
TTA	-	-	3	1					4
TTG	-	-	2						2
AAAT	-	2							2
AACA	-	1							1
AATT	-	5	1						6
ATAA	-	1							1
ATTA	-	2							2
ATTT	-	1							1
TAAA	-	4							4
TAAT	-	2							2
TATG	-	1							1
TATT	-	1							1
TTAA	-	2							2
TTAT	-	2							2
TTTA	-	2	1						3
AAAAC	1								1
AAAAT	10			1					11
AAATA	4								4
AAGAA	1								1
AATAA	8								8
AATGT	1								1
ACATA	1								1
ACATT	3	1							4
ACTAT	2	1							3
ACTCT	1								1
AGTAT	1								1
ATAAA	6								6
ATAAT	1								1
ATACT	2	1							3
ATAGT	14	2							16
ATATA	3								3
ATATT	4								4
ATGGT	1								1
ATGTT		1							1
ATTAA	1								1
ATTAC	2								2
ATTAG	1								1
ATTAT	2	1							3
ATTTA	5								5
ATTTT	5								5
CAAAA	1								1
CACAA	1								1
CATTA	4	1							5
CTATA		3							3
CTCTT	1								1
GAATT	1								1
GAGTG	1								1
GATTA	1								1
GATTT	1								1
GTAAT	1								1
GTATA	2		1						3
GTATT	1								1
TAAAA	3								3
TAAAT	1								1
TAACT	1								1
TAATA	1								1
TAATG	4								4
TAATT	2								2
TACAA	1								1
TACTA	8								8
TAGTA	2								2
TATAG	11								11
TATAT	8								8
TATGT	2								2
TATTA	2								2
TATTC	1								1
TATTT	5								5
TGTAA	2								2
TGTGT	1								1
TTAAT	4	1							5
TTATA	1								1
TTATT	3								3
TTTAA	3								3
TTTAT	3								3
TTTCT	1								1
TTTTA	7								7
AAAAAT	1								1
AAATAT	1								1
AAATGA	1								1
AACAAT	1								1
AACACT	1								1
AATAAA	1								1
AATAGT		1							1
AATATA	1								1
AATTAA	1								1
ACAACC	1		1						2
ACTAAT	1								1
ACTCAG	1								1
AGAGGG	1								1
AGGGAG	2								2
AGGTTT	1								1
AGTAAT		1							1
AGTGAT	1								1
AGTGGT	1					1			2
AGTTTG	1								1
ATACTA	1								1
ATAGCA						1			1
ATAGTA	2	1	1						4
ATATAA	1								1
ATCTCT			1						1
ATTATA	1								1
ATTGGT		1							1
ATTTAT		1							1
ATTTTT	1								1
CAACCA	1								1
CAATAG		1							1
CAATCC	1								1
CAATGG		1							1
CATATA	1								1
CTATAT	1								1
CTATCC	1								1
CTATTA		1							1
CTCAAC	1								1
CTCCAC	1								1
CTCCCT	5								5
CTCCTA	1								1
CTCCTG	1								1
CTTTCT	1								1
GAAGTA	1								1
GACCTT	1								1
GAGAAT		1							1
GAGATT	1								1
GAGCCT	1								1
GAGGAA	1								1
GAGGGA	2								2
GAGTTG	1								1
GATAAT			1						1
GATGAA			1						1
GATTGA	1								1
GCAGTA	1								1
GCAGTT	1								1
GCTACT	1								1
GGAGAA	1								1
GGTTGA	1								1
GTATTA		1							1
GTGGAG	1								1
GTGGTA	1								1
GTGGTT	1								1
GTTCAG		1							1
GTTGAG	2								2
GTTTCA	1								1
GTTTGG		1							1
TAAAAA	3								3
TAAATA	1								1
TAATGA	1								1
TACAAT	1								1
TACTAA	1								1
TACTAT	3	1							4
TAGTAT	3								3
TAGTGT	1								1
TATACA			1						1
TATATC	1								1
TATGAT	1								1
TATTAC		1							1
TATTAG	1								1
TATTTT	1								1
TCCTCT	1								1
TCTCCC	1	1							2
TCTGAA	1								1
TCTTAG	1								1
TCTTCA	1								1
TCTTCC		1							1
TCTTTT	2								2
TGAACC	1								1
TGAGAA		1							1
TGAGAG		1							1
TGAGGC	1								1
TGAGGT	1								1
TGATGT	1								1
TGGAAC	1								1
TGGTTG		2							2
TGTGAG	1								1
TTAAAA	2								2
TTAATT	1								1
TTACTA	1								1
TTAGTA	1								1
TTATAT	1								1
TTATCT	1								1
TTCATT	1								1
TTCCTT	1								1
TTGAGG		1	1		2				4
TTTAAA	1								1
TTTAAG	1								1
TTTATA	1								1
TTTATT	2								2
TTTGAG	1								1

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

Repeats	3	4	5	6	7	8	9	10	total
AC/GT	-	-	-	4					4
AT/AT	-	-	-	53	31	23	4	1	112
AAC/GTT	-	-	3						3
AAG/CTT	-	-	4						4
AAT/ATT	-	-	18	2					20
ACT/AGT	-	-		1					1
AGG/CCT	-	-	2						2
ATC/ATG	-	-	1						1
AAAC/GTTT	-	1							1
AAAT/ATTT	-	13	1						14
AATT/AATT	-	11	1						12
ACAT/ATGT	-	1							1
AAAAC/GTTTT	2								2
AAAAG/CTTTT	2								2
AAAAT/ATTTT	54			1					55
AAATC/ATTTG	1								1
AAATT/AATTT	16	1							17
AACAC/GTGTT	2								2
AACAT/ATGTT	3	1							4
AACTT/AAGTT	1								1
AAGAG/CTCTT	1								1
AATAC/ATTGT	2								2
AATAG/ATTCT	1								1
AATAT/ATATT	22	1							23
AATCT/AGATT	2								2
AATGT/ACATT	17	2							19
AATTC/AATTG	1								1
ACCAT/ATGGT	1								1
ACTAT/AGTAT	42	7	1						50
ACTCC/AGTGG	1								1
ACTCT/AGAGT	1								1
AAAAAG/CTTTTT	2								2
AAAAAT/ATTTTT	9								9
AAAAGG/CCTTTT	1								1
AAAATG/ATTTTC	2								2
AAAATT/AATTTT	4								4
AAACCC/GGGTTT		1							1
AAACCT/AGGTTT	1								1
AAACTC/AGTTTG	2								2
AAACTG/AGTTTC	1								1
AAACTT/AAGTTT	1								1
AAAGAG/CTCTTT	1								1
AAAGAT/ATCTTT	1								1
AAATAT/ATATTT	6	1							7
AAATTT/AAATTT	1								1
AACAAT/ATTGTT	1								1
AACACT/AGTGTT	2								2
AACATC/ATGTTG	1								1
AACCAC/GGTTGT	3	2	1						6
AACCTC/AGGTTG	5	1	1		2				9
AACCTG/AGGTTC	1	1							2
AACTCC/AGTTGG	1								1
AACTGC/AGTTGC	1								1
AACTGG/AGTTCC	1								1
AAGACT/AGTCTT	1								1
AAGAGG/CCTCTT	2	1							3
AAGATG/ATCTTC	1		1						2
AAGGAG/CCTTCT	1								1
AAGGTC/ACCTTG	1								1
AAGTAG/ACTTCT	1								1
AATACC/ATTGGT		1							1
AATACT/AGTATT	8	1							9
AATAGC/ATTGCT		1				1			2
AATAGT/ACTATT	6	6	1						13
AATCAT/ATGATT	1								1
AATCCC/ATTGGG	1								1
AATCTC/AGATTG	2								2
AATCTG/AGATTC	1								1
AATGAG/ATTCTC		2							2
AATGAT/ATCATT	1		1						2
AATGGC/ATTGCC		1							1
AATTAC/AATTGT	1								1
AATTAT/AATTAT	1								1
ACACTC/AGTGTG	1								1
ACATAT/ATATGT	1		1						2
ACCACT/AGTGGT	2					1			3
ACCTCC/AGGTGG	2								2
ACTATC/AGTGAT	1								1
ACTCAG/AGTCTG	1								1
ACTCCT/AGGAGT	1								1
ACTCTC/AGAGTG		1							1
ACTGCT/AGCAGT	2								2
AGAGAT/ATCTCT			1						1
AGAGGG/CCCTCT	11	1							12
AGATAT/ATATCT	2								2
AGCAGG/CCTGCT	1								1
AGCCTC/AGGCTG	1								1
AGCCTG/AGGCTC	1								1
AGGGAT/ATCCCT	1								1
