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

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_026724395.1/fasta/hub_GCA_026724395.1_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:              2111
Total size of examined sequences (bp):           9301905
Total number of identified SSRs:                 675
Number of SSR containing sequences:              331
Number of sequences containing more than 1 SSR:  135
Number of SSRs present in compound formation:    49


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

Unit size	Number of SSRs
1	1
2	141
3	140
4	50
5	236
6	107

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	total
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-													1	1
AC	-	-	-	1																											1
AT	-	-	-	27	16	10	3	2																							58
GC	-	-	-				1																								1
TA	-	-	-	45	16	14	4	1																							80
TG	-	-	-	1																											1
AAT	-	-	5	1																											6
ACC	-	-	1																												1
ACT	-	-	2	1																											3
AGT	-	-	3	3																											6
ATA	-	-	18	1																											19
ATT	-	-	19	1																											20
CAA	-	-	5																												5
CAC	-	-	1																												1
CTA	-	-	3	1																											4
CTT	-	-	1																												1
GAA	-	-	6																												6
GAT	-	-	3																												3
GTA	-	-	2																												2
GTT	-	-		1																											1
TAA	-	-	11																												11
TAC	-	-	5																												5
TAG	-	-	13																												13
TAT	-	-	13	1						1																					15
TCA	-	-	2																												2
TGA	-	-		1																											1
TGC	-	-	1																												1
TGG	-	-	1																												1
TGT	-	-	2																												2
TTA	-	-	8	1																											9
TTC	-	-	1	1																											2
AAAT	-	1																													1
AATA	-	4																													4
AATT	-	6	1																												7
ACTA	-	1																													1
AGAA	-	1																													1
ATAA	-	1	1																												2
ATTA	-	4	1																												5
ATTT	-	1	1																												2
CATA	-	1																													1
TAAG	-	1																													1
TAAT	-	7	1																												8
TATT	-	6																													6
TTAA	-	3	1																												4
TTAC	-	1																													1
TTAG	-		1																												1
TTAT	-	2																													2
TTTA	-	2	1																												3
AAAAT	9	1																													10
AAAGA	1																														1
AAATA	9																														9
AAATT	1	1																													2
AACAC	1																														1
AACTA	1																														1
AAGAA	1																														1
AATAA	2																														2
AATTA	6																														6
AATTT	2																														2
ACTAT	6																														6
AGTAT	3																														3
ATAAA	7																														7
ATAAT	2	1																													3
ATACT	5																														5
ATAGT	7																														7
ATATA	8	1																													9
ATATC	1																														1
ATATT	4																														4
ATGTA		1																													1
ATTAA	5	1																													6
ATTAT	3	2																													5
ATTTA	6																														6
ATTTC	1																														1
ATTTT	6		1														1														8
CATAA	1																														1
CATTA		1																													1
CCCCA	1																														1
CGCGC	1																														1
CTATA	1																														1
CTTTT	1																														1
GAATT	1																														1
GAGTA	2																														2
GATTA	1																														1
GCGCC	1																														1
GTATA	4																														4
GTGGG	1																														1
GTTTA	1																														1
GTTTG	1																														1
TAAAA	6																														6
TAAAT	4																														4
TAATA	1																														1
TAATG	1																														1
TAATT	7	2																													9
TACTA	18	1																													19
TAGTA	4	1																													5
TATAA	2																														2
TATAC	5																														5
TATAG	3	1																													4
TATAT	8																														8
TATTA	7																														7
TATTG	1	1																													2
TATTT	2																														2
TTAAT	9																														9
TTACA	1																														1
TTATG	1																														1
TTATT	6																														6
TTCAT	1																														1
TTTAA	3			1																											4
TTTAT	6	1																													7
TTTGT	1																														1
TTTTA	6																														6
AAAAAT	1																														1
AAAATA	1																														1
AAAGAG		1																													1
AACTAT	1																														1
AAGGAC	1																														1
AAGGAT	1																														1
AAGGTG	1																														1
AATAAA	1																														1
AATATT	1																														1
AATTTT	1																														1
ACAACC	1																														1
ACATAT	1																														1
ACCACA				1																											1
ACTATA	1																														1
ACTATT	1																														1
AGATAA	1																														1
AGTGAT	1																														1
AGTTTG	1																														1
ATAATT	1																														1
ATACAC	1																														1
ATACTA	1	1																													2
ATAGTA	6																														6
ATATGT	1																														1
ATATTA	1																														1
ATATTT	1																														1
ATGAAT	1																														1
ATTACT	1																														1
ATTAGA	1																														1
ATTCAG	1																														1
ATTCCC	1																														1
ATTCTG	1																														1
ATTGGT	1																														1
ATTTAA	1																														1
ATTTAT	1																														1
CAACCA					1																										1
CAGCTA	1																														1
CAGGTT	1																														1
CATCCA	1																														1
CATTAG			1																												1
CCTGAA						1																									1
CCTGCA	1																														1
CCTTCT	1																														1
CTAATA	1																														1
CTCCCT	1																														1
CTGAGC	1																														1
GAAAAC	1																														1
GAAGCA			1																												1
GAATTT		1																													1
GATGAA		1																													1
GATGAG	1																														1
GGGAGA	1																														1
GTGCTA	1																														1
GTTTTG		1																													1
TAAAAA	1																														1
TAACTG		1																													1
TAATAG	2	1																													3
TACTAA	1																														1
TACTAT	3																														3
TAGTAA	2																														2
TAGTAT	2	2	1																												5
TAGTGG	1																														1
TAGTTG	1																														1
TATACA	1																														1
TATTAG	2																														2
TATTTA	1																														1
TCATAT	1																														1
TCATGT		1																													1
TCTCTA	1																														1
TCTTCA	2																														2
TGACCA		1																													1
TGGTTG		1																													1
TGTAAA	1																														1
TGTATG			1																												1
TGTGGA	1																														1
TGTTAT	1																														1
TGTTGA	1																														1
TTAAAA	1																														1
TTAAGA	1																														1
TTAATT	1																														1
TTATTC	2																														2
TTCAGG	2																														2
TTCATC			1																												1
TTGTGG	1																														1
TTTATT	1																														1
TTTTAT	2																														2
TTTTCA						1																									1
TTTTTA	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	total
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-													1	1
AC/GT	-	-	-	2																											2
AT/AT	-	-	-	72	32	24	7	3																							138
CG/CG	-	-	-				1																								1
AAC/GTT	-	-	7	1																											8
AAG/CTT	-	-	8	1																											9
AAT/ATT	-	-	74	5						1																					80
ACC/GGT	-	-	3																												3
ACT/AGT	-	-	28	5																											33
AGC/CTG	-	-	1																												1
ATC/ATG	-	-	5	1																											6
AAAG/CTTT	-	1																													1
AAAT/ATTT	-	17	3																												20
AACT/AGTT	-	1	1																												2
AAGT/ACTT	-	2																													2
AATT/AATT	-	20	4																												24
ACAT/ATGT	-	1																													1
AAAAC/GTTTT	1																														1
AAAAG/CTTTT	3																														3
AAAAT/ATTTT	59	2	1														1														63
AAACC/GGTTT	1																														1
AAACT/AGTTT	2																														2
AAATG/ATTTC	2																														2
AAATT/AATTT	43	4		1																											48
AACAC/GTGTT	1																														1
AACAT/ATGTT	2																														2
AATAC/ATTGT	1	1																													2
AATAT/ATATT	35	4																													39
AATCT/AGATT	1																														1
AATGT/ACATT	2	2																													4
AATTC/AATTG	1																														1
ACCCC/GGGGT	2																														2
ACTAT/AGTAT	56	3																													59
ACTCT/AGAGT	2																														2
ATATC/ATATG	1																														1
CCGCG/CGCGG	2																														2
AAAAAT/ATTTTT	8																														8
AAAACC/GGTTTT		1																													1
AAAACG/CGTTTT	1																														1
AAAATG/ATTTTC						1																									1
AAAATT/AATTTT	3																														3
AAACTC/AGTTTG	1																														1
AAAGAG/CTCTTT		1																													1
AAAGAT/ATCTTT	1																														1
AAATAT/ATATTT	3																														3
AAATGT/ACATTT	1																														1
AAATTC/AATTTG		1																													1
AAATTT/AAATTT	1																														1
AACAAT/ATTGTT	1																														1
AACATC/ATGTTG	1																														1
AACATG/ATGTTC		1																													1
AACCAC/GGTTGT	2	1		1	1																										5
AACCTG/AGGTTC	3					1																									4
AACTAC/AGTTGT	1																														1
AACTAT/AGTTAT	2																														2
AACTGT/ACAGTT		1																													1
AAGAAT/ATTCTT	2																														2
AAGATG/ATCTTC	2	1	1																												4
AAGATT/AATCTT	1																														1
AAGCAG/CTGCTT			1																												1
AAGGAC/CCTTGT	1																														1
AAGGAG/CCTTCT	1																														1
AAGGAT/ATCCTT	1																														1
AAGGTG/ACCTTC	1																														1
AATACC/ATTGGT	1																														1
AATACT/AGTATT	7	3	1																												11
AATAGT/ACTATT	15	1																													16
AATATG/ATATTC	2																														2
AATATT/AATATT	2																														2
AATCAG/ATTCTG	1																														1
AATCTG/AGATTC	1																														1
AATGCT/AGCATT			1																												1
AATGGG/ATTCCC	1																														1
AATTAG/AATTCT	1																														1
AATTAT/AATTAT	1																														1
ACACAT/ATGTGT	1		1																												2
ACAGCT/AGCTGT	1																														1
ACATAT/ATATGT	3																														3
ACATCC/ATGTGG	2																														2
ACCACT/AGTGGT	1																														1
ACCATG/ATGGTC		1																													1
ACCTGC/AGGTGC	1																														1
ACTAGC/AGTGCT	1																														1
ACTATC/AGTGAT	1																														1
AGAGAT/ATCTCT	1																														1
AGAGGG/CCCTCT	2																														2
AGCCTG/AGGCTC	1																														1
AGGATG/ATCCTC	1																														1
