genome.fa.s3163.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01003163.1 Hibiscus syriacus cultivar Beakdansim tig00006657_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  157297

Tables:   1   2   

This is table  1  of  2  ( 125 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066--1114	23	2.1	23	96	0	89	20	22	28	28	1.98
1066--1126	23	2.7	23	89	0	77	21	22	26	29	1.99
2263--2298	18	2.0	18	88	0	54	50	0	0	50	1.00
3623--3713	3	29.7	3	79	8	94	59	0	2	38	1.10
4259--5347	112	9.7	113	89	1	1516	29	19	13	37	1.91
4101--5347	337	3.7	337	88	3	1721	29	19	13	37	1.91
5814--5868	22	2.5	22	96	0	101	36	14	14	34	1.87
8427--8899	83	5.7	83	93	1	743	37	22	12	27	1.90
13012--13067	27	2.1	27	86	0	76	60	8	10	19	1.55
13106--13145	15	2.7	15	88	3	55	52	12	12	22	1.72
14832--14890	30	1.9	32	82	6	77	61	1	6	30	1.32
15536--15581	20	2.2	22	88	7	69	54	2	0	43	1.12
16916--17002	3	28.7	3	80	6	95	59	0	2	37	1.10
17616--17640	13	1.9	13	100	0	50	32	8	0	60	1.26
17629--17682	22	2.6	20	77	11	54	38	1	1	57	1.20
17637--17689	22	2.3	23	80	9	63	39	0	1	58	1.09
23169--23763	6	100.2	6	96	2	1123	33	0	0	66	0.92
27608--27788	8	21.9	8	73	18	67	50	0	1	47	1.15
27526--27681	54	2.8	56	71	22	134	50	1	0	48	1.12
27651--27721	13	5.2	13	71	18	54	53	1	2	42	1.24
27728--27765	2	19.5	2	94	5	69	50	0	0	50	1.00
28955--28990	17	2.1	17	94	0	63	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30226--30269	22	2.0	23	86	4	63	36	2	2	59	1.23
32085--32122	20	1.9	19	85	15	51	28	5	18	47	1.70
33124--33597	43	10.8	45	71	16	261	43	7	20	28	1.78
33146--33776	88	7.1	87	76	12	470	45	6	20	27	1.76
33189--33832	43	14.7	43	73	13	397	45	7	20	26	1.76
33190--33690	174	2.8	175	89	5	724	44	7	20	27	1.78
33261--33741	141	3.6	137	77	11	419	45	7	20	26	1.76
33601--33844	84	2.8	85	83	6	262	51	6	18	23	1.68
33815--33872	29	2.0	29	86	6	82	62	0	13	24	1.32
33863--33926	28	2.2	28	86	2	92	53	9	17	20	1.71
34161--34876	87	8.4	86	76	10	567	46	6	19	27	1.75
34667--34875	43	4.9	43	78	8	194	47	5	18	28	1.71
34283--34875	218	2.8	208	77	9	483	46	6	19	27	1.75
34161--34669	43	11.7	43	76	5	459	46	7	19	26	1.76
35536--35634	44	2.2	44	87	1	144	41	7	14	37	1.73
38266--38291	2	13.0	2	100	0	52	50	0	0	50	1.00
39802--39844	21	2.0	21	90	0	68	27	0	20	51	1.48
40222--40273	26	2.0	26	100	0	104	42	23	3	30	1.72
40436--40597	82	2.0	82	92	0	270	31	34	3	30	1.73
42599--42678	40	2.1	39	88	4	117	56	8	11	23	1.62
44158--44439	137	2.1	137	83	6	349	30	14	14	41	1.85
46879--46944	32	2.1	32	83	5	82	31	3	4	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47010--47079	32	2.1	34	84	5	90	24	8	10	57	1.59
48573--48635	23	2.7	23	97	0	117	33	26	26	12	1.93
48651--48751	21	4.7	21	78	2	76	40	20	11	26	1.87
48723--48762	21	1.9	21	90	10	64	35	20	17	27	1.95
55605--55678	23	3.2	23	80	0	85	40	18	21	18	1.91
58773--58821	24	2.0	25	92	4	82	51	6	2	40	1.38
65218--65380	83	2.0	83	92	0	272	27	19	29	23	1.98
66445--66581	21	6.6	21	67	9	93	21	18	24	35	1.95
66632--66682	6	8.5	6	100	0	102	33	50	15	0	1.44
67163--67213	21	2.4	21	100	0	102	33	29	19	17	1.95
67119--67245	21	6.1	21	75	9	66	33	27	18	20	1.96
68913--68953	15	2.7	15	96	0	73	21	14	2	60	1.45
70348--70374	11	2.5	11	100	0	54	66	0	0	33	0.92
71488--71512	11	2.3	11	100	0	50	68	0	0	32	0.90
72903--73185	36	7.9	36	83	5	351	20	20	19	39	1.93
72910--73185	73	3.9	73	86	6	377	20	21	19	38	1.94
73197--73277	42	1.9	42	89	0	126	30	17	22	29	1.96
73332--74031	216	3.2	215	89	2	1044	31	19	16	33	1.94
78233--78266	6	5.5	6	89	6	50	55	17	11	14	1.68
78233--78266	13	2.8	12	86	8	50	55	17	11	14	1.68
80021--80054	4	8.5	4	100	0	68	76	0	0	23	0.79
82816--82840	11	2.3	11	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92920--92980	29	2.1	29	90	3	97	32	1	13	52	1.50
93287--93338	21	2.5	21	81	3	61	38	19	25	17	1.93
93327--93440	20	5.7	20	83	6	113	31	25	18	24	1.97
93324--93440	61	1.9	61	85	0	162	33	24	17	23	1.97
93956--94021	18	3.5	19	79	6	71	48	25	16	9	1.76
94017--94181	19	9.1	19	74	15	143	12	24	20	43	1.86
94022--94156	33	3.9	33	87	5	153	11	24	21	42	1.86
94124--94181	20	2.9	20	80	10	64	13	24	18	43	1.87
96325--96475	21	7.2	21	62	10	58	22	37	19	21	1.95
96273--96475	42	4.8	42	80	2	203	22	36	18	22	1.95
96270--96445	84	2.1	84	100	0	352	21	38	17	23	1.93
96270--96475	84	2.5	84	92	1	297	21	36	18	22	1.95
97831--97866	14	2.6	14	90	0	54	30	0	22	47	1.52
97991--98047	14	3.7	14	75	20	60	43	22	24	8	1.81
97973--98063	33	2.8	33	94	0	155	43	20	21	13	1.86
97973--98033	19	3.5	19	74	21	69	44	21	22	11	1.84
98058--98169	33	3.4	32	85	9	163	15	23	19	41	1.89
98026--98162	66	2.1	66	80	2	150	21	23	19	35	1.96
98078--98169	19	5.4	19	66	24	78	16	20	19	43	1.88
100466--100495	3	10.0	3	92	0	51	0	30	0	70	0.88
100462--100495	12	2.8	12	95	0	59	0	29	0	70	0.87
100670--100723	24	2.2	24	90	0	81	40	20	16	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
101508--101560	21	2.5	21	87	0	70	39	16	22	20	1.92
101545--101636	20	4.6	20	73	2	76	39	21	18	20	1.93
101904--101971	19	3.8	19	85	12	92	13	20	17	48	1.80
102108--102144	14	2.6	14	86	0	56	48	21	0	29	1.50
104004--104050	20	2.3	20	88	0	67	38	25	21	14	1.92
104016--104070	20	2.8	20	77	2	58	41	21	20	16	1.90
104060--104150	14	5.9	14	74	20	83	48	24	17	9	1.77
104044--104155	33	3.4	33	96	1	190	48	23	17	10	1.79
104044--104166	65	1.9	66	88	5	187	47	24	17	10	1.78
104719--104763	18	2.5	18	88	0	72	13	15	44	26	1.83
106090--106137	20	2.4	20	82	0	60	37	25	16	20	1.93
106387--106430	22	2.0	22	95	0	79	18	15	45	20	1.85
106599--106736	41	3.4	41	80	5	172	22	18	23	36	1.95
106599--106733	20	6.7	20	80	7	139	22	18	23	34	1.96
109192--109644	156	2.9	156	87	3	640	48	4	18	28	1.67
116568--116624	30	1.9	30	92	0	96	42	10	8	38	1.71
117604--117687	25	3.1	29	62	22	72	52	9	8	29	1.63
117768--118030	132	2.0	132	92	1	438	30	15	17	36	1.91
122988--123021	2	17.0	2	100	0	68	50	0	0	50	1.00
132724--132777	10	6.5	8	85	12	58	14	33	27	24	1.94
132727--132758	7	4.4	7	96	4	55	12	34	28	25	1.92
135260--135326	12	5.6	12	75	7	64	14	14	17	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
135218--135326	24	4.5	24	81	6	116	18	16	16	48	1.81
135218--135326	48	2.3	48	84	9	134	18	16	16	48	1.81
137359--137404	23	2.0	23	87	8	67	19	47	19	13	1.81
137397--137443	15	3.0	15	81	6	58	19	29	25	25	1.98
140118--140151	13	2.6	13	85	0	50	44	0	2	52	1.16
140814--140843	4	7.5	4	100	0	60	26	50	0	23	1.50
142415--142610	96	2.0	97	89	2	297	42	18	10	27	1.84
146466--146502	20	1.9	19	89	10	58	45	10	24	18	1.81
147332--147370	17	2.2	19	86	9	55	35	0	0	64	0.94
147485--147531	13	3.7	13	77	5	51	68	4	0	27	1.08

Tables:   1   2