genome.fa.s8823.2.7.7.80.10.50.1000.1.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: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1111368

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 638 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)
7102--7266	81	2.0	81	89	0	249	19	4	35	40	1.73
24901--24925	8	3.1	8	100	0	50	12	0	36	52	1.39
27315--27340	2	13.0	2	100	0	52	50	0	0	50	1.00
27349--27404	21	2.6	22	75	5	53	26	1	5	66	1.23
27462--27506	23	2.0	23	86	0	63	35	8	6	48	1.61
30799--30883	24	3.6	25	82	9	106	57	14	14	14	1.65
30792--30883	12	7.7	12	73	13	73	57	13	14	15	1.65
30790--30888	24	4.1	24	79	5	92	59	12	13	15	1.61
32760--32929	21	8.0	21	76	2	133	25	14	22	37	1.92
32802--32923	65	1.9	65	86	3	174	24	13	22	39	1.90
38365--38415	19	2.6	20	87	12	79	31	19	25	23	1.98
39131--39298	21	7.9	21	72	5	104	26	13	23	35	1.93
40010--40075	27	2.3	29	82	12	75	21	51	1	25	1.56
44692--44740	16	3.0	16	79	5	62	18	18	30	32	1.95
47115--47286	31	5.5	31	80	7	143	12	26	30	30	1.92
47117--47283	62	2.7	62	82	2	183	11	26	31	29	1.92
47227--47298	31	2.3	31	83	4	83	16	27	29	26	1.97
49288--49967	340	2.0	340	96	0	1245	38	10	17	34	1.83
51751--51918	31	5.5	31	77	6	146	12	26	29	31	1.93
51768--51918	61	2.5	62	83	5	191	12	27	29	30	1.93
53599--53630	16	2.0	16	100	0	64	18	43	18	18	1.88
56077--56246	31	5.5	31	79	4	164	12	25	30	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56094--56246	62	2.5	62	84	4	202	12	26	30	30	1.93
57928--57959	16	2.0	16	100	0	64	18	43	18	18	1.88
62873--62930	23	2.5	23	88	0	89	41	6	17	34	1.76
62846--63007	87	1.9	87	92	0	270	40	11	15	32	1.82
62960--63007	23	2.1	23	92	0	78	33	10	20	35	1.87
63002--63527	198	2.6	197	86	2	660	29	16	15	39	1.89
66262--66306	19	2.4	19	92	0	72	51	8	6	33	1.59
67360--67402	21	2.0	21	90	0	68	32	27	23	16	1.96
67429--67465	19	1.9	19	88	0	56	24	35	29	10	1.89
67951--68168	103	2.1	103	95	0	400	23	12	24	38	1.90
68185--68236	23	2.3	23	89	0	77	19	28	26	25	1.98
74287--74329	21	2.0	21	86	0	59	32	25	23	18	1.97
74357--74395	20	2.0	20	89	0	60	23	33	28	15	1.95
74872--75089	103	2.1	103	93	0	382	24	13	24	37	1.91
75106--75173	23	3.0	23	82	4	84	23	25	26	25	2.00
76958--79094	397	5.4	397	87	3	2733	31	16	13	38	1.87
76958--79090	199	10.7	199	89	2	2722	30	16	13	38	1.87
79279--79337	31	1.9	31	89	0	91	44	5	6	44	1.52
79361--79812	22	20.6	22	88	4	635	48	10	0	40	1.40
81330--81366	18	2.1	18	89	0	56	51	10	5	32	1.60
83919--83975	18	3.4	17	77	22	66	33	5	38	22	1.77
83930--83979	15	3.1	15	83	13	64	26	6	38	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
84047--84094	23	2.1	23	92	0	78	64	20	6	8	1.43
84303--85067	200	3.8	201	89	2	1130	33	15	14	36	1.88
84303--85064	401	1.9	401	89	2	1174	33	15	14	36	1.88
85909--86052	64	2.3	63	77	8	148	29	13	24	32	1.93
88332--88370	19	2.0	20	85	5	53	28	5	23	43	1.75
88567--88630	24	2.9	21	69	24	51	28	18	20	32	1.96
94924--94969	21	2.1	21	84	8	56	39	4	4	52	1.41
94978--95082	25	4.3	23	73	16	79	40	2	1	54	1.26
94967--95054	25	3.4	26	76	17	87	42	3	0	54	1.17
95037--95084	20	2.4	20	82	6	62	43	0	4	52	1.20
96296--96345	23	2.2	23	92	0	82	38	8	22	32	1.83
96449--97139	200	3.5	198	87	3	944	31	15	15	37	1.89
99623--99670	19	2.5	19	100	0	96	54	10	4	31	1.53
101287--101993	195	3.6	198	86	5	964	31	15	14	38	1.87
103253--103289	18	2.1	18	89	0	56	51	10	8	29	1.65
104684--104721	12	3.2	12	92	0	58	26	31	2	39	1.70
106444--106510	30	2.2	30	100	0	134	23	17	25	32	1.97
118637--118711	30	2.5	30	93	0	123	24	18	24	33	1.97
121015--121982	200	4.8	200	90	1	1406	29	16	14	38	1.89
122227--122276	19	2.5	20	90	3	75	56	12	2	30	1.47
123838--123876	18	2.2	18	90	0	60	5	38	0	56	1.22
126546--126933	180	2.2	178	90	2	607	28	15	12	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128336--128390	23	2.3	24	87	6	76	29	34	3	32	1.75
133606--133703	45	2.2	42	80	10	106	33	18	3	44	1.65
141249--141316	23	3.0	23	91	0	100	20	26	22	30	1.98
145497--145593	3	32.0	3	77	10	81	41	1	1	56	1.13
145497--145593	38	2.6	37	79	10	103	41	1	1	56	1.13
145497--145582	38	2.3	38	84	9	106	41	0	1	56	1.06
147846--147942	49	2.0	49	100	0	194	27	12	14	45	1.81
149242--149389	55	2.7	55	82	6	176	45	9	22	22	1.81
149764--149918	55	2.8	55	80	7	181	44	9	22	23	1.81
150993--151027	18	1.9	18	94	0	61	34	5	17	42	1.73
151030--151326	2	150.0	2	95	2	537	0	0	49	50	1.03
151338--151456	12	10.0	12	94	1	195	18	7	31	42	1.78
154696--154775	7	11.7	7	84	11	80	75	0	18	6	1.01
154696--154775	15	5.9	14	80	15	80	75	0	18	6	1.01
154689--154739	23	2.2	23	93	6	86	70	0	23	5	1.09
154689--154747	23	2.6	23	89	5	75	71	0	22	6	1.09
154735--154831	11	8.4	11	73	10	59	76	0	16	7	1.00
154705--154775	18	3.5	19	85	12	81	76	0	18	5	0.98
156026--156223	37	5.3	38	91	3	287	39	20	19	20	1.93
156228--157257	55	18.7	55	86	0	1299	30	20	25	22	1.98
157173--157343	86	2.0	86	84	0	225	30	20	25	22	1.98
157257--157697	55	8.1	55	79	4	444	30	20	25	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157116--157389	141	1.9	141	91	1	442	31	20	25	22	1.98
157061--157444	196	2.0	196	87	1	563	31	20	25	22	1.98
157847--157929	17	4.9	18	78	15	88	44	0	1	54	1.08
157852--157945	3	32.0	3	78	8	86	41	1	1	56	1.13
157845--157945	49	2.0	51	94	3	179	42	0	0	55	1.13
160875--160930	29	1.9	29	82	7	69	42	1	5	50	1.35
162581--162620	18	2.2	18	90	0	62	40	0	0	60	0.97
164494--164525	15	2.2	14	94	5	55	50	3	0	46	1.17
164523--164591	28	2.5	27	83	4	84	44	0	1	53	1.09
165391--165450	2	30.0	2	100	0	120	50	0	0	50	1.00
165454--165501	23	2.1	23	96	0	87	47	20	8	22	1.77
165637--165667	2	15.5	2	100	0	62	51	0	0	48	1.00
175543--175613	15	4.8	15	73	3	72	43	4	18	33	1.69
175543--175613	30	2.4	30	88	2	108	43	4	18	33	1.69
175833--175884	21	2.5	21	81	3	61	38	19	25	17	1.93
175852--175945	41	2.3	41	78	9	102	37	23	20	19	1.94
175873--175967	20	4.7	20	76	7	84	33	25	17	23	1.96
176155--176197	21	2.0	22	90	4	70	20	44	16	18	1.87
176441--176504	20	3.2	20	86	0	83	15	18	21	43	1.87
176641--176695	25	2.2	24	78	15	58	20	9	18	52	1.71
177823--177867	18	2.5	18	88	0	72	26	44	15	13	1.83
178349--178394	20	2.3	20	84	0	56	36	23	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
178360--178404	20	2.3	20	84	3	65	37	20	22	20	1.94
178388--178484	19	5.6	19	69	22	88	46	19	20	13	1.83
178404--178460	14	3.7	14	72	20	51	52	21	15	10	1.72
178388--178479	33	2.8	33	96	0	166	47	19	19	13	1.81
178496--178585	14	5.8	14	71	21	72	12	17	22	47	1.80
178492--178602	33	3.4	33	93	1	188	13	18	21	45	1.84
178512--178602	19	5.4	19	67	25	69	15	18	19	46	1.84
178587--178642	20	2.8	19	81	7	67	16	23	23	37	1.93
179007--179094	41	2.1	41	85	2	122	21	43	14	20	1.88
180668--180721	14	3.5	14	77	22	63	48	20	20	11	1.80

Tables:   1   2   3   4   5   6