genome.fa.s8610.2.7.7.80.10.50.1000.10.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: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2108335

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  10  of  11  ( 1240 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)
1903453--1904036	134	4.4	133	90	1	810	25	17	30	26	1.97
1904037--1904098	29	2.1	30	90	3	99	50	12	14	22	1.77
1904325--1904382	29	2.0	30	89	3	91	46	12	12	29	1.77
1904259--1904471	90	2.3	88	84	10	268	44	13	13	29	1.82
1904417--1904471	28	2.0	28	89	6	87	47	14	9	29	1.75
1904487--1904566	33	2.5	32	86	6	110	38	10	18	32	1.84
1904541--1904750	66	3.2	64	80	7	235	43	14	10	32	1.78
1904562--1904752	64	3.0	63	82	6	224	45	15	8	30	1.77
1904716--1904786	37	1.9	37	83	8	92	36	9	11	42	1.74
1904817--1904875	31	1.9	31	86	3	84	44	13	11	30	1.80
1904913--1905005	36	2.6	36	84	1	114	40	13	16	29	1.87
1904913--1905038	35	3.5	36	80	7	107	38	12	18	30	1.88
1905018--1905307	105	2.8	104	75	12	281	38	11	16	33	1.84
1905294--1905398	36	3.0	34	73	13	95	40	9	15	34	1.79
1905733--1906184	4	113.0	4	100	0	904	25	0	25	50	1.50
1912358--1912398	3	14.0	3	89	5	66	65	0	0	34	0.93
1912358--1912395	20	1.9	20	94	0	67	65	0	0	34	0.93
1912358--1912408	23	2.3	23	89	3	77	66	0	0	33	0.92
1917369--1917414	18	2.6	18	92	0	74	17	47	21	13	1.81
1917391--1917420	13	2.3	13	94	0	51	16	43	23	16	1.87
1918256--1918291	17	2.1	18	89	5	56	47	5	13	33	1.67
1919823--1919938	24	4.8	24	85	6	155	26	12	18	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919819--1919948	24	5.4	24	82	3	118	26	11	19	42	1.85
1928922--1929002	29	2.8	29	90	3	119	13	33	29	23	1.93
1929067--1929136	33	2.1	33	91	0	113	11	40	22	25	1.88
1929133--1929195	33	1.9	33	90	0	99	15	30	26	26	1.96
1931302--1931349	23	2.1	23	88	0	69	35	12	18	33	1.89
1931839--1931899	23	2.7	23	92	0	95	37	21	4	36	1.75
1932253--1932325	23	3.2	23	84	7	94	39	23	4	32	1.74
1931661--1933473	431	4.2	430	97	1	3424	39	12	7	39	1.72
1932698--1932756	23	2.6	23	88	0	82	40	16	5	37	1.71
1933124--1933186	23	2.7	23	92	0	99	38	20	4	36	1.74
1931661--1933473	857	2.1	857	97	1	3386	39	12	7	39	1.72
1933473--1933537	25	2.6	25	97	0	121	36	12	10	40	1.78
1936519--1936581	23	2.7	23	92	0	99	38	20	4	36	1.74
1936944--1936977	16	2.1	16	94	0	59	26	20	5	47	1.73
1938170--1938244	3	25.0	3	77	0	78	24	33	6	36	1.81
1938180--1938261	36	2.3	36	91	0	128	20	32	8	37	1.83
1938174--1938261	12	7.3	12	85	0	95	21	32	7	37	1.83
1938198--1938261	18	3.6	18	75	8	67	18	32	9	39	1.83
1939739--1940883	199	5.7	199	95	0	2040	31	16	15	36	1.90
1939739--1940883	397	2.9	398	95	1	2042	31	16	15	36	1.90
1941002--1941050	19	2.6	19	93	0	80	57	10	2	30	1.43
1942841--1942906	33	2.0	33	87	0	96	22	46	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1942940--1942983	21	2.1	21	91	0	70	15	31	11	40	1.83
1945009--1945061	24	2.2	24	83	6	63	26	7	13	52	1.66
1945201--1945243	20	2.3	18	85	14	61	20	16	11	51	1.75
1945387--1945433	20	2.4	19	79	10	58	21	17	8	53	1.70
1945173--1945646	181	2.6	183	88	2	677	27	15	13	43	1.84
1951216--1951390	90	2.0	89	89	3	271	37	12	6	44	1.68
1958090--1958264	90	2.0	89	91	1	287	36	12	7	44	1.70
1960148--1960173	13	2.0	13	100	0	52	23	23	15	38	1.92
1962187--1962213	6	4.5	6	100	0	54	18	48	18	14	1.82
1964724--1964776	24	2.2	24	78	15	65	47	5	13	33	1.66
1972565--1972602	20	1.9	20	88	0	58	65	5	2	26	1.27
1974067--1974108	3	14.3	3	90	5	68	71	0	0	28	0.86
1974426--1974965	177	3.1	176	92	0	846	29	20	17	32	1.96
1975332--1975442	22	5.0	22	95	2	197	36	12	15	36	1.85
1975801--1976017	54	4.0	54	88	0	299	26	23	12	37	1.91
1977318--1977482	90	1.8	90	88	0	249	35	16	16	32	1.91
1980982--1981150	32	5.3	32	83	1	187	42	14	14	28	1.86
1980982--1981150	64	2.6	64	86	3	225	42	14	14	28	1.86
1980982--1981173	32	6.0	32	82	3	172	41	14	15	28	1.86
1980982--1981173	64	3.0	64	83	3	199	41	14	15	28	1.86
1982031--1982056	13	2.0	13	100	0	52	30	15	0	53	1.42
1982055--1982469	8	51.9	8	97	0	506	33	24	10	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983374--1983415	19	2.2	19	83	8	50	47	14	11	26	1.78
1990270--1990330	17	3.4	17	79	16	61	24	3	3	68	1.19
1990272--1990331	20	3.3	18	80	15	70	23	3	3	70	1.18
1991082--1991160	12	7.3	10	80	18	72	75	1	1	21	0.94
1991081--1991174	17	5.9	16	80	14	81	73	2	2	22	1.05
1991082--1991160	5	14.6	5	77	22	72	75	1	1	21	0.94
1991082--1991160	22	3.7	21	75	20	74	75	1	1	21	0.94
1991192--1991269	37	2.1	37	83	9	97	73	6	0	20	1.05
1991261--1991318	23	2.5	22	81	10	71	75	1	8	13	1.10
1991262--1991321	24	2.5	24	81	7	70	75	1	8	15	1.12
1992405--1992451	15	3.3	14	77	11	51	57	2	4	36	1.30
1992401--1992462	27	2.3	24	75	24	61	58	3	3	35	1.31
1992460--1992605	33	4.3	33	71	16	120	50	4	2	42	1.38
1992450--1992646	70	2.8	68	77	18	170	48	5	3	43	1.40
1992519--1992658	41	3.8	37	78	11	110	49	5	4	41	1.44
1992589--1992697	39	2.8	39	87	5	141	46	6	4	42	1.50
1993256--1993374	58	2.0	59	90	1	186	26	15	26	31	1.96
1993315--1993664	84	4.2	84	86	0	502	23	18	24	34	1.96
1994800--1995060	95	2.7	95	91	3	389	31	19	17	31	1.95
1997641--1997956	23	14.3	21	68	23	106	72	3	3	19	1.16
1997721--1997810	31	3.0	30	79	12	78	73	4	2	20	1.11
1997647--1997956	4	75.8	4	68	22	91	72	3	3	20	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998971--1999012	14	3.2	13	83	12	50	76	2	0	21	0.90
1999002--1999059	27	2.2	26	82	11	73	56	5	0	37	1.21
1999001--1999048	20	2.5	20	80	10	55	58	4	0	37	1.18
1999100--1999401	38	8.3	38	83	13	329	43	4	5	46	1.48
1999048--1999401	38	9.8	36	82	12	326	44	5	4	45	1.47
2009530--2009595	29	2.3	29	91	0	105	34	21	4	39	1.74
2017209--2017270	29	2.1	30	87	3	90	35	20	4	38	1.74
2020380--2020422	13	3.3	13	90	0	68	30	23	13	32	1.93
2020394--2020605	85	2.5	83	83	7	266	34	18	15	31	1.93
2020428--2020605	85	2.1	83	92	2	293	34	18	15	31	1.92
2020663--2020697	2	17.5	2	100	0	70	48	0	0	51	1.00
2020755--2020799	2	22.5	2	91	8	74	48	2	0	48	1.13
2035538--2035798	109	2.4	108	79	9	289	45	16	16	21	1.84
2038007--2038048	19	2.3	18	88	8	66	14	7	0	78	0.95
2040147--2040171	5	5.0	5	100	0	50	80	0	0	20	0.72
2059318--2059407	32	3.0	29	75	9	90	36	18	5	38	1.75
2060040--2060075	2	18.0	2	100	0	72	50	0	0	50	1.00
2062135--2062173	12	3.3	12	89	7	62	58	2	0	38	1.12
2062581--2062651	30	2.4	30	90	2	108	45	18	18	18	1.86
2063574--2063859	128	2.2	128	91	1	457	33	17	24	24	1.96
2065187--2065239	27	2.0	27	85	7	72	52	3	15	28	1.59
2067285--2067324	20	2.1	19	90	4	62	67	5	0	27	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2067285--2067350	17	3.6	18	85	8	80	65	4	1	28	1.21
2067285--2067336	20	2.7	20	78	21	58	65	3	0	30	1.10
2068902--2068928	7	3.9	7	100	0	54	29	0	0	70	0.88
2069509--2069729	21	10.3	21	76	11	152	20	19	20	39	1.92
2069509--2069737	42	5.4	42	79	11	202	21	19	20	38	1.93
2069528--2069729	65	3.1	65	84	4	241	20	18	19	40	1.92
2069822--2069853	6	5.5	6	96	3	57	31	53	15	0	1.43
2070410--2070457	21	2.3	21	96	0	87	18	18	31	31	1.95
2070900--2070932	17	1.9	17	93	0	57	24	18	0	57	1.40
2071350--2071482	20	6.7	20	70	16	87	27	27	18	26	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11