genome.fa.s9625.2.7.7.80.10.50.1000.6.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  6  of  25  ( 2922 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)
1864557--1864593	18	2.1	17	90	5	56	78	0	18	2	0.87
1868247--1869022	385	2.0	386	93	1	1333	25	20	17	37	1.94
1868918--1869011	44	2.1	45	90	2	145	25	18	18	38	1.93
1871099--1871123	12	2.1	12	100	0	50	68	0	24	8	1.16
1874756--1874797	22	1.9	22	85	0	57	45	19	0	35	1.50
1876912--1876936	11	2.3	11	100	0	50	40	8	36	16	1.77
1876948--1877000	24	2.3	23	83	6	70	56	15	15	13	1.67
1887407--1887507	49	2.3	45	82	16	115	50	13	1	33	1.53
1889830--1889917	43	2.1	43	97	2	169	32	17	11	38	1.85
1891322--1891377	26	2.1	26	83	9	69	60	17	14	7	1.55
1893540--1893578	14	2.8	14	84	0	51	35	25	10	28	1.89
1894221--1894263	21	2.0	21	100	0	86	27	39	4	27	1.76
1898907--1899042	68	2.0	68	100	0	272	19	8	7	64	1.45
1899031--1899063	6	5.8	6	86	13	52	0	0	15	84	0.61
1899015--1899063	11	4.5	11	92	2	64	4	0	10	85	0.71
1911962--1912121	80	2.0	80	100	0	320	23	23	16	36	1.94
1919476--1919535	24	2.5	24	76	17	63	65	13	15	6	1.46
1920780--1920828	24	2.0	24	84	0	62	34	16	18	30	1.93
1920795--1920849	24	2.3	25	81	6	60	32	16	21	29	1.95
1922495--1922656	74	2.2	73	82	8	195	23	19	19	38	1.93
1945981--1946026	11	4.3	11	86	5	67	89	6	4	0	0.60
1945981--1946026	21	2.2	21	92	0	74	89	6	4	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953578--1953607	13	2.4	13	94	5	53	26	30	0	43	1.55
1969788--1969943	74	2.1	72	80	10	172	24	17	18	39	1.92
1972237--1972290	22	2.3	23	78	12	58	12	18	11	57	1.64
1973256--1973321	29	2.3	28	82	14	82	7	16	4	71	1.26
1977297--1977358	28	2.2	29	86	11	85	9	11	4	74	1.21
1984242--1984280	20	1.9	21	84	5	53	30	0	41	28	1.57
1988162--1988227	20	3.2	20	72	23	64	3	18	3	75	1.06
1988150--1988222	34	2.2	33	83	13	89	5	16	4	73	1.17
1995643--1995683	22	1.9	21	90	5	64	26	2	36	34	1.70
1999411--1999476	28	2.4	27	80	16	66	7	15	6	71	1.29
1999806--1999846	22	1.9	21	90	5	64	26	2	36	34	1.70
2003574--2003639	28	2.4	27	80	16	66	7	15	6	71	1.29
2003969--2004009	22	1.9	21	90	5	64	26	2	36	34	1.70
2007744--2007805	28	2.2	29	86	11	85	8	12	4	74	1.21
2009552--2009590	21	1.9	20	89	5	60	61	0	2	35	1.10
2009553--2009596	16	2.8	17	77	19	51	61	0	4	34	1.16
2012167--2012230	20	3.3	19	67	16	58	12	21	25	40	1.88
2017742--2017781	21	1.9	21	85	10	55	62	0	17	20	1.33
2017804--2017844	22	1.9	21	90	5	64	24	2	39	34	1.69
2018161--2018198	20	1.9	20	88	0	58	34	10	13	42	1.78
2024471--2024523	24	2.2	24	83	6	72	7	13	20	58	1.59
2029687--2029734	21	2.3	20	86	10	62	41	8	12	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030542--2030579	19	2.1	19	85	9	53	39	5	15	39	1.70
2033029--2033064	18	1.9	19	88	5	56	80	5	13	0	0.88
2033266--2033317	15	3.4	15	75	15	52	15	17	0	67	1.24
2043314--2043361	2	24.0	2	100	0	96	50	0	0	50	1.00
2045783--2045838	25	2.3	25	81	6	62	60	16	14	8	1.57
2048304--2048346	23	1.9	21	81	13	50	32	18	13	34	1.90
2049205--2049287	42	2.0	42	80	4	96	26	20	6	46	1.73
2050066--2050108	20	2.0	21	86	8	61	30	23	20	25	1.99
2052349--2052404	19	2.8	19	75	24	62	76	3	17	1	1.01
2072780--2072804	10	2.5	10	100	0	50	0	8	0	92	0.40
2074954--2074999	15	2.9	16	81	12	51	58	0	30	10	1.32
2075501--2075544	20	2.1	21	83	4	54	43	9	11	36	1.72
2078742--2078783	17	2.5	17	100	0	84	38	19	4	38	1.73
2079974--2080002	15	2.0	15	93	6	51	0	20	3	75	0.94
2091395--2091446	25	2.1	25	85	3	70	57	13	13	15	1.65
2100539--2100586	24	2.0	24	83	0	60	25	22	16	35	1.95
2103806--2103860	24	2.3	25	81	6	60	30	16	20	32	1.94
2113074--2113134	18	3.2	19	72	23	56	1	19	1	77	0.95
2113077--2113139	27	2.3	27	74	17	67	1	20	1	76	0.96
2120425--2120452	3	9.3	3	100	0	56	64	0	0	35	0.94
2129190--2129218	15	2.0	15	93	6	51	0	20	3	75	0.94
2140606--2140657	25	2.1	25	85	3	70	57	13	13	15	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2149812--2149859	24	2.0	24	83	0	60	25	22	16	35	1.95
2153220--2153274	24	2.3	25	81	6	60	30	16	20	32	1.94
2192796--2193280	46	10.4	46	86	4	652	22	20	13	43	1.87
2192805--2193285	235	2.0	237	90	2	752	22	20	13	43	1.86
2198968--2199490	46	11.4	46	85	1	674	23	20	14	42	1.88
2198968--2199490	137	3.8	138	85	1	674	23	20	14	42	1.88
2198968--2199499	183	2.9	183	88	1	726	23	20	13	42	1.88
2201519--2204007	827	3.0	827	99	0	4933	30	19	15	35	1.92
2211211--2211250	20	2.0	20	85	9	55	42	12	10	35	1.76
2211297--2211352	22	2.7	20	78	13	67	26	16	21	35	1.94
2220670--2220717	25	2.0	24	84	12	62	54	2	0	43	1.12
2220681--2220829	78	1.9	80	81	9	182	42	6	5	45	1.51
2228009--2228094	42	2.0	42	82	8	104	19	15	11	53	1.72
2232764--2232891	65	2.0	65	82	3	159	46	3	6	43	1.44
2244300--2244388	46	1.9	46	90	4	144	38	7	22	31	1.83
2251167--2251292	46	2.8	45	80	8	148	38	7	23	30	1.82
2255347--2255399	10	5.3	10	79	6	54	77	0	3	18	0.92
2255311--2255381	26	2.6	27	80	12	83	70	1	8	19	1.21
2255347--2255400	20	2.7	19	88	5	72	77	0	3	18	0.91
2255579--2255605	10	2.7	10	100	0	54	92	0	0	7	0.38
2255579--2255608	11	2.8	11	95	5	53	90	0	0	10	0.47
2256862--2257173	41	7.6	41	85	2	333	32	11	21	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2256862--2257178	82	3.9	82	87	0	427	32	11	21	35	1.88
2256862--2257178	123	2.6	123	87	1	447	32	11	21	35	1.88
2257149--2257245	41	2.4	41	83	0	113	32	7	20	39	1.80
2260763--2260805	19	2.3	19	100	0	86	39	27	16	16	1.90
2264808--2264961	76	2.0	79	83	6	199	46	6	8	38	1.60
2267508--2267540	14	2.2	16	89	10	52	27	21	9	42	1.83
2268881--2269472	296	2.0	296	95	0	1076	42	19	9	29	1.82
2273664--2273697	15	2.3	15	89	0	50	82	0	17	0	0.67
2299781--2299835	20	2.8	20	94	0	92	63	9	10	16	1.51
2308687--2308923	29	8.1	29	81	6	282	37	18	5	38	1.73
2308674--2308923	57	4.3	57	83	6	313	38	18	4	37	1.72
2312130--2312159	11	2.7	11	89	0	51	20	16	23	40	1.91
2312207--2312356	29	5.2	29	84	0	201	35	22	5	37	1.77
2313336--2313447	46	2.5	46	91	2	183	32	19	8	39	1.83
2318918--2318974	15	3.5	15	72	25	53	19	24	36	19	1.94
2318917--2319001	34	2.5	34	96	1	152	17	27	35	20	1.95
2318967--2319027	21	3.0	20	86	9	88	14	29	34	21	1.93
2322467--2322551	34	2.5	35	94	1	145	18	25	35	20	1.95
2322495--2322556	20	3.3	20	69	26	64	12	32	33	20	1.91
2325743--2325791	26	1.9	25	83	4	62	46	2	0	51	1.12
2325575--2325780	116	1.8	112	87	6	288	41	6	2	49	1.44
2327218--2327271	20	2.7	19	75	8	63	33	31	18	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2327256--2327355	21	4.8	21	70	15	82	36	21	21	22	1.96
2327321--2327393	20	3.7	20	75	3	76	39	24	17	17	1.91
2327326--2327410	40	2.1	40	89	4	127	36	25	17	20	1.94
2327322--2327410	20	4.4	20	72	16	67	35	25	17	20	1.95
2327402--2327551	41	3.7	41	82	5	157	39	24	16	20	1.92
2327438--2327554	20	5.9	19	75	11	85	41	23	16	18	1.90
2327501--2327551	19	2.6	20	81	6	68	35	23	17	23	1.95
2328401--2328447	24	2.0	24	95	0	85	27	21	17	34	1.95
2330889--2330977	20	4.4	20	85	2	117	35	23	21	19	1.95
2330982--2331069	19	4.8	19	77	16	105	45	17	21	15	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25