genome.fa.s9639.2.7.7.80.10.50.1000.8.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  8  of  62  ( 7398 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)
1952761--1952831	33	2.2	33	84	2	99	43	14	8	33	1.75
1952826--1952867	21	2.0	21	90	0	66	50	7	11	30	1.66
1955537--1955562	7	3.7	7	100	0	52	46	11	0	42	1.40
1959861--1959934	38	2.0	37	81	5	87	48	4	0	47	1.20
1965618--1965667	25	2.0	24	81	11	57	38	24	2	36	1.67
1965732--1965795	23	2.8	23	82	0	83	32	26	23	17	1.96
1967484--1967566	21	4.0	21	88	0	121	22	25	24	27	2.00
1973454--1973484	12	2.6	12	100	0	62	6	0	25	67	1.14
1976330--1976358	7	4.1	7	100	0	58	44	0	27	27	1.54
1976322--1976368	7	6.0	8	87	12	55	46	2	25	25	1.64
1976322--1976381	9	7.3	9	86	7	51	50	3	23	23	1.64
1985706--1985760	23	2.5	21	82	8	56	70	3	7	18	1.25
1985929--1985971	2	22.5	2	90	9	72	51	0	0	48	1.00
1986043--1986070	2	14.0	2	100	0	56	50	0	0	50	1.00
1991438--1991504	30	2.3	29	82	12	75	34	8	1	55	1.40
1991579--1991646	28	2.3	29	87	5	93	32	4	4	58	1.37
1991728--1991808	27	2.9	27	79	7	72	56	1	4	37	1.29
1991687--1991812	30	4.3	28	74	11	69	54	1	7	36	1.37
1993831--1993985	77	2.0	77	100	0	310	31	15	16	36	1.90
1995062--1995126	23	2.7	23	78	19	62	61	3	3	32	1.27
1997768--1997797	16	1.9	15	93	6	51	60	0	0	40	0.97
1998446--1998549	54	1.9	55	88	2	156	27	23	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000088--2000351	46	5.8	46	95	1	444	38	6	23	31	1.80
2001073--2001102	15	2.0	15	93	0	51	16	26	0	56	1.40
2003472--2003514	20	2.1	21	82	4	52	46	4	6	41	1.51
2020978--2021021	22	2.0	21	86	4	61	31	6	0	61	1.22
2022347--2022371	11	2.3	11	100	0	50	56	0	0	44	0.99
2024815--2024866	19	2.7	19	88	8	70	30	11	23	34	1.90
2026140--2026234	45	2.1	45	94	0	163	30	10	28	30	1.90
2030103--2030176	6	12.7	6	81	5	71	51	12	0	36	1.39
2030103--2030180	4	19.5	4	81	0	66	51	11	0	37	1.38
2030116--2030174	20	3.0	20	89	0	91	52	11	0	35	1.38
2030103--2030178	12	6.3	12	84	0	80	51	11	0	36	1.39
2030966--2031024	24	2.3	26	80	13	79	25	18	49	6	1.72
2030975--2031018	23	1.9	23	81	9	54	18	25	47	9	1.77
2034462--2034510	24	2.0	24	96	0	89	44	10	12	32	1.75
2038970--2039026	18	3.0	18	78	12	69	50	8	10	29	1.67
2045755--2045792	18	2.1	18	90	0	58	21	42	18	18	1.90
2045795--2045820	13	2.0	13	100	0	52	15	46	23	15	1.83
2045793--2045854	8	7.8	8	74	20	51	16	35	24	24	1.95
2048239--2048326	24	3.7	24	86	6	133	26	17	18	38	1.92
2051489--2051550	29	2.1	29	84	3	79	37	20	4	37	1.75
2051462--2051550	30	3.0	29	78	4	88	37	17	5	39	1.74
2054356--2054777	54	7.8	54	88	1	546	36	21	18	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2054497--2054582	27	3.2	27	64	23	72	32	22	20	24	1.98
2054896--2054984	45	2.0	46	90	2	144	44	12	21	21	1.84
2054885--2054979	45	2.2	41	78	10	102	44	14	20	21	1.87
2056708--2056738	2	15.5	2	100	0	62	51	0	0	48	1.00
2059393--2059427	17	2.1	17	88	0	52	34	11	28	25	1.91
2059908--2060127	54	3.9	53	80	11	251	37	21	16	25	1.93
2059982--2060100	62	1.9	62	89	1	184	39	21	14	24	1.91
2060044--2060177	54	2.5	55	79	9	143	38	19	14	26	1.91
2060153--2060260	56	1.9	56	88	3	164	39	11	16	32	1.84
2060343--2060415	19	3.5	19	68	22	56	42	12	23	21	1.87
2060344--2060436	45	2.1	45	91	0	150	45	12	21	20	1.84
2060847--2060884	20	1.9	20	84	10	51	36	0	13	50	1.42
2063736--2063855	41	2.9	42	92	2	197	35	8	17	38	1.80
2063736--2063859	42	3.0	42	92	2	205	36	8	18	37	1.81
2063984--2064042	28	2.1	28	93	0	100	59	10	10	20	1.58
2064397--2064451	28	2.0	28	92	7	94	43	16	21	18	1.88
2069121--2069160	21	1.9	21	94	0	71	35	30	20	15	1.93
2084266--2084301	5	7.6	5	93	6	58	80	0	19	0	0.71
2085321--2086119	238	3.4	237	86	2	1043	28	28	16	26	1.97
2085321--2086119	297	2.7	294	86	3	1091	28	28	16	26	1.97
2085321--2086119	59	13.5	59	86	1	1035	28	28	16	26	1.97
2086870--2087008	36	3.9	36	84	3	174	19	25	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2086870--2087012	72	2.0	72	90	1	225	18	25	18	36	1.94
2096824--2096895	28	2.6	26	81	12	81	19	8	13	58	1.61
2098023--2098055	2	16.5	2	100	0	66	48	0	0	51	1.00
2099533--2099577	20	2.2	20	100	0	90	17	26	11	44	1.82
2103797--2103855	29	2.0	29	84	12	77	44	1	0	54	1.10
2103797--2103852	27	2.0	29	83	10	73	46	1	0	51	1.11
2104697--2104721	2	12.5	2	100	0	50	52	0	0	48	1.00
2105556--2105651	40	2.4	40	100	0	192	36	31	15	16	1.90
2105536--2105733	20	9.8	20	70	8	87	37	26	16	18	1.92
2105700--2105969	20	13.5	20	81	6	269	37	25	17	20	1.94
2106651--2106697	24	2.0	24	87	8	69	25	14	21	38	1.92
2109184--2109445	19	14.7	19	78	17	305	45	17	22	14	1.84
2109172--2109439	53	5.1	52	89	10	397	46	17	22	13	1.83
2109416--2109531	53	2.2	52	86	3	160	18	23	18	38	1.93
2109454--2109541	19	4.8	19	82	14	123	13	22	15	47	1.81
2109632--2109668	14	2.6	14	91	0	65	45	21	0	32	1.52
2111637--2111693	14	3.7	14	77	20	60	45	22	21	10	1.82
2111618--2111710	33	2.8	33	95	0	168	47	21	20	10	1.80
2111581--2111715	19	7.6	19	76	16	128	45	23	19	11	1.82
2111711--2111838	19	7.3	19	73	19	116	8	17	28	45	1.78
2111711--2111801	32	2.8	34	90	6	143	7	18	28	45	1.77
2111886--2112168	93	3.1	93	98	0	550	45	19	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2113864--2113987	19	7.1	19	68	18	99	44	20	23	12	1.84
2113864--2113982	33	3.5	33	91	4	184	45	20	22	11	1.83
2113909--2113965	14	3.7	14	72	20	51	43	22	22	10	1.84
2113995--2114100	33	3.1	33	87	5	149	12	22	19	45	1.84
2114014--2114100	19	4.9	19	66	16	69	13	21	19	44	1.85
2114192--2114262	33	2.2	33	86	0	97	46	16	22	14	1.83
2114443--2114497	22	2.5	22	81	0	74	20	16	40	23	1.91
2114644--2114758	20	5.7	20	83	6	160	20	18	26	33	1.96
2114646--2114801	40	3.9	40	84	6	183	19	17	26	37	1.93
2114646--2114777	20	6.6	20	81	6	142	19	17	26	36	1.94
2114745--2114798	20	2.7	19	82	5	63	12	18	24	44	1.85
2114784--2114865	21	4.0	21	71	7	69	25	17	24	32	1.96
2117390--2117434	18	2.2	22	85	14	62	64	8	8	17	1.47
2117453--2117516	27	2.3	28	82	15	80	71	0	0	28	0.86
2117478--2117518	21	2.0	20	86	9	57	75	0	0	24	0.80
2118134--2118186	23	2.3	24	80	9	65	24	47	15	13	1.81
2118134--2118186	12	4.6	12	79	6	56	24	47	15	13	1.81
2129725--2129786	20	3.0	21	68	17	65	25	19	24	30	1.98
2129718--2130128	42	10.0	42	72	13	316	28	19	21	29	1.98
2129896--2130005	22	5.2	21	64	16	66	27	20	20	30	1.98
2129666--2130122	164	2.8	164	91	2	756	29	19	21	29	1.97
2129924--2130208	122	2.3	121	95	1	500	28	20	22	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2130060--2130127	22	3.2	21	68	16	50	26	19	23	30	1.98
2130088--2130258	80	2.2	79	92	3	290	30	19	21	28	1.97
2130247--2130271	13	1.9	13	100	0	50	32	24	20	24	1.98
2130259--2130343	42	2.0	42	95	0	152	25	22	23	28	1.99
2130046--2130569	215	2.4	215	92	2	860	30	19	21	28	1.98
2130302--2130473	80	2.2	80	89	4	258	33	18	20	27	1.96
2130474--2130575	42	2.4	42	91	0	159	26	20	20	32	1.97
2130474--2130587	42	2.7	42	85	8	144	27	19	22	30	1.98
2130980--2131286	53	5.9	53	90	2	412	29	18	28	23	1.98
2144967--2145047	38	2.1	38	86	0	108	38	20	11	29	1.88

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62