genome.fa.s9579.2.7.7.80.10.50.1000.11.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  11  of  29  ( 3390 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)
1965876--1966004	52	2.5	52	75	12	147	46	28	16	8	1.76
1966000--1966172	19	9.6	19	76	12	141	10	20	23	45	1.81
1966003--1966097	33	2.9	33	90	0	154	11	22	21	45	1.83
1966000--1966172	33	4.8	38	78	8	150	10	20	23	45	1.81
1968226--1968305	20	4.4	19	78	18	98	46	17	22	13	1.83
1968245--1968324	34	2.4	34	97	2	153	45	18	23	12	1.84
1968320--1968537	53	4.1	52	87	10	302	13	22	17	45	1.83
1968314--1968523	72	2.9	71	84	8	255	14	22	17	45	1.85
1970820--1970844	12	2.1	12	100	0	50	0	28	0	72	0.86
1971019--1971072	24	2.2	24	90	0	81	40	20	16	22	1.91
1971758--1971986	20	11.4	20	85	3	219	18	17	26	37	1.92
1971756--1971967	60	3.5	60	83	5	241	18	16	26	37	1.92
1972220--1972533	33	9.4	33	75	13	218	46	7	4	41	1.52
1972249--1972355	9	11.7	9	74	18	96	51	8	2	37	1.47
1972321--1972446	51	2.5	51	97	0	234	46	5	3	43	1.45
1972244--1972478	18	13.4	18	75	16	208	46	7	4	41	1.52
1972247--1972413	2	79.0	2	67	22	67	49	7	2	40	1.45
1972220--1972530	51	5.9	50	78	12	191	46	7	4	41	1.52
1972455--1972503	25	2.0	25	87	0	71	42	8	8	40	1.64
1972499--1972562	26	2.5	27	85	10	73	46	4	1	46	1.33
1972383--1972554	91	1.9	91	86	4	249	44	6	5	43	1.52
1972517--1972579	26	2.5	26	82	7	67	53	3	3	39	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974204--1974267	31	2.1	31	87	0	92	23	14	18	43	1.86
1975624--1975668	22	2.0	22	86	0	63	11	8	15	64	1.49
1976612--1976651	16	2.5	17	80	12	57	35	17	15	32	1.91
1980319--1980370	21	2.5	21	81	3	61	38	19	25	17	1.93
1980359--1980453	20	4.7	20	80	7	102	32	26	18	22	1.97
1980607--1980640	12	2.9	12	86	4	52	17	41	5	35	1.74
1981195--1981248	24	2.2	24	90	0	81	22	16	20	40	1.91
1981423--1981447	12	2.1	12	100	0	50	72	0	28	0	0.86
1983737--1983867	19	7.7	19	67	23	103	42	19	23	13	1.87
1983737--1983863	33	3.8	33	90	4	211	42	19	23	14	1.88
1983738--1983870	66	2.0	66	98	0	257	41	19	23	15	1.90
1983878--1983934	14	3.7	14	75	20	60	8	24	22	43	1.81
1983863--1983952	33	2.7	33	94	0	153	13	22	21	43	1.87
1983892--1983952	19	3.5	19	72	21	69	11	22	21	44	1.84
1984059--1984095	14	2.6	14	91	0	65	45	24	0	29	1.53
1986465--1986586	20	6.8	19	67	20	75	42	20	24	12	1.86
1986490--1986586	33	2.9	33	92	1	158	40	22	25	11	1.87
1987149--1987276	20	6.3	20	83	5	141	25	17	25	32	1.96
1987149--1987297	81	1.8	81	81	2	183	23	18	24	33	1.97
1987347--1987387	21	2.0	21	85	0	55	34	31	17	17	1.93
1989725--1989786	31	2.1	29	81	6	70	58	6	12	22	1.58
1993472--1993542	35	2.1	34	81	2	79	52	4	5	38	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993913--1993962	9	5.6	9	79	6	57	30	6	0	64	1.18
1993913--1993962	19	2.8	18	73	8	57	30	6	0	64	1.18
1995811--1995887	37	2.1	37	92	4	129	54	0	5	40	1.23
1996034--1996067	2	17.0	2	100	0	68	50	0	0	50	1.00
1996554--1996593	15	2.5	17	88	8	57	42	17	0	40	1.49
2001970--2002054	34	2.5	34	96	0	152	58	0	0	41	0.98
2002985--2003034	24	2.1	24	100	0	100	38	20	8	34	1.82
2010941--2010972	5	6.4	5	92	0	55	43	0	18	37	1.51
2012893--2012931	20	2.0	20	89	0	60	23	25	15	35	1.94
2014442--2014484	22	2.0	22	86	4	61	67	2	11	18	1.32
2017407--2017460	20	2.7	20	94	0	99	31	22	16	29	1.96
2017404--2017542	62	2.3	61	80	1	161	35	22	16	25	1.95
2017470--2017522	20	2.7	20	84	0	79	26	26	20	26	1.99
2017710--2017753	22	2.0	22	95	0	79	20	45	15	18	1.85
2017997--2018060	20	3.2	20	84	0	74	15	17	21	45	1.85
2019355--2019399	18	2.5	18	88	0	72	26	44	15	13	1.83
2019882--2019927	20	2.3	20	88	0	65	36	26	21	15	1.93
2019937--2019994	14	3.9	14	75	16	62	48	22	17	12	1.80
2019921--2020011	32	2.8	33	93	3	157	47	19	18	14	1.83
2020028--2020118	14	5.9	14	73	20	74	12	17	21	48	1.80
2020023--2020130	33	3.3	33	96	1	191	12	18	21	48	1.80
2020118--2020174	20	2.9	19	82	7	69	15	22	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021672--2021707	14	2.6	14	90	0	54	30	0	22	47	1.52
2021847--2021892	19	2.4	19	96	0	83	47	17	17	17	1.83
2021929--2021986	20	2.9	20	97	0	107	15	22	24	37	1.93
2022322--2022414	20	4.7	20	90	0	141	24	21	26	26	1.99
2022533--2022578	19	2.3	20	81	7	58	26	15	30	28	1.96
2026775--2026852	20	3.8	20	77	14	79	12	17	25	43	1.85
2026840--2026887	19	2.5	19	89	0	78	18	18	16	45	1.85
2030846--2030910	33	2.0	33	90	0	103	24	30	24	20	1.98
2031040--2031076	20	1.9	19	89	10	58	45	10	24	18	1.81
2032203--2032262	23	2.4	26	72	8	63	40	11	20	28	1.87
2034272--2034364	20	5.0	20	72	15	83	34	5	17	43	1.72
2034256--2034368	53	2.1	53	93	1	190	30	4	15	48	1.65
2038381--2038454	22	3.4	21	88	3	103	29	31	20	18	1.97
2040911--2041047	67	2.0	67	98	0	265	36	8	20	34	1.84
2047234--2047310	22	3.7	22	86	6	108	27	29	24	18	1.98
2068896--2068920	6	4.2	6	100	0	50	16	0	36	48	1.46
2077801--2077844	3	14.7	3	95	0	79	29	0	2	68	1.02
2077804--2077888	22	3.8	22	75	18	70	24	3	2	69	1.16
2081277--2081319	19	2.2	20	83	4	52	76	0	4	18	0.95
2082280--2082414	58	2.3	58	94	0	234	27	20	21	30	1.98
2083130--2083681	37	15.9	37	69	18	339	38	12	19	28	1.89
2083107--2083302	102	1.9	102	94	0	347	38	13	20	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083159--2083558	65	5.9	65	74	14	312	39	12	19	28	1.88
2083261--2083457	102	1.9	102	86	4	281	42	12	19	26	1.86
2083130--2083574	138	3.2	136	84	4	579	39	13	20	27	1.89
2083407--2083681	101	2.7	101	91	2	435	38	12	20	29	1.89
2083694--2083837	72	1.9	75	85	10	199	38	12	18	30	1.87
2083699--2083859	72	2.2	73	81	10	177	40	13	17	28	1.88
2084994--2085173	95	1.9	95	89	2	281	31	16	18	33	1.93
2086991--2087033	21	2.0	21	81	0	50	30	30	25	13	1.94
2086991--2087148	67	2.4	67	86	5	205	28	25	28	17	1.98
2087799--2087866	22	3.1	22	100	0	136	19	27	26	26	1.99
2093906--2093948	21	2.0	21	81	0	50	30	30	25	13	1.94
2093906--2094079	68	2.6	68	84	4	210	27	27	27	17	1.97
2094446--2094504	30	2.0	30	93	0	100	38	3	23	33	1.72
2094715--2094782	22	3.1	22	100	0	136	19	27	26	26	1.99
2098334--2098367	3	11.7	3	87	6	52	70	0	0	29	0.87
2098313--2098375	20	3.2	20	82	8	78	76	0	3	20	0.93
2098313--2098401	6	15.0	6	75	15	53	75	0	3	21	0.95
2098322--2098363	14	3.1	14	86	10	52	71	0	2	26	0.98
2098407--2098455	25	2.0	24	84	11	64	73	0	12	14	1.10
2100451--2100480	2	15.0	2	92	0	51	53	0	0	46	1.00
2101595--2101667	22	3.3	22	90	0	110	20	41	15	23	1.90
2102059--2102112	20	2.7	19	77	8	63	14	14	22	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2104248--2104346	21	4.7	21	83	5	128	22	34	20	23	1.97
2104248--2104366	42	2.8	42	87	2	150	21	35	19	24	1.96
2104249--2104366	21	5.7	20	81	6	119	21	35	19	23	1.96
2105743--2105864	37	3.6	37	71	24	131	29	0	16	53	1.49
2105719--2105876	64	2.5	64	97	1	298	29	1	17	52	1.52
2105942--2106015	20	3.7	20	88	0	112	32	17	20	29	1.95
2105942--2106046	40	2.6	40	86	3	140	33	17	20	28	1.95
2106339--2106368	6	5.0	6	95	0	51	16	0	20	63	1.31
2110656--2110690	18	1.9	18	100	0	70	25	34	22	17	1.96
2115875--2115937	20	2.9	20	77	15	63	23	26	19	30	1.98

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