genome.fa.s4862.2.7.7.80.10.50.1000.10.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: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1530 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)
1908204--1908265	19	3.3	18	76	17	63	37	6	16	40	1.74
1908219--1908293	19	4.1	18	75	14	73	36	9	17	37	1.82
1912374--1912448	29	2.6	29	75	10	66	48	1	16	34	1.54
1914100--1914178	35	2.3	35	97	0	149	44	8	15	31	1.77
1914708--1914737	15	2.1	14	93	6	51	43	3	13	40	1.60
1914817--1914887	19	3.8	19	80	10	76	49	2	16	30	1.61
1914844--1914894	18	2.8	19	88	8	70	45	7	19	27	1.78
1921340--1921394	24	2.3	24	93	0	92	41	25	10	21	1.86
1921492--1921527	14	2.5	15	90	4	56	30	11	16	41	1.83
1922063--1922102	21	2.0	20	85	5	53	55	7	12	25	1.63
1923023--1923071	21	2.3	21	96	0	89	32	30	0	36	1.58
1924260--1924379	42	2.9	42	88	2	170	30	21	19	29	1.97
1944000--1944049	26	1.9	26	87	0	73	30	10	14	46	1.77
1945706--1945751	24	1.9	24	90	0	74	10	26	19	43	1.84
1948874--1948914	21	2.0	21	90	9	66	39	12	14	34	1.84
1961593--1961749	56	2.8	57	86	4	221	26	25	6	42	1.79
1965894--1965960	8	8.4	8	89	0	71	49	17	0	32	1.48
1965902--1965969	16	4.2	16	90	0	100	48	19	0	32	1.49
1965906--1965964	4	14.8	4	92	0	100	49	22	0	28	1.50
1972828--1972927	20	4.7	20	80	16	110	44	12	27	17	1.83
1972814--1972907	47	2.0	47	93	0	161	46	11	22	19	1.81
1972831--1972978	67	2.2	66	90	2	224	43	12	25	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974512--1975036	262	2.0	263	97	0	989	33	17	23	25	1.96
1979047--1979192	47	3.1	47	87	0	220	47	11	19	20	1.80
1980181--1980226	2	25.0	2	79	16	55	47	0	0	52	1.00
1987563--1987615	26	2.0	26	100	0	106	22	26	20	30	1.98
1994782--1994822	2	20.5	2	100	0	82	51	0	0	48	1.00
1998760--1998816	20	2.8	20	89	0	87	7	14	15	63	1.51
1998760--1998816	10	5.7	10	78	0	60	7	14	15	63	1.51
2004214--2004290	29	2.5	31	87	4	104	46	7	18	27	1.76
2004218--2004290	31	2.4	29	86	4	92	47	8	17	26	1.75
2004744--2004790	20	2.3	20	96	3	85	25	25	4	44	1.72
2005678--2005822	53	2.8	52	76	15	133	44	4	8	42	1.55
2005711--2005747	20	2.0	20	84	10	51	45	0	10	43	1.39
2005702--2005823	51	2.3	52	79	12	126	44	3	8	44	1.50
2007023--2007081	26	2.3	25	83	13	68	25	3	1	69	1.13
2008151--2008190	19	2.1	19	95	0	71	30	0	15	55	1.41
2008293--2008826	45	11.9	45	85	0	692	41	9	19	29	1.83
2008260--2008826	135	4.2	135	89	2	789	40	9	20	29	1.85
2014576--2015110	45	11.9	45	85	1	703	40	9	18	31	1.83
2014626--2015171	135	4.0	134	86	2	479	40	9	19	31	1.83
2020946--2021478	45	11.9	45	86	1	721	40	9	19	30	1.83
2020948--2021478	135	3.9	135	91	1	800	40	9	19	30	1.83
2031601--2031657	28	2.0	28	100	0	114	36	24	17	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2032920--2033019	27	3.8	27	77	13	84	47	2	8	43	1.44
2033024--2033095	25	2.7	26	76	6	74	50	5	6	37	1.53
2033075--2033111	16	2.3	16	90	0	56	45	2	8	43	1.47
2033180--2033212	17	1.9	17	93	0	57	15	3	3	78	0.99
2033599--2033785	94	2.0	93	98	1	365	48	14	13	22	1.80
2039454--2039527	29	2.5	30	82	6	89	41	27	6	24	1.79
2039454--2039527	30	2.5	29	86	2	94	41	27	6	24	1.79
2040757--2040788	6	5.2	6	92	7	55	0	65	0	34	0.93
2041245--2041309	21	3.0	21	82	11	78	44	0	1	53	1.09
2041927--2042043	42	2.8	42	89	0	171	16	16	17	49	1.80
2042157--2042271	58	2.0	57	81	8	135	41	2	0	54	1.20
2042218--2042300	31	2.6	32	83	14	100	44	1	0	54	1.08
2042232--2042280	19	2.4	22	83	16	61	40	0	0	59	0.98
2042331--2042393	27	2.2	28	83	10	76	47	0	3	49	1.17
2042247--2042404	58	2.7	56	75	17	133	46	0	1	50	1.16
2042537--2042576	20	2.0	20	85	9	55	60	0	0	40	0.97
2042811--2042853	21	2.0	21	86	0	59	27	20	9	41	1.83
2042787--2042867	15	5.1	15	69	19	65	30	19	7	41	1.79
2043228--2043390	90	1.8	89	95	1	299	36	11	6	45	1.66
2045794--2045920	59	2.2	59	84	5	159	30	15	12	40	1.85
2045861--2045961	47	2.1	47	83	0	121	30	17	14	36	1.91
2045877--2046012	47	2.9	47	84	0	155	27	16	14	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2045896--2046012	24	5.0	24	73	9	98	27	15	13	43	1.84
2047670--2047738	18	3.8	18	73	5	68	42	8	11	37	1.72
2055596--2055626	2	15.5	2	100	0	62	51	0	0	48	1.00
2057895--2058043	20	7.3	20	75	10	113	26	22	20	30	1.98
2057895--2058043	40	3.7	39	76	7	127	26	22	20	30	1.98
2058792--2058845	24	2.2	24	93	0	90	20	18	20	40	1.91
2059035--2059071	14	2.6	14	91	4	56	51	21	21	5	1.68
2061293--2061497	20	10.9	20	75	14	184	32	22	18	25	1.97
2061301--2061477	34	4.9	34	75	16	142	33	24	18	24	1.97
2061355--2061457	54	1.9	54	86	7	147	33	23	19	24	1.97
2061293--2061477	74	2.5	74	85	5	248	33	23	17	25	1.96
2061335--2061537	94	2.2	94	88	0	298	33	22	19	25	1.97
2061536--2061593	20	2.9	20	84	0	80	12	17	25	44	1.83
2063820--2063867	20	2.4	20	92	0	78	18	20	27	33	1.96
2065755--2065810	20	2.8	20	91	0	85	50	23	16	10	1.76
2065758--2065829	20	3.6	20	86	0	72	41	22	18	18	1.90
2066225--2066266	22	1.9	22	85	0	57	23	11	35	28	1.91
2066585--2066622	20	1.9	20	88	0	58	31	18	18	31	1.95
2066612--2066687	40	1.9	40	88	0	116	28	28	17	25	1.97
2066610--2066694	20	4.2	20	78	4	100	28	28	17	25	1.98
2066870--2066911	22	1.9	22	85	0	57	23	40	16	19	1.91
2067312--2067403	20	4.7	20	82	1	87	15	17	23	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2067367--2067410	20	2.2	20	87	0	61	13	13	18	54	1.71
2068975--2069020	21	2.2	21	84	7	58	13	15	34	36	1.86
2069116--2069165	18	2.8	18	100	0	100	32	20	6	42	1.76
2069170--2069257	20	4.4	20	85	0	113	37	23	19	19	1.94
2069300--2069388	20	4.4	20	88	0	97	22	17	22	37	1.94
2069874--2069981	21	5.1	21	73	6	85	21	36	18	24	1.95
2069903--2069985	42	2.0	42	83	4	105	21	38	19	20	1.93
2071376--2071437	14	4.3	14	73	6	52	38	1	14	45	1.55
2071536--2071589	20	2.7	20	82	0	63	44	24	20	11	1.83
2071632--2071910	20	14.9	20	74	14	209	25	16	22	35	1.95
2071652--2071848	74	2.7	74	85	4	272	23	17	23	34	1.96
2071592--2071794	94	2.2	94	89	1	300	24	18	23	33	1.97
2071746--2071902	54	2.9	55	86	1	228	23	15	24	36	1.94
2071881--2072150	140	1.9	140	95	0	486	41	14	14	30	1.84
2072210--2072245	18	2.0	18	94	0	63	16	2	25	55	1.55
2075363--2075473	20	5.6	20	87	4	109	26	19	21	32	1.97
2075465--2075516	21	2.4	22	70	6	52	36	17	25	21	1.94
2078595--2078634	16	2.5	16	95	0	71	22	20	30	27	1.98
2078770--2078820	11	4.5	11	79	13	50	25	21	21	31	1.98
2080140--2080202	11	5.9	11	69	14	51	36	1	3	58	1.23
2083855--2084117	141	1.9	141	90	3	422	42	13	22	21	1.88
2083856--2084117	47	5.6	47	88	0	380	42	13	22	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2087224--2087332	24	4.5	24	80	4	112	49	17	11	21	1.78
2087224--2087332	48	2.3	48	83	3	130	49	17	11	21	1.78
2090862--2090935	30	2.4	29	86	8	103	47	2	9	40	1.50
2090596--2090928	167	2.0	160	85	5	443	41	4	10	44	1.58
2090907--2090997	47	2.0	46	88	2	137	56	0	10	32	1.35
2092319--2092348	7	4.1	7	95	4	51	60	0	0	40	0.97
2092342--2092389	15	3.4	14	80	11	53	41	0	10	47	1.37
2092514--2092565	16	3.1	18	78	13	56	46	3	1	48	1.31
2092607--2092669	24	2.7	22	79	18	65	55	1	7	34	1.39
2092648--2092696	2	25.5	2	80	15	59	48	0	4	46	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13