genome.fa.s8180.2.7.7.80.10.50.1000.11.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  11  of  14  ( 1585 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)
1966123--1966337	20	10.7	20	73	8	168	42	23	14	19	1.88
1966447--1966497	22	2.3	22	86	0	75	23	45	11	19	1.83
1966884--1966931	20	2.4	21	83	10	57	14	20	18	45	1.85
1969124--1969179	21	2.6	22	88	2	87	21	33	23	21	1.97
1970529--1970704	66	2.6	65	89	7	255	28	2	15	53	1.55
1970758--1970806	20	2.5	20	96	0	89	40	26	16	16	1.89
1971129--1971169	12	3.4	12	86	0	55	19	2	21	56	1.54
1971136--1971170	6	5.8	6	86	0	52	17	2	20	60	1.49
1973297--1973350	24	2.2	24	86	0	72	44	16	14	24	1.85
1973476--1973509	12	2.8	12	90	0	50	14	0	29	55	1.40
1974317--1974365	20	2.5	19	86	3	62	32	12	20	34	1.90
1974317--1974392	19	3.9	19	89	1	98	35	11	17	35	1.86
1974396--1974467	20	3.6	20	80	0	90	18	12	25	44	1.84
1976316--1976406	20	4.7	20	91	5	150	21	21	12	43	1.85
1976329--1976406	38	2.1	38	100	0	156	20	23	11	44	1.84
1978345--1978388	2	22.0	2	100	0	88	50	0	0	50	1.00
1978782--1978850	34	2.0	34	100	0	138	26	14	28	30	1.95
1983670--1983728	2	30.0	2	96	3	111	49	0	0	50	1.00
1993445--1993480	12	3.1	12	96	4	65	8	25	8	58	1.55
1993779--1993900	55	2.2	54	84	4	147	28	14	25	31	1.95
1994201--1994233	12	2.6	13	85	4	50	39	6	9	45	1.61
1995982--1996014	12	2.6	13	90	4	50	45	6	12	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1996485--1996567	21	3.8	22	73	10	64	32	16	22	27	1.96
2000915--2000975	23	2.7	23	86	0	86	26	29	24	19	1.99
2000991--2001208	103	2.1	103	100	0	436	36	23	13	26	1.92
2002229--2002285	2	28.5	2	100	0	114	49	0	0	50	1.00
2005762--2005883	55	2.2	55	88	1	174	27	16	26	29	1.97
2007875--2007919	18	2.5	18	88	0	63	40	13	24	22	1.90
2009934--2010103	20	8.4	20	87	1	241	38	19	19	22	1.93
2009934--2010125	40	4.8	40	84	5	196	38	19	19	22	1.93
2009934--2010125	60	3.2	58	79	9	192	38	19	19	22	1.93
2010690--2010762	33	2.2	34	85	7	96	13	20	26	39	1.90
2010733--2010782	20	2.5	20	90	0	73	18	18	28	36	1.94
2010750--2010804	20	2.8	20	88	0	74	12	16	21	49	1.79
2010769--2010812	20	2.2	20	83	0	52	15	13	18	52	1.75
2012666--2012795	20	6.5	20	96	0	215	33	20	18	26	1.96
2012840--2012888	20	2.5	20	82	0	62	20	18	24	36	1.94
2012860--2012955	33	2.9	34	74	3	104	15	18	20	44	1.86
2012932--2013015	20	4.2	20	89	0	132	17	20	22	39	1.92
2012929--2013026	40	2.5	40	86	0	106	19	18	20	41	1.90
2015096--2015180	33	2.5	33	84	1	107	43	20	23	12	1.86
2015195--2015270	33	2.3	34	90	2	118	14	21	19	44	1.86
2015262--2015327	20	3.3	21	74	16	68	19	22	21	36	1.95
2017753--2017806	13	3.8	13	73	17	54	18	44	24	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2017753--2017816	30	2.1	30	94	0	110	18	43	23	14	1.86
2017817--2017897	29	2.8	29	88	3	110	24	7	22	45	1.77
2017875--2017942	29	2.3	29	84	0	82	27	7	23	41	1.81
2025291--2025370	29	2.8	29	98	0	151	25	8	21	45	1.80
2025291--2025423	29	4.6	29	85	1	106	27	6	22	43	1.78
2027802--2027855	24	2.2	24	93	0	90	40	20	18	20	1.91
2027802--2027869	24	2.8	24	84	0	64	38	20	17	23	1.93
2028742--2028766	12	2.1	12	100	0	50	16	16	24	44	1.86
2028720--2028782	32	2.0	32	84	6	83	22	17	20	39	1.92
2028754--2028823	20	3.4	20	70	5	59	22	20	18	38	1.93
2037762--2037805	21	2.1	21	91	0	70	22	22	25	29	1.99
2043985--2044016	15	2.1	16	94	5	57	65	0	9	25	1.22
2049873--2049945	31	2.4	31	90	4	112	28	17	13	39	1.88
2049903--2049991	30	2.9	30	78	5	81	29	16	17	35	1.93
2050297--2050332	18	1.9	19	88	5	56	44	2	13	38	1.59
2052375--2052419	9	5.0	9	83	0	63	55	0	11	33	1.35
2052375--2052425	18	2.8	18	84	0	66	54	0	11	33	1.37
2052391--2052433	6	7.3	6	80	15	54	55	0	13	30	1.39
2059036--2059211	54	3.3	54	83	3	237	30	18	19	32	1.95
2070627--2070654	2	14.0	2	100	0	56	50	0	0	50	1.00
2073221--2073265	21	2.1	21	91	0	72	33	6	6	53	1.53
2073262--2073364	48	2.1	48	96	0	188	48	8	5	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2074480--2074620	31	4.5	31	97	0	255	39	21	19	19	1.92
2074990--2075018	12	2.3	13	94	5	51	41	6	0	51	1.28
2075515--2075566	20	2.5	21	87	9	79	19	30	17	32	1.95
2076431--2076466	11	3.2	11	84	7	54	19	22	19	38	1.93
2076664--2076701	9	4.2	9	83	10	51	31	0	2	65	1.06
2076784--2076836	28	1.9	27	88	3	79	32	1	16	49	1.57
2076783--2076847	27	2.3	29	82	10	82	36	1	15	46	1.55
2077042--2077081	21	1.9	21	100	0	80	27	0	15	57	1.38
2077221--2077277	29	2.0	29	89	0	87	17	35	31	15	1.92
2080126--2080156	2	15.5	2	100	0	62	48	0	0	51	1.00
2085430--2085506	26	2.8	26	78	9	75	53	3	1	41	1.27
2085441--2085506	26	2.6	25	76	9	80	56	4	0	39	1.20
2085447--2085506	27	2.3	26	79	2	75	58	3	0	38	1.15
2086589--2086640	20	2.5	21	81	3	61	40	19	23	17	1.91
2086684--2086723	20	2.0	20	100	0	80	20	30	20	30	1.97
2087296--2087445	19	8.1	19	81	8	175	14	22	17	46	1.84
2087296--2087445	38	4.1	38	81	9	193	14	22	17	46	1.84
2087315--2087420	33	3.1	33	84	6	122	13	23	18	44	1.85
2088893--2089023	63	2.1	63	97	0	244	21	19	36	22	1.95
2089190--2089376	91	2.0	89	88	6	275	21	11	18	48	1.79
2089648--2089714	21	3.2	21	66	6	55	23	35	20	19	1.95
2089596--2089714	42	2.8	42	81	5	107	22	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2091072--2091105	14	2.4	14	95	0	59	32	0	23	44	1.54
2091211--2091300	33	2.7	33	91	0	135	43	22	22	12	1.86
2091211--2091271	19	3.5	19	72	21	69	42	22	22	11	1.86
2091296--2091446	19	8.7	19	64	21	80	15	22	20	41	1.89
2091300--2091426	33	3.9	32	87	8	193	14	22	19	42	1.88
2091293--2091425	66	2.0	66	97	0	248	16	22	19	41	1.90
2093716--2093740	12	2.1	12	100	0	50	0	28	0	72	0.86
2095025--2095102	20	3.9	20	94	0	138	38	24	21	15	1.92
2095121--2095188	19	3.9	18	83	12	81	13	20	17	48	1.80
2095125--2095198	19	4.5	16	83	16	66	13	20	18	47	1.82
2095102--2095216	52	2.2	53	79	4	126	19	20	20	39	1.93
2095305--2095341	14	2.6	14	86	0	56	48	21	0	29	1.50
2097204--2097270	19	3.5	19	83	4	89	37	23	23	14	1.93
2097259--2097314	14	3.7	14	78	17	67	50	25	16	8	1.74
2097243--2097321	32	2.4	33	93	2	142	46	22	18	11	1.81
2097350--2097407	14	3.9	14	77	16	62	10	15	24	50	1.75
2097333--2097423	32	2.8	33	93	3	157	12	17	21	48	1.80
2097408--2097445	20	2.0	20	89	5	60	18	26	23	31	1.97
2097940--2097984	18	2.5	18	85	0	63	15	15	42	26	1.87
2099301--2099356	19	2.9	20	81	7	62	41	23	17	17	1.90
2099616--2099659	22	2.0	22	90	0	70	20	15	43	20	1.88
2099847--2099899	20	2.7	20	93	0	88	24	18	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2099867--2099961	41	2.3	42	78	3	104	22	18	22	36	1.95
2099930--2100021	20	4.6	20	93	1	148	18	21	17	42	1.89
2100525--2100549	13	1.9	13	100	0	50	24	8	16	52	1.70
2101461--2101523	23	2.6	24	78	19	60	50	1	0	47	1.10
2101495--2101541	22	2.1	23	88	4	69	44	2	0	53	1.12
2101918--2101965	19	2.5	19	100	0	96	18	20	18	41	1.90
2102674--2102726	22	2.4	22	87	0	79	37	26	15	20	1.92
2103155--2103193	14	2.8	13	84	7	51	33	17	12	35	1.88
2103755--2103792	2	19.0	2	100	0	76	50	0	0	50	1.00
2105779--2105892	20	5.7	20	81	6	104	32	25	17	24	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14