genome.fa.s8280.2.7.7.80.10.50.1000.9.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1944 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)
1872534--1872902	89	4.2	89	85	2	478	39	5	20	33	1.77
1872534--1872879	177	2.0	175	91	2	559	39	6	21	33	1.79
1873373--1873424	17	2.9	18	83	8	70	19	25	17	38	1.93
1879667--1879709	18	2.4	18	96	0	77	11	37	25	25	1.90
1880447--1881361	304	3.0	304	99	0	1805	29	23	20	26	1.99
1881889--1881921	13	2.5	13	95	0	57	24	30	15	30	1.95
1886443--1886525	3	28.3	3	92	4	143	34	1	0	63	1.02
1886946--1886999	28	1.9	28	88	0	81	79	7	12	0	0.92
1888714--1888751	15	2.8	13	88	11	51	23	5	2	68	1.23
1899325--1899381	11	4.9	11	91	8	87	85	0	14	0	0.59
1899325--1899381	12	4.8	12	86	6	73	85	0	14	0	0.59
1899325--1899381	23	2.5	22	91	8	87	85	0	14	0	0.59
1900505--1900783	83	3.4	83	93	2	479	29	13	21	35	1.92
1901615--1902377	112	6.8	113	92	1	1020	38	14	16	31	1.88
1901580--1902364	225	3.5	225	88	2	1109	37	14	16	31	1.89
1902690--1902796	3	36.3	3	92	3	182	34	1	0	63	1.05
1903229--1903284	21	2.8	21	74	15	57	66	12	19	1	1.33
1905910--1905935	13	2.0	13	100	0	52	46	0	0	53	1.00
1907003--1907063	14	3.9	14	70	25	50	42	1	6	49	1.38
1907441--1907571	31	4.3	29	68	19	72	45	0	3	50	1.19
1907527--1907584	23	2.7	21	77	15	64	43	1	1	53	1.21
1907540--1907591	23	2.3	23	89	0	77	44	1	0	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907695--1907795	29	3.5	30	73	14	88	48	0	0	50	1.07
1907702--1907794	26	3.6	26	71	18	70	48	1	0	50	1.07
1907724--1907770	23	2.0	23	88	8	69	42	0	0	57	0.98
1907765--1907841	23	3.3	24	84	8	90	51	0	0	48	1.00
1907720--1907881	54	3.1	52	76	13	129	48	0	1	50	1.11
1914251--1914320	21	3.6	18	73	22	52	55	2	2	38	1.29
1914252--1914326	22	3.6	21	74	16	75	56	1	2	40	1.22
1918154--1918187	15	2.2	16	89	5	52	70	0	2	26	1.01
1923483--1923511	12	2.4	12	100	0	58	62	6	24	6	1.45
1924637--1924697	31	2.1	28	82	14	72	29	29	22	18	1.97
1925595--1925680	21	4.1	21	95	0	145	18	27	17	36	1.94
1925682--1925812	20	6.5	20	84	3	165	39	19	19	21	1.92
1925697--1925846	20	7.4	20	84	6	114	38	20	19	22	1.94
1926687--1926740	24	2.2	24	93	0	90	20	18	20	40	1.91
1929150--1929176	14	1.9	14	100	0	54	40	29	22	7	1.81
1929164--1929252	20	4.4	20	85	2	126	34	24	21	19	1.96
1929291--1929386	33	2.9	34	87	3	131	15	23	18	41	1.89
1930923--1931015	42	2.2	42	80	3	107	22	16	39	21	1.92
1931495--1931543	20	2.5	20	86	0	71	38	22	22	16	1.92
1931515--1931667	34	4.4	34	70	11	119	41	20	19	17	1.90
1931592--1931648	20	2.8	20	91	0	87	40	19	17	22	1.91
1931695--1931871	20	9.5	20	78	16	175	18	19	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1933742--1933796	20	2.8	20	85	0	74	49	21	16	12	1.79
1933784--1933856	33	2.2	34	82	7	87	41	24	19	15	1.89
1934180--1934245	22	3.0	22	86	0	96	19	16	39	24	1.92
1934441--1934571	20	6.5	20	87	1	199	20	20	19	39	1.92
1934443--1934571	61	2.1	60	89	1	195	20	20	19	39	1.93
1938640--1938798	52	3.1	52	98	0	309	32	7	16	43	1.76
1941841--1941974	43	3.1	42	89	4	187	22	23	20	33	1.97
1941851--1941993	43	3.3	42	77	9	137	24	25	20	30	1.99
1942025--1942251	43	5.3	42	75	8	145	33	23	17	25	1.96
1945312--1945420	35	3.1	35	90	2	157	32	4	18	44	1.70
1945832--1945865	16	2.1	16	88	0	50	41	0	14	44	1.45
1949862--1949922	21	3.2	21	61	29	55	32	4	19	42	1.73
1949861--1949969	35	3.1	35	92	2	166	31	4	19	44	1.70
1950611--1950660	23	2.2	23	100	0	100	16	8	30	46	1.75
1952056--1952090	12	2.9	12	91	0	52	37	25	5	31	1.80
1958725--1958772	15	3.2	15	90	0	78	33	33	18	14	1.91
1958917--1958951	12	2.9	12	91	0	52	37	25	5	31	1.80
1961547--1961637	28	3.3	27	83	7	112	35	24	19	20	1.96
1962379--1962504	55	2.3	54	91	4	207	29	21	20	28	1.98
1962499--1962602	54	1.9	54	94	3	183	35	25	11	26	1.90
1965742--1965821	27	2.9	28	84	3	108	35	26	18	20	1.95
1966372--1966402	16	1.9	16	93	0	53	41	16	6	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966669--1966812	55	2.6	55	83	1	173	29	25	18	26	1.98
2001309--2001333	7	3.6	7	100	0	50	88	0	12	0	0.53
2012786--2012899	42	2.7	42	86	2	149	21	13	11	53	1.70
2013089--2013159	31	2.3	29	83	13	81	45	1	0	53	1.09
2013185--2013268	30	2.8	31	70	18	86	52	0	1	46	1.08
2013106--2013268	59	2.9	57	81	13	162	49	0	1	48	1.13
2013228--2013265	11	3.5	11	82	10	51	47	0	0	52	1.00
2013260--2013304	23	2.0	23	86	0	63	55	2	0	42	1.12
2013416--2013470	17	2.9	18	76	13	58	50	0	1	47	1.11
2013399--2013472	19	3.9	19	74	13	64	52	1	1	44	1.17
2013595--2013635	14	2.9	14	88	0	55	36	19	14	29	1.92
2013637--2013709	30	2.5	30	86	2	103	31	12	6	49	1.67
2013637--2013709	15	4.9	15	67	9	60	31	12	6	49	1.67
2013771--2013801	16	1.9	16	93	0	53	25	9	3	61	1.42
2017523--2017580	26	2.2	26	81	9	64	46	6	6	39	1.57
2018391--2018416	13	2.0	13	100	0	52	23	15	15	46	1.83
2023226--2023259	12	2.8	12	90	4	50	79	2	0	17	0.86
2024360--2024410	23	2.2	23	86	6	68	37	7	19	35	1.81
2024438--2024495	23	2.5	23	82	0	71	44	6	10	37	1.65
2024348--2024584	87	2.7	86	90	1	384	43	10	12	33	1.76
2024534--2024607	23	3.2	23	90	0	112	37	8	18	35	1.81
2024454--2024691	110	2.2	110	90	0	368	43	10	12	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024560--2024789	87	2.6	87	89	0	361	42	11	13	32	1.80
2024644--2024691	23	2.1	23	88	0	69	45	8	10	35	1.68
2024368--2024781	197	2.1	197	93	0	695	43	10	13	33	1.78
2024722--2024771	23	2.2	23	88	0	73	40	12	16	32	1.84
2024735--2024779	23	2.0	23	86	0	63	42	11	15	31	1.82
2025301--2025346	23	2.1	23	88	11	71	50	4	0	45	1.21
2025353--2025778	192	2.2	192	80	12	475	31	15	13	39	1.87
2025985--2026045	21	3.0	21	76	11	63	42	1	3	52	1.27
2033674--2033747	27	2.6	29	78	18	84	41	1	2	54	1.23
2033675--2033747	26	2.6	29	79	16	82	42	1	1	54	1.17
2033989--2034334	172	2.0	172	98	1	676	35	16	8	39	1.79
2039926--2039995	31	2.3	31	97	2	133	44	11	8	35	1.71
2040994--2041033	18	2.2	19	91	8	66	62	0	30	7	1.23
2043679--2043728	13	3.8	13	82	10	66	38	20	8	34	1.82
2046340--2046484	71	2.0	72	97	2	274	37	13	26	22	1.91
2046936--2047004	34	2.0	34	100	0	138	39	17	14	28	1.89
2055830--2055997	54	3.2	53	82	10	209	10	10	47	31	1.71
2057193--2057286	42	2.2	42	81	7	102	21	35	21	22	1.96
2058635--2058669	14	2.6	14	95	4	63	31	0	25	42	1.55
2058793--2058849	14	3.7	14	75	20	60	43	22	24	8	1.81
2058775--2058864	33	2.7	33	94	0	153	43	21	22	13	1.87
2058775--2058835	19	3.5	19	74	21	69	44	21	22	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2058864--2058989	33	3.9	32	85	9	175	15	22	19	42	1.88
2058857--2058988	66	2.0	65	94	1	228	16	21	19	41	1.90
2060959--2060983	12	2.1	12	100	0	50	0	28	0	72	0.86
2061991--2062038	20	2.3	20	85	3	60	39	16	20	22	1.92
2062069--2062118	20	2.5	20	80	0	73	38	22	18	22	1.94
2062331--2062418	20	4.4	20	77	5	106	38	22	21	17	1.93
2062445--2062531	19	4.8	19	87	9	130	13	20	17	48	1.81
2062445--2062541	38	2.8	33	84	14	140	13	20	18	47	1.82
2062668--2062704	14	2.6	14	86	0	56	48	21	0	29	1.50
2064574--2064641	20	3.5	19	82	6	82	38	23	23	14	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17