genome.fa.s8124.2.7.7.80.10.50.1000.10.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  10  of  19  ( 2165 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)
1764983--1765026	19	2.4	19	85	7	56	68	0	11	20	1.20
1765129--1765196	33	2.1	32	84	10	86	45	5	4	44	1.48
1765156--1765322	35	4.6	36	72	17	123	42	6	4	46	1.49
1765130--1765329	107	1.9	108	83	11	268	42	6	5	46	1.51
1765257--1765358	40	2.6	36	77	10	105	45	5	4	44	1.49
1768406--1768449	23	2.0	22	86	4	61	38	2	0	59	1.10
1773961--1773998	15	2.3	17	86	13	53	76	0	21	2	0.91
1773953--1774001	21	2.4	21	83	13	66	77	0	20	2	0.87
1773954--1773999	16	2.8	17	80	16	51	76	0	21	2	0.90
1773957--1773999	15	2.9	14	80	13	50	76	0	20	2	0.89
1775892--1776069	90	2.0	90	95	0	320	44	6	11	37	1.67
1781758--1781786	2	14.5	2	100	0	58	0	48	0	51	1.00
1785810--1785850	18	2.2	19	86	4	57	63	26	2	7	1.33
1786759--1786821	23	2.6	25	82	7	76	30	0	1	68	0.99
1786789--1786834	24	2.0	23	82	4	56	32	0	2	65	1.05
1788646--1788755	18	6.2	18	73	12	66	37	3	0	59	1.15
1788717--1788752	2	18.0	2	100	0	72	50	0	0	50	1.00
1788791--1788828	16	2.6	14	88	12	58	21	0	0	78	0.74
1788844--1788898	17	3.2	17	75	12	51	16	3	1	78	0.98
1789016--1789048	17	1.9	17	93	0	57	15	9	0	75	1.03
1792193--1792242	13	3.8	13	77	17	50	74	4	18	4	1.14
1793897--1793971	37	2.0	38	86	2	107	29	21	16	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793978--1794064	37	2.4	37	90	1	131	25	21	13	39	1.90
1793891--1794131	102	2.4	102	93	0	401	31	20	13	35	1.91
1794014--1794400	65	5.8	65	73	11	228	30	20	11	37	1.88
1794080--1794269	36	5.4	36	73	12	162	27	18	13	40	1.88
1794151--1794269	36	3.3	36	85	2	166	26	21	14	37	1.91
1795073--1795554	106	4.6	106	82	5	541	35	23	18	21	1.95
1796921--1796998	21	3.6	21	74	20	54	29	5	0	65	1.14
1796984--1797013	2	15.0	2	92	0	51	46	0	3	50	1.18
1797044--1797103	17	3.2	17	70	20	57	30	5	1	63	1.25
1797279--1797322	10	4.7	9	80	8	52	13	6	0	79	0.92
1797276--1797323	19	2.7	18	84	12	64	14	8	0	77	0.99
1797367--1797406	9	4.6	9	87	3	55	20	2	2	75	1.04
1797392--1797442	26	2.0	27	84	7	70	11	5	7	74	1.21
1799400--1799439	9	4.4	9	87	0	53	17	32	0	50	1.47
1804320--1804389	2	35.0	2	88	0	104	47	2	2	47	1.32
1804320--1804384	26	2.5	26	100	0	130	47	3	3	46	1.33
1804722--1804767	6	7.3	6	85	9	56	76	0	8	15	1.02
1806230--1806274	14	3.1	14	87	3	63	75	0	2	22	0.91
1806296--1806639	36	9.8	36	72	15	204	42	6	4	47	1.48
1806314--1806388	35	2.1	36	85	7	100	41	4	2	52	1.34
1806327--1806451	63	2.0	63	84	6	164	41	5	4	48	1.48
1806373--1806582	106	2.0	106	81	7	248	40	5	5	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807285--1807992	84	8.5	83	79	5	723	25	20	24	29	1.99
1807239--1807992	165	4.5	164	82	6	700	25	20	24	29	1.99
1807295--1807937	249	2.6	249	91	0	1029	24	20	24	29	1.99
1812872--1812917	6	7.3	6	85	9	56	76	0	8	15	1.02
1814377--1814436	15	4.1	14	87	6	84	76	0	1	21	0.87
1814398--1814436	4	10.5	4	84	15	57	79	0	0	20	0.73
1814383--1814433	19	2.6	20	81	12	61	78	0	0	21	0.75
1814383--1814436	29	1.9	28	85	7	74	77	0	0	22	0.76
1814383--1814456	25	3.0	23	75	14	60	72	2	1	22	1.04
1814476--1814554	39	2.0	41	85	9	110	45	3	2	48	1.34
1814521--1814585	29	2.3	28	84	5	85	41	6	4	47	1.49
1814547--1814798	35	7.0	34	72	14	116	42	5	4	46	1.49
1814556--1814805	36	6.9	36	74	13	156	42	6	4	46	1.48
1820580--1820609	12	2.5	12	100	0	60	46	6	0	46	1.29
1821320--1821367	22	2.2	21	82	7	60	18	12	4	64	1.43
1821326--1821367	22	1.9	22	90	0	66	16	14	4	64	1.45
1827896--1828212	164	1.9	164	93	2	548	39	7	12	40	1.72
1828186--1828226	16	2.6	16	100	0	82	43	12	12	31	1.79
1831410--1831477	34	2.0	34	94	0	118	38	17	17	26	1.92
1833365--1833420	18	3.1	17	80	19	53	23	0	7	69	1.12
1834067--1834286	101	2.2	102	78	2	237	27	17	25	29	1.98
1835117--1835164	21	2.4	20	77	16	55	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835119--1835161	11	4.1	11	82	8	54	67	0	0	32	0.91
1836303--1836385	9	9.2	9	81	15	75	16	4	1	77	1.01
1836467--1836592	11	10.9	11	65	23	55	16	4	4	73	1.17
1836508--1836655	9	15.8	9	68	24	76	16	4	4	75	1.13
1836485--1836619	70	1.9	70	84	1	180	16	5	5	73	1.20
1836536--1836660	49	2.6	46	77	16	121	15	6	3	75	1.14
1836536--1836642	49	2.2	49	83	8	128	14	5	2	76	1.08
1836467--1836646	23	7.7	23	70	18	97	15	6	3	74	1.16
1836600--1836660	24	2.6	23	82	12	72	13	9	1	75	1.12
1836467--1836655	5	36.6	5	67	25	69	15	5	4	74	1.17
1836301--1836642	18	19.6	17	68	18	93	17	5	3	72	1.20
1837797--1837849	18	2.9	18	97	0	97	20	15	22	41	1.89
1842069--1842106	12	3.1	13	85	11	53	44	0	0	55	0.99
1842144--1842168	12	2.1	12	100	0	50	40	8	0	52	1.31
1850977--1851009	16	2.0	17	88	5	50	51	0	3	45	1.16
1850969--1851035	24	2.9	23	78	8	64	46	0	2	50	1.16
1855817--1855885	3	23.0	3	86	5	68	43	0	0	56	0.99
1855822--1855877	15	3.7	15	90	4	87	46	0	0	53	1.00
1855819--1855883	18	3.8	18	84	8	91	44	0	0	55	0.99
1857135--1857189	28	2.0	26	86	6	74	41	0	5	52	1.24
1857242--1857343	18	6.1	17	68	21	63	32	1	1	63	1.16
1857246--1857333	30	2.9	29	78	11	88	32	1	2	63	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868719--1868769	10	5.2	9	78	17	57	84	0	13	1	0.71
1868719--1868770	23	2.4	21	84	9	70	84	0	13	1	0.70
1868723--1868768	8	5.9	8	78	14	51	84	0	13	2	0.71
1869102--1869146	18	2.6	18	89	6	67	31	6	6	55	1.52
1869343--1869800	229	2.0	227	99	0	898	32	21	17	27	1.96
1870092--1870436	115	3.0	114	92	2	559	34	15	20	30	1.93
1871102--1871386	113	2.5	113	97	0	543	38	15	17	28	1.90
1871288--1871459	73	2.4	73	81	3	186	36	16	16	30	1.91
1871175--1871572	186	2.1	186	84	1	494	37	15	17	29	1.90
1871361--1871846	113	4.3	112	86	2	568	37	14	18	29	1.90
1871141--1871685	299	1.8	299	88	0	829	37	14	18	29	1.90
1871767--1872059	124	2.4	124	84	7	352	43	15	18	23	1.87
1872204--1872275	3	24.0	3	84	5	83	40	0	1	58	1.07
1872206--1872275	15	4.7	15	84	7	97	41	0	1	57	1.08
1872204--1872273	18	3.9	18	86	5	106	40	0	1	58	1.07
1873523--1873577	28	2.0	26	86	6	74	41	0	5	52	1.24
1873630--1873731	18	6.1	17	68	21	63	32	1	1	63	1.16
1873634--1873721	30	2.9	29	78	11	88	32	1	2	63	1.14
1873785--1873828	19	2.3	19	84	0	61	45	0	0	54	0.99
1877452--1877555	30	3.5	29	85	3	127	46	8	11	33	1.71
1878015--1878197	91	2.0	92	98	1	359	38	15	13	33	1.86
1879954--1880004	20	2.5	20	96	0	93	47	11	17	23	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880159--1880189	15	2.1	15	93	0	53	54	0	0	45	0.99
1883526--1883605	36	2.2	36	95	0	142	53	0	28	17	1.44
1884129--1884161	14	2.3	15	89	5	50	39	0	0	60	0.97
1884145--1884197	24	2.2	25	89	3	81	45	0	1	52	1.11
1888492--1888607	21	5.6	21	69	10	60	32	27	18	21	1.96
1888595--1888787	20	9.6	20	84	5	246	34	27	19	18	1.95
1889144--1889214	33	2.2	33	94	0	124	11	23	16	47	1.79
1889339--1889391	27	2.0	27	96	3	99	50	15	26	7	1.70
1889293--1889363	21	3.5	20	81	5	81	43	18	22	15	1.87
1889378--1889434	14	3.7	14	75	20	60	43	22	24	8	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19