genome.fa.s8166.2.7.7.80.10.50.1000.8.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: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2544747

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

This is table  8  of  10  ( 1195 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)
1589889--1589939	17	3.0	17	91	0	84	37	15	5	41	1.72
1598276--1598324	25	2.0	25	88	8	73	20	24	38	16	1.92
1598362--1598414	23	2.3	23	86	0	70	43	5	9	41	1.61
1604433--1604499	33	2.0	33	97	0	125	25	19	26	28	1.99
1604587--1604728	44	3.2	44	90	2	212	36	7	24	30	1.84
1616702--1616741	21	1.9	21	89	0	62	50	10	10	30	1.69
1619543--1619597	21	2.6	22	88	5	78	29	18	32	20	1.96
1619574--1619966	192	2.0	197	93	5	681	34	16	12	36	1.86
1621399--1621444	24	1.9	24	86	0	65	50	2	4	43	1.34
1624821--1624930	38	2.8	39	80	5	134	24	25	26	23	2.00
1629346--1629379	13	2.7	13	95	4	61	14	14	20	50	1.78
1630682--1630823	61	2.3	63	78	12	148	29	16	25	28	1.97
1630722--1630837	61	1.9	61	89	0	178	27	17	25	29	1.97
1631313--1631344	3	10.7	3	100	0	64	34	0	0	65	0.93
1631365--1631396	12	2.6	13	85	14	50	37	0	0	62	0.95
1642629--1642664	10	3.6	10	88	0	54	77	11	0	11	0.99
1671785--1671879	39	2.4	39	89	0	145	31	20	30	17	1.96
1678945--1678973	13	2.2	13	100	0	58	41	0	31	27	1.56
1680279--1680331	22	2.5	21	84	6	63	37	15	20	26	1.92
1680840--1681071	112	2.1	110	87	1	329	27	17	18	35	1.94
1684995--1685108	59	1.9	59	83	0	147	29	21	18	30	1.97
1686669--1686747	35	2.3	35	93	0	131	36	12	7	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687725--1687765	14	3.0	14	92	3	66	9	29	7	53	1.60
1694553--1694597	15	2.9	16	80	16	58	48	0	4	46	1.22
1698180--1698212	11	3.0	11	87	12	50	36	9	9	45	1.68
1698307--1698356	25	2.0	25	92	0	82	30	30	14	26	1.94
1698897--1698949	26	2.1	25	82	3	61	54	3	1	39	1.29
1698936--1698997	13	4.6	13	77	13	63	74	0	0	25	0.82
1698936--1698972	6	5.8	6	87	12	56	81	0	0	18	0.70
1698943--1699005	21	3.0	22	80	11	62	69	0	0	30	0.88
1703815--1703839	13	1.9	13	100	0	50	56	4	0	40	1.18
1704820--1704892	3	24.7	3	72	13	53	38	2	1	57	1.22
1704820--1704892	23	3.3	23	71	19	75	38	2	1	57	1.22
1706096--1706272	90	2.0	89	92	1	291	45	5	10	38	1.63
1715470--1715526	22	2.6	22	82	0	69	40	8	12	38	1.74
1716675--1716750	3	25.0	3	74	12	57	36	2	2	57	1.26
1716675--1716735	23	3.0	20	78	17	72	36	3	1	59	1.24
1716675--1716724	23	2.2	23	89	7	75	34	4	2	60	1.27
1718565--1718603	20	2.0	20	85	10	53	17	20	25	35	1.95
1719628--1719699	3	24.0	3	83	10	94	34	0	1	63	1.03
1724523--1724554	15	2.1	15	94	0	55	21	18	6	53	1.67
1731868--1731907	9	4.2	9	87	12	62	75	2	12	10	1.15
1731869--1731904	11	3.6	10	89	10	56	80	2	8	8	0.99
1731869--1731907	20	2.0	20	95	5	71	76	2	10	10	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733495--1734573	113	9.5	113	93	0	1820	37	13	19	29	1.90
1734398--1734726	153	2.2	153	93	1	561	39	12	20	27	1.89
1734511--1734613	40	2.6	40	90	3	163	46	9	20	23	1.80
1734555--1735419	113	7.6	113	91	3	1303	37	14	19	28	1.91
1734285--1734833	266	2.1	263	92	2	668	38	13	19	28	1.90
1733946--1735178	605	2.0	605	93	0	2085	37	13	19	29	1.90
1734059--1735065	492	2.0	492	92	1	1680	37	13	19	28	1.90
1735762--1735867	3	35.0	3	81	9	126	34	0	0	63	1.08
1735762--1735866	28	3.8	28	80	14	121	34	0	0	63	1.07
1738421--1738780	59	6.1	59	89	0	486	38	11	21	28	1.87
1751877--1751922	23	2.0	23	91	0	74	30	19	19	30	1.97
1756374--1756733	59	6.1	59	88	1	497	35	12	23	28	1.91
1761123--1761192	34	2.1	32	89	5	104	24	31	14	30	1.94
1761464--1761504	21	2.0	21	95	0	73	26	29	19	24	1.98
1761702--1761791	30	3.0	30	88	3	137	40	15	7	36	1.76
1768682--1768751	34	2.1	32	86	5	95	22	31	14	31	1.94
1768965--1769004	21	2.0	20	85	5	53	15	10	35	40	1.80
1769033--1769074	21	2.0	21	95	0	75	26	28	21	23	1.99
1769265--1769354	30	3.0	30	88	3	137	40	15	7	36	1.76
1771982--1772014	16	2.1	16	94	0	57	24	9	6	60	1.49
1777922--1778004	29	2.8	29	90	3	121	48	9	16	25	1.77
1778462--1778507	22	2.1	22	88	4	67	58	4	10	26	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779459--1779533	38	1.9	39	91	2	125	41	6	16	36	1.74
1780168--1780223	24	2.3	24	93	0	94	10	21	16	51	1.74
1780233--1780298	24	2.8	24	79	9	80	16	15	19	48	1.81
1783353--1783604	46	5.8	46	79	13	280	42	15	21	20	1.88
1783429--1783502	34	2.2	34	90	0	112	40	17	20	21	1.91
1783383--1783548	80	2.1	80	89	2	253	42	15	21	21	1.89
1783473--1783630	26	6.5	26	70	16	115	42	15	22	20	1.89
1783519--1783675	72	2.2	72	88	0	242	42	14	21	21	1.88
1783591--1783705	46	2.5	46	82	0	158	43	13	20	22	1.86
1783483--1783705	118	1.9	118	87	0	329	43	14	21	21	1.88
1787219--1787281	3	21.7	3	93	6	112	31	0	0	68	0.90
1788846--1788976	30	4.4	30	74	9	124	17	14	9	58	1.63
1788846--1788979	60	2.2	60	76	8	148	18	14	9	57	1.64
1789255--1789289	5	7.2	5	87	6	54	17	0	2	80	0.84
1790370--1790545	88	2.0	89	96	3	329	21	19	10	48	1.78
1792150--1792198	3	16.0	3	87	4	71	36	2	0	61	1.08
1794251--1794310	23	2.6	23	86	2	84	61	11	18	8	1.54
1797048--1797077	13	2.4	13	94	5	53	43	0	30	26	1.55
1800797--1800879	12	7.4	11	73	20	73	28	4	0	66	1.12
1800818--1800880	23	2.7	24	83	13	87	30	3	0	66	1.07
1800819--1800879	11	5.3	12	79	13	67	29	3	0	67	1.07
1800925--1801341	147	2.7	150	81	9	461	40	8	6	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805611--1805696	34	2.4	36	83	9	106	30	19	11	38	1.88
1805529--1805722	99	1.9	101	87	3	284	28	18	11	41	1.85
1805788--1805911	36	3.4	36	84	3	169	27	19	11	41	1.85
1809621--1809696	7	11.3	7	70	8	59	44	1	1	52	1.17
1809571--1809696	60	2.1	60	85	5	166	45	2	2	50	1.27
1809637--1809687	19	2.6	19	84	6	66	45	1	0	52	1.12
1809630--1809730	46	2.1	48	85	10	138	45	1	2	49	1.28
1809648--1809687	20	1.9	21	90	10	64	45	2	0	52	1.14
1809756--1809805	20	2.6	18	79	17	55	38	2	4	56	1.30
1809761--1809808	7	6.9	7	83	9	62	37	2	4	56	1.30
1809771--1809808	20	1.9	20	94	0	67	36	0	5	57	1.21
1809806--1809839	12	2.8	12	86	13	52	26	0	0	73	0.83
1812611--1812676	21	3.1	21	77	0	78	36	18	16	28	1.93
1816321--1816392	21	3.3	20	71	19	56	26	18	20	34	1.95
1816293--1816391	45	2.2	45	84	12	125	28	18	22	31	1.97
1820688--1820727	17	2.4	17	100	0	80	0	37	17	45	1.49
1822229--1822372	64	2.3	63	80	10	150	29	16	23	29	1.96
1835475--1835510	17	2.1	17	94	0	63	30	30	5	33	1.81
1838469--1839850	42	32.1	42	64	16	332	30	20	17	30	1.96
1838663--1838768	22	5.0	21	68	17	85	33	23	16	26	1.95
1838473--1839081	177	3.4	177	85	1	774	31	22	16	29	1.96
1838882--1839984	135	8.5	129	81	9	1077	29	21	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1839026--1839080	20	2.6	21	77	8	58	36	25	16	21	1.94
1838954--1840013	122	8.3	122	84	5	1017	28	21	18	31	1.97
1839840--1839864	13	1.9	13	100	0	50	24	20	24	32	1.98
1840195--1840276	37	2.2	37	95	0	146	21	17	24	36	1.94
1840195--1840292	37	2.6	37	90	0	133	23	16	22	37	1.93
1841571--1841807	125	1.9	124	88	3	359	28	26	13	32	1.93
1851225--1851263	3	12.3	3	84	10	51	33	2	0	64	1.08
1862577--1862742	83	2.0	83	93	0	287	37	16	13	33	1.87
1865607--1865650	21	2.1	21	83	8	54	50	2	6	40	1.42
1865664--1865717	18	2.9	19	82	17	69	44	3	1	50	1.30

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