genome.fa.s8194.2.7.7.80.10.50.1000.9.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

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

This is table  9  of  13  ( 1464 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)
1726283--1726490	103	2.0	103	100	0	416	37	12	15	34	1.86
1729032--1729105	29	2.6	27	80	16	78	2	14	8	74	1.16
1729039--1729098	14	4.1	14	75	12	66	3	13	6	76	1.11
1732886--1732959	15	4.9	14	82	14	76	63	1	1	33	1.11
1732896--1732959	3	22.0	3	84	6	87	64	1	0	34	1.03
1739668--1739748	9	9.2	9	66	15	53	46	1	1	50	1.17
1739668--1739733	17	4.5	15	76	16	66	48	1	0	50	1.10
1739668--1739748	26	3.1	27	76	15	80	46	1	1	50	1.17
1743455--1743573	61	2.0	61	98	0	229	42	12	11	32	1.79
1743455--1743550	31	3.1	30	62	14	70	43	10	13	32	1.78
1743664--1743769	25	4.2	25	96	2	187	61	0	26	11	1.36
1743654--1743734	15	6.1	14	65	28	52	56	1	29	12	1.43
1745124--1745154	15	2.1	15	100	0	62	12	32	35	19	1.90
1760053--1760110	23	2.5	24	86	5	84	56	0	5	37	1.21
1760053--1760106	24	2.3	23	90	3	81	57	0	3	38	1.17
1760098--1760142	14	3.1	14	84	9	56	82	0	2	15	0.77
1760098--1760134	7	5.1	7	87	6	56	83	0	2	13	0.74
1762716--1762745	2	15.0	2	100	0	60	50	0	0	50	1.00
1763588--1763631	21	2.1	21	82	0	52	34	4	13	47	1.63
1765381--1765458	39	2.0	39	100	0	156	20	38	5	35	1.75
1766147--1766209	23	2.7	23	92	0	99	38	20	4	36	1.74
1766354--1767669	199	6.6	199	96	0	2442	31	16	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766354--1767669	399	3.3	399	96	0	2462	31	16	14	37	1.89
1767776--1767836	19	3.3	18	88	2	59	52	11	1	34	1.47
1767788--1767836	19	2.6	19	96	0	89	55	10	2	32	1.45
1769627--1769692	33	2.0	33	87	0	96	22	46	0	30	1.52
1769726--1769790	21	3.1	21	90	0	94	18	30	9	41	1.82
1772010--1772052	20	2.3	18	85	14	61	20	16	11	51	1.75
1772015--1772061	20	2.4	19	82	10	67	19	17	10	53	1.72
1772195--1772241	20	2.3	20	89	10	78	17	19	8	55	1.67
1771982--1772453	180	2.6	180	90	2	696	26	17	13	42	1.87
1775250--1775302	21	2.5	21	81	6	72	20	26	18	33	1.96
1775292--1775339	20	2.3	20	85	3	60	39	16	20	22	1.92
1775341--1775466	20	6.2	20	85	5	128	30	26	19	23	1.98
1775329--1775441	41	2.8	42	83	4	124	31	26	18	23	1.97
1775373--1775466	40	2.3	40	88	0	152	26	27	20	25	1.99
1776012--1776067	20	2.8	20	88	0	85	44	19	21	14	1.86
1776086--1776137	14	3.2	16	70	24	54	11	21	19	48	1.80
1777716--1777805	42	2.2	40	86	5	128	21	15	42	21	1.89
1777741--1777801	21	2.9	21	73	9	70	21	13	42	22	1.87
1778141--1778179	20	2.0	20	89	0	60	35	25	12	25	1.92
1778167--1778253	20	4.4	20	85	7	115	39	24	22	13	1.91
1778299--1778357	14	3.9	14	76	20	64	10	16	23	49	1.77
1778283--1778373	33	2.8	33	96	1	166	12	18	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1778278--1778373	18	5.7	18	71	22	91	12	19	21	45	1.83
1778358--1778401	20	2.3	19	84	11	54	20	25	18	36	1.95
1778946--1778993	18	2.7	18	93	0	87	14	12	45	27	1.81
1780309--1780365	20	2.8	20	86	0	69	43	21	17	17	1.88
1780604--1780647	22	2.0	22	95	0	79	18	15	45	20	1.85
1780834--1780906	20	3.7	20	90	0	119	26	19	27	27	1.99
1780961--1781010	21	2.4	22	76	6	59	38	18	24	20	1.93
1784085--1784148	14	4.6	15	73	21	59	48	15	0	35	1.46
1785124--1785171	20	2.4	21	86	6	64	58	2	8	31	1.39
1786895--1786943	21	2.2	23	82	7	57	46	0	2	51	1.12
1788503--1788693	30	6.4	30	95	1	341	34	23	18	24	1.97
1788943--1788967	4	6.2	4	100	0	50	48	24	0	28	1.52
1789119--1789153	2	18.0	2	88	5	54	54	0	0	45	0.99
1792657--1793016	112	3.1	115	81	11	373	22	21	23	32	1.98
1793251--1793351	31	3.3	31	63	15	82	39	0	21	37	1.60
1793249--1793505	62	4.0	62	77	10	275	38	2	22	36	1.69
1793284--1793572	133	2.2	131	89	3	440	36	4	23	35	1.76
1794261--1794312	21	2.5	21	81	12	70	23	26	32	17	1.96
1794275--1794378	42	2.5	42	82	3	111	25	18	34	21	1.96
1795720--1795779	26	2.3	27	81	13	72	55	1	1	41	1.20
1795884--1795940	19	3.0	20	92	7	84	61	8	7	22	1.50
1795895--1795940	19	2.4	19	100	0	92	67	10	4	17	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795898--1795947	19	2.8	18	93	6	84	64	8	4	24	1.38
1796240--1796382	60	2.4	61	84	5	191	23	37	24	15	1.93
1799057--1799125	2	34.5	2	100	0	138	50	0	0	49	1.00
1799866--1799905	21	2.0	21	85	5	55	42	7	2	47	1.45
1804585--1804619	14	2.5	14	85	0	52	71	0	2	25	1.00
1805678--1805749	37	2.0	36	83	8	92	16	6	19	56	1.62
1805796--1805875	23	3.5	23	98	0	151	26	26	15	32	1.95
1805895--1805948	11	4.9	11	79	0	63	22	16	11	50	1.77
1805870--1805948	22	3.6	22	78	0	68	20	15	13	50	1.77
1805881--1805951	11	6.5	11	76	0	61	21	15	14	49	1.79
1818872--1818936	30	2.2	30	88	0	94	24	32	26	16	1.96
1818943--1818980	20	1.9	20	100	0	76	21	26	26	26	1.99
1825029--1825067	21	1.9	20	84	5	51	35	15	15	33	1.89
1834217--1834247	15	2.1	15	93	0	53	9	41	9	38	1.71
1837805--1837861	6	9.5	6	100	0	114	17	0	66	15	1.25
1839742--1839775	12	2.8	12	83	16	52	26	26	5	41	1.78
1840502--1841280	137	5.8	137	88	3	1046	24	15	26	34	1.94
1840836--1841035	43	4.5	43	68	18	138	22	16	26	35	1.95
1841026--1841283	126	2.0	126	88	2	385	23	13	28	34	1.93
1841479--1841602	58	2.2	57	88	1	176	27	12	22	37	1.90
1842702--1842836	51	2.7	50	86	3	189	20	22	20	37	1.95
1844347--1844405	9	6.3	9	79	13	66	0	16	0	83	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844347--1844406	20	3.2	19	83	4	77	0	16	0	83	0.65
1844349--1844405	29	2.0	29	89	6	89	0	17	0	82	0.67
1847721--1847815	45	2.1	45	82	0	109	57	10	4	27	1.50
1850851--1851006	83	1.9	80	90	3	249	37	4	12	45	1.62
1857434--1857502	30	2.2	30	82	15	86	36	5	15	42	1.72
1857443--1857502	29	2.0	30	90	6	95	35	6	15	43	1.72
1857573--1857616	21	2.2	20	84	12	54	25	31	25	18	1.97
1857639--1857702	15	3.7	18	77	14	71	21	31	25	21	1.98
1857807--1857846	20	1.9	22	90	10	66	37	40	10	12	1.77
1867471--1867547	24	3.2	24	67	12	59	18	18	16	46	1.84
1875555--1875623	25	2.8	25	93	2	113	27	14	18	39	1.90
1875741--1875786	3	14.7	3	86	13	58	65	0	0	34	0.93
1876001--1876445	43	10.4	42	71	12	230	24	19	30	25	1.98
1876001--1876442	129	3.4	129	93	2	726	24	19	30	26	1.98
1876610--1876680	32	2.3	30	79	9	79	43	15	15	25	1.86
1876622--1876684	32	2.0	31	90	3	99	41	12	14	31	1.83
1877383--1877624	67	3.6	67	96	1	414	44	12	12	29	1.80
1877438--1877644	30	6.4	30	70	22	136	43	13	12	31	1.80
1877723--1877912	29	6.4	28	82	13	195	47	14	10	27	1.76
1877761--1877835	38	2.0	38	100	0	150	48	18	8	25	1.75
1877733--1877864	67	2.0	66	94	4	230	47	16	9	26	1.76
1877802--1877909	56	1.9	57	90	5	175	46	12	11	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1878455--1878652	66	3.0	66	100	0	396	37	10	18	33	1.85
1878544--1878679	38	3.8	38	67	21	123	36	11	19	33	1.87
1878610--1878671	21	3.1	21	62	17	51	35	12	20	30	1.91
1878604--1878712	38	2.9	36	82	6	119	34	12	19	33	1.90
1880249--1880286	11	3.4	11	89	7	58	5	13	10	71	1.30
1880244--1880291	12	3.9	12	81	8	53	4	12	12	70	1.29
1880274--1880311	20	1.9	20	88	0	58	2	15	10	71	1.25
1883371--1883432	32	2.0	32	96	3	117	61	9	14	14	1.57
1886839--1886909	25	2.9	25	91	2	108	28	15	16	39	1.89
1887025--1887076	3	16.7	3	88	11	70	65	0	0	34	0.93

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