genome.fa.s572.2.7.7.80.10.50.1000.7.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: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2399138

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1076 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)
1548323--1548436	60	1.9	60	92	0	192	21	21	38	18	1.93
1557334--1557365	2	16.0	2	100	0	64	50	0	0	50	1.00
1565412--1565440	2	14.5	2	100	0	58	51	0	0	48	1.00
1567745--1567794	24	2.1	24	100	0	100	40	14	8	38	1.75
1571697--1571738	21	2.0	21	95	0	75	21	14	33	30	1.93
1576521--1576560	20	2.0	20	100	0	80	25	25	25	25	2.00
1603017--1603059	19	2.2	20	84	15	56	46	9	0	44	1.35
1620860--1620898	21	1.9	21	89	5	62	33	12	12	41	1.82
1623416--1623442	14	1.9	14	100	0	54	25	0	7	66	1.17
1623568--1623605	15	2.5	15	100	0	76	55	0	13	31	1.38
1629680--1629736	10	5.6	10	80	12	62	70	1	5	22	1.17
1630851--1630894	21	2.2	20	87	4	61	20	6	2	70	1.21
1630839--1630894	10	5.5	10	82	4	67	23	5	3	67	1.27
1635027--1635086	31	1.9	32	89	3	95	43	3	0	53	1.17
1647771--1647798	3	9.3	3	100	0	56	0	35	32	32	1.58
1654944--1654977	18	1.9	17	88	5	50	50	8	2	38	1.49
1655157--1655205	24	2.0	25	88	4	73	32	2	2	63	1.17
1665914--1665941	4	7.0	4	100	0	56	25	50	0	25	1.50
1667291--1667349	31	1.9	31	92	0	100	40	6	10	42	1.65
1667374--1667416	22	2.0	22	95	0	77	51	11	0	37	1.39
1667364--1667614	54	4.6	54	75	10	258	52	13	0	34	1.40
1667379--1667695	80	3.9	80	89	7	494	52	14	0	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667432--1667505	22	3.2	22	70	16	60	55	17	0	27	1.42
1667476--1667617	32	4.8	32	80	16	187	53	12	0	33	1.39
1667364--1667726	166	2.2	166	97	1	683	52	13	0	33	1.40
1667542--1667590	22	2.2	22	85	3	62	55	12	0	32	1.37
1667476--1667748	112	2.4	111	84	9	311	53	13	0	32	1.40
1667642--1667729	32	2.8	32	94	0	158	54	12	0	32	1.38
1668828--1668930	22	4.5	22	71	7	89	51	8	0	39	1.33
1668873--1668960	15	5.5	15	79	18	97	53	3	0	43	1.17
1668793--1668983	54	3.9	47	83	14	203	51	7	0	40	1.31
1672112--1672162	12	4.3	12	76	18	54	31	0	1	66	1.03
1672151--1672211	24	2.5	24	100	0	122	50	0	0	49	1.00
1672534--1672585	24	2.3	23	81	15	63	63	1	1	32	1.16
1672759--1672818	31	1.9	31	93	0	102	46	10	3	40	1.54
1675761--1675817	21	2.6	21	77	5	51	35	3	1	59	1.25
1676016--1676076	32	1.9	32	86	0	86	34	3	3	59	1.30
1682509--1682623	60	1.9	60	82	7	144	34	19	4	41	1.71
1682540--1682676	60	2.3	61	81	8	147	33	23	4	38	1.75
1682797--1682945	59	2.5	59	76	6	133	36	6	22	34	1.80
1694076--1694120	23	2.0	23	86	0	63	24	15	20	40	1.91
1694631--1694717	15	6.1	15	73	14	67	41	0	5	52	1.25
1694670--1694717	15	3.3	15	91	2	71	43	0	4	52	1.20
1700376--1700417	12	3.3	13	83	12	52	69	0	2	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701054--1701088	2	17.5	2	100	0	70	51	0	0	48	1.00
1709492--1709571	3	26.3	3	97	2	151	0	33	0	66	0.92
1715098--1715128	16	1.9	16	93	0	53	45	0	0	54	0.99
1715098--1715137	19	2.0	20	85	4	55	47	0	0	52	1.00
1719507--1719545	2	19.5	2	100	0	78	51	0	0	48	1.00
1722822--1722865	21	2.1	21	95	0	79	4	15	63	15	1.46
1739954--1739998	20	2.2	20	92	4	72	51	26	11	11	1.71
1739960--1740000	20	2.0	20	100	0	82	51	24	14	9	1.72
1741533--1741588	23	2.4	23	85	5	69	37	0	19	42	1.52
1744756--1744814	23	2.6	23	97	2	111	30	8	0	61	1.26
1745138--1745178	12	3.7	12	78	18	52	14	2	14	68	1.32
1749669--1749701	16	2.0	17	88	5	50	42	6	0	51	1.26
1752666--1752758	42	2.2	42	92	0	150	16	21	22	39	1.92
1752743--1752809	19	3.5	19	100	0	134	19	20	17	41	1.90
1753570--1753623	21	2.6	21	90	0	90	29	25	16	27	1.97
1753644--1753684	21	2.0	21	85	0	55	34	29	17	19	1.94
1753726--1753819	22	4.4	22	76	8	104	36	25	19	19	1.95
1754316--1754906	182	3.3	181	82	3	785	44	12	14	28	1.81
1764384--1764503	30	4.1	29	75	11	93	26	26	28	18	1.98
1765509--1765536	12	2.3	12	100	0	56	14	25	42	17	1.87
1765502--1765552	19	2.7	19	79	17	61	19	25	39	15	1.91
1765538--1765636	9	10.3	9	77	10	90	29	28	27	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1765540--1765637	19	5.1	19	80	13	101	29	28	25	16	1.97
1765563--1765637	29	2.5	31	91	8	129	29	28	26	16	1.96
1771862--1771938	31	2.5	31	80	2	91	27	31	27	14	1.95
1771815--1771938	63	2.0	63	80	6	144	25	28	28	17	1.98
1772808--1772850	7	6.4	7	84	10	63	23	27	32	16	1.96
1772814--1772899	12	7.3	12	80	12	99	13	24	44	17	1.85
1772835--1772900	22	3.0	22	100	0	132	9	22	50	18	1.75
1772847--1772887	5	7.8	5	84	10	55	4	21	53	19	1.63
1772902--1772999	9	10.2	9	77	10	88	29	28	26	15	1.96
1772903--1773000	19	5.1	19	80	13	101	29	28	25	16	1.97
1772926--1773000	29	2.5	31	91	8	129	29	28	26	16	1.96
1780598--1780636	21	1.9	21	89	5	62	20	23	2	53	1.57
1782728--1782756	3	10.0	3	92	7	51	68	0	0	31	0.89
1785442--1785548	52	2.1	52	85	3	144	21	14	18	45	1.84
1795477--1795581	31	3.4	31	91	0	165	36	14	15	34	1.87
1795827--1795885	26	2.1	29	87	9	88	57	6	0	35	1.25
1797104--1797155	21	2.5	21	84	3	70	36	19	25	19	1.95
1797144--1797257	20	5.7	20	81	6	104	32	25	17	24	1.97
1797813--1797854	19	2.2	19	91	0	66	52	26	16	4	1.63
1797850--1798048	19	11.1	19	76	13	140	12	22	21	44	1.85
1797855--1797939	39	2.2	38	91	2	134	11	17	21	49	1.78
1797910--1797986	33	2.3	33	84	0	109	10	20	27	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1797963--1797999	14	2.6	14	100	0	74	8	27	24	40	1.83
1797930--1798023	47	2.0	48	91	2	154	10	25	25	38	1.88
1797991--1798048	20	2.9	20	80	10	64	13	24	18	43	1.87
1801532--1801567	14	2.6	14	86	0	54	30	2	25	41	1.69
1801746--1801896	19	8.7	19	64	21	80	15	22	20	41	1.89
1801750--1801876	33	3.9	32	87	8	193	14	22	19	42	1.88
1801743--1801875	66	2.0	66	97	0	248	16	22	19	41	1.90
1804168--1804192	12	2.1	12	100	0	50	0	28	0	72	0.86
1804367--1804420	24	2.2	24	90	0	81	38	20	16	24	1.92
1805477--1805534	20	2.9	20	97	0	107	37	24	22	15	1.93
1805540--1805610	33	2.2	33	81	0	79	19	18	21	40	1.91
1805562--1805611	14	3.2	14	75	24	55	12	20	20	48	1.80
1805572--1805674	19	5.6	19	78	13	117	13	21	18	46	1.83
1805553--1805684	33	3.8	33	78	13	156	12	21	19	46	1.83
1805563--1805703	73	1.9	72	94	1	246	14	21	19	44	1.86
1805553--1805703	33	4.4	33	77	11	149	13	21	19	44	1.86
1805791--1805827	14	2.6	14	86	0	56	48	21	0	29	1.50
1807695--1807762	20	3.5	19	82	6	82	38	23	23	14	1.92
1807751--1807808	14	3.9	14	79	16	62	48	22	17	12	1.80
1807735--1807813	32	2.4	33	93	2	133	46	21	18	12	1.82
1807842--1807899	14	3.9	14	79	16	71	10	17	24	48	1.78
1807825--1807915	32	2.8	33	94	3	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)
1807900--1807954	20	2.8	19	83	8	65	16	23	23	36	1.94
1808436--1808480	18	2.5	18	85	0	63	15	15	42	26	1.87
1810101--1810144	22	2.0	22	90	0	70	20	15	43	20	1.88
1810332--1810404	20	3.7	20	88	0	110	27	17	28	26	1.98
1810415--1810466	20	2.5	20	81	3	59	17	25	19	38	1.93
1812007--1812044	2	19.0	2	100	0	76	50	0	0	50	1.00
1821320--1821354	13	2.5	14	90	9	54	65	0	5	28	1.15
1825242--1825310	34	2.0	34	97	0	129	27	21	27	23	1.99
1825761--1825812	23	2.3	23	81	12	63	48	0	7	44	1.31
1828115--1828156	21	2.0	21	85	0	57	38	21	7	33	1.81

Tables:   1   2   3   4   5   6   7   8   9