genome.fa.s8721.2.7.7.80.10.50.1000.8.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: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2464137

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

This is table  8  of  12  ( 1342 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)
1469428--1469507	25	3.2	25	80	7	83	80	3	13	2	0.96
1473529--1473553	2	12.5	2	100	0	50	52	0	0	48	1.00
1478677--1479047	4	92.8	4	99	0	715	49	25	0	25	1.56
1479334--1479654	153	2.1	154	82	4	387	34	16	10	38	1.82
1479570--1479815	107	2.3	106	80	8	288	30	17	11	39	1.85
1479782--1479893	36	3.1	35	82	7	136	33	18	9	37	1.84
1480181--1480241	29	2.2	27	85	5	77	34	11	9	44	1.74
1480514--1480573	30	2.0	30	84	15	79	31	15	13	40	1.85
1480921--1480989	31	2.2	33	81	5	79	37	15	11	34	1.84
1480898--1481244	173	2.0	173	93	0	597	30	17	13	38	1.88
1481099--1481162	31	2.0	32	84	3	85	35	12	12	39	1.81
1481207--1481329	67	1.9	63	81	6	147	25	14	14	45	1.83
1481299--1481378	28	2.9	28	79	7	90	25	15	13	46	1.82
1481527--1481606	40	2.0	39	83	7	99	20	33	20	26	1.96
1481384--1481878	134	3.7	134	88	0	704	26	31	17	24	1.97
1482089--1482115	3	9.0	3	100	0	54	33	0	0	66	0.92
1483550--1483795	30	8.3	29	73	9	135	19	14	8	57	1.63
1483545--1483793	59	4.2	57	71	15	186	18	14	8	58	1.62
1490673--1490717	19	2.4	19	96	0	81	31	20	20	28	1.97
1499268--1499318	2	25.5	2	88	7	77	50	1	0	47	1.12
1503939--1503971	9	3.7	9	88	12	50	27	12	0	60	1.32
1503970--1504004	17	2.1	17	88	0	52	57	0	2	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506816--1506859	21	2.0	22	86	4	63	45	0	0	54	0.99
1506837--1506923	26	3.3	26	73	14	72	48	0	3	48	1.18
1507126--1507188	12	5.3	11	75	14	54	41	0	1	57	1.08
1507126--1507207	29	2.9	28	80	14	87	45	0	1	53	1.08
1507162--1507215	21	2.6	22	80	11	60	51	0	0	48	1.00
1507566--1507728	87	1.9	87	93	0	281	41	11	14	33	1.80
1508579--1508650	23	3.2	23	96	2	128	36	22	6	34	1.81
1512209--1512257	19	2.6	19	93	6	82	55	8	4	32	1.48
1514048--1514113	33	2.0	33	93	0	114	22	46	0	30	1.52
1514147--1514211	21	3.1	21	93	0	103	16	30	10	41	1.83
1516464--1516510	20	2.4	19	82	10	67	19	17	10	53	1.72
1516645--1516691	20	2.4	19	79	10	58	19	19	10	51	1.75
1516431--1516903	181	2.6	182	94	0	822	26	17	13	41	1.87
1516828--1516864	20	1.9	18	89	10	56	21	16	10	51	1.74
1517761--1517827	27	2.5	27	77	0	71	17	7	35	38	1.78
1518539--1518571	3	11.0	3	100	0	66	33	0	0	66	0.92
1518730--1518764	18	1.9	18	88	0	52	2	11	8	77	1.10
1519934--1519963	3	10.0	3	100	0	60	0	0	33	66	0.92
1522749--1522780	10	3.1	10	95	4	55	59	0	0	40	0.97
1532797--1532876	36	2.2	36	95	0	142	31	33	18	16	1.93
1545198--1545254	16	3.6	16	85	0	78	59	21	8	10	1.57
1552058--1552319	100	2.6	100	95	1	456	37	18	7	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553243--1553321	39	2.0	39	100	0	158	43	31	12	12	1.80
1556320--1556365	18	2.6	18	78	0	56	26	30	8	34	1.86
1557644--1557685	19	2.2	19	87	8	59	71	11	2	14	1.24
1562815--1562849	18	1.9	18	88	0	52	51	0	14	34	1.42
1564364--1564431	32	2.2	32	83	2	84	14	29	30	25	1.95
1570574--1570647	23	3.3	23	69	14	64	21	20	22	35	1.96
1574684--1574726	19	2.3	19	87	0	59	55	6	0	37	1.27
1580198--1580247	23	2.4	20	78	18	57	12	18	0	70	1.17
1581614--1581638	13	1.9	13	100	0	50	32	16	36	16	1.90
1584887--1585016	65	2.0	64	89	4	199	43	10	3	42	1.58
1587251--1587303	21	2.5	21	90	0	79	32	32	18	16	1.94
1587315--1587566	21	12.1	21	76	14	227	20	20	25	33	1.97
1587378--1587593	42	5.3	42	88	6	279	21	19	25	34	1.96
1587686--1587722	6	6.2	6	100	0	74	35	48	16	0	1.46
1588479--1588592	21	5.4	21	68	15	92	41	21	15	21	1.90
1588476--1588593	42	2.8	42	93	0	200	40	22	15	22	1.90
1593043--1593128	19	4.3	20	71	17	72	44	19	3	32	1.68
1600432--1600497	31	2.2	30	81	13	73	40	10	4	43	1.59
1604381--1604419	18	2.2	18	86	9	53	61	2	15	20	1.45
1604524--1604591	33	2.1	31	84	10	84	44	5	5	44	1.52
1604637--1604716	35	2.3	34	84	4	97	42	6	6	45	1.54
1604525--1604725	108	1.9	109	82	11	261	41	6	5	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604511--1604753	108	2.2	109	78	13	250	43	7	4	44	1.52
1604689--1604766	40	1.9	41	82	7	97	42	8	5	43	1.58
1605754--1606639	106	8.4	106	96	0	1558	22	18	24	33	1.96
1611458--1611495	18	2.1	18	85	9	51	63	2	13	21	1.42
1611600--1611667	33	2.1	31	84	10	84	44	5	5	44	1.52
1611544--1611874	40	9.1	36	71	17	192	43	7	4	45	1.52
1611713--1611796	35	2.3	36	84	12	100	42	5	5	45	1.53
1622017--1622061	2	22.5	2	100	0	90	48	0	51	0	1.00
1625525--1625677	75	2.0	75	100	0	306	45	16	3	34	1.66
1629227--1629319	30	3.0	29	74	12	80	44	7	8	39	1.64
1629835--1629859	2	12.5	2	100	0	50	48	0	0	52	1.00
1630823--1630855	17	2.1	16	88	11	50	48	3	3	45	1.33
1640741--1640884	27	5.3	27	96	0	243	42	11	13	31	1.81
1645149--1645181	15	2.2	15	100	0	66	24	21	0	54	1.45
1646483--1646523	14	2.9	15	89	10	68	51	21	0	26	1.48
1650625--1651248	315	2.0	309	94	2	1088	33	22	13	30	1.93
1660220--1660263	14	3.3	14	93	6	74	31	0	13	54	1.39
1661579--1661635	28	2.0	28	100	0	114	31	21	10	36	1.87
1661867--1661927	16	4.1	14	70	14	50	52	0	1	45	1.10
1661860--1661959	14	6.5	15	68	15	69	51	0	2	47	1.12
1661881--1661970	32	2.8	32	96	3	164	51	0	3	45	1.18
1662118--1662153	15	2.4	15	95	0	63	41	0	2	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662050--1662132	28	2.9	28	83	8	96	51	2	2	43	1.27
1667669--1667706	14	2.7	14	91	0	58	21	7	28	42	1.81
1667931--1667955	3	8.3	3	100	0	50	0	0	32	68	0.90
1668655--1668680	13	2.0	13	100	0	52	61	0	0	38	0.96
1669293--1669318	12	2.2	12	100	0	52	84	0	0	15	0.62
1671360--1671426	22	3.0	22	95	2	116	25	28	26	19	1.99
1673127--1673170	20	2.2	20	83	4	52	15	25	27	31	1.96
1679678--1679706	2	14.5	2	100	0	58	51	0	0	48	1.00
1684105--1684178	37	2.0	37	91	0	121	43	22	8	25	1.81
1686402--1686650	127	2.0	127	96	0	462	32	17	14	34	1.90
1695768--1695864	51	1.9	51	89	0	149	48	10	4	37	1.56
1707330--1707371	21	2.0	21	95	0	75	30	35	19	14	1.91
1709871--1709927	29	1.9	30	82	10	73	57	12	14	15	1.65
1711606--1711640	2	17.5	2	100	0	70	48	0	0	51	1.00
1712824--1712929	24	4.5	24	73	2	97	47	16	15	20	1.83
1715392--1715479	18	5.2	18	82	13	114	14	20	47	17	1.82
1715403--1715475	31	2.4	31	90	0	119	15	21	46	16	1.83
1715421--1715457	13	2.8	13	87	0	56	16	21	45	16	1.84
1718840--1718882	23	1.9	22	85	4	59	9	23	25	41	1.84
1720395--1720422	12	2.3	12	100	0	56	25	0	0	75	0.81
1742924--1743128	75	2.7	75	91	0	329	39	21	12	26	1.89
1744079--1744131	21	2.5	22	73	8	58	35	5	9	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747621--1747660	18	2.2	18	86	0	53	40	5	10	45	1.60
1748277--1748351	34	2.2	35	92	2	125	40	22	1	36	1.63
1750602--1750647	20	2.3	20	88	0	65	65	8	4	21	1.38
1750602--1750660	20	2.8	20	82	5	55	62	8	3	25	1.39
1751634--1751721	35	2.4	36	74	14	90	52	2	2	43	1.26
1754263--1754340	38	2.1	38	100	0	156	29	7	28	34	1.85
1756274--1756299	8	3.2	8	100	0	52	57	0	0	42	0.98
1757180--1757428	134	1.9	134	91	0	408	43	12	12	31	1.80
1758195--1758229	10	3.3	10	85	14	52	60	2	2	34	1.26
1759492--1759551	21	2.9	20	82	7	66	43	0	10	46	1.37

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