genome.fa.s8071.2.7.7.80.10.50.1000.7.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: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1969971

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 922 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)
1525691--1525746	20	2.8	20	81	2	69	39	21	23	16	1.92
1525719--1525846	14	7.7	18	71	21	109	46	21	19	13	1.84
1525719--1525841	32	3.8	33	94	2	214	47	21	18	13	1.82
1525858--1525914	14	3.8	14	76	17	60	10	17	24	47	1.79
1525853--1525930	32	2.4	32	95	0	138	11	19	23	46	1.82
1525915--1525969	20	2.8	19	89	5	83	16	25	23	34	1.95
1527056--1527083	9	3.1	9	100	0	56	35	0	0	64	0.94
1527842--1527894	14	3.9	13	76	9	52	33	0	18	47	1.49
1527987--1528040	14	3.5	14	77	22	63	48	20	20	11	1.80
1529127--1529180	24	2.2	24	90	0	81	24	16	20	38	1.92
1529355--1529379	12	2.1	12	100	0	50	72	0	28	0	0.86
1531671--1531762	19	5.4	19	63	24	69	43	18	20	17	1.88
1531671--1531782	33	3.4	33	82	4	154	41	19	23	15	1.89
1531778--1531820	20	2.2	20	87	4	61	16	18	23	41	1.89
1531806--1531839	14	2.4	14	85	0	50	8	23	20	47	1.78
1531961--1531997	14	2.6	14	91	0	65	45	24	0	29	1.53
1533355--1533421	21	3.2	21	68	4	55	19	20	35	23	1.95
1535504--1535602	33	3.0	33	89	1	144	39	26	23	11	1.88
1535574--1535656	39	2.2	38	95	2	148	46	22	19	10	1.80
1535479--1535656	19	9.7	19	76	15	160	43	21	21	12	1.85
1536225--1536277	20	2.7	20	93	0	88	26	20	28	24	1.99
1536246--1536340	41	2.3	41	80	3	102	21	20	23	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536390--1536443	21	2.6	21	100	0	108	29	33	16	20	1.95
1553039--1554064	141	7.2	141	82	5	998	40	20	24	15	1.91
1556399--1556470	13	5.2	13	79	15	81	16	47	20	15	1.83
1556393--1556478	31	2.7	31	85	3	118	16	46	22	15	1.83
1556415--1556478	26	2.5	27	71	23	66	15	45	21	17	1.85
1556446--1556502	8	7.5	8	74	22	52	17	36	22	22	1.94
1556410--1556451	18	2.3	18	95	0	75	16	50	21	11	1.77
1556459--1556492	15	2.3	15	94	0	59	17	35	23	23	1.95
1557780--1557815	18	2.0	18	88	0	54	52	0	16	30	1.44
1558963--1559036	23	3.2	23	83	9	96	22	17	22	36	1.95
1558969--1559043	24	3.2	24	88	1	116	24	17	22	36	1.95
1560572--1560633	24	2.6	24	92	0	97	11	14	22	51	1.74
1560571--1560626	14	4.3	14	80	17	66	10	16	23	50	1.76
1560572--1560646	24	3.1	24	84	7	82	13	13	21	52	1.74
1561311--1561362	11	4.6	11	83	4	59	30	23	23	23	1.99
1561311--1561363	23	2.3	23	83	3	63	30	24	22	22	1.99
1561589--1561649	16	3.8	16	93	0	104	8	13	21	57	1.62
1565455--1565508	15	3.5	15	85	7	56	35	22	5	37	1.77
1565471--1565508	15	2.5	15	91	0	58	31	23	7	36	1.84
1598522--1598568	20	2.4	19	82	10	67	53	10	17	19	1.72
1598310--1598781	180	2.6	179	90	1	701	42	13	16	27	1.86
1598702--1598748	20	2.4	19	79	10	58	53	8	17	21	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1600968--1601031	21	3.0	21	90	0	101	42	10	28	18	1.84
1601066--1601131	33	2.0	33	87	0	96	30	0	46	22	1.52
1602920--1602968	19	2.6	19	96	0	89	32	2	10	55	1.45
1603202--1603965	200	3.8	200	95	0	1332	35	14	18	30	1.91
1605467--1605524	6	9.7	6	84	0	62	39	6	32	20	1.79
1605467--1605524	12	4.8	12	89	0	80	39	6	32	20	1.79
1606222--1606266	21	2.1	21	87	0	63	31	28	24	15	1.96
1607441--1607756	100	3.1	101	95	1	562	26	13	23	36	1.92
1607771--1607832	23	2.7	23	82	0	79	24	25	24	25	2.00
1609763--1610350	183	3.2	183	91	1	950	34	13	17	34	1.89
1610224--1610590	120	3.1	120	95	0	637	31	13	16	37	1.88
1619319--1619380	21	2.9	21	85	4	79	20	32	25	20	1.98
1619363--1619400	20	1.9	20	88	0	58	26	36	26	10	1.89
1623657--1623910	87	2.9	87	95	0	456	33	14	9	42	1.78
1623741--1623785	23	2.0	23	86	0	63	37	15	8	37	1.79
1623818--1623878	23	2.7	23	84	0	68	32	13	8	45	1.72
1645376--1645401	3	8.7	3	100	0	52	69	0	30	0	0.89
1655314--1655446	24	5.4	24	87	7	160	28	26	32	12	1.93
1655333--1655597	30	9.4	29	83	12	256	27	29	29	13	1.94
1655314--1655449	51	2.7	51	86	5	172	28	26	32	12	1.93
1655414--1655599	60	3.2	60	91	4	303	26	30	28	14	1.95
1655357--1655597	90	2.8	87	86	9	309	27	29	29	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659098--1659139	21	2.0	22	85	4	59	45	0	4	50	1.23
1659145--1659245	29	3.4	29	81	12	109	50	1	2	44	1.28
1663018--1663055	3	12.7	3	100	0	76	31	0	0	68	0.90
1663841--1663892	2	26.5	2	84	3	70	0	55	0	44	0.99
1663892--1663919	2	14.0	2	100	0	56	50	0	0	50	1.00
1665784--1666173	186	2.1	185	91	3	644	42	3	8	45	1.51
1673922--1673973	21	2.5	21	96	0	95	38	17	23	21	1.93
1674527--1674561	18	2.0	18	88	5	54	37	0	5	57	1.23
1683576--1683627	17	3.2	17	75	10	54	32	3	13	50	1.60
1684910--1684936	2	13.5	2	100	0	54	51	0	0	48	1.00
1690261--1690386	63	2.0	63	95	0	225	37	15	21	25	1.93
1691346--1691424	41	1.9	41	94	0	140	45	3	13	36	1.62
1691802--1692504	105	6.7	105	93	0	1093	22	18	25	33	1.96
1693299--1693332	14	2.4	14	90	0	50	0	5	11	82	0.83
1693308--1693334	14	1.9	14	100	0	54	0	0	11	88	0.50
1704120--1704245	63	2.0	63	96	0	234	37	16	21	24	1.94
1704145--1704241	31	3.1	30	66	18	81	37	14	22	25	1.92
1705211--1705289	41	1.9	41	94	0	140	45	3	13	36	1.62
1706929--1707033	54	1.9	54	84	3	140	26	21	38	13	1.91
1718558--1718664	36	3.0	36	91	0	178	29	14	12	43	1.81
1720461--1720495	2	17.5	2	100	0	70	51	0	0	48	1.00
1724625--1724672	24	2.0	24	95	0	87	43	20	4	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1726417--1726474	29	2.0	29	89	0	89	22	34	18	24	1.96
1735095--1735146	2	27.0	2	84	7	63	55	1	0	42	1.10
1735619--1735647	2	14.5	2	100	0	58	48	0	0	51	1.00
1741275--1741330	2	28.5	2	96	3	105	50	0	0	50	1.00
1744003--1744076	39	1.9	39	94	2	132	39	10	24	25	1.88
1748073--1748146	36	2.2	31	83	11	85	40	10	36	12	1.78
1750443--1750477	17	2.1	17	100	0	70	20	28	17	34	1.95
1753758--1753796	18	2.2	18	85	0	51	48	0	0	51	1.00
1759615--1759689	35	2.1	36	92	2	125	30	8	40	21	1.82
1760510--1760539	15	2.0	15	100	0	60	20	33	40	6	1.78
1770935--1771018	44	1.9	42	88	11	125	38	11	4	45	1.62
1777677--1777752	38	2.0	38	92	5	127	42	14	21	22	1.89
1782495--1783535	562	1.9	561	88	2	1597	40	9	13	36	1.77
1783702--1783740	21	1.9	19	85	10	51	20	12	2	64	1.40
1785573--1785607	17	2.0	18	88	5	54	42	5	5	45	1.51
1785761--1785799	3	13.3	3	94	5	71	64	0	0	35	0.94
1785827--1785881	24	2.2	24	84	9	67	40	1	3	54	1.28
1786072--1786120	20	2.4	21	83	6	66	51	0	2	46	1.12
1788113--1788277	84	2.0	84	93	0	285	18	23	23	35	1.96
1789807--1789872	33	2.0	33	90	0	105	18	6	36	39	1.75
1796808--1796922	38	3.0	38	87	1	158	23	10	25	40	1.86
1797853--1798010	61	2.6	62	85	3	214	26	11	11	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1797971--1798121	56	2.6	59	82	5	164	25	7	13	52	1.68
1800091--1800116	2	13.0	2	100	0	52	50	0	0	50	1.00
1814616--1814655	21	2.0	21	85	14	57	35	2	10	52	1.48
1816026--1816065	2	20.0	2	100	0	80	50	0	0	50	1.00
1816445--1816477	16	2.1	16	100	0	66	57	24	12	6	1.57
1816543--1816610	10	6.1	10	75	21	64	58	22	11	7	1.57
1816542--1816618	23	3.3	23	87	5	111	59	22	10	7	1.55
1816550--1816618	13	5.7	13	69	27	62	59	23	10	7	1.54
1816872--1816927	24	2.2	26	90	9	98	53	16	12	17	1.73
1816873--1816928	14	4.1	14	78	21	66	53	16	14	16	1.73

Tables:   1   2   3   4   5   6   7   8