genome.fa.s8033.2.7.7.80.10.50.1000.9.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: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3048429

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1580 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)
1550990--1551273	59	4.8	59	84	1	356	33	20	11	33	1.89
1550990--1551273	118	2.4	117	88	1	399	33	20	11	33	1.89
1551607--1551649	17	2.3	19	80	19	63	25	32	16	25	1.96
1551613--1551648	17	2.1	17	100	0	72	25	33	16	25	1.96
1559216--1559284	32	2.2	32	78	2	77	27	14	13	44	1.82
1560245--1560303	22	2.7	22	86	0	82	27	16	13	42	1.86
1560572--1560634	30	2.1	30	84	0	81	47	4	12	34	1.63
1560580--1560644	30	2.2	30	85	0	85	44	4	13	36	1.65
1566167--1566325	47	3.4	47	83	6	207	22	17	14	45	1.84
1572982--1573132	47	3.2	47	86	4	216	19	19	14	45	1.85
1573541--1573716	94	1.9	94	82	7	223	23	23	14	37	1.92
1573813--1573851	14	2.8	14	88	0	51	23	25	15	35	1.94
1576374--1576422	21	2.3	21	100	0	98	36	20	4	38	1.72
1577903--1578004	31	3.3	31	92	0	159	50	16	11	21	1.77
1578165--1578258	47	2.0	47	95	0	170	31	11	17	39	1.85
1581706--1581761	21	2.8	19	76	12	67	58	3	0	37	1.15
1581315--1583659	812	2.9	808	89	1	3497	41	12	9	36	1.76
1584812--1584860	18	2.7	18	96	0	89	22	20	2	55	1.54
1589744--1589805	23	2.7	23	92	0	106	22	30	25	20	1.98
1605561--1605806	122	2.0	122	100	0	492	33	4	13	48	1.63
1608160--1608209	26	1.9	26	84	8	66	42	14	14	30	1.84
1618267--1618296	3	9.7	3	92	7	51	33	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618267--1618302	13	2.8	13	91	4	56	33	5	0	61	1.19
1620863--1620897	17	2.0	18	88	5	54	45	2	2	48	1.32
1622712--1624613	955	2.0	944	97	1	3612	29	18	24	27	1.98
1632438--1632489	24	2.1	24	85	3	68	78	0	15	5	0.92
1632438--1632495	12	4.9	12	81	10	57	77	0	15	6	0.97
1633563--1634106	113	4.8	113	89	2	799	27	23	16	32	1.96
1636098--1636123	12	2.2	12	100	0	52	42	0	7	50	1.31
1638935--1639006	22	3.2	21	76	16	65	76	1	16	5	1.05
1638932--1639006	15	5.0	15	74	15	66	76	1	17	5	1.05
1638957--1639007	23	2.2	24	89	3	77	78	0	17	3	0.90
1638951--1639013	12	5.4	12	74	12	51	76	0	17	6	0.99
1640136--1640264	48	2.7	48	96	0	231	28	20	17	33	1.95
1640179--1640699	113	4.6	113	89	1	715	28	22	16	32	1.96
1640895--1640924	3	9.7	3	92	7	51	33	3	0	63	1.11
1640895--1640930	13	2.8	13	91	4	56	33	5	0	61	1.19
1644066--1644127	15	4.0	15	74	14	63	74	1	17	6	1.11
1645238--1645781	113	4.8	114	87	2	729	28	22	16	31	1.96
1645977--1646006	3	9.7	3	92	7	51	33	3	0	63	1.11
1645977--1646012	13	2.8	13	91	4	56	33	5	0	61	1.19
1650571--1650621	11	4.5	11	74	13	50	76	0	17	5	0.98
1650545--1650608	32	2.0	33	84	6	87	75	1	17	6	1.09
1650553--1650622	23	2.9	24	81	10	72	77	1	15	5	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651763--1651878	44	2.7	43	84	11	141	27	21	16	34	1.95
1651806--1652307	113	4.5	113	89	3	707	27	22	16	32	1.96
1652507--1652536	3	9.7	3	92	7	51	33	3	0	63	1.11
1652507--1652542	13	2.8	13	91	4	56	33	5	0	61	1.19
1654340--1654365	12	2.2	12	100	0	52	42	0	7	50	1.31
1657017--1657068	11	4.6	11	81	11	61	78	0	17	3	0.89
1657018--1657072	23	2.4	24	79	14	71	80	0	14	5	0.89
1657025--1657074	11	4.4	11	80	7	55	80	0	16	4	0.87
1658204--1658332	48	2.7	48	95	0	222	28	20	17	33	1.95
1658247--1658767	113	4.6	113	88	2	726	29	22	16	32	1.96
1658963--1659007	3	14.7	3	90	4	72	31	2	2	64	1.18
1665782--1665944	84	1.9	84	86	0	227	22	20	26	31	1.98
1665994--1666328	36	8.6	37	70	19	168	42	13	18	26	1.87
1666013--1666198	58	3.1	58	79	9	203	41	12	18	26	1.87
1666152--1666345	36	5.2	36	80	8	208	41	11	18	28	1.86
1666152--1666345	78	2.6	72	79	11	210	41	11	18	28	1.86
1666220--1666300	42	1.9	42	92	0	135	46	11	17	24	1.80
1666363--1666432	36	1.9	37	82	8	90	38	8	18	34	1.81
1668346--1668391	13	3.5	13	85	5	65	2	13	4	80	0.95
1668335--1668401	24	2.6	26	75	15	68	1	14	5	77	1.03
1670435--1670465	14	2.3	14	94	5	55	83	0	0	16	0.64
1672528--1672567	21	1.9	21	84	0	53	32	0	2	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671952--1674266	810	3.0	755	82	9	2549	40	11	10	38	1.76
1675198--1675237	21	1.9	21	84	0	53	32	0	2	65	1.06
1677528--1677567	21	1.9	21	84	0	53	37	0	2	60	1.11
1677529--1677565	16	2.2	17	86	13	51	35	0	2	62	1.10
1678562--1678601	21	1.9	21	85	10	55	37	2	5	55	1.35
1683336--1683379	20	2.3	19	81	11	54	22	25	6	45	1.77
1685337--1685411	31	2.4	31	95	0	132	21	10	16	52	1.73
1686915--1686966	21	2.5	21	87	9	72	28	13	28	28	1.94
1687640--1687742	23	4.4	23	80	1	89	24	21	24	30	1.99
1687639--1687742	24	4.4	24	76	4	95	24	21	24	30	1.99
1694562--1694617	24	2.3	24	90	0	85	28	25	16	30	1.96
1700941--1701032	23	4.0	23	88	0	121	33	23	25	17	1.96
1703321--1703515	69	2.8	68	86	5	248	47	5	5	42	1.47
1703321--1703534	34	6.1	34	83	7	234	47	5	5	41	1.50
1703589--1703665	9	9.2	9	79	15	62	16	2	1	79	0.92
1703586--1703656	14	5.1	14	77	16	60	16	2	1	78	0.94
1703589--1703663	4	19.2	4	73	17	52	16	2	1	80	0.90
1705606--1705961	34	8.9	42	67	23	218	37	12	23	27	1.90
1705596--1705988	79	4.9	79	92	0	615	39	11	22	26	1.89
1706355--1706415	29	2.1	29	93	0	104	45	9	21	22	1.81
1708694--1708743	20	2.5	19	87	6	64	36	12	32	20	1.89
1709113--1709155	22	2.0	22	81	9	52	32	6	16	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709162--1709956	54	14.8	54	88	2	1091	27	18	21	32	1.97
1709933--1710066	55	2.5	55	85	4	184	34	16	17	31	1.93
1709933--1710083	55	2.8	54	83	6	155	33	17	17	30	1.94
1710448--1710585	46	3.0	46	88	0	195	44	7	22	25	1.80
1710580--1710641	32	2.0	31	83	3	79	41	11	19	27	1.85
1714540--1714590	20	2.6	19	87	6	66	35	15	29	19	1.93
1715008--1715903	54	16.9	54	88	3	1221	28	17	20	33	1.96
1715429--1715516	45	2.0	45	97	0	167	30	23	14	30	1.95
1715509--1715997	54	9.2	53	84	5	281	30	19	18	31	1.95
1715894--1716010	55	2.1	55	93	0	198	36	17	17	28	1.93
1716381--1716527	46	3.2	46	87	0	195	44	8	23	23	1.80
1716522--1716634	45	2.5	46	85	7	151	40	11	19	28	1.86
1726665--1727199	81	6.6	80	87	2	615	36	11	20	31	1.88
1726641--1727199	242	2.3	243	82	1	690	37	10	20	30	1.88
1729111--1729135	2	12.5	2	100	0	50	52	48	0	0	1.00
1731966--1732019	22	2.6	21	80	8	65	29	16	25	27	1.97
1732536--1733012	81	5.9	81	87	1	600	36	11	20	30	1.89
1733083--1733111	11	2.6	11	100	0	58	27	10	27	34	1.89
1736550--1736574	11	2.3	11	100	0	50	92	0	8	0	0.40
1738218--1738305	34	2.4	39	77	16	114	46	5	4	43	1.47
1738231--1738307	34	2.2	36	88	9	115	48	6	3	41	1.47
1738379--1738419	14	3.2	13	86	10	57	12	9	0	78	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738356--1738419	6	10.2	6	75	18	51	15	6	1	76	1.06
1745793--1745849	26	2.2	26	96	0	105	43	8	8	38	1.67
1745811--1745864	23	2.2	24	83	9	65	46	3	5	44	1.44
1746635--1746674	22	1.9	21	90	10	64	50	15	5	30	1.65
1747045--1747081	16	2.2	18	85	9	51	70	0	10	18	1.16
1748808--1748832	11	2.3	11	100	0	50	20	8	24	48	1.76
1750283--1750328	19	2.2	22	85	11	62	28	21	17	32	1.96
1755163--1755211	21	2.3	21	85	0	62	38	28	12	20	1.89
1757948--1758020	23	3.0	23	90	6	101	53	4	4	38	1.39
1760466--1760510	21	2.1	21	84	8	56	37	11	4	46	1.60

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14