genome.fa.s426.2.7.7.80.10.50.1000.8.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  8  of  15  ( 1749 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)
1664580--1664622	22	2.0	22	95	0	77	32	6	4	55	1.47
1664683--1664724	14	2.9	15	78	7	50	33	0	19	47	1.49
1666000--1666075	7	10.9	7	84	0	98	22	0	34	43	1.54
1666000--1666075	28	2.7	28	95	0	134	22	0	34	43	1.54
1672161--1672193	4	8.2	4	100	0	66	0	51	0	48	1.00
1680104--1680146	7	6.1	7	100	0	86	0	44	0	55	0.99
1680097--1680142	21	2.2	21	92	0	74	0	45	2	52	1.13
1680748--1680772	13	1.9	13	100	0	50	24	16	28	32	1.96
1681261--1681303	22	2.0	22	95	0	77	51	11	0	37	1.39
1681263--1681311	22	2.2	22	85	3	62	55	12	0	32	1.37
1681345--1681437	22	4.8	20	68	24	58	51	11	0	36	1.39
1681346--1681391	22	2.0	22	87	4	65	54	10	0	34	1.36
1681363--1681636	32	9.3	31	73	20	166	51	6	0	41	1.27
1681346--1681469	54	2.3	54	95	0	221	52	11	0	36	1.37
1681395--1681437	22	2.0	22	100	0	86	51	13	0	34	1.42
1681397--1681445	22	2.2	22	88	3	71	55	14	0	30	1.40
1681422--1681478	18	3.4	18	69	18	59	54	12	0	33	1.38
1681440--1681613	15	11.5	15	72	19	139	52	3	0	44	1.18
1681414--1681557	65	2.2	63	86	8	191	50	6	0	42	1.29
1681447--1681598	54	2.9	53	76	9	116	51	3	0	44	1.20
1681519--1681596	39	2.0	39	100	0	156	53	0	0	46	1.00
1681439--1681613	69	2.6	66	86	5	224	52	3	0	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1681509--1681636	54	2.3	53	85	7	175	53	1	0	45	1.10
1681509--1681661	54	2.8	54	82	14	165	51	1	0	47	1.09
1684354--1684395	20	2.2	19	86	4	57	64	2	0	33	1.07
1684266--1684499	120	2.0	120	83	5	296	46	8	7	38	1.61
1684575--1684599	9	2.8	9	100	0	50	60	0	8	32	1.26
1684828--1684869	20	2.2	19	86	4	57	33	0	2	64	1.07
1687687--1687769	43	1.9	44	85	7	116	30	9	21	38	1.86
1693261--1693434	75	2.3	76	84	4	226	30	14	23	31	1.94
1694770--1694847	22	3.5	22	87	3	111	34	14	12	38	1.84
1695361--1695683	165	2.0	165	93	1	558	34	13	12	39	1.82
1695686--1696144	76	6.0	76	97	0	846	22	21	22	33	1.97
1696302--1696354	10	5.3	10	76	17	56	39	0	0	60	0.97
1696303--1696352	3	16.3	3	83	4	64	38	0	0	62	0.96
1696924--1696953	7	4.4	7	91	8	53	86	13	0	0	0.57
1698039--1698080	20	2.2	19	86	4	57	33	0	2	64	1.07
1697935--1698171	120	2.0	117	83	4	298	37	8	7	46	1.62
1702711--1702768	5	10.8	5	75	14	53	6	24	50	18	1.72
1702706--1702768	22	2.9	22	95	0	117	9	25	46	19	1.80
1702778--1702816	21	1.9	21	89	5	62	33	23	25	17	1.96
1708153--1708202	14	3.6	14	73	13	50	60	4	0	36	1.16
1710460--1710511	20	2.6	20	96	0	95	38	26	13	21	1.90
1710567--1710760	20	9.6	20	76	8	76	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1710563--1710760	40	5.0	39	81	4	200	35	26	19	19	1.95
1710567--1710759	60	3.2	60	83	0	251	35	25	19	19	1.95
1711119--1711189	33	2.2	33	92	0	115	11	22	18	47	1.80
1711310--1711364	14	3.6	14	73	21	56	41	23	25	9	1.83
1711310--1711380	33	2.2	33	94	0	124	43	25	22	8	1.81
1711376--1711473	19	5.7	19	70	22	81	10	24	22	42	1.84
1711398--1711487	14	5.7	14	74	23	81	8	25	23	42	1.83
1711381--1711495	33	3.5	33	95	0	212	9	24	20	45	1.81
1713193--1713940	185	4.0	186	98	1	1443	21	12	18	46	1.83
1713193--1713940	93	8.1	93	98	1	1443	21	12	18	46	1.83
1713193--1713940	278	2.7	278	98	0	1439	21	12	18	46	1.83
1713984--1714112	19	7.2	20	73	19	92	46	28	16	8	1.76
1714000--1714112	19	6.5	19	74	19	120	46	28	17	7	1.74
1714020--1714112	33	2.8	32	91	4	150	46	27	18	7	1.76
1714000--1714112	52	2.2	51	81	9	131	46	28	17	7	1.74
1714108--1714226	19	6.8	18	72	19	101	8	20	25	46	1.78
1714115--1714205	33	2.8	33	89	0	146	8	20	25	45	1.80
1714108--1714242	19	7.6	19	72	20	96	9	19	25	45	1.81
1716169--1716204	14	2.6	14	95	0	63	33	0	22	44	1.53
1716311--1716393	19	4.6	19	80	17	113	43	18	24	14	1.87
1716422--1716728	19	17.4	19	79	16	367	14	19	18	47	1.82
1716422--1716661	71	3.4	71	96	0	435	15	20	17	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716422--1716700	52	5.2	52	84	9	295	14	20	17	47	1.82
1716400--1716728	33	9.5	33	69	24	137	14	20	18	47	1.83
1719933--1720301	20	18.5	20	86	4	449	20	18	26	34	1.95
1720357--1720408	20	2.6	20	96	0	95	21	13	26	38	1.90
1720585--1720687	38	2.7	38	84	0	134	42	18	15	23	1.88
1736463--1736509	21	2.2	21	85	7	60	61	14	4	19	1.49
1737434--1737492	29	2.0	29	100	0	118	40	6	27	25	1.80
1737661--1737718	28	2.1	27	81	12	66	48	1	5	44	1.35
1737751--1737819	36	1.9	35	91	2	111	42	7	20	30	1.79
1737784--1737829	15	3.1	15	81	6	67	41	8	19	30	1.82
1737831--1737870	14	2.9	14	88	0	53	30	15	17	37	1.90
1738066--1738128	32	1.9	32	83	3	81	41	0	4	53	1.22
1738175--1738237	23	2.7	23	80	5	63	46	1	1	50	1.20
1738213--1738265	20	2.7	20	75	16	56	49	1	0	49	1.12
1738222--1738286	28	2.3	27	82	15	78	49	1	1	47	1.20
1738221--1738325	29	3.5	29	76	21	85	51	1	0	45	1.18
1738339--1738382	22	2.0	23	86	4	63	54	0	0	45	0.99
1747507--1747576	13	5.6	12	70	14	52	50	0	10	40	1.36
1747509--1747576	25	2.7	25	80	15	77	51	0	10	38	1.36
1751867--1751898	15	2.1	16	94	5	57	53	0	0	46	1.00
1751909--1751972	27	2.6	25	87	9	87	40	4	1	53	1.31
1751911--1751971	25	2.3	27	81	13	83	40	4	1	52	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752795--1752850	20	2.7	20	76	20	53	42	1	1	53	1.21
1761492--1761543	23	2.2	24	93	3	88	40	9	7	42	1.66
1762804--1762840	18	2.1	18	94	0	65	40	18	13	27	1.88
1763413--1763471	30	2.0	30	93	0	100	22	28	27	22	1.99
1768819--1768848	2	15.0	2	100	0	60	50	0	0	50	1.00
1770397--1770438	17	2.6	17	88	7	61	33	19	11	35	1.88
1772820--1772860	20	2.0	21	85	4	57	31	21	0	46	1.52
1777367--1777431	28	2.4	27	82	12	71	40	3	0	56	1.15
1777808--1778185	183	2.1	183	93	0	639	46	8	2	41	1.50
1778772--1778811	15	2.4	16	88	12	55	80	7	2	10	1.00
1780167--1780215	27	2.0	24	84	15	64	55	6	2	36	1.37
1780180--1780594	38	10.7	37	72	18	226	45	6	4	43	1.49
1780316--1780417	27	3.8	26	73	18	86	45	5	3	45	1.46
1780352--1780381	15	1.9	16	93	6	53	53	6	0	40	1.27
1780242--1780493	125	2.0	127	98	1	490	44	6	4	44	1.50
1780368--1780594	36	6.1	37	78	10	212	45	7	3	43	1.49
1783305--1783371	31	2.2	31	88	0	107	34	17	17	29	1.94
1784936--1785055	60	2.0	59	93	1	204	38	10	15	35	1.82
1785283--1785356	37	2.0	37	86	0	103	21	12	22	43	1.86
1787917--1787965	23	2.1	23	81	7	55	55	0	6	38	1.25
1794821--1794862	21	2.0	21	86	9	59	57	0	9	33	1.31
1805242--1805345	30	3.6	28	84	3	109	38	9	13	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808575--1808632	29	2.0	29	80	12	66	75	5	12	6	1.16
1809295--1809339	23	2.0	22	83	12	56	31	0	8	60	1.28
1819987--1820037	18	2.8	20	77	17	56	39	9	27	23	1.86
1820189--1820263	38	2.0	37	84	5	98	48	4	1	46	1.29
1820472--1820526	25	2.2	26	96	3	103	41	14	20	23	1.89
1821525--1822220	157	4.4	155	83	5	842	27	16	5	49	1.69
1821524--1822220	314	2.2	315	85	2	938	27	16	5	49	1.69
1826617--1826657	12	3.4	12	80	12	57	51	7	14	26	1.69
1826615--1826663	24	2.0	24	96	0	89	44	10	16	28	1.80
1827301--1827349	25	2.0	25	95	0	89	46	16	10	26	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15