genome.fa.s8826.2.7.7.80.10.50.1000.8.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  8  of  18  ( 2089 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)
1590342--1591229	105	8.5	105	94	1	1496	22	18	25	33	1.96
1596172--1596230	6	10.3	6	79	17	56	67	1	0	30	1.00
1596227--1596398	70	2.4	70	83	6	215	41	10	5	41	1.63
1596229--1596396	35	4.8	34	76	13	155	42	10	5	41	1.62
1597100--1597331	36	6.7	36	70	17	152	38	12	21	27	1.89
1597230--1597334	37	2.9	36	88	1	156	34	12	24	28	1.92
1597712--1598599	105	8.5	105	93	1	1487	22	18	25	33	1.96
1597712--1598599	211	4.2	210	93	1	1496	22	18	25	33	1.96
1597712--1598599	418	2.1	419	93	0	1528	22	18	25	33	1.96
1608755--1608823	9	6.5	11	76	20	67	68	2	0	28	1.04
1608755--1608826	3	23.7	3	72	27	55	68	2	0	29	1.04
1608756--1608832	22	3.5	22	73	16	70	70	2	0	27	1.01
1608842--1608890	22	2.2	22	85	0	62	46	8	2	42	1.45
1608902--1609005	33	3.1	33	82	10	122	38	16	4	40	1.70
1608908--1609041	35	3.9	35	80	11	136	41	13	5	40	1.67
1609064--1609136	34	2.1	35	92	5	121	36	9	2	50	1.49
1614840--1614892	21	2.5	21	93	0	88	32	9	18	39	1.83
1615221--1615254	9	3.8	9	88	0	50	52	0	14	32	1.42
1619138--1619205	28	2.4	28	92	0	100	17	13	29	39	1.88
1619438--1619471	9	3.8	9	88	0	50	52	0	14	32	1.42
1626012--1626091	21	3.8	20	78	14	72	13	25	36	25	1.92
1626012--1626091	20	3.8	19	74	18	61	13	25	36	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633718--1633775	24	2.4	24	88	0	89	17	18	27	36	1.94
1636406--1636442	19	2.0	19	89	5	58	78	5	10	5	1.08
1641023--1641082	10	5.6	10	75	21	59	65	3	1	30	1.19
1641043--1641084	19	2.1	20	82	8	59	71	0	0	28	0.86
1641154--1641292	33	4.1	32	75	14	127	41	13	6	38	1.70
1641153--1641294	35	4.1	35	76	12	109	40	14	6	38	1.71
1641272--1641400	36	3.6	36	82	7	129	41	12	4	41	1.63
1641304--1641428	36	3.6	34	79	14	96	43	8	2	45	1.48
1653074--1653127	3	17.7	3	77	11	56	38	0	0	61	0.96
1653075--1653127	15	3.7	15	80	14	67	39	0	0	60	0.97
1654749--1654781	9	3.8	9	84	8	50	45	0	0	54	0.99
1657821--1657908	7	12.4	7	71	19	58	15	13	12	57	1.65
1657844--1657911	34	2.0	35	83	13	88	19	13	11	55	1.67
1663011--1663246	75	3.2	75	89	2	343	31	11	22	34	1.89
1664519--1664582	22	2.9	22	90	0	92	35	17	14	32	1.89
1665287--1665394	45	2.4	45	85	6	146	23	24	23	29	1.99
1665402--1665595	45	4.3	45	86	0	253	24	22	19	33	1.97
1665228--1666937	135	13.4	121	71	17	499	23	22	19	33	1.97
1665281--1666986	211	7.9	211	90	2	2273	23	22	19	33	1.97
1665618--1665806	45	4.2	45	95	0	333	23	23	19	33	1.97
1665824--1666017	45	4.3	45	89	1	282	25	21	19	32	1.97
1666040--1666235	45	4.4	45	91	1	304	22	22	20	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666170--1666308	74	1.9	72	91	2	224	23	22	20	34	1.97
1666243--1666986	45	16.6	45	95	0	1321	22	23	19	34	1.97
1666125--1666352	118	1.9	118	92	1	386	22	22	20	34	1.97
1667145--1667203	3	19.7	3	79	6	66	38	0	1	59	1.08
1668844--1668877	9	3.9	9	84	7	52	44	0	0	55	0.99
1670628--1670659	17	1.9	16	93	6	55	28	0	0	71	0.86
1671359--1671392	17	2.0	17	88	11	52	61	0	5	32	1.20
1672135--1672443	40	7.6	41	74	4	239	31	17	16	34	1.93
1672153--1672445	81	3.6	82	79	2	304	30	17	16	35	1.92
1672194--1672445	122	2.1	121	79	8	269	31	17	17	34	1.92
1677707--1677815	44	2.6	42	80	7	130	26	22	22	29	1.99
1678020--1678148	42	3.1	40	82	7	150	25	17	22	34	1.96
1678183--1678351	53	3.2	53	88	1	241	31	20	26	21	1.98
1678501--1678543	3	14.3	3	80	0	50	30	0	0	69	0.88
1689270--1689337	23	3.1	22	64	23	54	26	17	20	35	1.95
1689259--1689388	42	3.1	42	87	0	179	26	17	22	33	1.96
1689423--1689587	53	3.1	53	84	1	206	30	19	27	21	1.98
1689742--1689775	12	2.8	12	95	0	59	20	0	0	79	0.73
1689741--1689783	18	2.4	18	80	0	59	27	0	0	72	0.85
1689779--1689805	7	3.9	7	100	0	54	55	0	0	44	0.99
1696021--1696077	21	2.7	21	86	0	78	22	7	22	47	1.75
1699635--1699725	43	2.1	42	93	2	155	42	18	8	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701203--1701277	28	2.6	28	83	8	96	40	5	0	54	1.23
1701326--1701404	28	2.8	29	82	3	106	39	7	0	53	1.30
1701448--1701512	30	2.2	30	91	0	103	41	9	1	47	1.45
1701508--1701590	31	2.7	31	86	1	105	33	6	1	59	1.30
1701662--1701790	57	2.2	57	83	8	161	54	0	8	37	1.31
1701660--1701790	29	4.5	29	79	11	135	54	0	9	36	1.33
1702852--1702895	15	2.9	15	86	0	61	38	6	0	54	1.27
1703297--1703455	8	18.8	8	82	13	140	0	62	0	37	0.95
1703301--1703434	4	32.8	4	81	12	121	0	64	0	35	0.93
1703296--1703455	12	13.2	12	80	11	166	0	62	0	37	0.95
1703296--1703466	18	9.4	18	79	7	96	0	60	0	38	1.01
1710170--1710199	2	15.0	2	100	0	60	50	0	0	50	1.00
1711338--1711373	17	2.1	17	89	0	54	8	8	5	77	1.11
1715655--1715693	18	2.3	16	86	8	51	79	2	5	12	1.00
1715696--1715755	22	2.8	22	85	5	79	63	3	31	1	1.20
1716498--1716557	28	2.1	28	84	6	77	38	35	1	25	1.66
1720040--1720073	17	1.9	17	88	5	50	64	0	8	26	1.22
1721274--1721344	4	17.5	4	81	18	85	70	0	0	29	0.88
1721268--1721359	30	3.0	30	86	10	109	68	1	1	29	1.03
1721269--1721344	39	1.9	39	89	10	120	71	0	0	28	0.87
1721268--1721344	7	11.3	7	82	12	90	71	0	0	28	0.86
1721371--1721398	13	2.2	13	100	0	56	42	7	7	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721372--1721630	36	7.1	34	75	14	193	40	10	5	43	1.61
1721447--1721473	14	1.9	14	100	0	54	37	14	11	37	1.82
1721372--1721630	37	7.1	36	75	13	199	40	10	5	43	1.61
1721592--1721618	13	2.1	13	100	0	54	48	7	0	44	1.31
1728128--1728188	23	2.7	22	78	16	72	26	27	24	21	1.99
1731628--1731659	3	11.3	3	93	6	50	31	0	0	68	0.90
1732277--1732331	26	2.1	26	83	10	67	76	7	14	1	1.08
1738159--1738225	25	2.7	25	82	8	84	37	7	1	53	1.38
1739983--1740215	67	3.5	66	84	4	283	30	16	14	37	1.89
1740220--1740785	139	4.1	139	85	5	698	31	27	14	26	1.95
1740220--1740785	278	2.0	278	85	2	771	31	27	14	26	1.95
1741086--1741150	3	22.3	3	81	12	82	33	4	0	61	1.16
1741093--1741173	24	3.2	25	84	8	85	33	2	0	64	1.07
1745611--1745808	93	2.1	95	84	3	267	38	14	21	26	1.91
1746138--1746520	54	7.1	54	89	1	516	32	12	17	37	1.87
1749796--1749843	19	2.5	19	100	0	96	43	6	20	29	1.76
1752547--1752721	91	1.9	93	85	2	246	39	13	20	27	1.89
1753047--1753433	54	7.2	54	88	1	546	33	11	15	39	1.84
1753060--1753492	160	2.7	162	87	4	576	33	12	16	38	1.86
1753348--1753504	54	2.9	53	81	8	142	33	12	18	35	1.89
1757481--1757779	65	4.7	64	77	10	281	31	16	13	39	1.86
1757778--1758438	136	4.8	136	81	5	710	30	28	14	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757776--1758378	275	2.2	270	82	6	748	30	28	14	26	1.95
1758761--1758802	18	2.3	19	87	4	59	33	4	0	61	1.17
1758761--1758825	19	3.5	19	80	4	69	35	4	0	60	1.18
1759346--1759391	21	2.2	21	88	0	65	80	8	8	2	0.99
1769108--1769175	31	2.2	31	89	5	102	32	7	8	51	1.61
1769316--1769379	27	2.4	27	86	0	83	56	1	3	39	1.25
1769356--1769413	22	2.5	22	88	8	80	53	0	5	41	1.23
1769338--1769424	25	3.4	25	82	17	92	52	1	3	42	1.25
1769387--1769443	25	2.3	26	81	6	64	49	0	5	45	1.24
1771049--1771172	16	7.7	15	68	11	50	16	3	3	76	1.05

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18