genome.fa.s8531.2.7.7.80.10.50.1000.9.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2279 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)
1598602--1598629	8	3.5	8	100	0	56	39	0	10	50	1.37
1603421--1603485	31	2.2	28	83	8	76	36	1	6	55	1.34
1603465--1603523	24	2.4	25	83	11	77	30	1	1	66	1.12
1604240--1604418	64	2.8	62	80	9	191	30	17	24	28	1.97
1607096--1607192	44	2.2	44	83	7	117	25	20	26	26	1.99
1612978--1613122	73	2.0	73	83	2	184	29	18	23	28	1.98
1613089--1613141	19	2.8	19	100	0	106	30	16	30	22	1.96
1613463--1613556	2	48.5	2	75	21	85	45	2	2	50	1.25
1616488--1616532	23	1.9	24	82	13	58	17	42	8	31	1.80
1624161--1624275	60	1.9	60	83	3	151	33	21	4	40	1.73
1624693--1624726	17	1.9	18	88	5	52	41	14	5	38	1.70
1626472--1626507	13	2.8	13	100	0	72	0	36	0	63	0.94
1629615--1629782	60	2.8	59	83	6	205	32	19	4	42	1.72
1630218--1630251	17	1.9	18	88	5	52	41	14	5	38	1.70
1637973--1638003	15	2.1	15	94	5	55	41	0	0	58	0.98
1638738--1638829	37	2.5	37	83	1	114	29	5	29	35	1.80
1638763--1638847	37	2.1	41	72	18	97	34	8	24	32	1.85
1639422--1639533	59	1.9	59	81	7	138	36	12	16	33	1.87
1640660--1640699	13	3.0	13	78	7	53	45	0	0	55	0.99
1640659--1640702	14	3.2	14	75	18	56	45	0	0	54	0.99
1645715--1645834	17	6.9	16	74	15	80	35	12	10	42	1.76
1645741--1645814	34	2.1	35	90	2	114	36	10	13	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655651--1655782	64	2.1	64	92	0	219	39	14	16	29	1.88
1656226--1656558	54	6.2	54	86	1	452	33	19	18	28	1.96
1662613--1662659	19	2.3	21	85	10	62	34	14	21	29	1.93
1663015--1663394	54	7.3	54	81	8	455	32	20	20	27	1.97
1663097--1663181	42	2.0	42	90	0	134	32	20	18	28	1.96
1663043--1663345	96	3.0	96	80	10	399	31	20	20	27	1.97
1664389--1664488	3	32.3	3	92	6	164	65	1	1	33	1.06
1668929--1669004	17	4.4	17	77	8	82	39	11	10	38	1.77
1668911--1669004	34	2.7	35	80	6	111	39	11	9	39	1.75
1668890--1669002	17	6.4	18	71	10	72	38	13	8	38	1.76
1672381--1672436	3	18.7	3	96	0	103	66	0	1	32	1.03
1673837--1673906	3	22.0	3	86	13	88	68	0	0	31	0.90
1673838--1673909	29	2.5	29	89	10	112	69	0	0	30	0.89
1673905--1673935	16	1.9	16	93	0	53	74	9	3	12	1.19
1674421--1675048	113	5.5	113	84	7	811	27	18	14	39	1.90
1675449--1675503	22	2.5	22	87	0	83	36	14	14	34	1.87
1675870--1676074	54	3.9	53	84	3	245	23	21	15	38	1.92
1677984--1678445	115	4.0	116	94	1	792	31	21	15	31	1.95
1680542--1680603	1	62.0	1	83	0	79	0	8	0	91	0.40
1680542--1680637	15	6.7	15	78	4	101	1	11	3	84	0.79
1680598--1680644	23	2.0	24	80	12	62	4	12	12	70	1.31
1680541--1680614	7	10.6	7	84	11	82	0	12	0	87	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680542--1680606	8	8.1	8	86	11	89	0	9	0	90	0.44
1683196--1683234	14	2.8	14	85	11	53	58	7	17	15	1.59
1687223--1687256	18	1.9	17	88	5	50	70	0	2	26	1.01
1688058--1688101	3	14.7	3	95	0	79	65	0	2	31	1.05
1689504--1689572	3	22.0	3	84	8	75	66	0	1	31	1.00
1689503--1689572	25	3.0	23	80	17	74	65	0	2	31	1.07
1689504--1689575	28	2.5	28	88	2	99	66	0	1	31	1.00
1690499--1690573	17	4.5	17	71	17	50	42	2	1	53	1.23
1690498--1690573	27	3.0	25	74	24	77	42	2	1	53	1.23
1699069--1699114	20	2.3	20	84	0	56	30	23	17	28	1.97
1699264--1699371	3	35.3	3	76	15	62	43	0	0	54	1.12
1699264--1699371	17	6.4	17	69	19	66	43	0	0	54	1.12
1699267--1699371	14	7.7	14	72	17	80	43	0	0	54	1.13
1700691--1700737	3	16.3	3	78	8	53	38	0	2	59	1.09
1700691--1700740	12	4.1	12	84	5	73	40	0	2	58	1.10
1700667--1700740	37	2.0	36	82	10	87	40	1	4	54	1.28
1703091--1703147	28	2.1	27	90	3	87	35	5	0	59	1.20
1703116--1703170	24	2.5	22	80	16	60	29	1	1	67	1.11
1705958--1706061	37	2.8	37	86	0	136	41	14	12	31	1.83
1706451--1706506	22	2.5	22	85	5	69	30	0	1	67	1.01
1706637--1706798	31	5.4	31	69	17	78	30	4	2	62	1.29
1706755--1706832	22	3.3	25	77	12	83	29	3	0	66	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706779--1706845	29	2.3	32	80	17	83	28	2	0	68	1.04
1706714--1706844	22	6.0	22	70	15	58	28	4	0	66	1.16
1706755--1706842	46	1.9	46	81	9	108	29	4	0	65	1.12
1709118--1709145	13	2.2	13	100	0	56	14	14	17	53	1.73
1710857--1710893	11	3.4	11	100	0	74	83	0	16	0	0.64
1710845--1710895	11	4.5	11	87	5	57	82	1	15	0	0.76
1711739--1711801	24	2.8	22	78	7	72	33	11	4	50	1.59
1712441--1713292	106	8.0	106	91	0	1285	34	24	18	22	1.96
1714758--1714817	24	2.6	22	75	10	57	31	3	0	65	1.09
1714761--1714817	22	2.5	24	77	11	64	33	3	0	63	1.12
1714922--1715019	25	3.8	25	68	21	69	20	8	4	67	1.34
1714922--1714971	5	10.2	5	77	10	50	20	6	0	74	1.03
1719302--1719474	75	2.3	75	84	0	229	30	16	23	29	1.96
1721270--1722038	73	10.5	73	89	1	1171	26	19	20	32	1.97
1721270--1722038	222	3.5	219	91	1	1189	26	19	20	32	1.97
1721270--1722038	295	2.6	294	90	1	1195	26	19	20	32	1.97
1722161--1722209	3	17.0	3	83	8	66	34	0	2	63	1.06
1726990--1727022	13	2.4	14	90	5	50	48	0	0	51	1.00
1726988--1727032	16	2.8	16	83	12	56	48	0	0	51	1.00
1734652--1734709	22	2.6	22	88	2	80	32	10	15	41	1.81
1735244--1735405	83	2.0	83	93	0	279	41	12	20	24	1.87
1735422--1735607	83	2.2	84	86	5	254	35	12	21	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1736104--1736136	13	2.4	14	90	5	50	48	0	0	51	1.00
1736102--1736146	16	2.8	16	83	12	56	48	0	0	51	1.00
1736209--1736249	21	2.0	21	90	0	64	34	31	21	12	1.91
1738392--1738431	21	1.9	21	84	0	53	30	25	17	27	1.97
1741765--1741802	20	1.9	20	94	0	67	34	18	18	28	1.95
1744388--1744422	18	1.9	18	94	0	61	20	22	28	28	1.98
1747818--1747860	23	2.0	21	90	9	68	46	0	6	46	1.30
1747856--1748057	103	2.0	100	87	4	289	41	4	11	43	1.61
1747850--1748020	64	2.6	65	86	6	236	41	4	11	43	1.59
1747841--1748073	37	6.6	36	85	12	256	42	3	10	42	1.58
1748075--1748143	29	2.3	29	80	7	77	36	0	11	52	1.38
1748138--1748167	9	3.2	9	95	4	51	23	0	0	76	0.78
1748140--1748201	16	3.8	16	70	14	54	29	3	1	66	1.17
1748144--1748209	13	4.7	13	74	17	51	28	3	1	66	1.15
1749364--1749410	16	2.8	16	81	18	60	27	4	0	68	1.08
1749364--1749410	18	2.9	15	84	15	58	27	4	0	68	1.08
1749403--1749445	18	2.4	18	81	11	54	11	11	0	76	1.02
1761592--1761637	23	1.9	23	91	8	74	43	0	8	47	1.34
1761624--1761835	35	6.1	34	84	9	261	42	3	9	43	1.54
1761647--1761833	64	2.8	65	86	7	250	43	2	9	43	1.51
1761917--1761984	10	6.3	10	72	24	50	27	1	5	64	1.25
1763166--1763219	7	7.6	7	89	4	63	5	12	7	74	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1763165--1763219	21	2.5	22	85	5	85	5	12	7	74	1.20
1765107--1765174	31	2.2	30	87	5	100	35	10	27	26	1.89
1766885--1766926	2	21.0	2	100	0	84	50	0	0	50	1.00
1767092--1767151	29	2.1	29	100	0	120	41	30	3	25	1.71
1767190--1767250	31	2.0	31	90	6	97	34	14	26	24	1.94
1768733--1768776	16	2.7	16	82	3	52	47	0	2	50	1.13
1768733--1768771	17	2.4	17	86	4	53	48	0	2	48	1.15
1768715--1768773	29	2.0	30	86	3	84	49	0	5	45	1.24
1768945--1769007	28	2.2	28	85	2	81	38	11	6	44	1.66
1769103--1769330	106	2.2	105	86	4	318	35	7	13	44	1.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19