genome.fa.s9175.2.7.7.80.10.50.1000.9.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  9  of  51  ( 6037 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)
1646544--1646624	3	26.7	3	83	12	103	65	0	0	34	0.93
1646823--1647174	124	2.9	119	81	7	312	26	17	15	40	1.89
1646903--1647174	124	2.2	120	89	2	400	26	18	16	39	1.91
1647087--1647612	229	2.3	228	93	3	904	28	19	14	37	1.90
1647087--1647651	113	5.0	112	84	5	687	29	18	14	37	1.91
1648346--1648564	114	1.9	114	88	1	332	29	20	15	34	1.94
1649257--1649333	3	27.7	3	80	15	69	0	23	0	76	0.78
1649248--1649335	19	4.4	20	82	14	112	0	21	0	78	0.75
1649240--1649347	43	2.6	41	86	8	146	0	22	0	76	0.84
1649654--1649685	15	2.1	15	100	0	64	21	25	18	34	1.96
1658413--1658442	15	2.0	15	100	0	60	13	20	13	53	1.72
1662538--1662589	20	2.6	19	79	8	59	65	1	0	32	1.04
1662447--1662681	120	2.0	120	83	5	300	46	8	7	37	1.62
1664078--1664158	3	26.7	3	83	12	103	65	0	0	34	0.93
1669687--1669896	102	2.1	102	98	0	402	47	14	6	31	1.70
1670163--1670202	19	2.2	19	86	4	55	57	7	0	35	1.27
1672336--1672377	22	1.9	22	95	0	75	42	7	14	35	1.73
1674018--1674074	14	3.7	17	71	21	54	38	1	0	59	1.08
1674180--1674278	23	4.5	23	72	16	59	46	1	3	49	1.24
1674168--1674229	23	2.6	23	78	17	63	43	0	3	53	1.17
1674193--1674293	42	2.6	38	78	15	107	47	0	1	49	1.19
1674398--1674431	17	2.1	16	88	5	50	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1674701--1674774	23	3.3	21	78	17	69	48	0	1	50	1.09
1674707--1674774	22	3.1	21	79	10	73	48	0	1	50	1.10
1674736--1674853	20	5.4	22	71	18	59	40	0	1	56	1.15
1674763--1674802	20	1.9	22	90	10	66	40	2	0	57	1.12
1674778--1674824	19	2.5	19	82	3	60	38	2	2	57	1.23
1674795--1674840	23	2.0	23	91	0	74	41	0	2	56	1.11
1674760--1674843	23	4.1	19	71	22	64	39	1	1	58	1.14
1675415--1675506	42	2.1	47	78	13	106	41	1	3	54	1.24
1675441--1675510	14	4.9	14	74	16	54	42	0	1	55	1.08
1675495--1675551	29	2.0	29	86	6	80	45	3	0	50	1.18
1675651--1675700	14	3.6	14	78	2	57	38	0	0	62	0.96
1675640--1675685	22	2.1	21	92	4	74	36	0	0	63	0.95
1675637--1675783	42	3.7	39	79	16	144	41	2	0	55	1.16
1675871--1675919	22	2.5	20	81	15	57	46	0	0	53	1.00
1675876--1675929	22	2.5	23	79	11	69	42	0	0	57	0.98
1676227--1676288	23	2.7	22	76	16	54	45	1	1	51	1.20
1676288--1676387	44	2.2	46	82	3	114	40	2	2	56	1.22
1676306--1676389	23	3.8	23	87	4	102	38	1	1	59	1.13
1676342--1676450	19	5.8	19	72	22	81	38	0	0	60	1.03
1676372--1676439	16	4.1	16	78	12	75	38	0	0	61	0.96
1676291--1676400	44	2.4	45	77	10	107	39	0	1	58	1.15
1676291--1676389	23	4.4	23	81	7	96	39	1	2	57	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1676360--1676450	35	2.6	35	98	1	175	39	0	0	60	0.97
1677780--1677831	25	2.1	25	100	0	104	44	0	3	51	1.19
1684966--1685008	19	2.3	19	95	0	77	44	6	16	32	1.74
1686179--1686243	5	13.4	5	82	12	82	78	1	1	18	0.91
1686185--1686219	18	1.9	18	100	0	70	80	2	0	17	0.84
1686178--1686243	23	3.0	22	87	10	100	78	1	1	18	0.90
1696023--1696061	18	2.1	19	90	4	62	69	5	5	20	1.28
1701199--1701274	12	6.0	13	71	15	52	53	0	6	39	1.27
1701199--1701274	13	6.0	12	71	15	55	53	0	6	39	1.27
1708398--1708436	2	19.5	2	100	0	78	51	0	0	48	1.00
1718380--1718439	3	20.0	3	100	0	120	33	0	0	66	0.92
1719600--1719659	30	1.9	32	83	6	79	43	8	26	21	1.81
1723309--1723349	21	2.0	21	90	0	64	48	12	19	19	1.80
1727785--1727863	21	3.8	20	74	14	61	35	24	20	20	1.96
1735116--1735158	13	3.2	13	76	3	50	53	11	2	32	1.50
1735587--1735628	21	1.9	21	85	9	57	59	2	0	38	1.10
1738914--1738986	29	2.7	26	82	12	101	45	10	12	31	1.76
1739683--1739761	40	2.0	40	97	0	149	25	21	18	34	1.96
1745801--1745838	19	2.1	19	85	5	51	2	18	2	76	1.02
1748204--1749274	541	2.0	531	96	2	1984	38	16	16	29	1.90
1755998--1756091	45	2.1	46	85	2	127	35	6	8	50	1.59
1756134--1756158	12	2.1	12	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757407--1757473	33	2.0	33	91	0	107	47	8	8	34	1.66
1759943--1760062	59	2.0	59	82	6	145	29	19	17	34	1.94
1763418--1763474	20	2.8	20	64	10	53	36	19	7	36	1.79
1764737--1764789	17	3.1	17	80	0	61	35	13	7	43	1.72
1767032--1767066	6	5.8	6	90	10	54	2	51	0	45	1.16
1773606--1773634	2	14.5	2	100	0	58	51	0	48	0	1.00
1775539--1775627	43	2.1	43	89	0	133	46	1	11	41	1.47
1782292--1782330	20	2.0	20	84	0	51	30	10	25	33	1.89
1786206--1786269	32	2.0	32	96	0	119	20	15	23	40	1.90
1790213--1790245	17	2.1	17	88	11	52	84	0	12	3	0.72
1790855--1790898	20	2.2	20	87	0	61	34	11	22	31	1.90
1794712--1794775	32	2.0	32	96	0	119	20	15	23	40	1.90
1798690--1798721	16	2.1	16	88	11	50	84	0	12	3	0.74
1803832--1803902	32	2.2	32	82	5	79	21	28	15	35	1.94
1807200--1807254	22	2.5	22	100	0	110	27	20	25	27	1.99
1811693--1811750	29	2.0	29	83	6	73	39	15	5	39	1.70
1813191--1813248	17	3.0	20	73	14	68	58	3	1	36	1.25
1813435--1813511	29	2.6	29	87	2	109	45	14	7	32	1.73
1813335--1813779	141	3.2	139	88	5	622	42	12	11	33	1.79
1813380--1813614	74	3.3	73	71	17	229	41	12	12	33	1.80
1813589--1813652	29	2.2	29	91	0	101	43	10	10	34	1.75
1813729--1813785	29	2.0	29	96	0	105	47	14	8	29	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1834421--1834458	20	1.9	20	89	10	60	71	0	2	26	1.00
1835828--1835911	3	28.0	3	71	9	55	61	1	0	36	1.04
1836797--1836825	2	14.5	2	100	0	58	48	0	0	51	1.00
1837268--1837609	43	7.9	42	80	6	319	35	18	22	23	1.96
1837268--1837608	127	2.6	130	80	3	350	35	18	22	24	1.96
1837268--1837607	85	3.9	84	79	5	331	35	18	22	24	1.96
1845884--1846019	41	3.3	40	75	8	112	30	22	14	32	1.94
1845881--1846019	40	3.4	40	73	7	127	30	22	15	31	1.95
1852734--1852776	22	1.9	22	90	4	68	74	4	0	20	1.00
1853209--1853281	22	3.0	24	66	11	60	35	1	12	50	1.48
1853223--1853291	22	3.0	22	71	8	75	36	2	10	50	1.51
1855696--1855736	21	1.9	22	85	5	57	60	0	9	29	1.28
1855744--1855816	3	25.3	3	91	8	125	65	0	0	34	0.93
1855837--1855872	17	2.1	18	89	5	56	75	0	5	19	1.00
1861507--1861553	6	7.5	6	80	17	51	53	14	17	14	1.74
1861507--1861547	14	3.2	13	86	6	57	51	14	19	14	1.77
1863524--1863579	2	29.5	2	89	10	91	50	0	0	50	1.00
1863495--1863579	34	2.4	35	82	7	93	49	1	1	48	1.16
1863524--1863578	15	3.8	15	95	4	96	49	0	0	50	1.00
1863867--1863897	13	2.4	13	94	0	53	74	0	6	19	1.03
1867568--1867665	44	2.2	44	96	0	178	37	2	8	52	1.43
1870338--1870385	20	2.4	20	92	0	87	33	18	27	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880538--1880575	19	2.0	19	89	0	58	21	36	26	15	1.93
1885985--1886039	23	2.4	23	88	8	78	21	34	25	18	1.96
1890950--1890981	16	2.0	16	93	0	55	40	6	18	34	1.76
1903605--1903660	3	20.0	3	84	14	75	32	0	0	67	0.91
1903609--1903660	11	4.7	11	90	0	86	32	0	0	67	0.91
1904622--1904657	14	2.5	15	90	4	56	25	8	0	66	1.19
1904672--1904707	13	2.8	13	91	8	56	27	2	5	63	1.30
1904680--1904728	24	2.0	24	84	7	64	32	2	2	63	1.17
1904680--1904728	13	4.1	11	84	10	53	32	2	2	63	1.17
1906275--1906344	30	2.4	29	90	4	113	34	12	34	18	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51