genome.fa.s9643.2.7.7.80.10.50.1000.8.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  8  of  41  ( 4862 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)
1478136--1478237	40	2.5	40	96	1	186	49	8	24	17	1.75
1478179--1478702	113	4.7	113	93	0	874	39	13	18	29	1.88
1478177--1478702	226	2.3	223	96	1	962	39	13	18	29	1.88
1479016--1479105	3	30.7	3	91	4	148	34	2	0	63	1.07
1480486--1480526	19	2.1	20	86	4	57	39	2	2	56	1.26
1491464--1491538	32	2.3	32	93	0	123	36	10	16	37	1.83
1493751--1493780	2	15.0	2	100	0	60	50	0	50	0	1.00
1499035--1499077	22	2.0	22	81	9	52	46	0	2	51	1.13
1508294--1508345	27	2.0	25	82	10	61	53	7	3	34	1.48
1508812--1508879	31	2.3	29	78	11	75	45	10	7	36	1.66
1508787--1508879	28	3.2	29	78	7	89	45	7	8	38	1.63
1510761--1510789	6	4.8	6	100	0	58	0	17	0	82	0.66
1517095--1517133	12	3.2	12	88	0	51	35	12	0	51	1.40
1517096--1517130	16	2.2	16	94	0	61	31	14	0	54	1.40
1533011--1533048	2	19.0	2	100	0	76	50	0	0	50	1.00
1536857--1536905	10	4.8	10	77	5	53	69	2	4	24	1.17
1536856--1536905	21	2.4	21	83	3	66	68	2	4	26	1.18
1537411--1537478	31	2.2	29	78	14	73	23	5	4	66	1.32
1537430--1537487	10	5.6	10	76	8	62	22	3	3	70	1.17
1537430--1537487	21	2.8	19	82	12	62	22	3	3	70	1.17
1537421--1537487	32	2.1	32	86	8	91	23	4	2	68	1.22
1539805--1539920	57	2.0	57	85	3	153	30	18	26	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542176--1542286	37	3.0	37	93	0	186	11	45	19	23	1.83
1547131--1547189	20	2.7	21	80	17	59	57	3	0	38	1.15
1556124--1556181	27	2.1	27	100	0	116	56	3	17	22	1.55
1560889--1560920	2	16.0	2	100	0	64	50	0	0	50	1.00
1562395--1562433	16	2.5	16	83	4	53	23	7	20	48	1.75
1562395--1562443	15	3.2	15	82	5	62	22	8	22	46	1.77
1562526--1562564	21	1.9	20	84	5	51	30	17	23	28	1.97
1563078--1563134	16	3.6	16	72	9	53	14	12	24	49	1.77
1563165--1563199	16	2.2	16	89	0	52	17	11	20	51	1.75
1563071--1563243	75	2.3	75	91	0	274	20	12	21	45	1.84
1563751--1563860	40	2.8	40	95	1	195	55	13	0	30	1.45
1563788--1563855	23	3.2	23	62	23	58	55	14	1	27	1.48
1563825--1563899	22	3.2	23	71	17	73	54	14	2	28	1.54
1563871--1563978	32	3.7	31	74	25	126	51	12	0	35	1.45
1563903--1563945	22	2.0	22	95	0	77	51	11	0	37	1.39
1563854--1564245	54	7.3	53	82	11	312	52	11	0	35	1.43
1563905--1563953	22	2.2	22	85	3	62	55	12	0	32	1.37
1563813--1564246	134	3.2	133	95	1	771	52	12	0	35	1.44
1564005--1564278	32	8.7	32	70	21	177	52	10	0	36	1.37
1564039--1564087	22	2.2	22	85	3	62	55	12	0	32	1.37
1564144--1564254	18	6.4	18	65	22	67	53	9	0	36	1.35
1564093--1564167	22	3.2	23	71	17	73	54	14	0	30	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564190--1564306	32	3.5	33	88	7	155	51	5	0	42	1.26
1563988--1564289	54	5.5	54	71	15	201	51	10	0	37	1.39
1574388--1574419	16	2.0	16	93	0	55	9	43	12	34	1.75
1577701--1577778	38	2.1	38	90	0	120	35	11	26	25	1.90
1577773--1577846	38	2.0	37	84	7	96	32	16	21	29	1.95
1580463--1580510	24	2.0	25	87	4	71	20	20	6	52	1.68
1580547--1580580	17	1.9	18	88	5	52	64	0	11	23	1.26
1585172--1585196	2	12.5	2	100	0	50	48	0	0	52	1.00
1589107--1589142	13	2.6	14	91	8	56	52	0	0	47	1.00
1590675--1590801	60	2.1	60	85	2	166	33	13	18	34	1.90
1594058--1594109	14	3.6	14	80	10	68	51	0	3	44	1.19
1594050--1594118	30	2.3	30	97	0	129	52	0	2	44	1.16
1594939--1594974	2	18.5	2	94	5	65	47	0	0	52	1.00
1616777--1616824	24	2.0	24	100	0	96	20	20	8	50	1.74
1627594--1627624	16	1.9	16	100	0	62	25	25	19	29	1.99
1629151--1629311	21	7.7	21	83	8	204	29	25	21	23	1.99
1629171--1629287	62	1.9	62	91	3	191	31	23	22	23	1.98
1629329--1629397	20	3.4	20	75	18	79	36	17	21	24	1.95
1629348--1629444	21	4.6	22	73	19	82	27	19	25	26	1.99
1629321--1629404	41	2.0	41	95	0	150	35	17	21	25	1.95
1629332--1629460	41	3.1	41	83	8	138	27	18	25	27	1.98
1629387--1629461	21	3.6	21	75	7	71	21	21	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630134--1630187	21	2.6	21	84	0	72	20	20	27	31	1.97
1638321--1638431	36	3.1	36	83	3	145	36	24	21	17	1.94
1639444--1639514	23	3.1	22	68	20	56	54	1	2	40	1.23
1645250--1645436	60	3.1	61	75	12	154	34	19	3	42	1.68
1650606--1650792	34	5.5	34	99	0	365	58	0	0	41	0.98
1651613--1651657	21	2.1	22	87	4	65	55	0	0	44	0.99
1651628--1651692	29	2.2	31	83	10	82	49	1	4	44	1.32
1670822--1670874	18	2.9	18	80	0	61	56	3	37	1	1.28
1684625--1684703	36	2.3	35	86	4	106	16	43	6	34	1.73
1687744--1687774	16	1.9	16	100	0	62	58	6	12	22	1.58
1701409--1701503	21	4.8	21	68	19	78	55	1	4	38	1.26
1701360--1701517	37	4.1	38	70	16	119	55	3	4	37	1.36
1701487--1701536	10	5.3	10	72	13	52	72	2	2	24	1.06
1705405--1705444	21	1.9	21	84	0	53	22	17	17	42	1.89
1708673--1708729	23	2.6	22	74	15	55	49	1	1	47	1.22
1717381--1717500	61	2.0	61	83	3	152	52	9	0	37	1.39
1722504--1722541	15	2.5	15	100	0	76	42	0	0	57	0.98
1722495--1722543	15	2.7	19	73	26	61	42	0	2	55	1.11
1723358--1723390	16	2.1	16	100	0	66	42	0	12	45	1.41
1723348--1723436	46	2.0	44	89	8	135	38	1	13	47	1.50
1724320--1724353	14	2.4	14	85	0	50	44	5	2	47	1.42
1726007--1726043	2	18.5	2	94	0	65	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729742--1729786	22	2.0	24	86	8	67	55	2	13	28	1.50
1738330--1738458	60	2.1	60	82	4	152	37	12	13	36	1.82
1739465--1739498	15	2.1	16	89	10	52	41	2	0	55	1.15
1739830--1739892	19	3.4	19	87	8	85	76	7	3	12	1.13
1739829--1739899	29	2.5	28	86	8	99	76	8	2	12	1.12
1739829--1739899	19	3.8	18	85	10	72	76	8	2	12	1.12
1739830--1739899	10	7.4	9	82	12	70	75	8	2	12	1.13
1743653--1743725	36	2.0	36	94	0	128	35	13	20	30	1.91
1746022--1746066	23	2.0	23	86	0	63	26	26	24	22	2.00
1746300--1746327	14	2.0	14	100	0	56	35	28	7	28	1.84
1747698--1747742	21	2.1	21	87	0	63	15	24	28	31	1.96
1759301--1759335	2	17.5	2	100	0	70	48	0	0	51	1.00
1764895--1764974	31	2.6	30	83	9	99	17	12	17	52	1.74
1764902--1764953	17	3.2	17	71	15	56	17	11	15	55	1.68
1765391--1765456	31	2.1	33	91	5	109	50	0	7	42	1.31
1765424--1765464	18	2.2	19	82	8	57	46	0	4	48	1.23
1769900--1769954	24	2.3	24	80	0	65	10	18	23	47	1.80
1769921--1769961	14	2.9	14	81	0	55	9	14	19	56	1.66
1771034--1771077	16	2.8	16	89	0	61	11	11	15	61	1.57
1771102--1771134	16	2.1	16	94	0	57	6	9	24	60	1.49
1771267--1771574	156	2.0	155	89	1	474	23	17	18	40	1.91
1775839--1775899	26	2.3	26	88	0	86	45	8	8	37	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1778948--1779028	32	2.5	32	80	7	85	43	9	14	32	1.79
1779245--1779307	30	2.1	30	88	5	92	42	9	4	42	1.58
1779687--1779720	17	1.9	18	88	5	52	52	5	0	41	1.25
1780545--1780608	30	2.1	30	88	5	94	20	6	9	64	1.45
1781786--1781844	21	2.8	21	92	0	100	45	23	10	20	1.81
1784081--1784161	43	1.9	42	82	7	101	25	13	23	37	1.92
1784255--1784356	44	2.3	44	86	0	141	28	19	21	30	1.98
1790714--1790877	52	3.1	52	92	3	258	46	15	7	31	1.73
1802049--1802114	29	2.3	29	100	0	132	39	24	4	31	1.75
1806188--1806245	30	1.9	30	93	6	100	41	12	10	36	1.76

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