genome.fa.s7777.2.7.7.80.10.50.1000.9.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: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1720799

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1086 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)
1549543--1549591	13	3.9	12	89	10	80	36	0	0	63	0.95
1549538--1549591	19	2.8	20	91	5	85	38	0	0	61	0.96
1549908--1550000	47	2.0	47	82	2	116	43	8	2	46	1.46
1550580--1550621	13	3.4	13	80	12	61	33	7	16	42	1.75
1552404--1552443	21	1.9	21	90	10	64	45	17	7	30	1.76
1553027--1553056	14	2.1	14	93	0	51	50	6	0	43	1.28
1553137--1553303	7	23.9	7	74	9	108	22	1	25	50	1.57
1553134--1553303	14	12.1	14	80	0	151	22	1	25	50	1.57
1553139--1553283	42	3.5	42	83	0	182	22	1	24	51	1.57
1553583--1553619	19	2.1	18	85	14	51	62	16	5	16	1.51
1555862--1555900	17	2.3	17	100	0	78	25	20	23	30	1.98
1556046--1556118	31	2.4	31	100	0	146	19	16	21	42	1.89
1574204--1574243	15	2.7	15	100	0	80	12	47	0	40	1.41
1575893--1575944	20	2.5	20	96	3	95	40	19	15	25	1.90
1580625--1580657	12	2.5	14	85	14	52	42	0	0	57	0.98
1582016--1582057	21	2.0	21	95	0	75	26	28	21	23	1.99
1582164--1582229	19	3.5	19	75	4	62	34	13	9	42	1.76
1582294--1582352	29	2.0	31	90	6	95	42	16	5	35	1.71
1583619--1583666	19	2.5	20	82	3	62	29	12	6	52	1.63
1584526--1584595	34	2.1	32	86	5	95	22	30	15	31	1.95
1584879--1584920	21	2.0	21	95	0	75	26	28	21	23	1.99
1585026--1585080	19	2.9	19	72	5	58	34	12	10	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585156--1585215	29	2.0	31	90	6	97	41	16	6	35	1.75
1593258--1593373	60	1.9	60	82	0	142	35	12	15	37	1.85
1598288--1598548	57	4.5	56	73	12	181	43	12	6	37	1.70
1599458--1599498	14	2.9	14	88	0	64	46	17	19	17	1.85
1601915--1601957	22	1.9	23	90	4	70	34	0	2	62	1.08
1601915--1601957	23	1.9	22	86	13	61	34	0	2	62	1.08
1602053--1602102	23	2.2	23	96	0	91	20	24	16	40	1.91
1602053--1602102	12	4.3	12	82	7	68	20	24	16	40	1.91
1602670--1602727	24	2.5	23	80	5	64	25	1	1	70	1.06
1602695--1602733	12	3.2	12	82	7	51	25	0	2	71	0.98
1602839--1602868	14	2.1	15	93	6	53	70	0	0	30	0.88
1605159--1605209	20	2.5	21	87	12	72	25	19	25	29	1.99
1613724--1613761	20	1.9	20	94	0	67	28	18	26	26	1.98
1615017--1615070	27	2.0	27	96	0	99	40	18	9	31	1.82
1615279--1615382	36	2.9	36	80	0	118	40	14	12	32	1.83
1619084--1619286	2	104.0	2	66	22	76	48	3	3	44	1.36
1619084--1619184	29	3.4	29	75	20	86	47	2	1	47	1.28
1619203--1619259	25	2.3	26	84	9	82	52	5	5	36	1.47
1619614--1619661	15	2.9	17	84	9	55	45	4	8	41	1.53
1619814--1619872	7	8.6	7	79	3	57	47	33	0	18	1.49
1620164--1620190	13	2.1	13	100	0	54	44	0	0	55	0.99
1620516--1620557	21	2.0	21	85	0	57	54	2	23	19	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620853--1620892	2	20.5	2	87	5	55	50	5	0	45	1.23
1620986--1621054	13	5.2	13	91	3	75	52	26	0	21	1.47
1620984--1621063	14	5.9	14	91	2	83	51	27	0	21	1.48
1621002--1621064	21	3.0	21	76	17	60	50	30	0	19	1.47
1621234--1621280	14	3.7	14	71	26	50	51	4	0	44	1.21
1621232--1621281	23	2.1	24	96	3	93	48	4	0	48	1.20
1621320--1621346	13	2.1	13	100	0	54	44	0	0	55	0.99
1621514--1621589	16	4.7	16	86	1	98	40	11	23	23	1.88
1621497--1621589	32	2.9	32	88	3	125	40	11	23	23	1.88
1624679--1624715	20	1.9	19	89	10	58	56	10	13	18	1.66
1625832--1626355	262	2.0	262	95	0	940	31	14	13	40	1.85
1626629--1626784	21	7.6	21	72	4	138	20	18	25	35	1.95
1626625--1626807	41	4.5	41	96	0	330	19	19	24	37	1.94
1626650--1626804	20	7.6	20	71	4	121	17	20	24	38	1.93
1626796--1626867	22	3.4	22	73	11	78	16	19	26	37	1.93
1626817--1626882	19	3.3	19	72	12	69	18	19	21	40	1.91
1626653--1626882	41	5.6	41	91	4	179	17	19	23	38	1.93
1626625--1626848	82	2.7	81	90	4	308	19	19	24	37	1.94
1626625--1626848	123	1.8	122	86	5	326	19	19	24	37	1.94
1626634--1626882	123	2.0	121	82	9	299	18	18	24	38	1.93
1626958--1626996	6	6.5	6	96	0	69	33	51	12	2	1.54
1626997--1627027	5	6.4	5	96	3	55	35	22	41	0	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627512--1627549	6	6.5	6	96	3	69	0	15	52	31	1.43
1627671--1627793	21	6.0	21	76	2	88	34	25	19	20	1.96
1627621--1627723	41	2.5	42	80	10	124	36	23	18	21	1.95
1627691--1627785	21	4.6	21	81	2	120	31	26	18	23	1.98
1627668--1627785	62	1.9	62	96	0	218	33	25	19	21	1.97
1627712--1627789	41	1.9	41	94	0	138	33	24	20	21	1.97
1631797--1631855	12	4.9	12	80	0	64	13	20	16	49	1.80
1631803--1631855	24	2.2	24	96	0	97	13	18	16	50	1.77
1635246--1635297	24	2.2	24	85	0	68	21	13	9	55	1.66
1635449--1635511	32	2.0	32	90	6	101	12	19	30	38	1.89
1636270--1636295	2	13.0	2	100	0	52	50	0	0	50	1.00
1637678--1638068	185	2.1	186	94	0	687	42	3	8	45	1.50
1639396--1639436	3	13.7	3	100	0	82	31	0	0	68	0.90
1641422--1641456	17	2.1	17	89	5	54	54	8	11	25	1.64
1643613--1643644	14	2.1	16	88	11	50	43	3	0	53	1.16
1644147--1644398	127	2.0	127	100	0	504	35	15	16	32	1.90
1645365--1645402	20	1.9	20	89	10	60	42	5	15	36	1.70
1645557--1645719	86	1.9	85	89	1	254	34	14	15	35	1.88
1652515--1652554	21	1.9	22	90	10	66	20	22	35	22	1.96
1662933--1662962	15	2.0	15	93	0	51	3	60	0	36	1.14
1665477--1665530	27	2.0	27	82	7	65	46	0	1	51	1.11
1665518--1665554	9	4.1	9	90	10	58	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666381--1666462	23	3.6	23	86	1	112	18	19	7	54	1.66
1670609--1670661	20	2.8	18	78	15	63	49	0	11	39	1.39
1671105--1671154	15	3.3	15	78	10	57	44	24	8	24	1.80
1671560--1671595	18	1.9	20	88	11	58	2	38	0	58	1.13
1675062--1675176	57	2.2	53	79	14	121	34	9	11	44	1.73
1681086--1681231	60	2.4	59	85	5	186	35	17	13	33	1.89
1681792--1681825	14	2.4	14	90	5	50	17	8	2	70	1.25
1682190--1682449	139	1.9	141	92	2	443	37	8	12	41	1.75
1685099--1685134	18	2.1	18	94	5	65	44	5	0	50	1.25
1685177--1685201	2	12.5	2	100	0	50	48	0	0	52	1.00
1685112--1685286	65	2.7	66	84	8	209	48	4	5	42	1.46
1685420--1685465	21	2.2	21	84	7	58	43	34	2	19	1.63
1685413--1685457	14	3.2	14	87	0	63	46	31	0	22	1.52
1685509--1685539	2	16.0	2	93	6	55	51	0	0	48	1.00
1685793--1685851	11	5.4	11	75	20	52	49	6	3	40	1.46
1685793--1685887	20	4.5	21	78	10	86	44	7	4	44	1.51
1685765--1685891	65	2.0	65	82	3	157	42	7	6	44	1.57
1685898--1685986	21	4.2	20	72	14	81	39	6	7	46	1.60
1686116--1686162	11	4.2	11	81	13	60	59	0	0	40	0.97
1686116--1686162	14	3.1	15	85	14	62	59	0	0	40	0.97
1686603--1686658	24	2.3	24	90	0	85	10	8	21	58	1.58
1688549--1688660	40	2.8	40	81	8	129	43	16	8	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692660--1693157	5	100.4	5	87	12	726	59	0	0	40	0.97
1699377--1699533	65	2.4	65	85	7	205	29	21	17	31	1.96
1702505--1703106	301	2.0	301	94	0	1042	33	11	16	38	1.85
1705108--1705210	44	2.3	44	88	3	145	31	22	18	28	1.97
1705673--1705717	13	3.4	13	78	3	54	37	11	6	44	1.66
1707128--1707179	27	1.9	27	88	0	77	21	1	30	46	1.62
1707434--1707468	13	2.6	14	86	13	56	45	8	5	40	1.58
1707671--1707720	18	2.8	18	90	3	75	44	4	4	48	1.40
1707819--1707975	65	2.4	65	85	3	201	30	22	15	30	1.95
1707833--1707994	65	2.5	64	81	8	168	30	24	16	29	1.96

Tables:   1   2   3   4   5   6   7   8   9   10