genome.fa.s6607.2.7.7.80.10.50.1000.7.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: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1995858

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 925 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)
1470494--1470626	40	3.3	40	82	8	162	21	16	21	41	1.90
1470455--1470626	80	2.2	80	91	0	272	19	15	21	43	1.88
1471368--1471435	27	2.5	27	90	0	109	10	13	22	54	1.68
1488289--1488360	22	3.2	21	78	9	72	25	22	29	23	1.99
1490233--1490690	234	1.9	239	97	2	881	36	23	15	25	1.94
1497804--1498417	108	5.5	109	72	11	409	39	14	16	29	1.88
1497727--1498414	226	3.0	226	89	0	1009	39	14	15	30	1.88
1498602--1499049	199	2.3	199	88	2	650	33	13	14	38	1.86
1501676--1501745	20	3.5	20	82	1	79	35	21	7	35	1.81
1504443--1504493	21	2.4	21	86	0	75	29	17	11	41	1.85
1504485--1504552	20	3.5	20	77	2	75	36	20	5	36	1.77
1507187--1507241	21	2.6	21	94	0	101	25	16	16	41	1.88
1507187--1507262	21	3.7	18	87	10	71	27	17	15	39	1.90
1507311--1507380	20	3.5	20	78	1	79	38	20	4	37	1.72
1510032--1510113	21	3.9	21	82	9	96	25	18	17	39	1.92
1510156--1510225	20	3.5	20	86	1	97	40	20	2	37	1.67
1512353--1512523	46	3.7	46	91	0	270	22	23	10	43	1.84
1512394--1512641	118	2.1	118	86	0	334	22	22	10	44	1.83
1512353--1512670	164	1.9	164	88	0	474	22	22	9	44	1.82
1512512--1512858	46	7.5	46	83	0	451	22	22	9	45	1.80
1512466--1512858	138	2.8	136	76	11	329	22	22	9	45	1.81
1512726--1512845	20	5.4	20	67	21	69	23	25	8	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513150--1513176	13	2.1	13	100	0	54	48	7	7	37	1.59
1513295--1513387	42	2.2	41	86	1	123	26	19	11	41	1.86
1515290--1515352	2	31.5	2	100	0	126	49	0	0	50	1.00
1517329--1517464	46	3.0	44	80	9	148	27	16	10	46	1.79
1517969--1518395	46	9.3	46	88	1	622	21	24	10	43	1.83
1518817--1518894	22	3.6	22	73	13	81	26	21	14	37	1.92
1518820--1518912	42	2.2	41	88	1	132	25	22	12	38	1.90
1519772--1519859	20	4.4	20	80	5	97	25	13	12	48	1.77
1519772--1519882	40	2.8	40	82	5	118	24	15	11	48	1.78
1519811--1519879	20	3.5	19	78	7	75	23	15	13	47	1.80
1519942--1520416	199	2.4	198	83	3	578	34	15	12	37	1.85
1519960--1520506	200	2.7	199	81	7	547	34	14	14	37	1.86
1522000--1522036	6	6.2	6	87	0	56	48	10	5	35	1.61
1522000--1522036	12	3.1	12	96	0	65	48	10	5	35	1.61
1522349--1522378	15	2.0	15	93	0	51	50	13	6	30	1.67
1524551--1524614	18	3.6	18	84	0	83	34	3	32	29	1.73
1525044--1525143	45	2.2	45	91	5	166	39	11	18	32	1.85
1525113--1525655	200	2.7	200	87	4	749	32	13	14	39	1.85
1530073--1530125	20	2.6	21	88	8	83	28	13	9	49	1.73
1533005--1533051	23	2.0	23	87	0	67	55	12	19	12	1.69
1539331--1539412	40	2.0	40	100	0	164	18	17	26	37	1.92
1542483--1542737	49	5.2	49	80	2	289	40	14	17	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542483--1542737	98	2.6	98	85	3	336	40	14	17	28	1.89
1544090--1544593	49	10.3	49	89	0	704	38	15	19	26	1.92
1545947--1546256	49	6.4	49	82	5	360	39	16	19	24	1.92
1545947--1546259	98	3.2	98	83	2	398	38	16	19	24	1.92
1551855--1551896	3	13.7	3	95	5	75	2	30	0	66	1.04
1552996--1553380	49	7.9	49	83	1	459	39	13	19	27	1.90
1557156--1557196	18	2.3	18	86	0	55	43	12	9	34	1.75
1559292--1559343	15	3.5	14	75	12	50	3	9	3	82	0.91
1560897--1560942	18	2.6	18	92	0	74	47	13	6	32	1.68
1560998--1561039	17	2.5	17	77	14	50	45	11	9	33	1.73
1562906--1562950	22	2.0	22	95	0	81	31	0	15	53	1.43
1563125--1563252	61	2.1	61	83	2	168	26	15	25	32	1.96
1573169--1573201	12	2.8	12	82	17	50	39	3	9	48	1.50
1573169--1573215	24	2.0	24	83	8	60	36	4	10	48	1.57
1576197--1576342	47	3.2	47	87	2	199	33	20	8	37	1.82
1576443--1576579	59	2.3	58	79	2	157	28	24	18	29	1.98
1583467--1583637	47	3.7	46	92	3	258	33	23	7	35	1.83
1583748--1583876	59	2.2	59	87	2	179	28	25	17	28	1.97
1591954--1592056	33	3.1	33	87	0	152	43	13	9	33	1.77
1592641--1592705	25	2.6	25	80	7	78	46	23	4	26	1.71
1592739--1592811	26	2.8	26	95	0	128	39	12	12	35	1.80
1592755--1592801	15	3.4	15	72	22	57	44	12	10	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1592837--1592890	24	2.2	24	80	3	63	42	27	1	27	1.66
1592761--1593041	126	2.2	126	86	5	381	42	18	7	31	1.78
1595480--1595509	2	15.0	2	100	0	60	50	0	0	50	1.00
1595509--1595538	2	15.0	2	92	0	51	53	0	46	0	1.00
1598431--1598517	15	5.4	15	67	17	50	40	18	9	32	1.82
1598419--1598521	33	3.1	33	88	2	154	40	17	8	33	1.80
1600562--1600757	78	2.5	78	83	1	214	17	26	23	32	1.97
1600563--1600756	39	5.0	39	82	4	194	18	26	22	32	1.97
1605249--1605282	15	2.1	17	89	10	54	20	17	0	61	1.34
1606418--1606601	39	4.7	39	72	4	138	19	23	22	33	1.97
1606915--1606986	37	1.9	38	85	2	101	20	6	15	56	1.62
1607236--1607273	20	1.9	20	88	0	58	57	7	0	34	1.28
1625107--1625449	123	2.7	122	81	6	341	43	18	8	29	1.79
1625488--1625555	3	22.7	3	96	0	127	33	1	0	64	1.02
1625551--1625582	11	2.8	11	95	4	55	56	0	0	43	0.99
1638399--1638472	9	7.9	9	75	14	69	78	0	17	4	0.90
1638387--1638480	27	3.6	27	87	8	131	79	0	17	3	0.85
1638797--1638836	16	2.5	16	88	8	55	32	7	7	52	1.58
1639634--1639925	84	3.5	82	97	1	539	27	13	22	36	1.91
1640660--1641219	113	5.0	112	92	1	827	37	13	20	28	1.90
1641531--1641599	3	23.0	3	100	0	138	33	0	0	66	0.92
1643858--1643909	26	2.0	26	92	0	86	9	28	21	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656992--1657026	6	5.7	6	96	3	61	68	0	0	31	0.90
1657124--1657251	4	32.2	4	69	22	60	71	0	6	21	1.13
1657190--1657239	13	3.3	15	81	13	50	78	0	8	14	0.97
1657192--1657252	19	3.2	19	86	6	79	77	0	6	16	0.98
1657222--1657252	14	2.1	14	94	5	53	80	0	0	19	0.71
1659608--1659637	15	2.1	15	93	6	53	70	0	0	30	0.88
1666109--1666283	55	3.1	55	78	3	197	23	17	26	33	1.96
1666195--1666383	100	1.9	100	83	2	245	22	17	26	32	1.96
1666296--1666485	57	3.4	56	83	3	224	22	18	27	31	1.98
1666572--1666691	62	1.9	62	84	0	159	28	17	27	26	1.98
1672660--1672724	28	2.3	28	74	10	69	18	24	35	21	1.96
1687388--1687448	29	2.1	29	90	0	95	52	6	14	26	1.66
1687419--1687508	27	3.3	27	73	14	69	48	6	15	28	1.70
1700431--1700479	24	2.0	24	100	0	98	26	24	24	24	2.00
1705265--1705545	54	5.2	53	82	2	337	28	17	21	32	1.96
1705265--1705545	108	2.6	108	87	1	393	28	17	21	32	1.96
1707450--1707487	16	2.4	16	100	0	76	39	23	13	23	1.90
1712678--1713049	55	6.8	55	85	2	453	34	18	18	28	1.94
1713310--1713954	321	2.0	320	90	1	1024	34	10	17	37	1.84
1719938--1720447	55	9.3	55	82	6	532	35	17	18	28	1.94
1719938--1720447	109	4.6	110	84	3	591	35	17	18	28	1.94
1721578--1721920	54	6.4	54	83	4	404	29	18	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721592--1721893	162	1.9	162	87	2	446	28	18	18	34	1.95
1726929--1727088	77	2.1	76	80	8	173	45	5	11	37	1.63
1726942--1727088	78	1.9	78	81	5	181	44	5	11	38	1.64
1735211--1735268	30	1.9	30	86	6	82	39	8	18	32	1.82
1736408--1736455	24	2.0	24	100	0	96	33	12	12	41	1.80
1737157--1737185	2	14.5	2	100	0	58	48	0	0	51	1.00
1737216--1737281	7	9.4	7	79	0	78	18	27	16	37	1.92
1737226--1737286	21	2.9	21	100	0	122	18	24	19	37	1.94
1748805--1748881	21	3.7	20	83	14	93	23	24	32	19	1.97
1748805--1748881	23	3.6	22	86	11	99	23	24	32	19	1.97

Tables:   1   2   3   4   5   6   7   8