genome.fa.s7853.2.7.7.80.10.50.1000.6.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: VEPZ01007853.1 Hibiscus syriacus cultivar Beakdansim tig00110213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2309479

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 900 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)
1390194--1390242	18	2.7	18	75	12	55	53	4	0	42	1.20
1394427--1394487	29	2.1	29	96	0	113	39	22	18	19	1.92
1411155--1411183	10	3.0	10	95	5	51	89	0	0	10	0.48
1412345--1412409	30	2.2	30	83	5	78	53	16	6	23	1.65
1416008--1416037	15	2.0	15	93	0	51	33	16	10	40	1.82
1437105--1437457	84	4.2	84	92	0	546	36	22	25	14	1.93
1437778--1437817	20	2.0	21	85	5	55	55	10	22	12	1.67
1442436--1442462	14	1.9	14	100	0	54	59	11	0	29	1.32
1442699--1442749	23	2.2	23	89	0	75	19	23	5	50	1.69
1442699--1442767	23	3.0	23	85	2	68	17	23	7	52	1.69
1452043--1452105	19	3.1	19	70	16	54	39	0	1	58	1.07
1455843--1455905	2	31.5	2	100	0	126	49	0	50	0	1.00
1461378--1461408	2	15.5	2	100	0	62	48	0	0	51	1.00
1463062--1463114	19	2.7	20	77	8	56	41	1	7	49	1.42
1471920--1471977	16	3.7	15	78	19	57	48	0	12	39	1.40
1474524--1474675	78	1.9	78	86	2	216	19	12	19	48	1.80
1478037--1478090	20	2.7	20	77	16	58	18	12	0	68	1.21
1478736--1478866	33	4.2	33	70	16	127	16	16	42	23	1.88
1479016--1479104	27	3.2	27	62	20	65	16	19	40	23	1.91
1478997--1479087	30	3.1	30	61	20	75	14	23	42	19	1.88
1479026--1479114	27	3.2	27	62	20	65	15	20	40	23	1.91
1478768--1479307	57	9.5	57	90	1	796	17	18	39	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478768--1479382	171	3.6	167	84	6	711	17	18	38	24	1.93
1489587--1489619	8	4.2	8	88	3	50	45	18	0	36	1.49
1489955--1490023	30	2.4	28	78	9	77	39	0	8	52	1.33
1495486--1495514	6	4.8	6	100	0	58	0	13	17	68	1.20
1496121--1496195	38	2.0	37	84	5	98	48	4	1	46	1.29
1503314--1503401	23	3.8	23	78	14	108	18	26	26	29	1.98
1505421--1505463	19	2.3	19	84	11	54	58	9	0	32	1.30
1516000--1516072	2	36.5	2	100	0	146	50	0	0	49	1.00
1517353--1517508	60	2.6	60	81	2	170	44	3	16	34	1.66
1529746--1529850	36	2.9	36	75	13	101	31	5	12	50	1.63
1544394--1544421	2	14.0	2	100	0	56	50	0	0	50	1.00
1550329--1550470	72	2.0	72	90	2	223	61	4	3	30	1.31
1551073--1551106	16	2.1	17	88	5	52	44	5	2	47	1.42
1554153--1554182	2	15.0	2	100	0	60	50	0	0	50	1.00
1555099--1555176	39	2.0	40	92	2	131	53	1	8	35	1.40
1571813--1571846	18	1.9	18	88	5	52	55	2	8	32	1.45
1576195--1576602	207	2.0	207	99	0	807	30	31	8	28	1.87
1577559--1577620	2	31.0	2	100	0	124	50	0	0	50	1.00
1588604--1588665	30	2.1	30	87	6	90	22	22	29	25	1.99
1591442--1591471	15	2.0	15	93	0	51	63	0	16	20	1.31
1597805--1597844	19	2.1	19	100	0	80	12	15	20	52	1.74
1603369--1603418	25	2.1	23	85	7	64	32	18	2	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603369--1603414	23	2.0	23	83	8	58	30	19	2	47	1.61
1604834--1604858	9	2.8	9	100	0	50	0	0	60	40	0.97
1612595--1612779	94	2.0	94	100	0	370	31	11	17	38	1.86
1613629--1613668	21	1.9	21	84	0	53	17	12	45	25	1.83
1618284--1618429	61	2.4	59	76	10	145	31	19	7	41	1.79
1618703--1618784	3	27.7	3	97	2	157	67	0	0	32	0.91
1624872--1625017	64	2.2	66	89	4	217	30	28	25	15	1.95
1625613--1625657	23	2.0	23	86	0	63	20	24	31	24	1.98
1631468--1631510	21	2.0	21	81	0	50	30	30	25	13	1.94
1631490--1631641	67	2.2	68	92	1	252	30	28	26	14	1.95
1632252--1632296	23	2.0	23	86	0	63	20	24	31	24	1.98
1632872--1633405	229	2.3	230	84	4	745	35	11	16	35	1.85
1634409--1634441	2	16.5	2	100	0	66	48	0	0	51	1.00
1639238--1639277	21	1.9	21	84	0	53	32	0	22	45	1.53
1647463--1647664	105	1.9	105	85	0	278	39	22	15	23	1.92
1650466--1650499	2	17.0	2	100	0	68	50	0	0	50	1.00
1651714--1651757	22	2.0	22	91	8	72	31	40	0	27	1.56
1657563--1657609	24	2.0	24	95	0	85	63	19	0	17	1.30
1659235--1659316	11	7.4	11	78	11	87	62	18	2	17	1.44
1659228--1659271	14	3.1	14	90	0	61	65	18	0	15	1.27
1659235--1659316	21	3.7	22	79	9	87	62	18	2	17	1.44
1660669--1660695	6	4.5	6	100	0	54	29	14	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662878--1662933	14	4.3	14	76	17	66	10	12	23	53	1.69
1662885--1662954	24	2.9	24	87	4	97	12	10	18	58	1.62
1663678--1663752	10	7.7	10	69	21	61	9	12	21	57	1.62
1663684--1663748	16	4.1	16	95	0	121	7	12	23	56	1.61
1680638--1680677	21	1.9	21	89	0	62	10	25	40	25	1.86
1702760--1702787	2	14.0	2	100	0	56	50	0	0	50	1.00
1704026--1704095	36	1.9	36	85	0	95	21	15	14	48	1.80
1709240--1709308	29	2.3	31	82	10	97	37	15	15	30	1.90
1709255--1709317	29	2.2	29	85	0	81	36	17	12	33	1.88
1735858--1735918	31	1.9	32	86	3	88	27	4	18	49	1.68
1736400--1736442	9	4.8	9	80	11	52	67	2	0	30	1.03
1736400--1736442	17	2.4	18	84	7	61	67	2	0	30	1.03
1738564--1738613	24	2.1	24	96	0	91	44	8	8	40	1.63
1741943--1742422	235	2.0	237	97	2	910	26	21	24	27	1.99
1747453--1747504	13	3.6	13	72	22	50	32	1	0	65	1.04
1747415--1747507	31	2.8	35	87	10	126	29	2	1	67	1.09
1747683--1747874	44	4.5	43	76	17	166	48	5	20	25	1.70
1747796--1747959	84	2.0	84	81	4	197	56	6	12	25	1.59
1747826--1747998	42	4.1	42	73	8	136	59	5	12	22	1.54
1748144--1748182	2	19.5	2	100	0	78	48	0	0	51	1.00
1762206--1762301	44	2.1	47	88	5	144	29	10	19	40	1.85
1771955--1771992	10	3.8	10	86	10	51	73	0	18	7	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771969--1772001	9	3.9	9	84	15	52	72	0	18	9	1.10
1771976--1772090	16	7.3	16	70	23	68	73	0	20	5	1.07
1772005--1772060	27	2.2	26	83	6	69	78	1	17	1	0.92
1771954--1772084	61	2.2	60	82	8	149	74	0	19	6	1.08
1771969--1772084	25	4.5	25	71	16	85	74	0	18	6	1.08
1773401--1773946	51	10.3	51	89	6	561	26	17	27	28	1.98
1773416--1773946	55	9.9	55	90	5	599	26	17	27	28	1.98
1773416--1773946	166	3.3	162	85	8	671	26	17	27	28	1.98
1779037--1779098	14	4.4	14	76	11	63	19	1	30	48	1.58
1779037--1779099	21	3.0	21	86	9	83	19	1	31	47	1.59
1789203--1789236	16	2.2	16	94	5	61	50	2	5	41	1.42
1789202--1789237	15	2.4	14	86	13	54	47	2	5	44	1.41
1791934--1792486	278	2.0	277	98	0	1079	30	14	16	38	1.89
1793057--1793096	21	1.9	21	84	0	53	20	42	25	12	1.86
1799017--1799063	19	2.5	19	96	0	85	12	36	23	27	1.91
1800710--1800742	3	11.0	3	100	0	66	0	33	0	66	0.92
1802462--1802538	40	2.0	38	80	14	88	44	1	2	51	1.23
1805547--1805596	15	3.3	15	86	5	66	52	0	2	46	1.12
1810327--1810368	21	2.0	21	86	9	59	54	0	2	42	1.13
1811775--1811818	18	2.5	17	81	3	52	34	25	2	38	1.68
1811788--1811836	18	2.7	18	84	6	55	36	20	2	40	1.64
1813707--1814764	525	2.0	529	98	1	2072	23	20	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817245--1817283	20	2.0	20	100	0	78	30	2	30	35	1.71
1826951--1827118	90	1.9	90	86	2	239	33	11	17	37	1.85
1830212--1830282	35	2.0	35	94	0	124	39	8	12	39	1.74
1834019--1834156	52	2.6	54	82	9	174	25	28	8	37	1.85
1836691--1836730	17	2.3	17	87	12	55	65	0	0	35	0.93
1845554--1845628	38	2.0	37	94	2	132	40	6	28	25	1.81
1849367--1849413	23	2.0	24	87	4	69	53	0	0	46	1.00
1850262--1850295	3	10.7	3	87	12	50	64	2	0	32	1.08
1850524--1850583	30	2.0	31	83	3	77	55	11	13	20	1.69
1853343--1853399	14	4.0	14	77	4	60	43	1	19	35	1.61

Tables:   1   2   3   4   5   6   7   8