genome.fa.s7748.2.7.7.80.10.50.1000.9.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  9  of  24  ( 2778 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)
1677742--1677791	18	2.7	19	84	6	66	42	12	0	46	1.41
1679579--1679627	18	2.7	18	83	3	62	34	0	4	61	1.15
1686116--1686463	174	2.0	173	99	0	687	19	29	33	17	1.95
1686521--1686552	5	6.4	5	92	0	55	59	0	40	0	0.97
1687719--1687779	24	2.4	25	83	10	70	37	18	22	21	1.94
1687732--1687781	24	2.0	25	96	3	93	34	14	28	24	1.93
1688554--1688587	17	2.0	17	88	0	50	52	8	8	29	1.62
1688614--1688658	20	2.2	20	96	0	81	28	26	6	37	1.82
1688758--1688799	20	2.1	20	90	0	66	35	19	14	30	1.91
1691643--1691740	20	4.8	20	77	3	88	36	23	18	21	1.95
1691584--1691740	41	3.9	41	70	11	126	38	25	17	18	1.93
1691727--1691837	20	5.6	20	86	2	98	32	27	18	20	1.97
1691727--1691897	40	4.3	40	82	7	172	34	26	18	21	1.96
1691727--1691915	60	3.2	57	79	8	191	35	25	17	21	1.95
1691761--1691898	20	6.9	20	85	4	156	33	26	18	22	1.96
1691761--1691915	40	3.9	40	87	2	197	34	25	17	22	1.96
1692636--1692673	18	2.1	18	100	0	76	39	5	28	26	1.78
1692831--1692855	12	2.1	12	100	0	50	72	0	28	0	0.86
1694711--1694944	19	13.4	19	79	18	269	46	18	21	13	1.83
1694739--1694912	52	3.2	52	93	5	278	46	16	22	14	1.83
1694711--1694966	33	7.4	36	84	13	271	46	18	21	13	1.84
1694973--1695074	19	5.6	19	85	12	151	14	23	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695181--1695217	14	2.6	14	91	0	65	45	21	0	32	1.52
1697155--1697247	33	2.8	33	91	0	159	47	20	20	11	1.81
1697174--1697230	14	3.7	14	72	20	51	45	21	21	12	1.83
1697118--1697252	19	7.6	19	75	16	119	45	22	19	11	1.83
1697248--1697359	19	6.5	19	72	21	111	7	17	28	46	1.75
1697248--1697339	33	2.8	33	93	3	150	7	18	28	45	1.76
1697278--1697375	19	5.4	18	74	15	78	9	18	27	44	1.80
1697423--1697890	93	5.1	93	98	0	895	46	18	12	22	1.83
1697423--1697890	185	2.5	186	97	1	895	46	18	12	22	1.83
1699584--1699645	20	3.2	20	79	4	81	43	19	24	12	1.86
1699629--1699685	14	3.7	14	70	20	51	43	21	24	10	1.83
1699583--1699702	33	3.5	33	87	6	150	45	21	22	10	1.83
1699583--1699669	19	4.8	19	72	16	76	44	20	22	11	1.84
1699726--1699782	14	3.7	14	75	20	60	8	24	22	43	1.81
1699740--1699828	19	4.9	19	72	15	80	11	23	21	43	1.84
1699710--1699828	33	3.4	33	88	6	157	10	22	22	44	1.82
1699920--1699990	33	2.2	33	94	0	124	47	16	23	11	1.79
1700171--1700225	22	2.5	22	81	0	74	20	16	40	23	1.91
1700372--1700565	20	9.6	20	78	5	194	19	19	24	36	1.95
1700374--1700545	60	2.8	60	83	0	227	20	19	25	35	1.95
1700371--1700686	60	5.2	60	77	8	223	20	18	25	36	1.95
1700532--1700629	20	4.8	20	77	3	79	21	18	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1700532--1700688	61	2.6	60	80	7	176	19	17	25	38	1.93
1700532--1700688	41	3.9	41	70	14	110	19	17	25	38	1.93
1702181--1702233	21	2.5	21	81	0	61	20	24	18	35	1.95
1702850--1702910	14	4.0	14	73	19	50	44	22	22	9	1.82
1702829--1702921	33	2.8	33	90	1	132	43	24	21	10	1.84
1702917--1703081	19	9.1	19	75	15	170	12	21	20	46	1.83
1702917--1703081	52	3.0	52	88	6	222	12	21	20	46	1.83
1702917--1703073	33	4.4	36	77	16	132	12	21	21	45	1.84
1704768--1705331	94	6.1	93	93	2	902	21	12	18	47	1.80
1705424--1705485	20	3.2	20	83	4	90	51	17	20	9	1.73
1705422--1705545	33	3.5	33	85	7	140	49	22	20	8	1.75
1705448--1705545	33	2.9	33	89	1	151	47	25	19	7	1.74
1705514--1705551	20	1.9	20	100	0	76	50	28	15	5	1.66
1705557--1705649	20	4.8	19	78	7	98	10	19	21	48	1.79
1705560--1705649	39	2.3	40	84	3	112	11	18	21	48	1.78
1706105--1706168	21	3.0	22	69	15	62	21	34	20	23	1.97
1707520--1707555	14	2.6	14	95	0	63	33	0	22	44	1.53
1707663--1707740	33	2.4	33	91	0	129	15	23	19	42	1.89
1707684--1707760	19	4.3	19	71	17	65	14	22	20	42	1.88
1707713--1707806	20	4.7	20	72	13	68	21	20	23	35	1.96
1710277--1710330	24	2.2	24	93	0	90	40	20	18	20	1.91
1710277--1710344	24	2.8	24	84	0	64	38	20	17	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711204--1711259	21	2.7	21	80	0	67	39	17	23	19	1.92
1712005--1712089	35	2.4	33	72	12	80	44	15	3	36	1.63
1715505--1715529	4	6.2	4	100	0	50	24	0	0	76	0.80
1716942--1716977	2	18.5	2	94	5	65	50	0	0	50	1.00
1717718--1717742	2	12.5	2	100	0	50	52	0	0	48	1.00
1718806--1718835	8	3.8	8	95	0	51	33	0	16	50	1.46
1722923--1722957	17	2.2	16	90	10	54	54	2	20	22	1.58
1723262--1723309	21	2.3	22	85	7	64	50	8	14	27	1.71
1727163--1727190	2	14.0	2	100	0	56	50	0	0	50	1.00
1727482--1727522	20	2.0	20	95	0	73	41	2	9	46	1.50
1739049--1739085	17	2.3	17	86	9	51	24	16	0	59	1.37
1740871--1740908	19	2.0	19	89	0	58	47	10	0	42	1.38
1744068--1744139	33	2.2	33	100	0	144	22	22	8	47	1.77
1747334--1747368	18	1.9	18	88	0	52	28	34	17	20	1.95
1748350--1748402	20	2.6	20	84	3	70	37	26	22	13	1.91
1757704--1758095	197	2.0	194	98	1	757	31	15	18	33	1.93
1763240--1763278	18	2.2	18	90	9	62	64	0	25	10	1.25
1765302--1765329	2	14.0	2	100	0	56	50	0	0	50	1.00
1769028--1769056	2	14.5	2	100	0	58	48	0	0	51	1.00
1770632--1770667	3	12.0	3	100	0	72	66	0	0	33	0.92
1770824--1770911	43	2.0	43	95	4	160	34	20	9	36	1.84
1773482--1773548	24	2.7	25	88	2	100	23	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786991--1787024	17	2.1	16	88	5	50	14	8	0	76	1.01
1797191--1797224	17	2.1	16	88	5	50	14	8	0	76	1.01
1800078--1800145	24	2.9	23	76	12	66	58	7	4	29	1.45
1800076--1800146	23	3.0	23	71	17	65	56	8	4	30	1.48
1823454--1823516	21	3.0	21	88	2	92	44	28	11	15	1.81
1823842--1824228	195	2.0	195	97	2	735	36	20	7	35	1.81
1836763--1836822	23	2.7	23	84	5	79	53	16	15	15	1.74
1839307--1839367	2	31.0	2	74	9	54	42	1	8	47	1.43
1839307--1839341	10	3.5	10	100	0	70	40	0	8	51	1.33
1841231--1841572	124	2.8	123	85	3	451	26	15	23	34	1.95
1852650--1852711	31	2.0	31	83	3	79	74	4	3	17	1.13
1852964--1853004	19	2.1	20	86	4	57	73	2	0	24	0.96
1854080--1854130	2	27.5	2	78	21	58	47	1	0	50	1.12
1854543--1854654	39	2.8	39	80	9	120	43	0	16	38	1.55
1868756--1868798	21	2.0	21	86	0	59	30	27	25	16	1.97
1877220--1877275	29	2.0	28	96	3	103	30	10	30	28	1.91
1882790--1882822	10	3.4	10	95	4	59	39	0	60	0	0.97
1892969--1893082	57	2.0	59	82	3	142	38	10	13	37	1.79
1893901--1893958	3	20.0	3	87	7	84	37	0	0	62	0.96
1895152--1895195	19	2.3	19	84	0	61	25	0	2	72	0.96
1895878--1895928	17	3.0	18	83	11	63	27	1	0	70	0.98
1897400--1897434	15	2.4	15	90	4	54	14	14	8	62	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1897981--1898023	18	2.5	17	82	10	52	39	9	13	37	1.78
1900586--1900911	164	2.0	164	96	3	606	30	16	17	35	1.92
1904066--1904116	22	2.4	22	93	3	86	37	9	15	37	1.81
1904820--1905309	37	13.6	37	70	9	210	30	20	12	36	1.90
1904962--1905348	144	2.7	143	88	9	558	29	19	12	37	1.89
1904962--1905327	71	5.1	72	88	6	530	30	19	12	37	1.88
1905558--1905704	45	3.3	45	90	5	226	22	21	19	36	1.95
1905639--1905840	99	2.0	101	94	5	358	29	23	15	31	1.95
1905928--1905995	3	22.0	3	88	5	100	36	0	0	63	0.95
1907184--1907249	27	2.4	28	85	5	82	25	1	3	69	1.11

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