genome.fa.s8027.2.7.7.80.10.50.1000.9.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  9  of  38  ( 4505 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)
1738043--1738356	28	10.9	29	74	17	235	44	9	3	42	1.52
1745716--1745822	39	2.9	38	79	6	112	42	14	12	30	1.81
1749184--1749232	2	24.0	2	95	4	89	48	2	0	48	1.12
1750484--1750552	24	2.9	24	88	0	102	39	14	20	26	1.91
1754353--1754416	24	2.7	24	87	0	83	35	14	18	31	1.91
1756771--1756814	22	2.0	22	81	0	52	40	13	15	29	1.86
1758246--1758295	24	2.1	24	84	0	64	38	16	16	30	1.90
1762053--1762161	24	4.5	24	84	0	110	41	16	16	25	1.89
1762058--1762150	48	1.9	48	84	0	123	38	16	18	26	1.91
1763882--1763916	14	2.5	14	90	9	54	42	22	11	22	1.85
1764245--1764298	7	7.4	7	87	8	81	29	27	29	12	1.94
1765533--1765627	47	2.0	47	95	0	172	43	13	13	29	1.83
1766962--1766994	17	1.9	17	88	11	50	66	0	3	30	1.06
1769689--1769751	28	2.2	30	94	5	112	30	0	12	57	1.36
1770207--1770251	24	1.9	24	81	4	56	42	0	8	48	1.34
1777647--1777703	20	2.7	21	81	13	55	26	24	28	21	1.99
1783091--1783376	49	5.8	49	96	0	527	43	0	10	45	1.39
1783319--1783408	17	4.8	18	73	18	67	48	0	8	42	1.34
1783098--1783409	147	2.1	146	91	2	403	45	0	10	44	1.38
1783587--1783641	12	4.7	12	86	6	69	52	0	3	43	1.18
1783579--1783942	26	14.7	24	73	14	96	46	1	8	43	1.44
1783663--1783958	26	11.6	26	78	11	256	45	2	8	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783590--1783881	127	2.4	123	87	7	423	46	2	8	42	1.46
1783800--1783894	3	32.7	3	72	6	52	51	2	6	40	1.39
1783703--1783971	49	5.4	49	77	10	242	46	1	7	44	1.42
1783852--1783897	9	5.2	9	84	5	67	54	0	8	36	1.32
1783652--1783958	127	2.4	123	83	6	348	45	1	9	43	1.47
1783856--1783888	17	1.9	17	93	0	57	51	0	9	39	1.34
1783702--1783963	98	2.6	96	83	8	287	46	1	7	44	1.41
1783787--1783962	39	4.6	39	74	10	137	46	1	7	44	1.38
1783827--1783882	12	4.9	11	80	6	58	51	1	5	41	1.35
1784075--1784119	24	1.9	24	86	4	65	40	2	4	53	1.33
1784086--1784127	17	2.5	17	80	0	57	40	0	2	57	1.12
1786275--1786322	22	2.2	22	92	3	80	39	14	2	43	1.57
1786304--1786373	30	2.3	29	88	9	97	44	7	4	44	1.51
1786449--1786561	40	2.9	36	73	22	95	46	12	0	39	1.47
1786638--1786691	18	3.4	18	65	32	50	51	9	0	38	1.34
1787230--1787288	11	5.2	11	76	8	64	40	18	22	18	1.91
1787223--1787288	23	2.9	23	93	0	114	40	18	22	18	1.91
1787228--1787282	12	4.8	12	77	6	60	41	18	20	20	1.90
1787445--1787523	29	2.7	29	88	0	122	21	25	34	18	1.96
1787792--1787878	23	3.8	23	92	0	138	43	17	20	18	1.88
1788037--1788115	29	2.7	29	94	0	140	20	27	35	16	1.94
1787223--1788365	592	1.9	592	96	0	2124	28	22	24	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1789412--1789475	31	2.1	31	88	5	94	29	6	1	62	1.29
1789603--1789675	31	2.4	31	90	0	110	38	10	12	38	1.78
1789745--1789861	61	1.9	61	91	1	191	57	7	7	27	1.54
1791263--1791312	22	2.3	24	74	22	56	34	6	2	58	1.34
1792524--1792571	24	2.0	24	92	4	80	45	0	10	43	1.38
1792527--1792577	23	2.2	24	85	3	68	50	1	9	37	1.47
1793213--1793255	20	2.2	20	95	0	77	46	34	2	16	1.60
1797658--1797736	33	2.4	33	95	0	140	40	26	22	10	1.86
1797783--1798195	43	9.3	43	77	9	284	33	19	22	24	1.97
1797836--1798021	97	1.9	98	83	5	243	34	18	22	23	1.96
1797934--1798195	129	2.0	128	84	0	335	34	18	21	25	1.96
1799777--1799836	22	2.7	22	97	0	111	28	25	25	21	1.99
1805494--1805594	44	2.3	44	85	0	130	30	20	19	28	1.97
1807597--1807635	9	4.3	9	96	0	69	10	0	17	71	1.12
1824533--1824562	11	2.6	12	94	5	53	80	3	0	16	0.85
1825483--1825536	20	2.7	20	94	0	90	57	7	14	20	1.61
1827882--1828196	55	5.8	55	87	3	350	32	16	15	35	1.90
1832293--1832346	26	2.1	26	86	3	74	37	3	0	59	1.15
1832306--1832338	16	2.1	16	94	0	57	36	3	0	60	1.12
1832294--1832351	25	2.3	25	85	5	73	36	3	0	60	1.14
1834869--1835007	18	7.8	18	85	2	183	43	15	10	30	1.81
1842190--1842235	19	2.5	17	83	13	56	73	0	8	17	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842324--1842375	19	2.5	21	84	12	63	76	0	1	21	0.87
1842346--1842383	7	5.4	7	84	9	51	81	0	0	18	0.69
1842346--1842383	13	2.7	14	80	12	51	81	0	0	18	0.69
1842324--1842383	29	2.1	29	84	9	79	76	0	1	21	0.87
1842342--1842383	19	2.1	21	91	8	70	80	0	0	19	0.70
1842324--1842384	18	3.3	18	80	11	61	75	0	1	22	0.89
1842566--1842590	2	12.5	2	100	0	50	52	0	0	48	1.00
1842630--1842677	19	2.6	18	87	12	62	68	0	2	29	1.01
1843092--1843193	37	2.8	37	87	0	132	32	12	14	40	1.84
1847775--1847799	13	1.9	13	100	0	50	16	4	0	80	0.87
1872857--1872897	17	2.4	17	95	0	73	12	7	0	80	0.90
1881716--1881774	21	2.8	21	84	0	73	33	32	13	20	1.91
1881770--1881820	23	2.2	23	82	6	59	41	19	9	29	1.84
1893452--1893510	28	2.1	28	100	0	118	35	15	15	33	1.89
1895629--1895653	13	1.9	13	100	0	50	80	0	0	20	0.72
1897221--1897274	19	2.9	18	81	10	65	66	0	3	29	1.09
1898422--1898518	48	2.0	48	100	0	194	28	42	6	22	1.78
1901144--1901168	2	12.5	2	100	0	50	52	0	0	48	1.00
1903655--1903728	12	6.1	12	73	17	55	4	18	2	74	1.10
1906847--1906883	16	2.3	17	81	13	51	75	0	2	21	0.92
1909547--1909625	36	2.2	35	88	2	113	39	12	15	32	1.85
1910232--1910269	15	2.5	15	95	0	67	47	10	15	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917422--1917482	27	2.3	27	94	0	104	26	29	21	22	1.99
1934658--1934734	21	3.7	21	100	0	154	33	28	19	18	1.95
1954108--1954153	20	2.3	19	85	14	58	26	15	8	50	1.73
1962982--1963059	41	1.9	41	86	0	111	32	5	20	42	1.74
1971716--1971759	3	14.3	3	90	4	70	61	0	0	38	0.96
1971949--1972082	45	3.0	45	83	1	171	32	16	24	26	1.96
1972090--1972450	45	8.0	45	93	0	587	33	18	23	24	1.97
1973501--1973865	122	3.0	122	92	0	606	33	20	14	32	1.92
1980147--1980222	32	2.4	32	80	8	91	38	34	11	15	1.84
1980448--1980473	5	5.2	5	100	0	52	23	57	19	0	1.40
1980735--1980786	24	2.2	24	92	0	86	34	30	11	23	1.90
1981052--1981102	20	2.5	20	96	0	93	27	23	23	25	2.00
1981347--1981421	3	24.3	3	86	5	105	60	0	1	38	1.06
1981347--1981421	25	3.0	25	88	1	116	60	0	1	38	1.06
1981456--1982252	392	2.0	392	88	2	1172	37	19	13	28	1.90
1990725--1990842	59	2.0	58	80	11	134	37	12	16	33	1.87
1993842--1994084	7	32.7	7	72	19	149	41	2	2	53	1.31
1993851--1994093	5	49.6	5	69	25	105	41	2	2	53	1.31
1993962--1994094	3	43.3	3	70	23	82	37	3	0	58	1.19
1993921--1994093	38	4.6	37	77	14	122	39	2	1	56	1.25
1993990--1994085	48	2.0	49	86	10	135	36	3	1	59	1.20
2002079--2002217	21	6.5	21	82	3	152	18	17	27	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2006386--2006423	20	1.9	20	88	0	58	13	26	34	26	1.93
2020032--2020248	5	43.0	5	67	21	98	42	2	4	50	1.35
2020026--2020183	2	85.0	2	67	27	75	45	2	3	48	1.31
2020026--2020183	7	21.2	8	67	26	75	45	2	3	48	1.31
2020051--2020177	24	5.7	23	72	15	83	47	3	1	48	1.27
2020051--2020177	44	2.9	44	85	10	145	47	3	1	48	1.27
2020030--2020221	29	6.5	29	76	17	134	43	2	4	50	1.33
2020198--2020270	20	3.3	20	80	16	58	35	5	4	54	1.42
2023197--2023351	77	2.0	79	83	9	203	38	9	6	45	1.63
2031026--2031065	21	1.9	21	89	0	62	17	17	30	35	1.93

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