genome.fa.s8316.2.7.7.80.10.50.1000.9.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: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2380696

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1404 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)
1652049--1652091	17	2.5	17	81	7	52	58	4	0	37	1.19
1655317--1655390	23	3.2	23	64	21	64	43	9	20	27	1.82
1655313--1655406	46	2.0	46	100	0	188	40	8	22	28	1.83
1658661--1658723	30	2.1	30	88	5	92	26	7	17	47	1.75
1672357--1672409	21	2.6	21	82	11	65	50	5	0	43	1.25
1673028--1673069	22	2.0	22	90	4	68	52	4	2	40	1.35
1673838--1673897	31	1.9	31	86	3	84	46	8	6	38	1.60
1675171--1675203	2	16.5	2	100	0	66	48	0	0	51	1.00
1680083--1680117	15	2.3	15	100	0	70	28	34	22	14	1.93
1686907--1686941	15	2.3	15	100	0	70	28	34	22	14	1.93
1691796--1692727	6	156.0	6	98	1	1804	33	0	16	50	1.46
1696067--1696189	24	5.1	24	83	5	142	24	34	17	24	1.96
1702498--1702526	6	4.8	6	100	0	58	0	48	0	51	1.00
1702763--1702797	15	2.2	16	90	5	54	57	2	0	40	1.14
1702854--1702894	16	2.4	18	80	8	50	36	0	0	63	0.95
1702853--1702889	17	2.1	18	85	14	51	32	0	0	67	0.91
1707188--1707268	40	2.0	40	95	0	144	38	12	16	33	1.85
1713614--1713659	23	2.0	23	95	0	83	63	8	17	10	1.51
1715552--1715603	15	3.3	15	75	19	52	38	3	13	44	1.62
1729479--1729607	59	2.2	60	85	1	179	41	4	19	34	1.72
1743893--1743927	17	2.1	17	88	0	52	48	0	2	48	1.16
1744706--1744748	19	2.3	18	88	4	59	62	0	2	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746246--1746275	2	15.0	2	100	0	60	50	0	0	50	1.00
1747157--1747194	20	1.9	20	94	0	67	34	10	2	52	1.50
1747708--1747749	22	2.0	22	95	4	77	9	11	7	71	1.31
1748485--1749434	6	160.2	6	97	2	1823	33	0	16	49	1.46
1751734--1751780	14	3.3	14	85	5	67	61	6	2	29	1.32
1752300--1752335	18	2.1	17	89	5	54	69	0	0	30	0.89
1753018--1753113	31	3.2	30	73	16	90	41	5	18	34	1.73
1756016--1756106	41	2.2	41	88	5	130	42	21	17	17	1.89
1755998--1756086	22	4.2	22	71	8	85	41	23	15	19	1.89
1756079--1756134	20	2.8	20	100	0	112	42	21	25	10	1.85
1762557--1762601	23	2.0	22	83	12	56	31	0	4	64	1.13
1762571--1762609	18	2.2	18	95	4	71	33	0	2	64	1.08
1768641--1769062	103	4.1	103	97	1	803	26	13	24	36	1.92
1774986--1775049	23	2.8	23	78	0	65	32	26	25	15	1.95
1776046--1776086	20	2.0	20	85	0	55	14	41	31	12	1.83
1777361--1777408	19	2.5	20	82	3	62	52	6	12	29	1.63
1778863--1778979	19	5.9	19	82	6	144	20	35	25	17	1.95
1788144--1788196	22	2.4	22	96	0	97	45	28	3	22	1.70
1788662--1788735	25	3.2	25	61	21	61	54	25	1	18	1.52
1788620--1788737	44	2.7	44	90	1	184	51	26	0	21	1.53
1798432--1798540	32	3.5	31	80	6	130	40	7	9	43	1.64
1804697--1804860	39	4.1	39	86	2	211	19	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815935--1815975	18	2.3	18	87	4	57	60	2	7	29	1.36
1816017--1816041	10	2.5	10	100	0	50	32	0	36	32	1.58
1816126--1816240	51	2.2	52	81	10	137	21	26	32	19	1.97
1826629--1826663	16	2.2	16	100	0	70	42	5	0	51	1.25
1831139--1831207	23	3.0	23	84	0	66	30	24	23	21	1.99
1831223--1831543	103	3.1	103	95	0	563	37	22	13	26	1.91
1832724--1832767	21	2.1	21	86	0	61	15	27	27	29	1.96
1834595--1834663	23	3.0	23	89	0	111	31	26	26	15	1.96
1836312--1836472	63	2.5	63	78	6	173	26	22	18	32	1.97
1836779--1836803	12	2.1	12	100	0	50	32	24	0	44	1.54
1841569--1841608	20	2.0	20	100	0	80	30	10	30	30	1.90
1856192--1856266	29	2.5	30	82	4	107	21	36	28	14	1.93
1857021--1857075	27	2.0	28	89	7	85	9	21	41	27	1.83
1857835--1857921	29	3.0	29	87	0	120	17	34	24	24	1.96
1859490--1859530	17	2.4	17	95	0	73	46	0	7	46	1.30
1859500--1859597	51	1.9	52	91	2	162	41	5	5	47	1.47
1859593--1859650	17	3.2	16	74	23	53	37	1	3	56	1.26
1860415--1860455	20	2.0	20	85	0	55	63	12	9	14	1.52
1861230--1861269	21	1.9	21	89	0	62	50	30	5	15	1.65
1862678--1862778	15	6.2	15	73	20	51	51	0	0	47	1.07
1862682--1862759	28	3.0	27	85	9	99	51	0	0	48	1.00
1862707--1862813	6	18.3	6	68	27	54	48	0	1	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862705--1862815	28	3.6	31	83	11	122	49	0	1	47	1.18
1862878--1862929	18	2.9	17	91	5	77	40	5	7	46	1.57
1862956--1863380	18	24.6	18	68	16	220	43	5	7	43	1.56
1863022--1863079	17	3.5	17	69	21	50	48	5	5	41	1.48
1862896--1863065	51	3.4	51	85	4	238	41	7	8	43	1.62
1863007--1863357	33	10.7	33	71	16	153	43	5	7	43	1.55
1863039--1863385	51	6.7	52	70	16	175	43	4	7	44	1.53
1862939--1863378	173	2.5	171	90	2	659	42	5	7	44	1.57
1863013--1863235	122	1.8	119	84	9	299	43	5	7	43	1.55
1863212--1863590	2	184.0	2	64	23	76	43	3	7	45	1.51
1863195--1863271	17	4.8	17	70	22	51	48	3	5	42	1.44
1863013--1863357	122	2.9	113	79	13	295	43	4	7	43	1.55
1863180--1863446	122	2.2	122	78	10	269	41	4	7	46	1.52
1863442--1863507	27	2.5	27	80	9	75	42	3	7	46	1.47
1863486--1863641	33	5.1	31	72	17	96	46	5	7	40	1.57
1863458--1863623	55	3.0	55	85	2	210	45	4	7	42	1.53
1863620--1863756	18	7.7	18	69	21	67	40	10	7	41	1.67
1863620--1863703	42	2.0	42	90	4	134	42	11	7	38	1.69
1863719--1863766	18	2.7	18	78	15	64	43	6	6	43	1.54
1863740--1863806	33	2.1	32	88	2	98	50	4	5	38	1.47
1863756--1863856	29	3.7	27	71	21	95	52	0	6	39	1.35
1863756--1863819	13	4.9	13	74	11	60	53	1	6	39	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1863757--1863830	20	3.5	20	76	16	76	52	1	6	39	1.36
1863867--1863906	22	1.9	20	85	10	53	50	7	0	42	1.30
1863894--1863947	17	3.1	18	81	2	58	50	3	0	46	1.19
1864022--1864090	27	2.5	28	83	9	88	40	4	7	47	1.51
1864074--1864168	2	46.0	2	74	14	77	46	5	2	46	1.37
1864077--1864169	22	4.4	21	76	15	93	45	5	2	47	1.37
1864074--1864168	42	2.2	44	87	7	142	46	5	2	46	1.37
1864193--1865008	210	3.8	209	91	4	1217	29	12	8	49	1.70
1866845--1867053	107	1.9	108	96	1	384	36	10	14	38	1.80
1870994--1871045	23	2.3	23	80	6	72	17	21	40	21	1.91
1874864--1874903	21	1.9	21	85	10	55	35	10	2	52	1.48
1877593--1877706	21	5.5	21	77	4	115	21	20	18	39	1.92
1877612--1877688	20	3.8	20	81	3	100	18	18	20	42	1.89
1877603--1877706	41	2.5	41	93	0	181	21	19	18	41	1.91
1877696--1877749	20	2.6	21	82	5	74	38	20	22	18	1.93
1878280--1878340	20	3.0	21	73	9	72	45	19	22	11	1.82
1878287--1878354	20	3.5	19	78	6	73	48	23	17	10	1.78
1878397--1878443	20	2.3	20	79	13	60	12	25	14	46	1.80
1883079--1883144	20	3.3	20	84	0	78	42	25	16	15	1.87
1883098--1883151	20	2.7	20	88	0	81	40	24	20	14	1.90
1883394--1883438	18	2.5	18	85	0	63	15	15	42	26	1.87
1884757--1884830	20	3.7	19	75	8	58	44	22	16	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885277--1885348	20	3.6	20	96	0	126	26	20	29	23	1.99
1892403--1893045	287	2.3	286	83	6	799	47	6	14	31	1.70
1901209--1901247	20	2.0	20	94	0	69	51	25	7	15	1.70
1901815--1901842	14	2.0	14	100	0	56	14	14	7	64	1.48
1901831--1901873	20	2.2	20	100	0	86	13	13	18	53	1.73
1903536--1903585	21	2.4	21	82	0	64	22	12	30	36	1.90
1903602--1903697	21	4.5	22	69	10	58	20	12	33	33	1.90
1903555--1903698	63	2.3	63	79	7	150	20	13	33	31	1.92
1903985--1904063	21	3.8	21	81	6	106	22	34	16	26	1.95
1903991--1904082	42	2.2	42	84	7	116	23	34	16	25	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12