genome.fa.s8912.2.7.7.80.10.50.1000.10.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  10  of  18  ( 2121 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)
1776013--1776676	312	2.1	310	82	3	816	32	16	4	46	1.67
1785373--1785417	21	2.1	21	87	0	63	31	28	24	15	1.96
1785444--1785505	22	2.8	22	97	0	115	24	33	32	9	1.88
1786024--1786058	18	1.9	18	88	11	54	54	5	17	22	1.64
1786295--1786330	2	18.0	2	100	0	72	50	0	0	50	1.00
1787096--1787176	22	3.6	22	93	1	135	18	25	29	25	1.98
1792478--1792579	34	2.9	36	89	5	163	43	13	15	27	1.85
1793160--1793194	16	2.1	18	89	10	56	25	8	0	65	1.21
1796372--1796407	8	4.6	8	89	3	56	86	0	13	0	0.58
1796371--1796429	23	2.6	24	78	15	79	81	5	11	1	0.93
1796372--1796421	24	2.1	23	85	10	66	84	4	12	0	0.76
1797038--1797088	22	2.3	22	96	0	93	35	27	11	25	1.91
1797504--1797539	18	2.0	18	88	0	54	19	8	30	41	1.81
1797967--1798300	36	9.5	35	76	11	290	26	19	14	40	1.89
1798075--1798263	102	1.9	102	88	2	290	27	18	13	40	1.88
1798039--1798363	138	2.4	137	84	2	445	28	20	12	39	1.88
1798258--1798415	67	2.4	67	85	5	196	32	21	8	37	1.83
1798249--1798415	65	2.5	65	83	4	192	31	21	8	38	1.83
1799036--1799801	105	7.3	105	88	3	1051	34	25	17	22	1.95
1800336--1800437	34	2.9	36	91	5	172	44	13	14	27	1.83
1801007--1801041	16	2.1	18	89	10	56	25	8	0	65	1.21
1811843--1811889	20	2.3	20	85	0	58	40	25	17	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1811928--1811956	12	2.5	12	94	5	51	31	17	17	34	1.93
1820768--1820802	18	2.0	18	88	5	54	54	5	5	34	1.48
1820942--1820995	22	2.5	22	82	11	74	37	18	11	33	1.86
1822189--1822226	16	2.4	17	86	8	53	60	0	26	13	1.33
1822585--1822642	2	29.0	2	100	0	116	50	0	0	50	1.00
1823281--1823336	29	1.9	29	85	0	76	41	12	12	33	1.81
1830108--1830136	2	14.5	2	100	0	58	48	0	0	51	1.00
1834015--1834060	20	2.6	18	86	13	60	39	10	26	23	1.88
1843467--1844526	532	2.0	532	100	0	2120	25	22	19	32	1.98
1851758--1851794	18	2.1	18	89	0	56	54	0	18	27	1.44
1862907--1862965	26	2.2	28	79	11	70	76	8	1	13	1.09
1864410--1865109	81	8.7	81	88	1	1001	27	22	12	38	1.89
1865080--1865331	68	3.7	68	90	0	389	29	25	14	30	1.95
1865524--1865660	56	2.5	55	85	7	188	32	19	13	35	1.90
1866096--1866156	22	2.9	21	78	7	70	26	24	16	32	1.96
1866038--1866225	95	2.0	96	83	9	242	28	21	17	32	1.96
1871379--1871434	20	2.8	20	91	0	94	33	12	19	33	1.89
1877060--1877099	21	1.9	21	89	0	62	55	7	7	30	1.56
1880840--1880916	23	3.5	22	79	8	77	25	24	22	27	2.00
1888385--1888429	23	2.0	23	95	0	81	44	15	31	8	1.77
1888388--1888437	23	2.2	23	85	7	66	44	14	34	8	1.74
1894019--1894140	64	1.9	65	86	1	174	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894038--1894197	65	2.5	65	85	1	205	27	16	25	30	1.96
1900629--1900668	21	1.9	21	85	10	55	35	10	2	52	1.48
1902597--1902756	65	2.5	65	86	1	214	26	16	25	30	1.97
1902707--1902753	19	2.5	19	83	10	62	25	17	31	25	1.97
1905204--1905266	20	2.9	21	79	9	65	15	25	34	23	1.95
1916187--1916736	271	2.0	272	85	3	741	47	14	14	24	1.81
1922265--1922691	215	2.0	215	94	0	755	30	25	17	27	1.97
1949513--1949540	2	14.0	2	100	0	56	50	0	0	50	1.00
1953472--1953511	21	1.9	21	100	0	80	27	25	5	42	1.75
1953796--1953875	2	40.0	2	100	0	160	50	0	0	50	1.00
1955857--1955940	23	3.6	23	86	1	114	27	26	26	20	1.99
1967134--1967185	17	3.0	18	81	10	56	61	0	1	36	1.07
1967118--1967206	16	5.6	16	73	20	64	60	2	1	35	1.16
1971756--1971801	23	2.0	23	100	0	92	26	17	26	30	1.97
1978886--1978970	39	2.3	35	82	8	98	32	12	3	50	1.58
1979451--1979478	2	14.0	2	100	0	56	50	0	0	50	1.00
1993824--1993875	23	2.3	23	80	9	63	76	0	19	3	0.93
1993785--1993908	56	2.2	56	83	8	146	75	1	16	7	1.11
1993832--1993939	16	6.8	16	81	15	100	74	0	17	8	1.06
1993897--1993943	14	3.3	14	85	5	67	78	0	14	6	0.93
1995282--1995784	51	9.7	51	93	2	765	29	15	26	28	1.96
1995270--1995900	51	11.9	56	90	3	446	29	15	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998760--1998818	20	3.3	20	62	37	53	55	1	23	18	1.51
1998755--1998822	33	2.1	33	100	0	136	54	2	25	17	1.57
2014585--2014643	30	2.0	28	87	9	82	37	3	16	42	1.66
2014585--2014643	29	2.0	30	90	6	93	37	3	16	42	1.66
2014708--2014755	19	2.5	19	93	0	78	41	8	12	37	1.73
2014860--2014901	21	2.0	21	90	0	66	26	21	26	26	1.99
2015185--2015254	34	2.1	32	89	5	104	31	15	31	21	1.95
2019941--2020003	32	2.0	32	96	0	117	49	4	3	42	1.39
2019939--2019990	16	3.2	16	71	28	56	48	5	3	42	1.45
2019941--2019989	17	3.0	17	69	19	50	46	6	4	42	1.47
2025912--2026020	52	2.1	52	98	0	209	25	7	9	57	1.55
2029386--2029495	55	2.0	55	98	0	211	24	21	12	40	1.88
2036593--2036691	50	1.9	52	87	4	148	45	14	26	14	1.82
2037476--2038038	105	5.3	105	94	0	937	33	24	19	22	1.97
2039632--2039740	52	2.1	52	98	0	209	25	7	9	57	1.55
2039889--2039921	17	1.9	17	88	11	50	36	0	3	60	1.12
2042573--2042619	22	2.1	23	88	4	69	44	2	0	53	1.12
2042567--2042646	32	2.5	32	80	14	92	47	2	0	50	1.14
2042795--2042839	23	2.0	23	82	8	56	53	2	4	40	1.33
2042935--2042988	18	3.0	19	81	10	60	61	0	0	38	0.96
2043840--2043870	15	2.1	15	100	0	62	19	0	25	54	1.44
2044037--2044069	12	2.8	12	90	4	50	45	0	3	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2045379--2045407	2	14.5	2	100	0	58	51	0	0	48	1.00
2048221--2048267	22	2.0	24	84	15	64	63	8	2	25	1.34
2047681--2048571	472	1.9	472	89	0	1390	39	16	11	32	1.84
2048549--2048591	20	2.2	20	100	0	86	32	20	11	34	1.89
2048763--2048827	18	3.7	17	77	6	67	43	12	10	33	1.77
2048791--2048833	18	2.4	18	92	3	70	41	16	9	32	1.80
2061256--2061381	64	2.0	64	82	6	157	30	23	15	30	1.95
2061287--2061446	64	2.5	64	83	2	187	32	24	14	28	1.94
2069399--2069427	15	1.9	15	100	0	58	37	0	41	20	1.53
2069794--2069898	45	2.3	46	80	8	126	32	20	17	30	1.95
2069840--2069963	64	1.9	64	86	3	178	31	20	17	29	1.96
2100017--2100057	20	2.0	20	85	0	55	43	4	17	34	1.70
2101715--2102188	237	2.0	240	81	5	568	33	9	19	37	1.85
2107060--2107107	15	2.8	18	75	21	57	43	4	0	52	1.20
2115817--2116182	131	2.8	130	88	2	529	39	15	12	33	1.84
2118698--2119151	132	3.4	131	80	6	502	30	15	22	31	1.95
2119615--2120386	197	3.9	197	85	3	979	32	16	18	31	1.94
2120250--2120372	42	3.0	40	78	7	131	29	21	22	26	1.99
2119615--2120380	394	2.0	389	86	3	1081	32	16	18	31	1.94
2120780--2120902	42	3.0	40	78	7	131	29	21	22	26	1.99
2120133--2121726	530	3.0	530	100	0	3188	32	18	15	33	1.93
2121310--2121432	42	3.0	40	78	7	131	29	21	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2135810--2135854	3	15.0	3	82	17	58	66	0	0	33	0.92
2135802--2135854	24	2.2	24	87	9	81	67	0	0	32	0.91
2135898--2135945	21	2.3	21	88	0	69	45	6	2	45	1.40
2135908--2136085	24	7.4	24	69	17	84	43	9	2	44	1.51
2135898--2135997	21	4.5	21	69	16	60	45	9	2	44	1.47
2135919--2136085	74	2.3	75	87	4	241	43	8	2	44	1.51
2136056--2136203	41	3.7	39	78	12	149	45	8	2	43	1.49
2136056--2136203	39	3.7	39	80	9	149	45	8	2	43	1.49
2136051--2136203	79	1.9	79	86	6	220	43	9	3	43	1.52
2136049--2136223	80	2.2	79	82	3	217	42	9	4	44	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18