genome.fa.s9592.2.7.7.80.10.50.1000.9.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   39   

This is table  9  of  39  ( 4673 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)
1771344--1771405	20	3.2	20	68	9	65	35	16	19	29	1.93
1771948--1772049	39	2.8	36	76	7	107	37	11	16	34	1.85
1771814--1772075	133	2.0	132	93	0	443	39	10	15	34	1.82
1772737--1772797	26	2.3	26	97	0	113	26	16	8	49	1.73
1782899--1782959	29	2.1	30	81	3	70	37	3	19	39	1.68
1783231--1783267	18	2.1	18	94	0	65	27	13	32	27	1.94
1786914--1787400	57	8.5	57	92	1	751	33	19	10	36	1.87
1790118--1790142	2	12.5	2	100	0	50	48	0	0	52	1.00
1792419--1792905	57	8.5	57	91	0	695	33	19	10	37	1.86
1793244--1793302	22	2.8	20	76	18	57	22	28	15	33	1.94
1793338--1793391	22	2.7	21	83	11	69	22	31	18	27	1.97
1796974--1797016	15	2.9	15	89	0	59	32	2	18	46	1.62
1797119--1797197	23	3.4	23	80	3	88	21	21	25	31	1.98
1797155--1797236	24	3.5	24	80	9	89	21	21	23	32	1.98
1800085--1800277	96	2.0	96	85	6	259	29	16	24	29	1.97
1800141--1800213	22	3.6	19	76	20	60	31	13	24	30	1.94
1800780--1800853	26	3.1	26	61	31	65	37	5	20	36	1.76
1800742--1801140	45	8.9	45	88	1	575	40	8	19	32	1.80
1807094--1807147	15	3.6	15	76	0	63	33	3	20	42	1.70
1807094--1807161	30	2.3	30	79	5	75	32	4	22	41	1.73
1807266--1807340	23	3.3	23	75	0	78	26	26	16	30	1.96
1807324--1807389	24	2.8	24	81	6	82	25	25	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807310--1807394	24	3.6	24	76	9	77	25	27	20	27	1.99
1821201--1821247	16	2.7	17	78	21	53	55	0	38	6	1.26
1822553--1822624	19	3.7	19	80	9	74	30	19	12	37	1.89
1822709--1822883	54	3.3	54	85	1	244	24	14	20	40	1.90
1823286--1823863	108	5.4	108	83	5	663	37	12	11	39	1.78
1823286--1823863	215	2.7	212	83	6	657	37	12	11	39	1.78
1826868--1826892	13	1.9	13	100	0	50	60	0	8	32	1.26
1829145--1829304	79	2.0	79	98	0	311	45	3	20	30	1.68
1830855--1831484	45	14.0	45	87	0	787	43	13	20	23	1.87
1833056--1833112	20	2.9	18	82	14	69	22	19	10	47	1.80
1833063--1833112	20	2.5	20	90	0	73	24	16	12	48	1.79
1833524--1838041	62	75.8	62	74	12	2517	31	18	3	46	1.67
1833524--1838539	124	42.6	122	77	10	3275	31	18	3	46	1.67
1834135--1834274	71	2.0	72	84	4	185	27	17	3	51	1.62
1833524--1838431	186	27.7	184	76	13	2774	31	18	3	46	1.67
1834582--1834613	11	2.9	11	100	0	64	46	0	6	46	1.27
1836831--1838695	54	34.8	52	68	21	385	30	17	4	46	1.67
1836891--1838498	107	15.0	103	74	18	635	31	17	4	46	1.67
1836421--1838556	62	38.6	54	71	18	621	31	18	4	46	1.68
1837020--1838710	52	31.8	52	69	17	408	30	17	4	46	1.67
1840835--1840953	45	2.6	45	74	11	109	26	17	7	48	1.73
1840929--1841225	79	3.8	79	89	2	418	29	20	9	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840929--1841225	157	1.9	158	86	2	427	29	20	9	40	1.85
1841245--1841633	68	5.8	68	90	0	611	31	23	14	30	1.94
1841245--1841632	203	1.9	203	93	1	661	31	23	14	30	1.94
1841977--1842210	59	4.0	58	79	7	258	31	20	13	33	1.92
1842513--1842559	22	2.2	22	85	7	62	25	25	17	31	1.97
1846173--1846448	79	3.5	78	84	2	311	32	22	9	35	1.87
1846475--1846856	68	5.7	68	88	2	547	31	24	14	30	1.94
1847203--1847552	59	6.0	59	86	3	289	29	22	12	35	1.91
1847249--1847552	117	2.6	116	87	5	407	28	23	12	34	1.92
1847249--1847552	59	5.2	58	90	5	409	28	23	12	34	1.92
1848787--1848825	19	2.1	19	100	0	78	53	0	0	46	1.00
1848785--1848824	2	20.5	2	94	5	73	52	0	0	47	1.00
1855617--1855678	26	2.4	25	91	5	97	46	0	3	50	1.17
1855750--1855794	23	1.9	24	81	4	56	24	2	24	48	1.62
1858011--1858041	15	2.1	15	100	0	62	54	12	6	25	1.62
1861196--1861849	326	2.0	325	95	3	1174	35	7	25	31	1.84
1868242--1868274	2	16.5	2	100	0	66	51	0	0	48	1.00
1868333--1868370	19	2.0	19	85	10	51	55	2	18	23	1.55
1871892--1871944	21	2.5	22	84	12	74	26	18	28	26	1.98
1876098--1876149	21	2.5	22	78	15	65	26	19	26	26	1.99
1885751--1885777	13	2.1	13	100	0	54	48	7	14	29	1.71
1885798--1886003	81	2.6	79	87	6	285	43	4	6	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885984--1886013	2	15.5	2	93	6	53	50	0	0	50	1.00
1885801--1886004	38	5.2	40	72	15	165	43	4	6	44	1.52
1885910--1886104	88	2.2	89	81	9	236	46	1	5	47	1.34
1885996--1886092	38	2.4	40	86	8	135	48	1	5	45	1.31
1886077--1886119	2	21.5	2	100	0	86	48	0	0	51	1.00
1886063--1886189	26	4.5	27	70	22	82	44	0	4	51	1.22
1886092--1886171	36	2.2	36	86	6	117	42	0	3	53	1.18
1886112--1886171	17	3.5	16	70	29	52	40	0	5	55	1.22
1886164--1886254	38	2.5	37	82	8	114	47	2	4	46	1.35
1886167--1886298	44	3.1	44	77	12	143	44	1	4	49	1.32
1886276--1886322	24	2.0	24	87	8	69	42	0	4	53	1.20
1886277--1886322	23	2.0	25	83	12	62	43	0	4	52	1.21
1886236--1886334	38	2.6	39	75	15	109	43	0	4	52	1.20
1891182--1891382	94	2.1	97	87	9	306	33	15	17	32	1.92
1892343--1892449	57	1.9	57	84	9	148	29	17	19	32	1.95
1895203--1895281	21	3.6	22	77	5	79	25	22	26	25	2.00
1895206--1895300	21	4.4	20	75	11	75	26	20	26	27	1.99
1899124--1899165	21	2.1	19	83	16	50	40	11	2	45	1.54
1902447--1903135	85	8.1	85	87	1	858	34	22	18	24	1.96
1902447--1903094	341	1.9	341	89	0	1001	34	22	18	24	1.96
1902447--1903138	256	2.7	254	85	1	907	34	22	18	25	1.96
1903745--1903770	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903815--1903885	34	2.0	35	83	10	90	46	4	5	43	1.46
1903829--1903903	23	3.2	23	70	17	64	44	1	6	48	1.37
1903869--1903898	2	15.5	2	93	6	53	53	0	0	46	1.00
1903837--1903937	48	2.1	48	85	10	134	43	1	7	46	1.44
1903808--1903971	86	1.9	90	82	8	212	43	4	7	44	1.53
1903885--1904042	39	4.2	38	73	19	132	41	5	9	44	1.59
1903745--1904010	122	2.1	127	80	11	295	42	4	8	44	1.56
1903744--1904010	125	2.1	128	78	13	286	41	4	8	44	1.56
1903925--1904092	71	2.3	72	93	2	284	40	5	8	44	1.60
1904069--1904116	23	2.0	23	88	11	71	45	0	8	45	1.33
1904069--1904116	24	2.0	24	88	11	73	45	0	8	45	1.33
1904092--1904194	44	2.3	44	88	5	145	45	0	5	48	1.26
1904172--1904239	2	34.5	2	94	2	120	48	0	0	51	1.00
1904098--1904172	15	5.1	14	70	19	55	45	0	8	46	1.32
1905698--1905771	32	2.3	33	90	4	116	58	4	12	25	1.52
1907096--1907138	15	2.7	15	82	13	50	46	20	0	32	1.51
1907096--1907142	16	2.9	16	79	20	53	48	19	0	31	1.49
1907234--1907268	10	3.5	10	100	0	70	0	11	28	60	1.32
1907235--1907283	20	2.5	20	86	0	62	2	12	24	61	1.42
1908523--1908555	18	1.9	17	88	11	50	27	36	18	18	1.94
1914788--1914928	60	2.3	60	84	2	167	36	14	12	36	1.84
1919113--1919164	23	2.3	23	90	3	79	30	26	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1923365--1923395	16	1.9	16	93	0	53	25	22	25	25	2.00
1927761--1927864	21	5.0	21	81	4	88	25	12	21	40	1.88
1927772--1927887	21	5.5	21	85	5	126	24	11	23	41	1.87
1933455--1933487	14	2.4	14	100	0	66	48	15	36	0	1.45
1935821--1935853	17	1.9	17	88	11	50	21	36	24	18	1.95
1936101--1936166	30	2.2	30	80	0	78	22	16	25	34	1.95
1938928--1939005	31	2.5	32	77	12	81	62	6	8	21	1.47
1945811--1945863	21	2.6	21	75	22	58	47	0	18	33	1.49
1946485--1946528	2	23.0	2	90	9	74	52	0	0	47	1.00
1946995--1947062	23	3.0	23	84	0	91	17	25	26	30	1.97

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   39