genome.fa.s8488.2.7.7.80.10.50.1000.7.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  7  of  54  ( 6450 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)
1649741--1649790	9	5.8	9	76	9	59	2	12	0	86	0.67
1649741--1649790	14	3.5	14	78	13	57	2	12	0	86	0.67
1649743--1649797	18	3.2	17	82	10	67	5	10	0	83	0.79
1651915--1651982	29	2.3	30	80	9	77	67	4	7	20	1.33
1653300--1653365	27	2.4	28	78	14	75	65	1	10	22	1.32
1653321--1653364	14	3.2	13	78	9	52	61	2	11	25	1.41
1663527--1663557	16	1.9	16	93	0	53	19	12	19	48	1.81
1664092--1664219	54	2.4	54	89	3	188	32	5	11	50	1.61
1669039--1669113	13	5.8	13	100	0	150	8	29	6	56	1.54
1669349--1669534	75	2.5	77	79	7	211	27	5	17	49	1.69
1670835--1670881	24	2.0	24	95	0	85	23	44	0	31	1.54
1681905--1681971	2	33.5	2	100	0	134	49	0	0	50	1.00
1682421--1682479	13	4.5	13	86	0	73	33	20	15	30	1.93
1685103--1685185	39	2.1	40	88	6	125	4	34	6	54	1.46
1685138--1685231	26	3.7	25	68	13	68	4	38	5	52	1.44
1685154--1685223	25	2.8	25	65	10	61	5	38	5	50	1.50
1691535--1691579	23	2.0	23	100	0	90	60	22	4	13	1.51
1691530--1691585	23	2.3	26	78	18	82	62	17	7	12	1.51
1702599--1702660	30	2.1	30	96	0	115	37	4	37	20	1.75
1703425--1703466	20	2.2	20	87	8	61	42	16	7	33	1.75
1704952--1705053	26	3.9	26	84	2	107	39	26	16	17	1.91
1720996--1721047	20	2.5	20	81	6	59	23	30	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728495--1728611	21	5.6	21	98	0	225	33	28	8	29	1.87
1729747--1729789	7	6.0	7	89	5	68	44	0	2	53	1.13
1729742--1729787	15	3.1	15	87	3	67	47	0	4	47	1.21
1729740--1729788	22	2.3	21	92	3	80	44	0	4	51	1.20
1732904--1732934	8	3.8	8	91	8	53	3	35	0	61	1.12
1732900--1732934	17	2.1	17	100	0	70	5	34	0	60	1.21
1734065--1734117	22	2.4	22	87	0	70	32	16	28	22	1.96
1734731--1734771	12	3.6	12	74	12	50	19	24	19	36	1.95
1734734--1734815	22	3.7	22	88	0	110	21	17	17	43	1.87
1736798--1736844	24	2.0	24	86	0	67	25	27	17	29	1.97
1736939--1736966	13	2.2	13	100	0	56	32	25	35	7	1.83
1746020--1746074	14	3.9	14	97	0	101	21	14	14	49	1.79
1748226--1748250	11	2.3	11	100	0	50	28	8	28	36	1.85
1749711--1749938	113	2.0	113	98	0	438	35	12	14	37	1.85
1750726--1750814	29	3.1	29	100	0	178	13	31	37	17	1.89
1750849--1750924	15	4.8	16	80	18	88	22	9	53	14	1.68
1750863--1750926	14	4.2	15	75	16	69	21	7	54	15	1.66
1750849--1750919	32	2.2	32	92	0	115	22	9	52	15	1.72
1751414--1751515	47	2.3	46	85	9	133	41	0	8	49	1.41
1755333--1755383	19	2.9	17	78	16	52	41	0	11	47	1.40
1755369--1755578	26	8.6	25	79	15	185	44	2	9	43	1.51
1755432--1755474	19	2.2	20	87	4	61	51	2	2	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1755311--1755945	121	5.3	122	89	8	939	43	2	9	44	1.49
1755481--1755791	115	2.9	104	80	17	283	42	2	10	43	1.53
1755604--1755962	26	14.7	26	70	15	189	43	2	9	45	1.48
1755684--1755738	19	3.1	19	76	12	62	36	0	14	49	1.44
1755526--1755886	37	10.5	35	65	24	107	43	2	9	44	1.50
1755857--1755929	25	3.0	23	69	9	56	41	1	5	52	1.33
1755866--1755959	49	1.9	48	89	2	143	40	1	6	52	1.34
1755914--1755949	14	2.6	14	86	0	54	41	2	5	50	1.40
1756157--1756189	17	1.9	17	93	0	57	36	6	12	45	1.66
1756103--1756182	24	3.3	23	71	21	67	38	3	8	48	1.52
1758293--1758323	15	2.1	14	94	5	53	54	6	0	38	1.26
1758298--1758344	16	3.0	16	84	9	53	59	10	0	29	1.31
1758507--1758596	45	2.0	47	86	8	132	47	12	0	40	1.41
1758507--1758609	46	2.2	47	84	10	131	48	12	0	38	1.41
1758788--1758845	27	2.1	27	81	15	66	3	39	0	56	1.16
1758814--1758863	18	2.6	19	87	6	66	0	38	0	62	0.96
1758891--1758923	8	3.7	9	88	12	50	0	33	0	66	0.92
1758930--1758981	25	2.1	25	100	0	104	26	34	11	26	1.91
1759168--1759247	29	2.8	29	90	3	117	21	31	31	16	1.95
1759312--1759343	12	2.7	12	95	0	55	15	34	18	31	1.93
1759341--1759399	29	2.0	29	83	6	75	16	32	32	18	1.94
1760952--1760983	17	1.9	17	93	6	57	40	0	3	56	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762191--1762259	24	2.8	24	88	2	84	40	11	17	30	1.85
1762206--1762259	24	2.2	24	96	0	99	38	12	16	31	1.87
1763017--1763056	10	4.0	10	86	0	53	27	32	0	40	1.57
1763102--1763153	9	6.1	9	76	13	56	32	1	1	63	1.16
1763101--1763150	17	3.0	17	91	2	75	34	2	4	60	1.27
1763110--1763155	16	2.9	16	87	6	58	30	2	2	65	1.16
1769316--1769357	18	2.3	18	80	8	50	59	4	2	33	1.31
1770152--1770192	16	2.5	16	85	14	57	51	2	0	46	1.14
1770483--1770554	22	3.3	22	67	11	58	26	2	4	66	1.23
1770471--1770578	43	2.6	43	89	2	166	25	1	4	68	1.19
1771583--1771622	21	1.9	21	85	10	55	15	7	2	75	1.14
1772074--1772144	2	36.0	2	97	2	135	49	0	0	50	1.00
1777989--1778047	31	1.9	31	92	0	100	52	8	6	32	1.58
1778473--1778514	13	3.2	13	81	15	50	47	2	0	50	1.14
1779364--1779561	95	2.1	94	86	2	272	32	16	24	26	1.96
1779895--1780350	59	7.8	59	87	4	672	35	11	18	33	1.87
1779895--1780350	119	3.9	118	87	6	674	35	11	18	33	1.87
1786926--1787322	59	6.7	59	91	3	638	32	11	20	35	1.88
1791257--1791298	16	2.6	17	85	7	52	42	0	0	57	0.99
1799346--1799414	31	2.3	31	85	9	90	36	5	23	34	1.79
1800710--1800796	25	3.5	25	96	0	165	37	4	25	32	1.76
1803249--1803275	4	6.8	4	100	0	54	74	0	0	25	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1803727--1803780	20	3.0	17	77	15	63	44	11	1	42	1.50
1811783--1811842	17	3.3	19	81	4	54	61	5	1	31	1.27
1811914--1811956	21	2.0	22	86	9	61	62	0	0	37	0.95
1814303--1814355	21	2.5	22	76	17	58	41	15	15	28	1.87
1830959--1831012	21	2.6	21	100	0	108	37	12	20	29	1.90
1830947--1831023	21	3.7	21	89	3	102	37	18	15	28	1.91
1831015--1831102	41	2.2	40	82	12	99	34	17	14	34	1.90
1833519--1833571	3	17.7	3	79	14	56	37	0	0	62	0.96
1833516--1833569	28	2.0	27	86	10	76	38	0	0	61	0.96
1833522--1833569	10	4.9	10	82	12	64	37	0	0	62	0.95
1835112--1835153	20	2.2	19	86	4	57	33	0	2	64	1.07
1835011--1835225	116	1.9	115	81	5	256	35	9	8	46	1.66
1835209--1835264	29	2.0	28	89	3	85	48	0	0	51	1.00
1835734--1835787	26	2.2	24	83	6	63	31	5	1	61	1.30
1835754--1835807	11	4.8	11	78	17	58	27	1	1	68	1.10
1835749--1835825	24	3.4	24	72	16	67	28	3	3	63	1.30
1839083--1839114	15	2.1	15	94	0	55	25	18	9	46	1.79
1846813--1846861	19	2.8	18	84	9	66	36	6	6	51	1.52
1847996--1848672	113	6.0	113	92	0	1068	36	15	19	27	1.93
1848581--1848816	120	1.9	123	82	7	295	40	14	18	26	1.89
1849014--1849064	25	2.0	25	85	7	68	41	0	0	58	0.98
1849012--1849073	17	3.3	20	74	14	62	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850624--1850665	20	2.2	19	86	4	57	35	0	0	64	0.94
1850525--1850737	116	1.9	115	82	5	261	36	9	8	45	1.68
1850721--1850777	29	2.0	29	89	0	87	47	0	0	52	1.00
1853958--1854028	25	3.2	25	60	35	61	30	9	21	38	1.86
1853945--1854030	42	2.0	42	93	4	147	33	10	19	36	1.86
1871014--1871088	21	3.5	21	81	13	98	21	10	24	44	1.84
1871011--1871096	44	2.0	44	90	0	136	25	10	23	40	1.86
1872952--1872995	22	1.9	24	81	9	56	11	13	29	45	1.79
1878013--1878055	21	2.0	21	90	0	68	23	9	20	46	1.79
1882038--1882122	2	42.5	2	100	0	170	50	0	0	49	1.00

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54