genome.fa.s9639.2.7.7.80.10.50.1000.7.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   55   56   57   58   59   60   61   62   

This is table  7  of  62  ( 7398 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)
1746350--1746413	29	2.2	29	88	5	94	35	7	9	46	1.65
1746338--1746671	140	2.4	140	86	2	463	35	9	11	42	1.75
1746490--1746566	29	2.6	29	89	2	118	31	5	14	49	1.65
1746519--1746811	111	2.6	111	90	0	444	35	10	12	41	1.77
1747326--1747390	30	2.2	29	83	8	78	27	7	27	36	1.84
1747341--1747398	29	2.0	30	82	3	73	31	10	24	34	1.89
1747400--1747431	15	2.1	15	100	0	64	25	12	12	50	1.75
1766301--1766424	31	4.0	31	76	15	112	29	19	20	31	1.97
1772207--1772246	12	3.3	12	85	0	53	25	45	17	12	1.83
1772998--1773042	21	2.1	21	87	0	63	31	28	24	15	1.96
1773840--1773961	31	4.0	31	89	5	171	20	20	22	36	1.96
1777097--1777141	21	2.1	21	87	0	63	31	28	24	15	1.96
1777940--1778048	31	3.6	31	88	5	168	19	20	22	38	1.93
1781375--1781499	53	2.4	51	80	14	148	42	5	44	8	1.57
1787380--1787423	22	2.2	20	88	12	63	36	4	0	59	1.18
1788380--1788738	175	2.0	179	95	4	649	35	12	12	39	1.80
1797239--1797269	4	7.8	4	100	0	62	77	0	0	22	0.77
1798511--1798563	26	2.0	26	96	0	97	37	18	20	22	1.94
1803846--1803886	16	2.6	16	92	3	66	36	9	21	31	1.86
1806993--1807048	5	11.2	5	94	0	94	62	17	0	19	1.33
1807504--1807546	23	1.9	22	81	13	52	34	20	11	32	1.89
1808943--1809100	21	7.8	20	71	9	88	38	25	16	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809003--1809119	20	5.7	20	75	12	78	38	23	17	20	1.93
1809087--1809336	20	12.5	20	81	5	256	36	24	18	20	1.94
1810008--1810054	24	2.0	24	87	8	69	25	14	21	38	1.92
1810227--1810251	12	2.1	12	100	0	50	72	0	28	0	0.86
1810429--1810474	24	2.0	23	87	12	67	26	15	21	36	1.93
1810647--1810671	12	2.1	12	100	0	50	72	0	28	0	0.86
1812950--1813180	33	6.7	34	77	16	235	46	17	21	13	1.83
1812964--1813180	19	12.4	19	76	19	240	47	17	21	14	1.83
1813050--1813202	33	4.5	33	75	16	150	45	16	22	14	1.84
1812992--1813202	52	4.0	52	97	0	395	46	16	22	14	1.83
1813209--1813324	53	2.2	53	98	1	225	13	24	18	43	1.86
1813227--1813324	19	5.4	19	84	13	143	14	22	17	45	1.84
1813431--1813467	14	2.6	14	91	0	65	45	21	0	32	1.52
1814670--1814725	19	3.2	18	76	21	66	46	19	23	10	1.81
1814721--1814779	19	3.4	19	73	22	74	6	16	30	45	1.74
1814721--1814810	33	2.7	33	93	3	146	7	18	28	44	1.78
1814751--1814810	19	3.4	18	71	21	56	8	20	28	43	1.80
1814858--1815418	93	6.1	93	98	0	1081	46	19	12	22	1.83
1814858--1815418	185	3.0	186	97	0	1081	46	19	12	22	1.83
1814858--1815418	278	2.0	279	98	0	1081	46	19	12	22	1.83
1817106--1817162	14	3.7	14	70	20	51	43	21	24	10	1.83
1817098--1817179	33	2.5	33	93	0	146	48	18	21	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817196--1817252	14	3.7	14	75	20	60	8	22	21	47	1.78
1817196--1817312	33	3.2	35	82	16	157	11	23	18	46	1.81
1817237--1817312	21	3.7	21	83	3	109	11	25	17	46	1.82
1817236--1817313	41	1.9	41	97	0	147	12	25	16	44	1.83
1817392--1817462	33	2.2	33	92	0	115	47	18	22	11	1.80
1817644--1817698	22	2.5	22	81	0	74	20	16	40	23	1.91
1817845--1818038	20	9.6	20	81	5	212	19	19	25	35	1.95
1817845--1818038	60	3.2	60	82	0	244	19	19	25	35	1.95
1818025--1818142	21	5.7	21	68	10	73	22	16	25	36	1.94
1818487--1818539	20	2.7	20	74	11	63	28	28	15	28	1.96
1818560--1818687	40	3.2	40	83	10	156	41	20	17	20	1.91
1818539--1818687	60	2.5	59	82	6	167	41	20	16	21	1.90
1818527--1818687	20	8.1	20	75	10	141	40	20	17	21	1.91
1819073--1819104	13	2.5	13	100	0	64	0	6	15	78	0.95
1821337--1821432	42	2.3	42	78	7	104	23	34	18	22	1.96
1821767--1821837	21	3.4	21	70	14	56	23	35	19	21	1.96
1821329--1822175	424	2.0	424	93	1	1457	24	23	23	28	2.00
1823288--1823323	14	2.6	14	95	0	63	33	0	22	44	1.53
1823236--1823389	80	2.0	79	81	8	183	31	1	16	50	1.54
1823553--1823602	20	2.5	20	86	0	73	16	18	22	44	1.87
1823761--1823847	39	2.2	39	93	0	147	19	14	19	45	1.85
1824158--1824194	18	2.1	18	89	0	56	51	10	8	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824581--1824630	25	2.0	25	96	0	91	44	22	8	26	1.80
1824691--1824732	20	2.1	20	95	0	75	42	16	23	16	1.88
1824814--1824877	20	3.2	20	100	0	128	18	21	25	34	1.96
1825208--1825242	6	5.8	6	86	0	52	20	2	17	60	1.49
1827305--1827331	3	9.0	3	100	0	54	0	33	0	66	0.92
1827507--1827574	24	2.8	24	86	0	91	38	19	17	25	1.93
1831621--1831646	4	6.5	4	100	0	52	76	23	0	0	0.78
1831711--1831748	3	12.7	3	100	0	76	34	0	0	65	0.93
1836063--1836106	22	2.2	19	88	12	61	45	0	0	54	0.99
1848560--1849099	105	5.1	106	95	1	964	34	25	17	22	1.96
1848560--1849099	211	2.6	212	95	1	973	34	25	17	22	1.96
1849213--1849255	20	2.2	20	95	0	77	25	23	16	34	1.95
1856087--1856125	17	2.4	17	95	4	71	51	5	0	43	1.24
1856240--1856274	9	3.9	9	88	0	52	28	8	17	45	1.77
1860998--1861026	7	4.1	7	100	0	58	44	13	0	41	1.44
1862330--1862425	3	32.0	3	87	0	138	62	1	2	34	1.14
1862338--1862438	12	8.8	11	82	13	57	63	0	3	31	1.19
1862675--1863222	226	2.4	231	91	4	876	28	19	13	38	1.90
1862675--1863222	113	4.8	113	89	1	765	28	19	13	38	1.90
1863866--1864472	52	11.8	52	96	1	1116	37	22	14	25	1.92
1863866--1864472	103	5.9	104	96	1	1116	37	22	14	25	1.92
1865019--1865066	18	2.8	18	90	6	73	58	6	6	29	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875644--1875680	15	2.7	15	88	12	53	62	8	5	24	1.44
1875671--1875721	18	2.9	17	75	16	50	72	1	0	25	0.95
1876518--1876546	7	4.1	7	100	0	58	44	13	0	41	1.44
1877724--1877802	3	26.3	3	92	5	133	64	0	0	35	0.94
1887978--1888010	16	2.0	17	94	5	59	36	21	6	36	1.78
1891794--1891833	16	2.4	16	87	4	53	67	2	2	27	1.16
1891937--1891985	18	2.7	18	96	0	89	18	18	8	55	1.67
1908985--1909018	18	1.9	18	94	5	61	0	41	5	52	1.25
1909920--1910108	40	4.4	42	67	17	122	23	16	33	26	1.96
1909783--1910126	131	2.6	133	82	5	435	23	17	32	26	1.96
1911607--1911722	5	22.6	5	70	23	64	1	16	3	78	0.97
1911612--1911718	8	14.3	7	68	23	58	1	15	3	78	0.98
1911598--1911718	28	4.4	26	78	15	102	1	16	4	77	1.00
1911608--1911717	13	7.9	13	75	20	71	1	16	3	78	0.98
1911607--1911722	45	2.6	44	82	8	119	1	16	3	78	0.97
1911678--1911718	12	3.5	12	84	15	59	2	12	0	85	0.70
1911607--1911718	35	3.3	34	77	14	88	1	16	3	78	0.97
1911607--1911723	58	1.9	63	83	11	156	1	16	4	77	1.00
1911652--1911722	23	3.1	22	83	4	88	1	15	1	81	0.83
1911651--1911734	40	2.1	41	81	2	98	3	14	3	78	1.02
1921886--1921925	21	1.9	21	85	10	55	40	12	17	30	1.86
1922001--1922057	22	2.7	21	81	7	62	31	12	24	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1922469--1922977	45	11.3	45	92	0	766	40	14	20	25	1.90
1922952--1923061	47	2.3	47	89	3	159	50	11	18	20	1.78
1923428--1923576	81	1.8	81	88	0	226	34	10	24	30	1.89
1923432--1923600	81	2.1	81	80	2	187	36	10	21	31	1.87
1926016--1926053	15	2.7	14	88	8	51	50	10	7	31	1.66
1926357--1926398	2	21.0	2	100	0	84	50	0	0	50	1.00
1928361--1928415	20	2.8	20	83	10	76	30	21	18	29	1.97
1934098--1934156	22	2.7	22	91	0	100	23	23	25	27	2.00
1935251--1935282	2	16.5	2	93	6	57	53	0	0	46	1.00
1937961--1938108	80	1.9	80	87	2	219	32	11	25	31	1.91

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   55   56   57   58   59   60   61   62