genome.fa.s1174.2.7.7.80.10.50.1000.9.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

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

This is table  9  of  11  ( 1247 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)
1662136--1662204	21	3.3	21	71	2	68	20	18	36	24	1.95
1662136--1662257	42	2.9	41	83	6	129	22	16	36	23	1.94
1664215--1664379	19	8.9	19	68	17	71	44	21	21	12	1.85
1664240--1664326	33	2.6	33	92	0	138	39	24	24	12	1.90
1664309--1664380	21	3.5	20	85	7	101	47	23	19	9	1.79
1664384--1664428	20	2.4	18	79	13	54	8	15	26	48	1.74
1664987--1665067	20	4.0	20	76	9	83	24	18	23	33	1.97
1664994--1665088	41	2.3	41	83	3	120	21	21	22	35	1.96
1665138--1665178	21	2.0	21	85	0	55	34	31	17	17	1.93
1665316--1665346	3	10.3	3	92	0	53	64	3	0	32	1.09
1666664--1666702	20	2.0	20	85	5	53	66	2	5	25	1.25
1667320--1667366	20	2.3	20	77	0	58	0	25	6	68	1.13
1667531--1667584	16	3.4	16	92	7	92	16	20	55	7	1.65
1667700--1667747	3	16.3	3	83	12	64	60	0	2	37	1.09
1668064--1668608	107	5.0	110	79	10	552	29	18	14	37	1.90
1668064--1668578	220	2.4	218	82	10	590	28	18	14	38	1.90
1669395--1669559	83	2.0	82	97	1	312	35	22	14	27	1.93
1669590--1669749	79	2.0	84	89	8	253	38	21	13	26	1.90
1669316--1669736	177	2.3	185	91	6	691	36	21	13	28	1.91
1681748--1681798	18	2.9	18	77	11	52	68	3	1	25	1.17
1683661--1683709	16	3.1	16	97	2	91	18	18	57	6	1.61
1683799--1683837	9	3.8	10	84	15	53	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1683833--1683896	3	21.3	3	93	0	110	62	0	1	35	1.05
1686680--1688088	702	2.0	700	88	1	2036	33	11	15	40	1.82
1695418--1696534	135	8.3	134	84	3	1305	31	22	15	31	1.94
1696229--1696430	45	4.5	45	68	14	128	32	21	15	30	1.94
1696710--1696747	13	2.9	13	88	0	58	34	0	0	65	0.93
1698473--1698533	22	2.8	22	87	0	95	22	26	21	29	1.99
1702460--1702530	34	2.1	34	85	10	94	21	28	14	36	1.92
1702743--1702782	21	1.9	22	90	10	66	12	5	40	42	1.64
1702902--1702968	20	3.3	20	85	4	98	29	25	26	17	1.98
1702886--1702968	41	2.0	41	88	9	125	26	27	26	19	1.99
1702990--1703045	21	2.7	21	97	0	103	21	19	37	21	1.94
1703126--1703183	30	2.0	29	86	10	82	44	15	5	34	1.69
1703126--1703185	29	2.0	30	90	6	95	43	15	6	35	1.72
1704412--1704459	19	2.5	20	82	3	62	29	12	6	52	1.63
1705745--1705825	41	2.0	41	85	4	110	27	23	25	23	2.00
1705848--1705906	13	4.9	13	76	19	56	20	20	40	18	1.91
1705848--1705893	21	2.2	21	96	0	83	21	19	39	19	1.93
1705985--1706047	29	2.1	29	85	11	83	50	12	6	30	1.65
1708491--1708584	3	31.3	3	100	0	188	32	0	0	67	0.91
1708598--1708677	40	2.0	41	97	2	153	32	10	2	55	1.47
1716086--1716173	23	3.9	23	76	14	94	29	23	21	25	1.99
1716400--1716429	14	2.1	14	93	0	51	50	6	6	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722028--1722096	23	3.0	23	78	0	75	40	7	18	33	1.78
1734297--1734364	19	3.3	19	68	18	55	57	23	1	17	1.48
1734282--1734365	43	2.0	43	90	0	132	55	23	3	16	1.56
1734464--1734523	28	2.1	28	93	0	102	56	25	0	18	1.41
1734784--1734817	17	2.0	17	100	0	68	52	11	5	29	1.61
1737568--1737595	7	4.0	7	100	0	56	28	0	28	42	1.56
1750137--1750169	16	2.0	17	88	5	50	33	6	18	42	1.75
1751115--1751174	23	2.6	23	86	0	66	30	28	20	21	1.98
1751199--1751418	105	2.1	103	91	1	359	37	22	12	26	1.90
1752226--1752273	19	2.6	19	83	9	64	27	22	16	33	1.96
1756860--1756937	23	3.3	23	78	1	84	33	23	19	24	1.97
1756944--1757162	103	2.1	103	94	1	377	36	23	12	27	1.90
1758981--1759134	31	5.0	31	91	0	236	20	18	23	37	1.94
1759696--1759768	21	3.4	21	90	1	101	27	20	27	24	1.99
1759856--1759939	39	2.2	39	95	0	150	36	8	5	48	1.58
1762313--1762491	70	2.6	69	86	3	232	44	5	5	44	1.51
1762380--1762502	35	3.5	34	76	13	124	44	4	6	44	1.48
1763851--1764229	191	2.0	191	98	1	742	39	10	13	36	1.79
1768393--1768431	20	2.0	20	89	0	60	28	10	5	56	1.54
1769337--1769372	18	1.9	19	88	5	56	30	0	2	66	1.06
1769676--1769726	24	2.1	25	81	3	59	54	1	0	43	1.11
1781235--1781472	127	1.9	126	91	4	390	46	3	7	42	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781698--1782140	232	1.9	233	86	3	642	30	15	13	40	1.86
1800460--1800532	23	3.2	23	78	1	85	38	21	21	17	1.93
1800574--1800628	21	2.7	20	76	15	58	43	20	14	21	1.87
1800565--1800656	42	2.2	42	82	0	103	40	22	14	22	1.90
1803261--1803406	55	2.7	55	84	2	186	32	17	20	29	1.96
1804524--1804575	19	2.7	19	96	0	95	28	17	32	21	1.96
1804948--1804995	2	24.0	2	100	0	96	50	0	0	50	1.00
1805241--1805313	18	3.9	18	78	7	92	20	20	30	28	1.98
1806032--1806082	23	2.3	23	93	3	86	17	23	29	29	1.97
1812204--1812345	55	2.6	55	82	3	180	32	16	20	30	1.94
1812861--1812910	21	2.4	21	86	0	64	22	18	26	34	1.96
1818591--1818651	23	2.7	23	84	0	77	27	24	31	16	1.96
1820441--1820487	9	4.9	10	84	7	62	80	12	6	0	0.88
1820443--1820498	21	2.7	21	91	2	87	80	12	7	0	0.90
1820441--1820505	30	2.2	28	84	15	78	76	15	7	0	0.99
1820441--1820498	19	2.9	19	89	5	80	79	13	6	0	0.93
1820442--1820505	21	3.1	21	86	2	85	78	14	7	0	0.96
1824128--1824177	23	2.3	23	89	6	77	28	18	14	40	1.89
1824135--1824184	22	2.2	23	86	10	68	22	24	12	42	1.87
1824808--1824863	23	2.4	23	96	0	103	28	21	14	35	1.92
1825947--1825990	22	2.0	23	82	13	56	65	2	0	31	1.05
1827349--1827406	30	2.0	30	86	6	84	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838450--1838560	58	1.9	56	87	7	161	33	9	18	38	1.83
1838875--1839182	152	2.0	153	99	0	609	27	20	16	34	1.95
1849791--1849846	15	3.6	15	81	9	67	44	10	12	32	1.77
1849794--1849827	17	2.0	17	100	0	68	41	11	11	35	1.78
1849798--1849836	17	2.3	17	86	0	51	56	10	10	23	1.63
1850012--1850068	21	2.7	21	80	0	78	28	22	26	22	1.99
1850264--1850318	13	4.2	13	75	13	58	49	12	3	34	1.59
1850304--1850402	33	3.0	33	94	1	164	45	15	7	32	1.73
1850397--1850436	21	1.9	21	94	0	71	47	7	15	30	1.72
1852711--1852764	24	2.2	25	83	9	76	27	18	18	35	1.94
1853574--1853645	23	3.1	22	88	6	90	20	22	9	47	1.79
1869975--1870070	48	2.0	48	100	0	192	37	12	20	29	1.90
1870855--1871073	109	2.0	109	100	0	438	34	9	28	27	1.87
1878139--1878205	23	3.0	23	72	22	61	37	0	2	59	1.13
1878232--1878781	169	3.3	167	82	4	608	30	16	20	32	1.95
1879647--1879715	12	5.8	12	81	1	68	30	2	15	50	1.59
1879652--1879720	18	3.9	17	79	9	66	28	2	15	52	1.58
1879664--1879697	6	5.7	6	85	0	50	23	0	23	52	1.47
1886268--1886320	20	2.7	20	93	0	97	30	26	24	18	1.98
1889069--1889151	19	4.4	19	93	0	148	38	25	14	21	1.91
1890435--1890459	5	5.0	5	100	0	50	40	0	20	40	1.52
1890533--1890578	5	9.2	5	80	0	56	32	6	19	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1890531--1890584	20	2.7	20	85	0	63	29	7	20	42	1.79
1890533--1890584	10	5.2	10	78	0	50	30	5	21	42	1.76
1892781--1892828	18	2.4	21	76	16	57	56	12	0	31	1.37
1892800--1892895	25	3.9	25	73	13	81	58	5	0	36	1.21
1892821--1892893	17	4.4	17	69	19	55	57	4	0	38	1.18
1893048--1893074	2	13.5	2	100	0	54	51	0	0	48	1.00
1894313--1894345	15	2.2	15	89	10	50	42	3	0	54	1.15
1894940--1894974	13	2.8	13	87	12	56	68	0	0	31	0.90
1896411--1896438	2	14.0	2	100	0	56	50	0	0	50	1.00
1896504--1896637	38	3.6	37	84	7	146	41	2	7	49	1.43

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