genome.fa.s7819.2.7.7.80.10.50.1000.9.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

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

This is table  9  of  17  ( 2007 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)
1678073--1678203	31	4.3	29	67	17	70	45	0	5	49	1.25
1678173--1678223	23	2.2	23	82	0	57	45	1	1	50	1.24
1678328--1678412	34	2.4	36	80	20	106	50	1	0	48	1.08
1678375--1678426	22	2.3	22	86	3	68	51	0	1	46	1.12
1678371--1678432	30	2.0	32	90	6	101	53	0	1	45	1.10
1678346--1678427	37	2.2	37	77	12	89	53	1	1	43	1.16
1678388--1678431	22	2.0	22	82	8	54	54	0	2	43	1.12
1678657--1678748	42	2.2	42	90	0	139	45	19	15	19	1.85
1682009--1682072	2	32.5	2	96	3	121	48	0	0	51	1.00
1682150--1682174	2	12.5	2	100	0	50	48	0	0	52	1.00
1688483--1688906	211	2.0	211	97	2	798	29	17	20	32	1.96
1690298--1690352	29	1.9	29	85	3	76	32	21	5	40	1.76
1690639--1690811	88	2.0	89	90	1	276	54	5	22	16	1.63
1690826--1691042	111	1.9	116	85	6	311	43	7	12	35	1.71
1698108--1698175	31	2.2	32	79	12	79	45	7	13	33	1.71
1699340--1699536	20	9.6	20	82	6	164	30	23	18	27	1.97
1699340--1699537	41	4.8	40	79	7	166	30	23	18	28	1.97
1699704--1699745	22	1.9	22	95	0	75	21	45	16	16	1.86
1700010--1700068	20	3.0	20	87	0	73	16	18	22	42	1.89
1700205--1700259	25	2.2	24	78	15	58	20	9	18	52	1.71
1701389--1701433	18	2.5	18	88	0	72	26	44	15	13	1.83
1701915--1701960	20	2.3	20	88	0	65	36	26	21	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701954--1702021	19	3.8	19	68	20	56	51	17	16	14	1.77
1701970--1702028	14	3.9	14	72	20	55	49	22	16	11	1.78
1701954--1702045	33	2.8	33	93	0	148	50	19	17	13	1.78
1701984--1702050	19	3.8	19	73	18	81	47	19	19	13	1.82
1702062--1702119	14	3.9	14	77	16	62	12	17	22	48	1.80
1702057--1702135	32	2.4	33	93	2	133	12	18	21	46	1.82
1702078--1702177	19	5.5	19	74	11	77	16	19	20	45	1.86
1704043--1704078	14	2.6	14	90	0	54	30	0	22	47	1.52
1704205--1704258	14	3.5	14	75	22	54	46	20	22	11	1.82
1704218--1704263	14	2.8	17	75	25	53	45	19	21	13	1.84
1704282--1704359	20	3.9	20	94	0	138	15	23	23	38	1.92
1704282--1704359	40	2.0	40	100	0	156	15	23	23	38	1.92
1704695--1704808	20	5.7	20	83	6	131	23	19	26	30	1.98
1704675--1704812	41	3.4	41	82	6	163	22	18	24	34	1.96
1704735--1704830	41	2.3	41	87	3	131	18	20	25	35	1.95
1707879--1708035	64	2.5	64	77	10	169	35	19	19	26	1.95
1708412--1708468	28	2.0	30	86	6	82	47	15	21	15	1.82
1708548--1708581	15	2.3	15	89	0	50	17	20	29	32	1.96
1710937--1710966	3	10.0	3	92	0	51	66	3	0	30	1.07
1717120--1717174	27	2.0	26	83	13	67	38	5	36	20	1.75
1717119--1717171	28	1.9	27	85	11	72	39	5	35	18	1.75
1723022--1723046	12	2.1	12	100	0	50	40	0	8	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1726448--1726477	2	15.0	2	92	0	51	50	0	3	46	1.18
1728594--1728667	3	24.7	3	70	10	53	40	2	1	55	1.22
1728594--1728651	25	2.4	24	85	5	73	41	3	1	53	1.28
1730180--1730204	4	6.2	4	100	0	50	24	0	0	76	0.80
1731007--1731094	29	3.1	29	75	10	76	28	3	2	65	1.20
1736022--1736125	30	3.5	30	94	1	174	31	42	0	25	1.56
1741632--1741687	20	2.6	22	94	5	98	33	17	14	33	1.90
1742393--1742526	36	3.7	36	74	3	133	31	18	13	36	1.90
1742389--1742545	36	4.3	36	72	4	118	32	19	13	34	1.91
1742389--1742543	73	2.1	73	95	0	274	31	20	13	34	1.91
1742697--1742779	3	27.7	3	76	9	71	40	1	1	56	1.15
1744293--1744335	14	3.2	13	80	9	50	25	2	2	69	1.12
1744280--1744335	17	3.3	17	73	14	53	26	1	3	67	1.16
1745053--1745108	3	18.7	3	84	0	58	35	0	3	60	1.14
1746603--1746630	11	2.5	11	100	0	56	21	7	0	71	1.09
1747657--1747693	19	1.9	19	100	0	74	21	16	16	45	1.84
1748313--1748384	36	2.0	36	88	0	108	40	19	11	29	1.86
1749099--1749168	34	2.0	34	86	2	95	17	11	8	62	1.52
1752259--1752318	30	2.0	30	100	0	120	33	26	16	23	1.96
1753021--1753054	17	1.9	18	94	5	61	35	20	17	26	1.95
1756096--1756237	54	2.6	54	82	2	178	36	15	21	26	1.93
1756604--1756658	22	2.5	22	85	5	76	32	12	12	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1756949--1756979	4	7.8	4	100	0	62	25	25	0	48	1.52
1757344--1757434	45	2.0	47	89	4	141	25	21	21	30	1.99
1757442--1757780	45	7.5	45	91	0	507	24	22	19	33	1.97
1757476--1757552	25	3.3	24	69	23	74	24	24	18	32	1.97
1757571--1758200	211	3.0	209	75	7	700	25	21	19	33	1.97
1757788--1757946	45	3.5	45	83	1	183	26	22	20	31	1.98
1757712--1757854	76	1.9	74	88	2	214	23	20	21	34	1.97
1757667--1757891	121	1.9	121	91	1	371	24	20	20	34	1.97
1757622--1758230	166	3.6	165	84	4	736	24	21	20	33	1.97
1757956--1758230	45	6.1	45	91	1	408	25	22	20	32	1.98
1757956--1758230	89	3.1	90	91	1	417	25	22	20	32	1.98
1758448--1758510	3	21.0	3	86	0	90	36	0	1	61	1.05
1759966--1760018	11	4.8	11	78	17	56	32	1	0	66	1.03
1759951--1760019	11	6.4	11	74	15	54	27	2	1	68	1.13
1760346--1760401	18	3.0	19	76	16	55	46	8	7	37	1.63
1760711--1760759	25	2.0	25	95	0	89	38	24	20	16	1.92
1762443--1762472	3	9.7	3	92	7	51	33	0	0	66	0.92
1763447--1763483	2	19.0	2	94	5	67	0	51	0	48	1.00
1774487--1774540	16	3.2	16	76	12	56	40	5	0	53	1.24
1774518--1774572	27	2.0	28	82	3	67	38	3	0	58	1.16
1776151--1776222	37	1.9	37	94	5	128	16	15	12	55	1.69
1782001--1782030	2	15.0	2	100	0	60	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)
1802232--1802394	65	2.5	64	81	3	202	26	15	27	30	1.96
1802342--1802381	19	2.1	19	95	0	71	25	15	40	20	1.90
1802827--1802869	21	2.0	21	86	0	59	30	27	25	16	1.97
1802898--1802942	22	2.0	22	86	4	63	28	31	26	13	1.94
1804232--1804449	103	2.1	103	95	0	391	25	12	23	37	1.91
1804465--1804533	23	3.0	23	77	8	77	20	26	24	28	1.99
1832028--1832084	29	2.0	29	86	6	80	31	24	8	35	1.86
1844177--1844213	14	2.6	14	91	0	56	48	24	2	24	1.64
1847990--1848062	22	3.3	22	88	3	112	16	41	24	17	1.90
1863992--1864032	21	2.0	21	95	0	73	34	29	14	21	1.93
1865676--1865733	20	2.7	20	81	10	62	32	18	20	27	1.97
1868293--1868326	17	2.1	16	88	5	50	14	8	0	76	1.01
1873387--1873426	20	2.1	19	85	4	53	27	0	2	70	1.01
1874255--1874319	23	2.8	23	92	0	112	30	27	24	16	1.97
1876051--1876209	63	2.5	62	85	4	194	32	18	22	26	1.97
1877420--1877645	103	2.2	103	99	0	443	26	14	23	35	1.93
1877628--1877663	18	2.0	18	100	0	72	11	22	33	33	1.89
1877525--1877888	121	3.0	121	96	0	665	25	14	24	35	1.93
1877599--1877786	62	3.1	62	62	23	135	24	14	24	36	1.93
1877895--1877955	23	2.7	23	89	0	95	19	26	27	26	1.99
1881749--1881786	19	2.0	20	94	5	69	28	15	28	26	1.96
1883156--1883191	18	2.0	18	88	0	54	13	19	30	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883277--1883312	18	2.0	18	94	0	63	11	19	33	36	1.87
1883057--1883416	121	3.0	121	95	2	631	24	14	24	36	1.93
1883423--1883483	23	2.7	23	92	0	104	19	24	27	27	1.99
1888210--1888253	21	2.0	21	86	4	61	25	31	25	18	1.97
1890531--1890564	17	2.0	17	88	11	52	58	0	32	8	1.29
1890666--1890803	47	3.0	46	76	12	133	24	15	3	55	1.56
1890711--1890824	42	2.7	41	82	5	111	25	15	2	56	1.53
1890659--1890843	43	4.2	43	73	11	144	25	18	3	52	1.62
1891442--1891621	93	1.9	93	98	0	351	35	18	21	25	1.96
1906166--1906421	125	2.0	125	99	0	503	43	10	6	40	1.64

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