genome.fa.s9072.2.7.7.80.10.50.1000.9.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: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2600608

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1560 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)
1646932--1646999	31	2.2	31	97	0	127	38	14	19	27	1.91
1651454--1651494	21	2.0	21	95	0	73	7	29	41	21	1.80
1652219--1652265	24	2.0	24	82	0	58	61	8	8	21	1.51
1652901--1653040	21	6.7	20	73	16	115	22	20	22	34	1.97
1652901--1653037	42	3.3	42	95	0	238	21	20	23	35	1.96
1653128--1653189	5	12.0	5	92	1	61	37	37	25	0	1.57
1653167--1653197	5	6.4	5	96	3	55	35	22	41	0	1.54
1653827--1654004	21	8.6	20	78	14	175	23	22	22	31	1.98
1653808--1653985	41	4.3	40	73	19	161	24	22	20	32	1.98
1653827--1654004	83	2.1	83	82	10	204	23	22	22	31	1.98
1653804--1653988	62	3.0	62	95	0	334	24	22	20	32	1.98
1654789--1654844	20	2.8	19	72	20	51	28	21	16	33	1.95
1654826--1654867	21	2.0	21	85	0	57	33	26	16	23	1.96
1654859--1654951	21	4.4	21	93	0	159	19	25	24	30	1.98
1655630--1655690	21	2.9	21	95	0	113	29	21	27	21	1.98
1655714--1655758	21	2.1	21	87	0	63	44	20	17	17	1.87
1659294--1659327	16	2.1	16	94	0	59	44	20	8	26	1.81
1661957--1661996	20	1.9	22	85	10	57	52	0	7	40	1.30
1663663--1663689	3	9.0	3	100	0	54	33	0	0	66	0.92
1664642--1664827	94	2.0	93	96	2	345	34	15	11	38	1.84
1667570--1667640	31	2.3	31	87	0	97	36	8	11	43	1.71
1668806--1668914	21	5.2	21	75	0	92	35	23	15	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668807--1668914	42	2.6	42	80	0	126	36	23	15	25	1.94
1674021--1674084	17	3.8	17	78	0	65	42	17	10	29	1.83
1679596--1679715	34	3.5	34	94	2	213	60	2	0	36	1.10
1683820--1683882	18	3.5	18	80	0	63	36	9	41	12	1.76
1684887--1685054	85	2.0	83	87	4	239	63	7	10	17	1.49
1687065--1687089	9	2.8	9	100	0	50	80	0	0	20	0.72
1687130--1687212	42	2.0	42	86	9	118	56	7	4	31	1.47
1687373--1687540	8	21.1	8	68	23	65	63	1	2	33	1.15
1687409--1687596	2	101.5	2	69	20	79	57	1	3	37	1.24
1695065--1695100	4	8.5	4	93	6	54	75	0	2	22	0.94
1695153--1695234	42	2.0	42	84	13	111	56	6	4	32	1.45
1695250--1695326	41	1.9	39	84	5	100	46	6	29	16	1.72
1695448--1695476	2	14.5	2	100	0	58	51	0	0	48	1.00
1695662--1695686	2	12.5	2	100	0	50	52	0	0	48	1.00
1695742--1695777	18	2.1	18	89	5	56	66	2	5	25	1.27
1696158--1696226	35	2.0	35	100	0	138	28	17	11	42	1.84
1697188--1697212	12	2.1	12	100	0	50	52	0	8	40	1.31
1699995--1700048	22	2.5	22	84	6	65	22	25	22	29	1.99
1707430--1707471	22	1.9	22	90	0	66	26	21	30	21	1.98
1708638--1708744	24	4.5	24	71	0	88	48	16	12	22	1.79
1708638--1708746	48	2.3	48	78	0	128	48	16	12	22	1.80
1711224--1711297	13	5.4	13	79	17	87	17	21	44	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711224--1711278	25	2.2	26	90	3	85	18	21	43	16	1.88
1713430--1713535	24	4.5	24	69	1	79	48	16	12	22	1.80
1716009--1716082	13	5.4	13	79	17	87	17	21	44	16	1.86
1716009--1716063	25	2.2	26	90	3	85	18	21	43	16	1.88
1720407--1720459	21	2.5	21	96	0	97	35	16	13	33	1.88
1730841--1730893	22	2.4	22	83	3	61	50	0	11	37	1.38
1731990--1732029	2	20.0	2	100	0	80	50	0	0	50	1.00
1732924--1732949	12	2.2	12	100	0	52	15	34	0	50	1.45
1739575--1739636	31	2.0	31	96	0	115	33	14	16	35	1.89
1740235--1740276	20	2.0	22	86	13	61	23	11	9	54	1.66
1743881--1744395	39	14.1	36	75	12	288	28	19	14	37	1.91
1743878--1744145	39	7.0	39	89	3	348	26	19	17	36	1.93
1743999--1744061	20	3.2	20	65	13	58	20	15	20	42	1.89
1744090--1744284	66	2.9	67	88	3	295	31	18	13	36	1.90
1744238--1744396	74	2.1	74	84	6	207	31	20	13	35	1.91
1744710--1745098	105	3.7	105	85	3	514	40	17	17	24	1.91
1745021--1745389	91	4.1	91	87	3	487	39	16	18	25	1.91
1748225--1748266	15	2.7	16	82	14	52	33	4	4	57	1.41
1751770--1751795	11	2.4	11	100	0	52	84	0	0	15	0.62
1763657--1763713	2	28.5	2	100	0	114	49	0	0	50	1.00
1773013--1773092	29	2.8	29	88	3	126	32	12	16	38	1.86
1777733--1777812	29	2.8	29	92	3	135	32	13	16	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783709--1783751	16	2.8	16	86	6	54	23	13	0	62	1.31
1789110--1789196	16	5.4	16	88	0	120	21	26	11	40	1.87
1789389--1789421	11	3.2	11	83	16	52	60	0	0	39	0.97
1789459--1789505	14	3.7	14	71	26	50	44	0	4	51	1.21
1789458--1789507	23	2.1	24	96	3	93	48	0	4	48	1.20
1789667--1789731	14	4.7	14	80	3	69	23	0	27	49	1.50
1789812--1789837	11	2.4	11	100	0	52	38	0	7	53	1.30
1789819--1789868	20	2.4	21	76	6	57	40	8	6	46	1.58
1790203--1790279	41	1.9	40	86	2	109	27	0	23	49	1.50
1790354--1790381	11	2.5	11	100	0	56	39	0	7	53	1.28
1790276--1790372	49	2.0	48	87	2	140	34	7	8	50	1.60
1790363--1790412	20	2.4	21	76	6	57	40	8	6	46	1.58
1789589--1792621	542	5.8	541	90	6	4546	36	8	12	42	1.73
1790747--1790816	20	3.5	20	75	9	70	24	0	27	48	1.51
1790813--1790899	45	1.9	46	90	2	140	32	8	8	51	1.60
1791271--1791331	14	4.5	13	71	17	52	27	0	22	49	1.50
1791261--1791337	41	1.9	40	86	7	111	28	0	22	49	1.50
1791412--1791439	11	2.5	11	100	0	56	39	0	7	53	1.28
1791334--1791430	49	2.0	48	87	2	140	34	7	8	50	1.60
1791421--1791470	20	2.4	21	76	6	57	40	8	6	46	1.58
1792319--1792377	21	2.9	21	80	7	68	22	0	23	54	1.45
1792416--1792477	2	31.0	2	93	6	108	50	1	0	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792641--1792708	7	10.0	7	72	3	50	19	0	35	45	1.50
1792855--1792933	23	3.3	23	68	23	65	44	15	5	35	1.68
1793206--1793261	21	2.4	24	80	14	64	57	1	1	39	1.20
1807047--1807119	33	2.2	32	85	9	94	49	0	0	50	1.00
1807951--1808003	20	2.6	21	87	3	81	22	30	22	24	1.99
1810976--1811015	21	1.9	21	94	0	71	32	10	7	50	1.64
1811234--1811292	21	2.7	22	87	10	77	23	37	18	20	1.94
1811316--1811390	20	3.8	19	87	7	105	16	34	21	28	1.94
1814733--1814762	15	2.0	15	100	0	60	0	6	13	80	0.91
1815635--1815699	31	2.0	33	85	5	89	36	18	0	44	1.50
1818317--1818511	95	2.1	95	92	3	322	24	17	11	46	1.82
1823298--1823433	39	3.5	39	83	5	168	41	21	18	19	1.91
1825380--1825522	69	2.1	69	93	0	241	39	20	14	25	1.91
1830831--1830855	3	8.3	3	100	0	50	68	32	0	0	0.90
1853896--1853922	14	1.9	14	100	0	54	44	29	0	25	1.54
1853896--1853930	8	4.6	8	86	13	56	42	31	0	25	1.55
1854143--1854184	17	2.4	17	88	4	57	45	2	0	52	1.13
1854153--1854181	14	2.0	15	93	6	51	51	0	0	48	1.00
1854185--1854224	19	2.0	21	85	9	57	57	7	0	35	1.27
1854575--1854739	82	2.0	84	91	8	275	44	15	1	38	1.55
1857401--1857522	61	2.0	61	100	0	244	31	24	21	22	1.98
1861009--1861083	31	2.5	31	80	6	91	49	5	13	32	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862593--1862658	18	3.7	18	87	0	96	30	10	16	42	1.82
1862788--1862868	41	2.0	41	90	0	126	23	14	17	44	1.86
1862987--1863014	3	9.3	3	100	0	56	67	32	0	0	0.91
1866394--1866459	30	2.2	30	86	5	89	60	10	0	28	1.30
1868313--1868400	25	3.5	25	95	3	151	48	6	13	30	1.68
1868829--1868873	19	2.3	20	80	3	56	48	2	6	42	1.41
1868911--1868994	32	2.7	31	81	7	89	45	2	3	48	1.32
1868942--1868992	20	2.5	22	84	9	63	45	0	1	52	1.12
1868964--1869015	26	2.0	25	84	7	59	46	0	0	53	1.00
1868957--1869003	20	2.4	19	80	13	51	42	0	0	57	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13