genome.fa.s8075.2.7.7.80.10.50.1000.10.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  10  of  10  ( 1176 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)
1743996--1744119	25	5.0	25	95	1	214	32	15	19	33	1.93
1744249--1744304	3	19.0	3	78	10	62	66	1	3	28	1.19
1744549--1744718	90	1.9	89	92	3	288	24	18	29	27	1.98
1744549--1744682	46	3.0	46	68	10	132	24	19	28	27	1.99
1744566--1744708	46	3.2	44	72	10	139	25	18	28	27	1.98
1744582--1744749	43	3.9	44	73	10	125	26	18	27	27	1.98
1758866--1758903	12	3.1	12	88	7	58	0	5	7	86	0.69
1759237--1759360	25	5.0	25	97	1	223	31	15	20	33	1.93
1759490--1759545	3	19.0	3	78	10	62	66	1	3	28	1.19
1763880--1763920	17	2.4	17	88	8	57	58	0	2	39	1.11
1768399--1768431	15	2.2	15	94	0	57	45	0	0	54	0.99
1768320--1768578	125	2.1	125	98	1	502	48	3	4	44	1.38
1768524--1768556	15	2.2	15	94	0	57	45	0	0	54	0.99
1772817--1772860	16	2.8	16	79	3	54	43	25	0	31	1.55
1774534--1774589	28	2.0	28	86	10	78	14	1	17	66	1.34
1777937--1777977	16	2.6	16	92	0	64	56	4	2	36	1.34
1778065--1778289	2	112.0	2	64	21	62	48	3	4	44	1.38
1778085--1778217	13	10.2	13	73	15	96	47	5	3	43	1.43
1778085--1778292	87	2.4	89	78	10	205	48	3	3	44	1.39
1778549--1778653	11	10.2	11	68	20	50	44	2	6	45	1.44
1778940--1778988	15	3.1	15	83	11	71	51	8	0	40	1.32
1778940--1778988	17	3.0	17	88	5	75	51	8	0	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779074--1779124	14	3.7	14	86	2	68	50	23	0	25	1.49
1779060--1779129	14	5.2	13	77	8	59	50	24	0	25	1.50
1779232--1779284	4	13.0	4	85	2	70	26	5	24	43	1.76
1779395--1779444	23	2.2	22	79	6	55	32	2	18	48	1.59
1780542--1780593	23	2.3	23	86	3	70	30	5	17	46	1.71
1780549--1780594	11	4.1	11	80	5	56	30	6	17	45	1.73
1791590--1791636	23	2.0	23	91	0	76	36	14	23	25	1.93
1792080--1792366	32	9.1	32	91	3	410	34	21	18	25	1.96
1797183--1797258	30	2.5	30	80	4	82	44	0	1	53	1.08
1797374--1797430	23	2.5	24	86	11	75	35	0	3	61	1.13
1797959--1798489	126	4.2	127	92	1	897	32	21	23	22	1.98
1797959--1798489	253	2.1	253	93	2	897	32	21	23	22	1.98
1798530--1798998	127	3.7	127	96	0	857	21	24	21	31	1.98
1799510--1799582	23	3.2	23	70	18	62	58	4	0	36	1.17
1799679--1799779	31	3.3	31	78	9	84	59	0	0	40	0.97
1804886--1804913	14	2.0	14	100	0	56	42	21	14	21	1.88
1806431--1806459	15	1.9	15	100	0	58	34	0	3	62	1.12
1809464--1809515	18	3.0	18	76	15	56	30	23	5	40	1.78
1817865--1817897	17	1.9	17	88	11	50	57	12	3	27	1.49
1820938--1821021	20	4.2	19	83	10	87	46	21	13	19	1.83
1821500--1821550	20	2.5	20	80	0	66	15	15	19	49	1.80
1825088--1825207	66	1.9	63	84	8	163	30	0	17	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825491--1825578	39	2.3	39	97	0	167	17	14	20	47	1.82
1825887--1825923	18	2.1	18	89	0	56	51	10	5	32	1.60
1826375--1826433	20	3.0	20	95	5	102	44	23	16	15	1.86
1834712--1834750	6	6.5	6	81	0	51	15	0	23	61	1.33
1834712--1834750	18	2.2	18	95	0	69	15	0	23	61	1.33
1836818--1836860	3	14.3	3	95	0	77	0	32	0	67	0.91
1837032--1837085	24	2.2	24	86	0	72	38	24	16	20	1.92
1837900--1837971	19	3.7	19	94	3	117	29	11	22	37	1.88
1838039--1838083	20	2.2	20	92	0	72	22	15	31	31	1.95
1838046--1838126	19	4.2	19	91	1	99	22	14	29	33	1.94
1838058--1838128	19	3.7	19	92	1	106	19	15	30	33	1.93
1840206--1840267	30	2.1	30	84	0	79	20	20	25	32	1.98
1845263--1845386	31	4.0	31	78	5	133	29	17	21	31	1.96
1845373--1845445	30	2.4	30	86	0	92	20	21	27	30	1.98
1847976--1848003	6	4.7	6	100	0	56	14	0	0	85	0.59
1849197--1849278	29	2.9	27	71	16	76	53	7	10	28	1.62
1849712--1849762	20	2.5	20	100	0	102	62	7	29	0	1.23
1853483--1853524	22	1.9	22	90	0	66	30	14	7	47	1.71
1861276--1861406	65	2.0	65	92	2	219	39	6	6	47	1.55
1861869--1861957	23	4.0	22	76	5	72	55	15	15	13	1.70
1862217--1862262	18	2.6	18	86	3	58	30	0	0	69	0.89
1864258--1864329	14	5.6	13	76	17	62	54	0	2	43	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870946--1870979	12	2.8	12	95	0	59	17	38	26	17	1.92
1884496--1884550	20	2.8	19	75	5	56	38	16	9	36	1.80
1885578--1885747	75	2.2	77	83	4	229	41	7	14	35	1.75
1886136--1886270	70	1.9	72	81	3	166	30	11	11	47	1.74
1889468--1889525	7	7.2	8	83	11	50	6	6	1	84	0.84
1900769--1901946	105	11.4	105	93	3	2014	33	24	18	23	1.97
1901509--1901663	43	3.4	43	68	14	132	34	25	18	21	1.96
1901189--1901946	198	3.7	198	91	5	1151	33	25	18	23	1.97
1903606--1903650	18	2.5	18	81	0	54	15	4	0	80	0.87
1903610--1903650	15	2.7	16	81	11	50	14	4	0	80	0.87
1903606--1903635	9	3.3	9	95	0	51	13	0	0	86	0.57
1903903--1903961	10	5.8	10	76	11	57	6	10	1	81	0.94
1903910--1903949	22	1.9	20	85	10	53	5	7	2	85	0.83
1904616--1904672	21	2.8	20	86	5	78	33	0	28	38	1.57
1906958--1906986	8	3.6	8	100	0	58	24	0	0	75	0.80
1907483--1907559	2	38.5	2	97	0	145	1	0	48	50	1.09
1907557--1907619	4	16.2	4	84	12	87	25	1	25	47	1.61
1911875--1911943	29	2.3	30	85	2	95	24	2	4	68	1.22
1912691--1912739	23	2.1	23	92	0	80	61	4	4	30	1.33
1915502--1915546	2	23.5	2	91	8	76	48	0	0	51	1.00
1916651--1916683	13	2.4	14	90	5	50	66	0	3	30	1.06
1917191--1917231	21	2.0	20	86	13	57	24	4	17	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917350--1917428	31	2.5	31	89	0	113	39	5	8	46	1.57
1931274--1931436	3	54.3	3	91	0	254	34	4	0	61	1.16
1936909--1936941	15	2.3	15	89	5	50	48	0	3	48	1.17
1944172--1944212	14	3.0	14	89	10	59	78	0	14	7	0.96
1944173--1944245	26	2.8	24	80	12	74	80	0	16	2	0.82
1944187--1944247	31	1.9	32	87	9	90	80	0	18	1	0.80
1944174--1944245	13	5.7	12	75	16	65	81	0	15	2	0.79
1946328--1946872	110	5.0	112	91	5	837	37	13	18	29	1.90

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

The End!