genome.fa.s8893.2.7.7.80.10.50.1000.10.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

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

This is table  10  of  13  ( 1547 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)
1876661--1876691	6	5.2	6	96	0	53	16	38	29	16	1.90
1886755--1886867	60	1.9	60	87	3	165	33	20	14	31	1.92
1887078--1887215	60	2.3	60	79	2	152	39	15	14	31	1.87
1888582--1888628	23	2.0	23	95	0	85	55	21	0	23	1.44
1888758--1888791	16	2.1	16	94	0	59	52	0	0	47	1.00
1894224--1894258	17	2.0	18	88	5	54	40	5	2	51	1.40
1894537--1894593	22	2.7	21	81	10	71	43	0	0	56	0.99
1894541--1894593	21	2.5	21	80	17	65	43	0	0	56	0.99
1896883--1896943	2	31.5	2	93	6	108	50	0	0	49	1.00
1896886--1896947	19	3.1	21	88	11	103	50	0	0	50	1.00
1899222--1899266	19	2.4	19	100	0	90	22	8	22	46	1.79
1900693--1900767	37	2.0	37	92	0	123	44	18	10	26	1.83
1903427--1903515	31	2.9	31	79	3	108	43	12	4	39	1.63
1903863--1903915	23	2.3	23	87	3	72	28	5	0	66	1.15
1903951--1904001	27	1.9	26	84	11	68	58	3	5	31	1.40
1907653--1907682	14	2.1	14	93	0	51	43	0	6	50	1.28
1907944--1908015	35	2.1	35	100	0	144	37	13	5	43	1.68
1916757--1916801	20	2.2	20	92	0	72	37	11	24	26	1.89
1930182--1930213	15	2.1	16	94	5	57	50	28	6	15	1.68
1950532--1952760	182	12.5	182	90	4	3501	40	13	17	28	1.87
1954315--1954432	56	2.1	57	81	10	136	34	12	19	33	1.90
1956168--1956219	19	2.7	19	77	19	54	19	1	7	71	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957815--1958122	153	2.0	153	92	7	518	31	19	12	36	1.89
1966852--1966928	28	2.6	29	79	6	84	71	6	18	3	1.23
1968608--1968679	23	3.2	23	73	15	87	36	2	2	58	1.27
1968801--1968862	22	2.8	23	77	18	69	43	1	1	53	1.20
1975970--1975999	2	15.0	2	100	0	60	50	0	0	50	1.00
1976627--1976708	30	2.7	31	88	5	123	45	4	9	40	1.59
1980411--1980464	27	2.0	27	100	0	108	37	18	18	25	1.94
1984560--1984621	29	2.1	29	81	0	70	35	25	4	33	1.78
1985225--1985249	2	12.5	2	100	0	50	0	52	0	48	1.00
1987179--1987210	6	5.3	6	100	0	64	50	34	15	0	1.45
1994646--1994794	72	2.1	72	88	0	226	37	18	16	27	1.92
1996714--1996841	30	4.3	30	87	4	195	35	20	20	23	1.96
2000686--2000721	18	2.0	18	89	10	56	44	25	5	25	1.75
2001496--2001545	26	1.9	26	88	8	75	38	20	6	36	1.77
2002824--2002852	2	14.5	2	100	0	58	51	0	0	48	1.00
2006028--2006060	16	1.9	18	88	11	52	24	0	9	66	1.20
2006139--2006173	11	3.0	12	87	8	54	42	0	0	57	0.99
2007012--2007050	19	2.1	19	90	0	60	20	41	15	23	1.90
2006992--2007159	64	2.6	64	81	7	191	30	26	15	27	1.96
2007128--2007176	19	2.6	19	84	9	57	24	30	18	26	1.98
2016197--2016249	19	2.7	19	85	2	61	39	33	7	18	1.79
2016261--2016299	20	2.0	20	89	0	60	41	17	15	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016359--2016406	20	2.4	19	89	6	69	29	20	12	37	1.90
2017343--2017425	24	3.5	24	96	0	148	20	21	20	37	1.95
2021461--2021536	21	3.7	20	78	3	80	22	19	34	23	1.97
2021681--2021734	4	13.5	4	84	0	72	68	3	1	25	1.16
2023534--2023572	20	2.0	20	100	0	78	15	5	20	58	1.55
2023907--2023964	22	2.6	22	86	0	80	22	20	39	17	1.92
2024068--2024105	20	2.0	20	89	5	60	47	13	13	26	1.79
2024076--2024115	19	2.0	20	85	4	55	40	17	17	25	1.91
2024112--2024181	20	3.5	20	84	2	77	25	11	22	40	1.88
2024127--2024184	20	2.9	20	92	0	89	25	10	27	36	1.89
2024953--2024977	2	12.5	2	100	0	50	52	0	0	48	1.00
2027355--2027388	17	1.9	18	88	5	52	41	0	0	58	0.98
2028144--2028219	31	2.5	31	80	0	89	31	10	13	44	1.77
2029351--2029412	18	3.5	18	68	4	63	17	11	11	59	1.60
2029826--2029878	21	2.5	21	81	6	72	20	24	18	35	1.95
2029870--2030002	20	6.6	20	79	6	151	39	18	20	21	1.92
2029865--2030002	41	3.4	40	78	12	131	39	17	19	23	1.92
2030579--2030623	19	2.4	19	84	0	63	46	26	15	11	1.79
2030619--2030778	19	9.1	19	68	21	98	12	24	20	43	1.86
2030641--2030726	14	5.4	14	70	24	64	9	25	23	41	1.84
2030624--2030753	33	3.9	33	95	1	206	11	24	21	42	1.86
2032923--2032989	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2032871--2032989	42	2.8	42	81	5	107	22	36	18	22	1.95
2034342--2034377	14	2.6	14	95	0	63	30	0	25	44	1.54
2034484--2034542	19	3.4	19	71	22	65	45	18	22	13	1.84
2034484--2034563	33	2.4	33	91	0	124	46	21	21	11	1.82
2034569--2034719	19	8.7	19	64	21	80	15	21	19	43	1.88
2034573--2034699	33	3.9	32	87	8	193	14	22	18	44	1.87
2034566--2034698	66	2.0	66	94	2	232	16	21	18	42	1.89
2036160--2036227	20	3.4	19	68	8	55	42	23	19	14	1.88
2036158--2036281	34	3.5	34	88	6	149	43	20	19	16	1.88
2036197--2036282	34	2.5	34	96	0	154	41	20	19	17	1.90
2036293--2036346	14	3.5	14	77	22	63	11	20	20	48	1.80
2036275--2036345	33	2.2	33	84	0	88	19	19	21	39	1.93
2036465--2036501	14	2.6	14	86	0	56	48	21	0	29	1.50
2038300--2038367	20	3.5	20	81	2	84	39	22	22	16	1.92
2038356--2038414	14	3.9	14	76	20	64	49	25	16	8	1.74
2038340--2038430	19	5.3	18	71	24	72	47	25	17	9	1.78
2038340--2038419	33	2.4	33	97	0	151	47	23	18	10	1.79
2038426--2038545	19	7.1	17	69	24	78	10	17	21	50	1.77
2038448--2038539	14	5.9	14	72	22	76	9	15	23	51	1.73
2038431--2038545	33	3.5	33	96	0	203	10	16	21	51	1.74
2038552--2038594	20	2.2	20	86	0	59	16	23	25	34	1.95
2038648--2038685	18	2.1	19	95	5	69	76	21	2	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2038651--2038685	6	5.7	6	89	3	52	77	20	2	0	0.90
2039144--2039188	18	2.5	18	88	0	72	13	15	44	26	1.83
2040507--2040565	20	3.0	20	87	0	73	42	22	18	16	1.89
2040828--2040871	22	2.0	22	90	0	70	18	13	45	22	1.84
2041060--2041111	20	2.6	20	93	0	86	25	21	28	25	1.99
2041039--2041150	20	5.5	20	77	9	84	23	18	24	33	1.97
2041225--2041265	21	2.0	21	85	0	55	34	29	17	19	1.94
2044531--2044565	2	17.5	2	100	0	70	51	0	0	48	1.00
2044923--2044995	32	2.3	32	80	0	83	31	27	13	27	1.94
2046043--2046338	30	9.9	30	95	0	531	30	27	16	26	1.96
2046043--2046338	149	2.0	150	96	0	549	30	27	16	26	1.96
2048304--2048347	22	2.1	21	83	8	54	54	4	4	36	1.41
2048585--2048631	19	2.5	19	100	0	94	38	6	4	51	1.47
2055910--2055941	15	2.1	15	94	0	55	25	18	9	46	1.79
2060095--2060220	42	3.1	41	65	22	113	45	23	15	15	1.84
2060066--2060182	36	3.1	36	64	21	94	44	22	12	20	1.85
2063272--2063334	4	15.5	4	80	9	74	79	0	20	0	0.73
2063299--2063350	9	5.4	9	82	14	52	84	0	15	0	0.62
2063283--2063349	12	6.0	11	84	11	75	83	0	16	0	0.64
2063279--2063338	29	2.1	29	87	9	88	83	0	16	0	0.65
2063277--2063350	8	9.2	8	84	8	71	81	0	18	0	0.70
2064704--2065518	83	9.7	83	92	4	1348	26	12	23	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2065272--2065570	93	3.3	92	83	11	420	30	12	22	35	1.91
2065181--2065570	176	2.2	176	97	0	726	30	12	21	35	1.91
2066053--2066250	95	2.1	95	97	0	369	37	14	15	32	1.88
2066548--2067440	112	8.0	112	95	1	1544	37	16	18	26	1.92
2066548--2067440	225	4.0	224	95	1	1544	37	16	18	26	1.92
2067679--2067727	3	16.0	3	82	4	53	42	0	0	57	0.99
2067672--2067735	9	7.2	9	75	8	60	45	0	0	54	0.99
2068158--2068193	18	1.9	19	88	5	56	66	22	11	0	1.22
2069586--2069644	17	3.5	17	92	0	100	35	20	3	40	1.69
2070012--2070069	2	30.0	2	93	6	102	0	50	0	50	1.00

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