genome.fa.s1111.2.7.7.80.10.50.1000.7.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  7  of  17  ( 1987 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)
1549832--1549877	18	2.5	18	89	3	65	45	2	19	32	1.62
1549843--1549946	18	5.9	18	77	6	88	40	0	23	35	1.61
1557283--1557361	41	2.0	40	87	7	115	18	26	10	44	1.82
1559435--1559537	23	4.5	23	83	0	98	19	21	21	37	1.94
1559435--1559537	46	2.2	46	86	3	136	19	21	21	37	1.94
1559656--1559724	6	11.5	6	82	0	66	39	1	24	34	1.65
1559654--1559724	18	4.0	17	81	5	79	38	1	25	35	1.65
1562855--1563017	37	4.4	37	79	4	152	31	17	12	38	1.87
1563040--1563137	21	5.2	21	64	30	78	23	20	11	44	1.83
1563034--1563217	36	5.1	36	89	2	273	21	21	13	43	1.86
1563034--1563227	71	2.7	72	87	2	266	23	21	12	43	1.86
1563273--1563554	133	2.1	133	79	5	298	27	30	15	26	1.96
1567606--1567656	19	2.6	19	87	3	66	33	29	13	23	1.93
1567790--1567839	26	1.9	26	83	0	64	32	16	14	38	1.88
1568692--1568735	19	2.3	19	96	0	79	38	6	47	6	1.57
1569005--1569042	20	2.0	20	84	5	51	44	13	15	26	1.83
1570632--1570693	28	2.2	29	85	2	81	22	12	14	50	1.77
1571053--1571105	21	2.5	21	81	6	72	20	26	18	33	1.96
1571095--1571146	21	2.5	20	84	3	59	38	19	23	19	1.93
1571136--1571208	20	3.7	20	83	0	92	30	27	15	27	1.96
1571395--1571438	22	2.0	22	95	0	79	20	45	15	18	1.85
1571700--1571758	20	3.0	20	84	0	64	15	18	20	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573079--1573123	18	2.5	18	92	0	81	26	48	8	15	1.74
1573657--1573723	20	3.4	20	77	2	64	38	22	22	16	1.92
1573696--1573778	19	4.6	19	76	14	104	45	19	21	13	1.84
1573785--1573909	20	6.7	19	80	11	71	13	21	23	41	1.88
1573844--1573909	20	3.3	20	95	0	114	15	24	25	34	1.94
1573855--1573935	20	4.1	19	85	6	81	20	18	25	34	1.96
1573836--1573929	40	2.4	39	82	5	116	18	20	25	36	1.95
1574282--1574350	21	3.3	20	74	6	66	24	40	15	18	1.90
1574272--1574362	41	2.2	42	86	2	130	21	40	15	21	1.90
1575765--1575803	14	2.8	14	84	0	51	35	0	17	46	1.49
1575940--1576007	19	3.8	19	85	14	101	47	17	22	13	1.82
1576041--1576087	20	2.3	20	96	0	85	17	23	23	36	1.95
1576301--1576372	20	3.5	20	75	3	72	18	19	19	43	1.89
1576360--1576408	20	2.4	20	86	3	62	22	22	16	38	1.92
1577408--1577432	12	2.1	12	100	0	50	72	0	28	0	0.86
1579761--1579885	19	7.4	19	66	24	82	46	16	22	14	1.83
1579776--1579833	14	3.8	14	73	20	53	46	18	22	12	1.82
1579761--1579886	33	3.8	33	92	0	198	46	17	22	14	1.84
1579892--1579963	19	4.1	19	76	20	75	11	15	23	50	1.76
1579903--1580028	33	3.8	33	92	2	191	13	19	21	46	1.84
1579937--1580028	19	5.4	19	71	24	96	15	20	18	45	1.85
1580135--1580171	14	2.6	14	91	0	65	45	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581525--1581585	21	3.0	20	73	7	59	21	18	36	24	1.95
1581564--1581643	42	1.9	42	84	0	106	22	17	38	21	1.93
1581808--1581992	91	2.0	90	88	6	273	47	17	12	22	1.82
1583678--1583799	20	6.8	19	70	20	102	45	18	22	12	1.83
1583727--1583782	14	3.6	14	74	21	58	42	21	25	10	1.85
1583678--1583799	33	3.5	33	85	7	154	45	18	22	12	1.83
1584378--1584489	20	5.6	20	80	4	118	21	18	21	38	1.94
1584486--1584545	20	2.9	21	75	5	59	41	16	21	20	1.90
1584602--1584682	21	4.0	20	75	10	83	32	18	24	24	1.97
1587684--1587716	14	2.4	14	94	0	57	54	0	3	42	1.15
1592988--1593012	6	4.2	6	100	0	50	36	48	16	0	1.46
1603512--1603551	18	2.2	18	100	0	80	47	17	17	17	1.83
1605181--1605209	3	9.7	3	100	0	58	68	0	0	31	0.89
1605213--1605342	26	5.1	27	68	20	75	47	6	2	43	1.43
1605262--1605345	29	3.2	26	83	11	107	45	7	3	44	1.48
1605292--1605424	46	2.9	46	76	17	134	41	10	3	45	1.54
1605241--1605420	21	7.7	22	73	14	105	42	8	2	45	1.49
1606113--1606231	50	2.4	51	82	2	134	25	15	21	36	1.93
1607672--1607708	19	2.1	18	90	10	58	37	10	5	45	1.62
1614423--1614447	12	2.1	12	100	0	50	40	8	8	44	1.63
1621420--1621461	21	2.0	21	95	0	75	26	28	21	23	1.99
1621569--1621634	19	3.5	19	89	0	87	36	13	12	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624231--1624272	21	2.0	21	90	0	66	28	26	21	23	1.99
1624380--1624439	29	2.0	31	90	6	97	41	16	6	35	1.75
1626794--1626818	12	2.1	12	100	0	50	32	8	8	52	1.60
1626899--1626958	29	2.0	31	90	6	97	41	16	6	35	1.75
1628776--1628839	24	2.7	24	85	4	76	21	17	26	34	1.95
1631455--1631501	18	2.7	17	80	6	58	70	2	6	21	1.20
1633714--1633739	2	13.0	2	100	0	52	50	0	0	50	1.00
1633712--1633763	12	4.1	13	73	11	54	51	1	0	46	1.12
1633716--1633783	27	2.4	28	81	13	77	50	4	0	45	1.22
1633752--1633804	20	2.6	20	82	11	63	43	5	1	49	1.37
1633752--1633806	21	2.7	20	81	10	58	43	5	1	49	1.36
1633802--1633882	25	3.2	26	77	16	80	44	7	6	41	1.57
1635299--1635507	65	3.2	63	80	12	228	31	24	17	26	1.97
1641243--1641282	21	1.9	21	84	0	53	35	22	22	20	1.96
1641204--1641301	23	4.5	22	75	13	87	29	24	20	25	1.99
1647580--1647621	21	2.1	19	83	16	50	40	11	2	45	1.54
1651926--1652077	56	2.5	59	78	14	159	31	21	17	29	1.96
1651943--1652060	57	2.1	55	80	10	132	32	22	17	27	1.96
1653755--1653866	54	2.1	54	96	0	206	40	19	10	29	1.85
1654294--1654337	20	2.1	21	83	4	54	29	6	6	56	1.51
1666101--1666466	57	6.6	57	86	4	435	32	20	10	36	1.87
1666105--1666466	114	3.2	113	87	4	479	32	20	10	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671448--1671816	57	6.6	57	84	3	401	32	19	11	37	1.87
1672163--1672216	19	2.6	21	77	8	58	31	11	14	42	1.81
1672291--1672318	14	2.0	14	100	0	56	28	35	0	35	1.58
1684536--1684592	29	2.0	29	96	0	105	19	22	24	33	1.97
1688784--1688838	21	2.7	20	88	5	83	25	9	29	36	1.87
1688885--1688923	21	1.9	20	89	5	60	25	15	23	35	1.94
1698325--1698948	312	2.0	314	91	1	1022	36	20	11	31	1.89
1701635--1701671	15	2.5	15	95	0	65	18	2	56	21	1.54
1704103--1704161	20	3.0	20	94	0	100	32	20	20	27	1.97
1704255--1704295	20	2.1	20	86	13	59	31	19	21	26	1.97
1704378--1704428	20	2.5	20	93	0	84	25	15	31	27	1.96
1703988--1704547	135	4.1	136	89	2	822	32	16	18	31	1.94
1707264--1707311	12	3.5	14	77	13	55	62	0	2	35	1.07
1713863--1714005	60	2.4	60	98	0	277	31	17	18	32	1.95
1716857--1717268	81	5.1	81	90	0	572	32	21	10	35	1.88
1721278--1721373	27	3.6	27	94	0	156	54	2	23	19	1.55
1724846--1725241	198	2.0	201	93	1	681	34	19	16	29	1.94
1726548--1726622	3	25.0	3	81	5	80	62	0	5	32	1.17
1733643--1733682	21	1.9	21	89	0	62	25	40	25	10	1.86
1737275--1737318	19	2.4	19	92	3	72	75	2	0	22	0.92
1737282--1737318	10	3.8	10	85	7	58	72	2	0	24	0.97
1737354--1737437	27	3.2	27	83	9	95	48	4	3	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1737457--1737488	12	2.7	12	95	0	55	46	9	0	43	1.35
1737395--1737721	37	8.9	37	77	10	246	45	7	3	44	1.46
1737395--1737716	146	2.2	145	81	12	379	45	6	3	44	1.46
1737711--1737776	2	34.0	2	83	6	73	54	4	0	40	1.21
1739421--1739546	60	2.1	60	83	5	157	37	18	12	31	1.88
1744651--1744690	21	1.9	21	84	0	53	42	5	15	37	1.68
1746287--1746326	21	1.9	21	89	0	62	27	25	20	27	1.99
1746849--1746958	40	2.8	40	90	0	166	34	28	12	24	1.92
1748499--1748604	45	2.3	45	83	4	124	32	19	18	29	1.96
1749113--1749138	2	13.0	2	100	0	52	50	0	0	50	1.00

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