genome.fa.s7754.2.7.7.80.10.50.1000.7.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

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

This is table  7  of  15  ( 1710 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)
1516237--1516291	27	2.0	27	82	0	65	34	10	9	45	1.71
1518080--1518109	14	2.2	13	94	5	51	43	13	16	26	1.85
1521722--1521787	31	2.2	30	83	2	78	24	18	15	42	1.88
1534276--1534378	30	3.4	30	97	0	188	31	24	20	24	1.98
1534352--1534445	31	3.1	30	75	4	89	30	23	18	27	1.97
1534276--1534403	60	2.1	61	88	1	186	32	25	19	22	1.97
1534361--1534456	31	3.1	30	74	12	88	32	20	19	27	1.97
1534630--1534654	4	6.2	4	100	0	50	48	24	0	28	1.52
1535459--1535501	21	2.0	21	81	0	50	18	25	27	27	1.98
1542246--1542284	16	2.4	16	87	8	53	41	28	2	28	1.69
1543798--1543858	17	3.6	17	68	12	54	27	6	13	52	1.64
1547272--1547296	12	2.1	12	100	0	50	32	16	36	16	1.90
1563924--1564035	3	36.7	3	85	3	152	37	0	0	61	1.02
1564046--1564096	25	2.0	26	96	3	95	41	31	15	11	1.83
1565384--1565431	15	2.9	15	80	17	51	56	0	0	43	0.99
1568272--1568832	187	3.0	186	89	3	864	26	20	13	39	1.89
1587398--1587474	31	2.5	31	78	2	82	27	29	27	15	1.96
1588358--1588426	17	4.1	17	94	0	111	15	21	43	18	1.88
1588440--1588482	9	4.7	9	82	5	59	32	27	23	16	1.96
1588440--1588483	19	2.4	19	88	3	63	31	27	22	18	1.97
1594739--1594815	31	2.5	31	78	2	82	28	31	25	14	1.95
1595648--1595692	21	2.1	21	83	0	54	31	28	22	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596274--1596308	18	1.9	18	88	11	54	54	5	17	22	1.64
1596365--1596408	22	2.0	22	86	4	63	45	0	22	31	1.53
1597180--1597483	149	2.0	149	99	0	599	27	17	20	34	1.95
1597462--1597506	23	2.0	23	86	0	63	20	24	28	26	1.99
1598934--1598970	17	2.2	17	100	0	74	16	24	43	16	1.87
1598964--1599016	19	2.8	19	97	0	97	22	33	26	16	1.96
1598966--1599034	9	7.1	10	73	12	63	26	31	23	18	1.97
1602392--1602442	21	2.5	20	76	20	59	45	0	1	52	1.12
1606609--1606850	121	2.0	120	92	0	403	38	9	19	32	1.85
1609848--1609991	60	2.4	59	78	6	166	36	17	16	29	1.92
1610007--1610051	23	2.0	23	82	8	56	35	2	13	48	1.54
1610323--1610353	7	4.4	7	91	0	53	58	0	0	41	0.98
1610283--1610335	18	2.8	20	71	8	56	56	0	3	39	1.17
1610371--1610414	15	3.2	15	75	18	51	65	0	0	34	0.93
1610307--1610459	8	18.8	8	67	19	68	62	3	1	32	1.22
1610431--1610489	25	2.3	26	76	2	66	59	1	1	37	1.18
1610748--1610830	17	4.9	17	79	13	82	32	0	2	65	1.06
1610748--1610847	26	3.9	24	75	18	78	31	0	2	67	1.02
1610747--1610828	18	4.8	17	78	15	80	30	0	2	67	1.04
1610744--1610828	36	2.4	36	83	9	97	30	0	2	67	1.04
1610748--1610830	8	9.8	8	76	17	78	32	0	2	65	1.06
1612319--1612536	73	2.9	72	83	8	233	40	3	5	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612294--1612602	37	8.2	36	75	12	239	42	3	6	46	1.48
1613919--1613950	13	2.5	13	95	5	57	31	0	0	68	0.90
1613919--1613950	6	5.2	6	92	7	55	31	0	0	68	0.90
1615060--1615179	42	2.9	42	98	0	231	15	20	19	44	1.87
1615387--1615436	21	2.2	22	79	13	57	60	0	0	40	0.97
1615423--1615514	28	3.1	30	75	15	84	44	1	2	52	1.20
1615429--1615487	21	2.7	22	82	10	59	42	0	1	55	1.09
1615456--1615517	28	2.2	28	86	8	90	45	1	1	51	1.20
1615730--1615812	14	5.8	14	77	14	89	34	16	7	40	1.76
1615678--1615747	20	3.5	20	96	0	131	35	14	10	40	1.79
1615678--1615756	40	2.0	40	89	0	122	35	15	8	40	1.78
1615730--1615809	29	2.8	29	90	3	117	36	17	7	38	1.78
1615730--1615812	43	1.9	43	88	9	125	34	16	7	40	1.76
1615848--1615948	42	2.4	42	93	0	166	46	18	17	16	1.84
1623854--1623897	23	1.9	23	100	0	88	52	13	15	18	1.75
1632245--1632493	31	8.0	31	97	0	455	38	22	19	19	1.94
1636303--1636551	31	8.0	31	97	0	455	38	22	19	19	1.94
1637361--1637405	21	2.1	21	87	0	63	15	24	28	31	1.96
1640404--1640718	149	2.1	149	95	0	558	34	20	15	28	1.94
1640819--1640846	14	2.0	14	100	0	56	35	28	7	28	1.84
1643430--1643465	2	18.0	2	100	0	72	50	0	0	50	1.00
1645275--1645350	38	2.0	38	92	0	125	50	6	14	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654260--1654286	2	13.5	2	100	0	54	48	0	51	0	1.00
1661458--1661632	88	2.0	87	95	3	316	37	13	14	34	1.85
1677341--1677435	31	3.0	31	76	3	100	52	7	0	40	1.29
1683305--1683329	13	1.9	13	100	0	50	8	8	12	72	1.29
1684379--1684665	95	3.0	95	90	2	436	25	16	17	41	1.89
1686504--1686532	2	14.5	2	100	0	58	48	0	0	51	1.00
1688755--1688920	63	2.7	63	92	0	271	30	18	18	33	1.94
1688742--1688915	31	5.5	32	74	16	166	30	18	18	32	1.95
1693408--1693525	32	3.7	31	76	11	123	30	16	16	35	1.92
1693389--1693545	63	2.5	63	91	0	251	30	16	16	36	1.91
1693420--1693525	32	3.3	32	75	12	128	29	16	16	36	1.92
1693389--1693542	32	4.9	32	72	8	118	30	16	16	36	1.91
1694678--1694834	64	2.5	64	77	10	160	27	19	20	33	1.96
1703189--1703363	23	7.7	23	76	12	159	21	27	0	50	1.52
1703189--1703363	68	2.6	69	84	8	207	21	27	0	50	1.52
1703189--1703363	45	3.9	45	79	8	187	21	27	0	50	1.52
1719661--1719698	18	2.1	18	85	9	51	42	0	0	57	0.98
1722408--1722441	2	17.0	2	100	0	68	50	0	0	50	1.00
1723185--1723211	2	13.5	2	100	0	54	51	0	0	48	1.00
1727577--1727621	24	1.9	23	82	13	56	48	2	0	48	1.13
1727609--1727642	3	11.0	3	93	6	59	64	0	0	35	0.94
1734982--1735040	25	2.4	26	81	16	72	55	0	1	42	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748323--1748401	24	3.3	24	80	7	90	70	3	0	25	1.03
1748439--1748468	10	3.0	10	95	0	51	36	0	33	30	1.58
1753714--1753743	15	2.0	15	93	0	51	26	16	13	43	1.85
1758286--1758459	87	2.0	87	88	0	258	43	21	8	27	1.80
1761137--1761173	15	2.5	16	83	16	53	0	32	5	62	1.18
1769582--1769642	21	2.9	21	82	0	77	11	50	16	21	1.76
1789905--1790030	56	2.2	56	92	0	207	49	7	14	29	1.70
1791216--1791329	57	2.0	57	96	0	210	27	18	23	30	1.98
1800222--1800264	13	3.0	15	83	13	63	53	4	20	20	1.63
1801522--1801615	47	2.0	46	89	2	143	52	8	5	34	1.55
1802256--1802480	111	2.0	109	91	1	360	26	12	24	37	1.90
1817361--1817411	19	2.6	20	90	3	77	43	23	17	15	1.88
1817361--1817618	20	12.6	20	74	9	126	39	19	22	18	1.92
1817465--1817603	63	2.2	63	92	0	224	35	17	25	21	1.95
1817486--1817618	40	3.2	40	83	6	176	36	17	26	20	1.94
1817705--1817799	6	16.5	6	98	1	162	30	52	16	0	1.44
1818487--1818654	6	28.5	6	96	3	315	0	16	51	32	1.45
1818731--1818843	20	5.3	20	79	9	109	20	24	17	37	1.94
1818763--1818928	20	8.1	20	72	10	93	18	21	19	40	1.92
1824091--1824146	2	28.0	2	100	0	112	50	0	0	50	1.00
1833996--1834030	2	17.5	2	100	0	70	51	0	0	48	1.00
1834273--1834307	18	2.0	18	94	5	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842614--1842763	75	2.0	75	97	0	282	44	13	7	34	1.71
1854382--1854423	22	1.9	22	85	9	59	59	7	4	28	1.44
1855924--1855989	32	2.0	33	85	8	91	39	27	9	24	1.85
1859960--1860328	20	18.5	20	85	4	458	34	26	18	20	1.96
1861002--1861048	24	2.0	24	87	8	69	25	14	21	38	1.92
1861223--1861247	12	2.1	12	100	0	50	72	0	28	0	0.86
1863548--1863871	19	18.4	19	80	15	378	47	17	20	14	1.83
1863548--1863853	33	8.8	34	82	12	301	47	17	20	14	1.82
1863576--1863893	52	6.0	52	91	4	523	46	16	21	14	1.83
1863615--1863893	71	4.0	69	78	10	323	46	17	20	15	1.83

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