genome.fa.s121.2.7.7.80.10.50.1000.8.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: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2099483

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

This is table  8  of  10  ( 1170 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)
1498613--1498668	22	2.5	22	91	0	94	28	30	26	14	1.95
1499120--1499154	2	17.5	2	100	0	70	48	0	0	51	1.00
1499771--1499933	64	2.5	63	83	9	179	27	19	20	32	1.97
1502064--1502106	18	2.4	18	96	0	77	9	30	25	34	1.87
1503074--1503192	22	5.6	22	90	4	156	28	30	24	16	1.97
1506172--1506260	46	1.9	46	95	0	160	39	6	20	33	1.79
1512916--1513022	46	2.4	46	93	3	182	43	5	17	32	1.72
1512942--1513016	23	3.3	22	70	15	71	41	8	18	32	1.80
1513175--1513270	38	2.5	38	87	0	138	26	22	28	22	1.99
1521101--1521231	41	3.2	42	78	5	124	29	25	16	28	1.97
1522754--1522911	42	3.8	39	74	15	133	27	19	18	34	1.96
1527390--1527464	41	1.9	38	81	10	89	53	5	13	28	1.61
1532115--1532150	17	2.1	17	94	0	63	36	16	22	25	1.94
1532967--1533016	24	2.0	25	88	3	75	26	26	26	22	2.00
1533205--1533274	31	2.3	30	80	4	70	35	25	2	35	1.71
1539777--1539825	24	2.0	25	88	4	73	26	24	26	22	2.00
1540014--1540083	31	2.3	30	80	4	70	34	24	2	38	1.70
1545173--1545227	26	2.0	26	86	6	74	36	7	1	54	1.39
1545188--1545237	26	1.9	26	87	0	73	32	4	4	60	1.34
1546710--1546792	38	2.2	39	78	12	91	50	3	1	44	1.27
1549335--1549438	52	2.0	52	86	0	145	34	8	13	43	1.75
1552888--1552924	19	1.9	19	88	0	56	56	5	0	37	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1552882--1552926	24	1.9	24	86	4	65	55	4	0	40	1.20
1561081--1561135	25	2.2	25	93	0	92	45	16	14	23	1.84
1566965--1567011	2	23.5	2	100	0	94	51	0	0	48	1.00
1569215--1569271	26	2.2	26	100	0	114	35	14	26	24	1.93
1569775--1569899	40	3.1	40	87	2	171	36	23	16	24	1.94
1574522--1574622	40	2.5	40	88	1	148	35	22	15	25	1.94
1581211--1581570	41	8.7	41	75	5	228	32	17	15	34	1.92
1583452--1583495	21	2.1	21	91	0	70	20	6	18	54	1.66
1584035--1584070	18	2.1	17	89	5	54	47	0	0	52	1.00
1584080--1584119	14	3.1	13	82	10	55	55	0	0	45	0.99
1585704--1585758	27	2.0	28	89	10	87	61	1	1	34	1.17
1587862--1587887	12	2.2	12	100	0	52	42	7	11	38	1.70
1588891--1588960	22	3.2	22	78	17	58	52	2	0	44	1.15
1588969--1589056	14	6.2	14	71	11	63	51	2	1	45	1.21
1589248--1589561	159	2.0	156	93	3	531	50	12	10	26	1.73
1603091--1603154	23	2.8	22	80	4	74	28	26	25	20	1.99
1603170--1603490	103	3.1	103	97	0	606	37	24	12	24	1.90
1604034--1604076	21	2.0	21	81	0	50	16	25	30	27	1.97
1606165--1606433	43	6.2	43	72	13	135	29	20	20	29	1.98
1606772--1606825	21	2.6	21	84	0	72	0	40	20	38	1.53
1606801--1606870	21	3.3	21	81	0	86	1	38	20	40	1.61
1612461--1612550	43	2.1	42	81	6	101	30	18	16	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613210--1613370	41	4.0	41	84	7	204	31	19	14	34	1.92
1613211--1613369	82	2.0	81	91	3	257	30	20	13	35	1.91
1613399--1613550	42	3.7	41	73	11	130	23	22	19	34	1.97
1613478--1613597	42	2.9	42	78	3	125	25	23	18	32	1.97
1625734--1625778	8	5.9	8	82	10	58	71	0	0	28	0.87
1625732--1625773	22	1.9	22	100	0	84	71	0	0	28	0.86
1626110--1626168	15	3.9	15	72	16	59	28	0	1	69	0.98
1626114--1626170	30	1.9	30	96	0	105	28	0	1	70	0.98
1626556--1626590	10	3.4	10	84	7	52	57	0	0	42	0.99
1637279--1637303	12	2.1	12	100	0	50	48	0	0	52	1.00
1638111--1638147	15	2.5	15	86	0	56	67	0	16	16	1.23
1638222--1638296	13	5.6	13	75	10	53	77	1	6	14	1.04
1638222--1638345	54	2.3	51	80	13	126	76	0	4	17	1.00
1638232--1638307	28	2.7	28	73	17	68	77	1	7	13	1.04
1638275--1638342	25	2.8	24	77	16	68	75	1	1	22	0.97
1638286--1638432	41	3.4	43	79	17	146	68	1	2	28	1.09
1638254--1638340	24	3.6	22	74	18	68	75	1	3	19	1.00
1638273--1638357	31	2.7	31	78	12	86	74	1	2	22	1.01
1638222--1638351	9	13.4	9	71	17	66	76	0	5	17	1.02
1638336--1638431	51	1.9	50	82	6	122	64	2	2	31	1.16
1638428--1638489	23	2.8	22	75	20	58	67	4	6	20	1.32
1638788--1638889	34	2.9	36	86	7	163	28	13	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639424--1640188	105	7.3	105	89	3	1069	22	17	26	33	1.96
1640792--1640949	68	2.4	65	84	4	208	36	8	22	32	1.85
1640792--1641185	65	5.8	65	73	11	238	39	11	19	29	1.87
1640925--1641205	36	8.0	35	77	12	263	40	14	18	26	1.89
1640876--1641186	138	2.3	137	85	1	426	39	13	19	27	1.89
1641119--1641180	21	3.2	21	63	25	55	40	12	17	29	1.87
1641684--1641719	18	2.0	18	88	0	54	41	30	8	19	1.81
1642133--1642187	22	2.5	22	100	0	110	23	12	27	36	1.91
1642830--1642893	12	5.2	12	75	15	51	0	14	7	78	0.96
1642816--1642883	28	2.5	27	77	15	68	1	14	7	76	1.07
1642864--1642915	16	3.2	16	79	12	54	0	13	7	78	0.94
1643682--1643732	19	2.6	20	90	3	77	43	23	17	15	1.88
1643682--1644039	20	17.6	20	80	6	200	38	18	22	20	1.93
1643786--1644037	103	2.5	103	88	1	357	36	17	23	22	1.94
1643807--1644029	123	1.8	123	96	0	410	36	16	24	22	1.94
1643807--1644037	40	5.7	40	84	3	291	36	16	23	22	1.94
1644026--1644079	20	2.7	20	94	0	90	51	18	18	11	1.74
1644215--1644246	6	5.5	6	96	3	57	31	53	15	0	1.43
1644933--1644970	6	6.5	6	96	3	69	0	15	52	31	1.43
1645042--1645169	20	6.4	20	90	0	184	23	25	16	35	1.95
1645057--1645313	20	12.8	20	80	6	117	19	21	19	39	1.93
1645244--1645313	19	3.6	19	94	1	113	15	17	24	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648335--1648364	15	2.0	15	93	0	51	60	0	16	23	1.36
1648449--1648542	29	3.2	29	73	18	79	77	1	6	14	1.02
1648490--1648568	26	3.2	24	75	17	72	74	1	2	21	1.01
1648501--1648568	25	2.8	24	77	16	68	75	1	1	22	0.97
1648499--1648586	39	2.3	39	80	11	92	72	1	2	23	1.02
1648499--1648601	30	3.3	31	78	12	95	71	0	1	25	1.02
1648447--1648576	9	13.4	9	70	20	59	76	0	5	17	1.02
1648512--1648652	44	3.4	38	79	13	129	68	1	2	28	1.10
1648648--1648709	23	2.8	22	75	20	58	67	4	6	20	1.32
1649014--1649115	34	2.9	36	88	7	163	28	13	13	44	1.82
1659371--1659414	20	2.2	20	84	8	54	72	0	4	22	1.02
1659412--1659493	2	41.5	2	97	2	157	50	0	0	50	1.00
1659681--1659715	16	2.2	16	90	10	54	74	8	0	17	1.06
1668223--1668250	14	2.0	14	100	0	56	21	28	21	28	1.99
1673554--1673606	24	2.2	24	86	6	72	75	0	3	20	0.96
1673555--1673589	10	3.9	9	85	14	54	80	0	0	20	0.72
1673555--1673599	21	2.2	20	88	11	65	77	0	2	20	0.87
1675382--1675410	15	1.9	15	100	0	58	27	0	0	72	0.85
1676347--1676507	60	2.7	60	82	3	182	38	6	23	31	1.81
1677588--1677647	30	2.0	30	96	0	111	50	3	15	31	1.60
1678743--1678767	1	25.0	1	100	0	50	0	0	0	100	0.00
1683787--1683855	20	3.5	20	97	0	129	21	20	10	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684654--1684712	30	1.9	31	83	10	77	45	3	1	49	1.28
1684767--1684829	14	4.2	15	74	13	58	34	4	1	58	1.29
1685013--1685058	19	2.4	19	85	7	58	43	2	2	52	1.25
1688965--1689017	18	2.9	18	91	0	79	20	18	32	28	1.97
1701411--1701503	17	5.5	17	72	10	91	38	10	10	39	1.75
1701410--1701521	34	3.3	34	80	1	143	40	11	10	37	1.77
1701406--1701522	17	6.8	17	69	8	67	42	11	10	35	1.74
1702298--1702365	3	23.3	3	79	11	70	35	1	1	61	1.14
1702298--1702361	25	2.9	23	76	21	66	35	1	1	60	1.15
1704443--1704596	6	24.0	6	71	17	62	21	5	1	71	1.16

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