genome.fa.s7911.2.7.7.80.10.50.1000.7.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: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1972160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1033 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)
1408218--1408294	36	2.1	38	85	4	104	32	24	16	25	1.96
1409020--1409089	27	2.7	26	86	4	97	4	60	1	34	1.25
1411167--1411206	2	20.0	2	94	0	71	52	0	0	47	1.00
1412167--1412223	20	3.0	20	87	5	82	21	22	29	26	1.99
1412432--1412478	23	2.0	24	87	4	69	51	0	19	29	1.47
1417445--1417533	18	4.7	18	79	8	97	19	21	31	28	1.97
1429816--1430067	43	5.9	43	87	1	247	24	17	26	31	1.97
1429816--1430068	86	3.0	84	84	2	283	24	17	26	32	1.97
1430473--1430538	21	3.1	21	84	0	87	3	34	18	43	1.65
1438262--1438641	185	2.0	187	90	3	595	31	16	17	34	1.92
1439341--1439414	37	2.0	37	94	0	130	22	28	6	41	1.79
1440054--1440144	42	2.2	42	87	0	128	31	13	16	38	1.87
1445930--1445967	20	1.9	20	94	0	67	34	39	10	15	1.82
1448655--1448680	3	8.7	3	100	0	52	69	0	0	30	0.89
1450122--1450174	28	1.9	28	84	3	72	54	11	18	15	1.70
1451464--1451489	5	5.2	5	100	0	52	23	57	19	0	1.40
1456681--1456706	3	8.7	3	100	0	52	34	0	30	34	1.58
1456705--1456795	3	30.3	3	100	0	182	67	0	0	32	0.91
1457008--1457424	136	3.1	135	82	6	504	27	17	26	27	1.98
1457347--1457518	82	2.1	83	92	1	283	23	19	32	23	1.98
1457348--1457477	43	3.1	43	69	12	126	23	20	33	23	1.97
1457373--1457510	43	3.4	40	73	10	136	26	18	31	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457536--1457875	66	5.2	65	77	7	278	39	11	18	30	1.87
1457765--1457879	30	3.6	30	68	18	88	38	13	17	31	1.88
1457750--1457853	36	3.1	35	65	21	94	42	13	18	25	1.87
1460407--1460474	12	5.9	11	76	21	61	1	14	4	79	0.96
1460407--1460475	24	2.8	25	78	10	70	1	14	4	79	0.95
1460466--1460525	17	3.6	17	70	28	56	5	13	6	75	1.18
1460452--1460499	24	2.0	24	83	0	60	2	12	6	79	1.01
1463232--1463275	17	2.6	17	89	3	63	59	25	2	13	1.46
1463253--1463292	21	1.9	21	89	0	62	60	20	2	17	1.48
1473654--1473700	3	15.7	3	82	8	60	72	0	2	25	0.96
1477185--1477233	12	3.9	12	79	10	53	42	0	4	53	1.20
1477647--1477735	27	3.3	27	80	7	99	42	15	3	38	1.64
1477638--1477717	27	2.8	29	83	7	85	41	18	3	36	1.69
1486835--1486870	18	1.9	19	94	5	65	22	8	0	69	1.15
1492671--1492720	23	2.1	24	85	3	66	24	16	4	56	1.57
1493072--1493141	30	2.3	30	87	2	95	37	17	4	41	1.69
1493747--1493813	19	3.4	19	69	13	55	61	0	0	38	0.96
1506508--1506635	64	2.0	64	93	0	220	44	10	13	31	1.78
1506600--1506647	23	2.1	23	92	0	78	37	10	16	35	1.83
1506650--1507364	199	3.6	199	87	3	960	31	16	15	37	1.89
1509837--1509888	19	2.7	19	84	0	77	50	11	3	34	1.57
1511488--1512679	198	6.0	198	82	6	1412	31	15	14	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511489--1512648	398	2.9	398	91	2	1834	31	15	13	38	1.87
1513514--1514194	199	3.4	197	88	2	965	30	15	15	38	1.89
1514484--1514539	19	2.9	19	81	2	67	51	10	1	35	1.47
1514488--1514539	20	2.7	20	84	3	70	53	9	1	34	1.45
1515702--1515762	24	2.5	24	100	0	122	31	22	26	19	1.98
1520952--1520995	22	2.0	22	90	0	70	50	13	11	25	1.75
1520996--1521044	20	2.5	20	96	0	89	32	26	20	20	1.97
1521034--1521075	21	2.0	21	85	0	57	28	26	19	26	1.98
1521671--1521748	23	3.3	23	70	8	77	30	25	24	19	1.98
1521997--1522060	31	2.1	31	94	2	112	34	23	4	37	1.76
1527458--1527865	182	2.2	183	88	2	599	26	16	13	43	1.85
1528305--1528333	14	2.1	14	100	0	58	41	6	6	44	1.58
1528319--1528439	38	3.3	36	82	5	154	42	3	8	46	1.50
1528284--1528418	38	3.6	36	78	8	153	41	3	9	45	1.55
1528381--1528409	14	2.1	14	100	0	58	41	6	6	44	1.58
1528380--1528488	51	2.2	49	87	6	159	42	4	10	43	1.59
1528494--1528541	20	2.4	21	79	10	64	45	2	6	45	1.40
1528522--1528559	16	2.3	17	86	4	51	47	0	10	42	1.38
1536004--1536043	19	2.1	19	90	0	62	27	20	32	20	1.97
1537639--1537679	22	1.9	22	85	5	57	48	4	24	21	1.69
1546385--1546605	93	2.3	95	88	3	331	30	16	26	26	1.96
1546534--1546605	22	3.6	19	79	18	67	30	15	30	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1546551--1546605	22	2.7	20	81	10	74	30	14	29	25	1.95
1546927--1547398	59	8.0	59	87	1	615	34	13	19	32	1.91
1548911--1548976	14	4.7	14	84	0	78	31	22	16	28	1.96
1549866--1549916	26	2.0	26	92	7	86	43	19	15	21	1.88
1553350--1553415	14	4.6	14	74	9	53	24	27	21	27	1.99
1554330--1554380	26	2.0	26	88	7	77	45	17	15	21	1.86
1556469--1556515	9	5.1	9	84	10	51	27	2	0	70	0.99
1556462--1556517	12	4.7	12	79	16	55	26	1	0	71	0.96
1557853--1557891	20	2.0	20	85	10	53	17	10	2	69	1.28
1559426--1559463	17	2.2	17	90	0	58	47	0	0	52	1.00
1567318--1567387	35	2.0	35	94	0	122	34	10	18	37	1.84
1567904--1567934	3	10.3	3	100	0	62	32	0	0	67	0.91
1570174--1570413	59	4.1	58	83	5	243	32	22	15	30	1.95
1570175--1570409	118	2.0	118	83	3	294	32	22	15	29	1.95
1575909--1576063	59	2.6	59	86	0	220	32	24	16	27	1.96
1577028--1577208	59	3.1	59	86	1	238	34	22	14	28	1.94
1580188--1580257	35	2.0	35	94	0	122	32	10	18	38	1.84
1580770--1580808	3	13.0	3	100	0	78	33	0	0	66	0.92
1581154--1581379	120	1.9	120	80	6	267	43	8	20	27	1.81
1581353--1581389	3	12.3	3	100	0	74	67	0	32	0	0.91
1588063--1588093	15	2.1	15	100	0	62	29	6	12	51	1.65
1588431--1588472	22	1.9	22	85	9	59	66	4	14	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588859--1588895	16	2.3	17	86	9	51	67	5	2	24	1.25
1591745--1591789	21	2.1	21	100	0	90	22	37	13	26	1.91
1595803--1595848	24	1.9	24	86	8	67	43	17	4	34	1.69
1596471--1596515	18	2.5	18	96	0	81	46	0	20	33	1.51
1596900--1597138	21	11.5	21	79	10	242	31	24	20	23	1.98
1597085--1597157	20	3.6	20	72	17	69	32	19	20	27	1.97
1596900--1597138	125	1.9	125	94	0	424	31	24	20	23	1.98
1596957--1597162	42	5.0	41	85	5	177	31	22	20	25	1.98
1597144--1597214	21	3.4	21	74	14	74	28	21	18	32	1.96
1597822--1597855	6	5.7	6	100	0	68	0	14	50	35	1.44
1597982--1598186	21	9.8	21	89	7	301	23	20	24	30	1.99
1598400--1598446	2	24.0	2	86	4	69	55	0	0	44	0.99
1601073--1601120	16	2.9	16	79	14	53	33	2	2	62	1.18
1603476--1603560	35	2.4	32	75	17	80	27	7	10	55	1.60
1606300--1607170	54	16.2	54	82	3	725	27	19	20	32	1.97
1607342--1607391	23	2.2	23	92	0	82	46	18	8	28	1.77
1607349--1607392	23	1.9	23	100	0	88	43	18	9	29	1.80
1612578--1613453	54	16.3	54	85	3	1077	30	17	21	31	1.96
1617537--1617613	33	2.3	35	84	6	113	44	9	15	31	1.78
1617559--1617624	33	2.0	33	81	0	78	42	13	13	30	1.83
1617620--1617672	17	3.1	17	75	5	54	45	15	9	30	1.77
1619667--1619708	20	2.1	20	86	8	59	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619916--1619949	14	2.3	15	85	10	52	58	0	5	35	1.22
1619953--1619997	22	2.0	24	83	16	60	48	2	0	48	1.13
1622056--1622159	31	3.2	31	70	10	91	36	24	18	21	1.95
1622067--1622166	35	3.0	34	68	11	98	37	24	21	18	1.94
1624639--1624688	24	2.1	24	85	7	66	26	2	12	60	1.43
1632626--1632717	48	1.9	48	86	4	132	10	21	1	66	1.29
1635970--1636019	24	2.1	24	85	7	66	26	2	12	60	1.43
1642776--1642827	23	2.2	24	83	6	63	25	21	28	25	1.99
1644983--1645028	22	2.0	23	95	4	85	39	4	19	36	1.72
1645059--1645099	19	2.2	19	100	0	82	21	14	14	48	1.80

Tables:   1   2   3   4   5   6   7   8   9