genome.fa.s9350.2.7.7.80.10.50.1000.7.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1079 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)
1481575--1481611	19	1.9	19	100	0	74	18	16	32	32	1.93
1482424--1482476	19	2.9	18	83	5	63	75	1	5	16	1.08
1482415--1482490	12	6.7	11	76	15	66	75	2	3	18	1.08
1482424--1482476	6	8.8	6	81	8	63	75	1	5	16	1.08
1482451--1482520	27	2.5	28	80	15	74	68	4	0	27	1.08
1486366--1486429	3	20.7	3	84	9	67	60	0	1	37	1.06
1486364--1486439	18	4.2	18	78	9	75	63	1	1	34	1.11
1487398--1487446	3	17.0	3	79	8	57	61	4	0	34	1.15
1487398--1487446	14	3.4	14	86	8	55	61	4	0	34	1.15
1488912--1488958	14	3.4	14	72	16	53	57	21	12	8	1.62
1488904--1488962	27	2.2	27	100	0	118	55	16	15	11	1.68
1489370--1489397	2	14.0	2	100	0	56	50	0	0	50	1.00
1492993--1493028	18	2.0	18	94	0	63	41	0	16	41	1.48
1492998--1493036	18	2.2	18	90	0	60	46	2	12	38	1.56
1496461--1496506	24	1.9	24	90	0	74	39	39	0	21	1.54
1501936--1501983	24	2.0	24	83	0	60	35	37	0	27	1.57
1503805--1503863	30	1.9	31	86	3	84	38	27	13	20	1.90
1503839--1503964	31	4.0	33	74	11	95	37	20	13	28	1.91
1503908--1503977	32	2.2	32	86	0	95	38	15	12	32	1.86
1504424--1504471	20	2.4	20	96	0	87	33	22	10	33	1.88
1504836--1504893	20	2.6	22	84	10	66	25	22	20	31	1.98
1516268--1517503	627	2.0	626	97	0	2355	30	11	19	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520211--1520284	23	3.3	23	84	1	96	13	21	27	37	1.91
1520979--1521017	20	2.0	20	94	0	69	51	15	17	15	1.77
1525309--1525394	45	1.9	45	92	4	147	19	23	13	43	1.87
1525703--1526319	54	11.5	54	84	2	402	32	18	18	29	1.95
1525751--1526332	108	5.4	106	84	3	630	32	18	18	29	1.95
1525749--1526332	162	3.6	162	83	1	681	32	18	18	29	1.95
1526643--1526697	22	2.6	22	86	11	71	30	27	14	27	1.95
1526736--1526788	20	2.6	21	85	5	65	18	30	15	35	1.92
1536981--1537090	47	2.4	45	83	7	141	37	5	23	33	1.78
1539623--1539677	27	2.0	27	96	0	101	40	23	10	25	1.87
1541782--1541867	45	1.9	45	80	4	102	23	22	11	43	1.86
1542223--1542970	54	13.8	54	84	2	820	31	18	19	29	1.96
1543293--1543351	22	2.9	21	85	7	68	33	15	15	35	1.89
1543311--1543351	19	2.2	19	90	0	64	34	14	12	39	1.84
1547736--1547760	11	2.3	11	100	0	50	56	0	8	36	1.29
1548306--1548417	53	2.1	53	88	0	161	26	19	16	37	1.92
1551172--1551231	26	2.3	26	88	0	84	26	40	15	18	1.90
1555671--1555735	24	2.7	25	77	17	68	33	21	24	20	1.97
1555655--1555728	31	2.4	31	83	0	94	32	21	24	21	1.98
1562929--1562987	23	2.5	24	86	8	86	30	0	32	37	1.58
1573216--1573287	23	3.1	23	86	4	101	27	25	26	20	1.99
1574600--1574625	13	2.0	13	100	0	52	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579447--1579530	23	3.7	23	85	0	123	28	25	26	20	1.99
1580772--1580797	13	2.0	13	100	0	52	69	0	30	0	0.89
1582304--1582347	2	22.0	2	100	0	88	50	0	0	50	1.00
1583777--1583818	21	2.0	20	82	13	50	33	9	16	40	1.81
1584107--1584158	24	2.2	24	85	0	68	17	15	23	44	1.86
1585037--1585114	33	2.4	33	82	2	95	38	3	8	48	1.53
1585058--1585171	33	3.5	33	75	3	97	39	2	11	46	1.54
1585030--1585419	198	2.0	199	86	0	548	38	4	8	47	1.56
1585412--1585489	31	2.5	31	80	4	93	33	6	6	53	1.52
1589595--1590142	182	3.0	178	76	6	514	38	11	10	39	1.76
1591896--1591955	26	2.4	25	83	10	77	78	3	5	13	1.04
1591908--1591955	12	3.6	13	81	13	53	77	2	6	14	1.06
1592982--1593007	2	13.0	2	100	0	52	50	0	0	50	1.00
1594594--1594628	3	11.7	3	100	0	70	34	0	0	65	0.93
1602770--1602820	26	2.0	26	96	0	93	37	29	11	21	1.89
1610123--1610164	14	3.1	14	75	6	50	19	16	21	42	1.89
1613386--1613446	27	2.3	27	88	0	86	31	24	13	31	1.93
1613406--1613481	27	2.8	27	73	0	62	34	25	9	31	1.87
1616736--1616782	2	24.5	2	87	8	71	46	0	2	51	1.13
1616845--1616877	2	16.5	2	100	0	66	48	0	0	51	1.00
1620211--1620247	19	2.0	19	89	5	58	72	5	13	8	1.24
1620319--1620456	69	2.0	69	92	2	233	37	22	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621940--1622253	65	4.7	65	76	9	222	31	20	9	37	1.86
1622801--1623054	106	2.4	105	82	3	321	35	24	20	19	1.96
1624195--1624236	22	1.9	22	85	9	59	26	0	2	71	0.98
1624201--1624239	14	2.7	15	88	4	53	28	0	0	71	0.86
1624340--1624400	2	31.5	2	85	6	81	45	1	1	50	1.21
1624630--1624681	22	2.2	24	83	12	65	19	3	5	71	1.22
1624640--1624688	14	3.5	15	81	8	52	18	2	2	77	0.96
1624644--1624718	15	4.8	15	76	17	55	12	8	2	77	1.08
1624659--1624718	10	6.1	10	77	9	52	10	10	1	78	1.04
1624662--1624779	49	2.4	50	78	12	129	14	9	3	72	1.22
1624640--1624688	5	10.6	5	80	10	52	18	2	2	77	0.96
1626471--1626517	21	2.2	21	84	0	67	23	23	17	36	1.95
1626509--1626714	20	10.3	19	73	13	121	40	23	15	20	1.90
1626509--1626714	40	5.2	40	75	12	158	40	23	15	20	1.90
1626509--1626699	60	3.2	60	74	5	197	39	23	16	20	1.91
1627833--1628007	65	2.6	65	86	10	239	28	2	16	53	1.55
1628474--1628520	12	3.9	12	82	0	58	17	4	25	53	1.62
1628487--1628527	6	6.8	6	88	0	64	17	2	19	60	1.46
1628475--1628527	24	2.2	24	93	0	88	16	1	24	56	1.50
1631462--1631499	16	2.5	15	84	12	51	65	0	5	28	1.14
1631657--1631749	19	4.8	19	84	5	116	33	9	18	38	1.83
1631636--1631749	38	3.0	40	82	6	121	35	11	17	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631733--1631809	20	3.8	20	75	1	82	23	14	20	41	1.89
1631760--1631820	20	3.0	20	81	9	79	19	14	22	42	1.88
1631733--1631845	40	2.8	41	80	9	117	23	15	22	39	1.91
1633434--1633483	19	2.5	19	80	6	55	32	6	12	50	1.64
1634897--1634927	16	1.9	16	93	0	53	41	0	19	38	1.51
1641070--1641159	21	4.2	20	71	18	65	23	15	25	35	1.94
1641092--1641176	44	1.9	44	87	0	125	24	15	27	32	1.95
1644575--1644632	20	2.8	20	77	12	64	29	18	18	32	1.96
1644575--1644639	21	3.2	21	80	6	71	27	18	16	36	1.93
1654880--1654914	5	7.0	5	100	0	70	0	40	40	20	1.52
1654920--1655014	6	15.8	6	96	0	145	10	16	50	22	1.75
1660846--1660889	5	8.8	5	89	0	61	4	40	36	18	1.71
1660887--1660971	6	14.2	6	92	0	134	3	15	48	32	1.62
1662611--1662684	8	9.1	8	75	12	53	66	1	0	32	1.00
1662613--1662688	3	27.0	3	73	17	65	64	1	0	34	1.02
1662633--1662688	11	5.1	11	77	10	53	66	1	0	32	1.03
1662633--1662677	20	2.3	20	78	17	58	68	2	0	28	1.01
1663501--1663957	121	3.8	121	87	2	659	24	15	23	36	1.94
1663980--1664336	127	2.8	128	92	0	592	28	14	21	36	1.92
1663980--1664336	64	5.6	64	91	1	583	28	14	21	36	1.92
1663980--1664336	191	1.9	191	91	1	581	28	14	21	36	1.92
1667074--1667115	21	2.0	22	85	4	59	66	2	21	9	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669583--1669676	24	4.0	24	75	4	75	48	14	10	25	1.76
1673264--1673354	3	33.0	3	71	20	65	62	2	1	34	1.14
1673265--1673354	5	18.0	5	76	20	73	62	2	1	34	1.15
1682118--1682186	24	2.9	24	74	8	68	26	13	18	42	1.87
1686728--1686881	78	2.0	79	85	11	210	44	7	4	43	1.52
1688373--1688523	59	2.4	61	83	9	189	30	3	11	53	1.56
1690340--1690381	17	2.5	17	88	0	66	38	0	16	45	1.48
1693168--1693197	15	2.0	15	93	0	51	63	10	6	20	1.47
1693998--1694052	17	3.2	17	76	2	56	49	10	7	32	1.65
1693989--1694053	18	3.7	18	75	4	51	49	10	6	33	1.63

Tables:   1   2   3   4   5   6   7   8   9