genome.fa.s9604.2.7.7.80.10.50.1000.9.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

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

This is table  9  of  17  ( 1985 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)
1482371--1482409	18	2.0	20	85	9	55	48	2	0	48	1.15
1486153--1486219	18	3.7	18	91	0	116	23	20	0	55	1.44
1491685--1491782	21	4.6	22	71	18	91	24	27	16	31	1.96
1491685--1491782	43	2.3	41	81	13	119	24	27	16	31	1.96
1497221--1497321	26	3.9	26	92	0	166	44	6	14	33	1.72
1497443--1497503	32	1.9	32	93	0	104	37	21	16	24	1.93
1505925--1506014	9	9.0	10	72	15	53	76	6	2	14	1.08
1506196--1506328	17	7.9	16	67	20	51	66	1	6	25	1.23
1506256--1506330	37	2.1	38	80	16	97	66	2	5	25	1.26
1506362--1506408	2	24.0	2	81	12	53	51	2	4	42	1.33
1506369--1506429	14	4.1	14	76	19	52	59	0	3	37	1.14
1506373--1506423	25	2.0	27	84	7	70	58	0	3	37	1.16
1507516--1507700	83	2.2	84	82	5	232	23	17	22	35	1.95
1507883--1508149	110	2.5	108	80	8	305	24	18	23	33	1.97
1508802--1508986	65	2.7	66	82	7	205	37	9	20	31	1.85
1508815--1509126	65	4.7	67	74	13	198	39	11	19	29	1.87
1508954--1509056	33	3.0	33	79	10	125	41	16	23	18	1.89
1508959--1509055	37	2.8	33	80	11	113	42	16	21	19	1.89
1508893--1509153	135	1.9	136	86	5	375	41	13	19	26	1.87
1509082--1509154	36	2.0	36	94	0	128	39	12	20	27	1.88
1510786--1510856	28	2.7	27	85	10	85	4	15	4	76	1.10
1510786--1510856	13	5.4	13	83	12	83	4	15	4	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513975--1514000	11	2.4	11	100	0	52	84	0	0	15	0.62
1513977--1514019	18	2.2	21	76	23	58	76	2	2	18	1.00
1514057--1514101	15	2.9	15	81	12	54	73	0	11	15	1.10
1514234--1514282	13	4.1	12	75	24	50	69	0	2	28	1.00
1514217--1514265	22	2.1	24	88	11	75	69	0	2	28	1.00
1514214--1514313	25	4.1	23	73	17	71	67	1	4	28	1.15
1514355--1514418	22	2.9	22	75	13	60	67	0	4	28	1.11
1514357--1514431	13	5.5	13	70	19	55	66	0	4	29	1.09
1515035--1515077	20	2.2	19	83	4	50	34	2	0	62	1.08
1515070--1515108	18	2.0	20	85	9	55	48	2	0	48	1.15
1517914--1518015	51	2.0	51	100	0	204	29	23	9	37	1.87
1520007--1520059	25	2.1	26	92	3	90	43	7	15	33	1.74
1520163--1520321	56	2.8	56	85	3	203	28	11	11	49	1.73
1522819--1522872	26	2.1	26	96	0	99	42	9	16	31	1.80
1522980--1523124	56	2.6	57	83	3	179	29	12	7	50	1.67
1527263--1527352	31	2.9	31	75	8	92	50	8	7	33	1.63
1527673--1527835	81	2.0	81	100	0	326	43	11	8	36	1.71
1536318--1536361	22	2.1	22	87	8	65	43	15	13	27	1.85
1536445--1536540	41	2.3	41	81	1	111	31	9	17	41	1.81
1536515--1536852	41	8.2	41	75	6	292	33	9	20	36	1.85
1536524--1536852	82	4.0	82	84	6	398	32	9	20	37	1.85
1536474--1536729	123	2.1	123	81	5	295	33	8	21	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536524--1536852	164	2.0	164	85	4	441	32	9	20	37	1.85
1538332--1538373	19	2.2	19	100	0	84	26	35	11	26	1.91
1542173--1542206	16	2.2	15	89	5	50	50	2	0	47	1.16
1553203--1553496	41	7.2	41	73	8	240	30	11	22	35	1.90
1553203--1553517	82	3.8	82	85	1	407	30	12	22	34	1.91
1553206--1553507	164	1.8	164	88	0	460	31	11	22	35	1.90
1560999--1561079	41	2.0	41	82	4	101	35	7	16	40	1.76
1561045--1561392	41	8.5	39	71	5	212	33	12	20	33	1.90
1561088--1561392	82	3.7	82	89	0	441	32	12	21	34	1.91
1561070--1561366	123	2.4	123	78	3	294	32	13	20	33	1.91
1563352--1563435	3	27.7	3	81	11	100	35	0	0	64	0.94
1563352--1563434	24	3.4	24	88	3	112	34	0	0	65	0.93
1565003--1565044	20	2.2	19	86	4	57	35	0	0	64	0.94
1566364--1566405	11	3.8	11	100	0	84	47	19	7	26	1.74
1567290--1567359	35	2.0	34	86	2	95	18	12	11	57	1.65
1567315--1567359	20	2.2	20	84	0	54	17	11	11	60	1.59
1577761--1577791	14	2.2	14	100	0	62	70	6	22	0	1.09
1579130--1579476	130	2.7	130	76	5	328	32	9	16	41	1.80
1580771--1580857	38	2.4	37	84	11	117	14	14	11	58	1.63
1580908--1580956	2	25.0	2	95	4	91	51	0	0	48	1.00
1582959--1583282	163	2.0	161	98	1	630	35	28	8	27	1.87
1589183--1589237	24	2.3	24	83	0	74	30	16	25	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1591150--1591348	42	4.8	42	74	7	145	33	19	22	24	1.97
1591150--1591342	83	2.3	82	81	6	201	33	19	22	24	1.97
1591377--1591536	41	3.9	41	86	4	227	35	15	20	30	1.93
1591378--1591553	82	2.1	83	89	5	268	35	15	19	29	1.93
1596324--1596375	20	2.5	20	77	19	54	26	11	5	55	1.58
1596676--1596760	21	4.1	21	84	4	102	36	20	42	1	1.60
1596683--1596775	21	4.4	21	83	4	98	38	19	40	1	1.59
1597111--1597341	43	5.3	42	70	10	137	32	19	18	28	1.96
1597402--1597473	15	4.9	15	73	20	53	11	18	26	44	1.83
1602277--1602320	22	2.0	22	100	0	88	4	27	13	54	1.58
1604173--1604234	31	2.0	31	93	0	106	37	14	24	24	1.93
1605498--1605527	7	4.1	7	95	4	51	86	0	13	0	0.57
1609201--1609233	2	16.5	2	100	0	66	48	0	0	51	1.00
1609484--1609527	16	2.8	16	77	16	56	27	2	2	68	1.14
1609536--1609585	17	2.7	18	81	9	57	22	2	0	76	0.89
1609642--1609684	19	2.3	19	81	14	54	16	9	0	74	1.06
1610864--1610901	19	2.0	20	89	5	60	7	23	0	68	1.16
1614295--1614354	21	2.9	20	80	11	68	81	6	8	3	0.96
1614296--1614365	23	3.2	21	79	16	56	78	5	11	4	1.06
1614956--1615010	22	2.5	22	93	0	92	40	25	10	23	1.87
1615939--1617666	106	16.3	106	91	0	2578	34	24	18	22	1.96
1618416--1618520	37	2.8	37	85	0	138	40	15	13	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618931--1618979	23	2.1	23	85	14	66	28	2	0	69	1.00
1619203--1619255	22	2.5	20	82	14	61	26	3	0	69	1.05
1619201--1619259	19	2.9	19	79	13	64	28	3	0	67	1.06
1619223--1619284	27	2.1	31	80	11	78	24	1	0	74	0.91
1619194--1619277	19	4.4	18	71	14	53	28	3	1	66	1.15
1619226--1619281	12	4.4	13	78	14	55	26	1	0	71	0.96
1619866--1619906	19	2.0	19	86	13	55	63	0	0	36	0.95
1620950--1621040	46	2.0	46	95	0	164	40	19	4	35	1.72
1620996--1621163	74	2.3	74	92	0	291	36	22	11	29	1.90
1625091--1625218	59	2.2	59	80	9	145	32	8	11	46	1.71
1625828--1625863	16	2.2	16	95	0	63	38	0	5	55	1.23
1625706--1626011	166	1.9	165	95	1	551	39	6	10	43	1.64
1633201--1633363	85	1.9	85	91	0	263	26	16	20	35	1.94
1635453--1635534	43	1.9	43	87	0	119	20	20	19	39	1.93
1641262--1641307	24	1.9	24	82	8	58	41	0	6	52	1.27
1644728--1644775	2	24.0	2	100	0	96	50	0	0	50	1.00
1645839--1645965	60	2.1	59	83	8	159	39	11	11	37	1.79
1645996--1646379	2	205.5	2	67	23	153	41	2	4	51	1.38
1645995--1646404	5	78.8	5	67	21	88	40	2	4	51	1.36
1646001--1646280	74	3.6	76	72	22	208	41	2	5	51	1.39
1645995--1646292	80	3.8	77	71	20	206	41	2	4	51	1.37
1646211--1646404	75	2.8	65	75	18	160	40	2	3	53	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656063--1656161	32	3.1	32	79	0	108	22	20	26	31	1.98
1657845--1657875	13	2.4	13	100	0	62	51	0	0	48	1.00
1658163--1658232	2	36.5	2	88	8	110	45	0	0	54	0.99
1658165--1658232	21	3.3	21	95	4	122	45	0	0	54	0.99
1658162--1658265	51	2.0	51	83	7	131	42	0	2	53	1.22
1659857--1659924	31	2.4	27	75	17	73	54	0	1	44	1.09
1662687--1662715	15	1.9	15	100	0	58	20	20	24	34	1.97
1666159--1666250	34	2.6	35	75	14	89	39	16	8	35	1.79
1666312--1666398	38	2.2	39	83	4	104	47	10	5	36	1.62
1666614--1666800	55	3.3	56	83	9	229	43	12	8	35	1.74

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