genome.fa.s1991.2.7.7.80.10.50.1000.9.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: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373627

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

This is table  9  of  13  ( 1445 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)
1501315--1501396	31	2.7	32	82	14	93	47	1	1	50	1.16
1501387--1501441	14	3.9	14	81	11	60	52	1	1	43	1.22
1505486--1505548	26	2.4	26	94	0	117	3	38	1	57	1.24
1507938--1508010	21	3.5	21	92	0	128	31	17	17	32	1.94
1508452--1508536	22	3.9	22	73	11	75	25	18	22	32	1.97
1509151--1509222	30	2.4	30	95	0	126	52	13	12	20	1.73
1509176--1509240	24	2.7	25	76	7	71	49	16	10	23	1.77
1509722--1510066	186	1.8	188	86	5	502	38	6	8	47	1.59
1510006--1510123	61	1.9	61	84	5	155	42	2	9	45	1.49
1511432--1511474	18	2.4	18	88	11	63	69	0	4	25	1.07
1513093--1513310	37	6.1	37	72	11	150	39	12	18	28	1.87
1513224--1513310	36	2.4	37	90	5	140	39	10	19	31	1.85
1513991--1514051	31	2.0	31	96	0	113	22	6	42	27	1.78
1518028--1518076	18	2.7	19	85	14	61	69	0	6	24	1.11
1519133--1519183	4	13.0	4	95	4	95	74	0	0	25	0.82
1520125--1520198	16	5.1	15	73	20	77	37	0	0	62	0.96
1520121--1520208	25	3.5	25	75	18	76	39	0	0	60	0.97
1520125--1520219	41	2.3	41	98	0	181	40	0	0	60	0.97
1520150--1520212	15	4.5	15	67	28	57	36	0	0	63	0.95
1520274--1520306	2	17.5	2	87	12	52	48	0	0	51	1.00
1520268--1520303	10	3.4	10	92	7	54	50	0	0	50	1.00
1521739--1521766	10	2.8	10	100	0	56	0	10	28	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525465--1525490	2	13.0	2	100	0	52	50	0	0	50	1.00
1525927--1526109	49	3.7	49	80	9	185	34	9	14	41	1.78
1526901--1526935	18	1.9	18	88	0	52	60	0	0	40	0.97
1527425--1527479	29	1.9	29	85	3	76	18	9	10	61	1.54
1535825--1535874	25	2.0	25	88	7	75	48	0	4	48	1.20
1541558--1541603	12	3.6	12	81	16	56	45	17	19	17	1.85
1541564--1541604	12	3.1	13	80	19	57	46	14	17	21	1.84
1543897--1543936	21	1.9	21	94	0	71	30	15	7	47	1.72
1543931--1544028	33	3.0	33	92	2	155	32	7	15	44	1.73
1544014--1544068	13	4.2	13	75	13	58	34	3	12	49	1.59
1544465--1544521	15	3.7	15	77	9	60	36	12	8	42	1.74
1544484--1544517	18	1.9	18	94	5	61	44	11	5	38	1.65
1544610--1544641	16	2.0	17	88	11	50	43	21	21	12	1.86
1545252--1545328	39	2.0	39	97	0	145	36	16	18	28	1.93
1551757--1551955	102	2.0	100	86	6	276	27	9	12	50	1.70
1552443--1552491	6	8.7	6	93	2	68	0	18	51	30	1.47
1553247--1553280	14	2.5	13	86	9	50	44	2	11	41	1.56
1556145--1556174	2	15.5	2	93	6	53	50	0	0	50	1.00
1556858--1556896	10	3.9	10	82	0	51	15	2	12	69	1.30
1556854--1556897	20	2.2	20	79	0	52	13	6	13	65	1.44
1556962--1557009	22	2.1	24	84	7	64	47	12	2	37	1.53
1557144--1557189	23	2.0	23	86	0	65	8	10	21	58	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562478--1562517	15	2.6	15	84	4	53	35	0	0	65	0.93
1562600--1562657	23	2.5	23	81	16	66	37	3	5	53	1.40
1563056--1563629	112	5.1	112	96	0	1008	45	14	15	24	1.83
1563501--1563955	183	2.5	182	92	0	741	43	13	15	27	1.84
1564397--1564468	23	3.1	23	93	0	126	33	22	8	36	1.84
1564387--1564480	46	2.0	46	87	0	134	38	18	6	37	1.76
1568181--1568300	42	2.9	42	97	0	222	16	20	18	44	1.87
1568467--1568540	22	3.1	23	79	16	73	48	1	0	50	1.09
1568490--1568554	22	2.9	23	84	8	73	49	0	0	50	1.00
1568518--1568672	61	2.5	64	75	14	155	47	0	1	50	1.14
1568591--1568675	25	3.3	25	70	18	59	43	0	1	55	1.07
1568597--1568729	28	5.1	27	72	26	101	46	0	0	51	1.11
1568661--1568712	20	2.6	19	81	9	59	48	1	0	50	1.12
1568633--1568769	48	2.8	50	76	17	151	46	0	2	50	1.18
1572261--1572317	23	2.5	23	91	0	87	43	5	14	36	1.67
1572352--1572404	23	2.3	23	83	0	70	41	7	15	35	1.75
1572229--1572477	82	2.9	86	85	7	339	42	7	13	36	1.73
1573126--1573160	14	2.5	14	95	0	61	45	0	0	54	0.99
1573816--1573899	42	2.0	43	81	6	100	51	0	1	47	1.08
1573853--1573934	30	2.6	31	77	14	80	50	1	2	46	1.22
1574392--1574448	20	2.8	21	94	5	107	63	15	10	10	1.52
1574683--1574754	30	2.4	30	77	13	78	48	1	1	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574682--1574754	28	2.4	31	78	17	82	47	1	1	49	1.18
1574772--1574814	22	1.9	23	86	13	63	48	2	0	48	1.14
1572894--1576043	786	4.0	787	88	5	4524	38	8	7	44	1.64
1575454--1575539	31	2.8	30	78	16	81	46	1	2	50	1.21
1575502--1575566	28	2.3	29	81	2	69	49	1	3	46	1.27
1575528--1575574	14	3.3	14	77	14	51	57	2	2	38	1.23
1576154--1576217	32	2.0	32	88	8	96	39	23	4	32	1.75
1576520--1576555	13	2.8	13	95	0	63	36	16	16	30	1.91
1583080--1583132	20	2.6	20	82	8	63	30	18	20	30	1.97
1589163--1589188	2	13.0	2	100	0	52	50	0	0	50	1.00
1592213--1592250	17	2.3	17	86	4	51	76	5	2	15	1.08
1592208--1592251	19	2.4	18	81	7	52	77	4	2	15	1.04
1594650--1594679	15	2.1	14	93	6	51	13	0	40	46	1.43
1602192--1602269	31	2.5	31	100	0	156	44	14	10	30	1.78
1606632--1606671	17	2.4	17	95	0	71	25	12	25	37	1.91
1607550--1607596	25	1.9	25	86	4	69	34	4	0	61	1.15
1616839--1616940	6	17.0	6	98	0	186	31	33	18	16	1.94
1619109--1619153	16	2.8	16	82	0	54	46	31	8	13	1.74
1619071--1619154	32	2.6	33	76	3	80	44	26	11	17	1.84
1619164--1619220	18	3.0	20	73	14	50	54	0	7	38	1.28
1620495--1620544	20	2.5	20	80	6	57	56	4	0	40	1.18
1620652--1620716	21	3.1	21	95	0	121	49	4	27	18	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621655--1621999	43	8.1	42	82	7	338	21	15	21	41	1.90
1621655--1621999	86	4.0	85	83	6	412	21	15	21	41	1.90
1624959--1625010	20	2.6	20	84	6	70	55	7	23	13	1.63
1624967--1625013	20	2.3	20	96	0	85	53	8	23	14	1.69
1625172--1625237	28	2.3	29	84	7	91	22	15	24	37	1.92
1627003--1627051	19	2.7	17	84	9	53	26	20	28	24	1.99
1632183--1632227	21	2.1	21	87	0	63	31	28	24	15	1.96
1633077--1633117	2	20.5	2	100	0	82	51	0	0	48	1.00
1633891--1633993	22	4.6	22	96	1	179	18	26	29	26	1.98
1637114--1637158	21	2.1	21	87	0	63	31	28	24	15	1.96
1638003--1638060	2	29.0	2	96	0	107	50	0	1	48	1.11
1638820--1638922	22	4.6	22	97	1	188	18	27	29	25	1.98
1644863--1645023	41	3.9	42	71	12	118	27	19	21	31	1.97
1646909--1646971	28	2.3	27	81	10	67	20	15	26	36	1.93
1649104--1649163	25	2.5	23	80	15	68	58	8	23	10	1.57
1649114--1649163	25	2.0	24	88	3	73	58	8	22	12	1.59
1656580--1656604	13	1.9	13	100	0	50	56	24	0	20	1.43
1660007--1660059	26	2.0	26	100	0	106	26	24	30	18	1.98
1666564--1666634	9	8.3	9	67	17	53	53	0	4	42	1.20
1666563--1666608	18	2.5	18	82	3	65	50	0	4	45	1.21
1666605--1666651	20	2.5	19	77	19	53	61	0	2	36	1.08
1666916--1667799	113	7.8	113	93	2	1379	26	19	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666916--1667799	337	2.6	337	90	3	1427	26	19	15	38	1.92
1668587--1669017	83	5.2	83	92	2	722	36	22	13	26	1.92
1670162--1670232	9	7.2	10	77	18	69	1	15	0	83	0.73
1670161--1670218	13	4.5	13	81	14	66	0	12	0	87	0.53
1670160--1670227	25	2.8	24	82	8	91	1	14	0	83	0.71
1670162--1670217	8	6.9	8	84	15	71	0	12	0	87	0.54
1670161--1670218	1	58.0	1	75	0	53	0	12	0	87	0.53
1670161--1670219	12	4.8	12	84	14	75	0	13	0	86	0.57
1682508--1682602	3	31.0	3	76	4	73	55	0	3	41	1.15
1682528--1682602	25	3.0	25	86	5	89	56	0	2	41	1.13

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