genome.fa.s8353.2.7.7.80.10.50.1000.8.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: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2583621

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

This is table  8  of  13  ( 1447 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)
1431554--1431612	29	2.1	28	87	9	86	27	3	1	67	1.16
1435556--1435591	16	2.2	17	90	5	56	44	0	5	50	1.25
1436686--1436717	2	16.0	2	100	0	64	50	0	0	50	1.00
1439637--1439689	24	2.2	24	96	0	97	30	35	13	20	1.91
1439719--1439901	91	2.0	91	89	0	276	21	27	21	29	1.99
1440683--1440740	28	2.1	27	83	3	71	60	15	15	8	1.58
1443776--1443958	91	2.0	91	90	2	287	20	26	23	28	1.99
1454220--1454247	13	2.2	13	100	0	56	14	7	0	78	0.95
1454979--1455022	21	2.0	22	86	4	63	47	9	0	43	1.35
1459756--1459802	24	2.0	24	86	0	67	29	17	12	40	1.86
1472736--1472780	24	1.9	24	86	4	65	51	0	0	48	1.00
1472794--1472843	19	2.6	19	81	9	66	44	0	2	54	1.11
1480717--1480787	20	3.6	19	72	12	72	14	21	23	40	1.89
1480692--1480790	39	2.5	40	90	3	155	18	20	24	37	1.94
1480779--1480831	22	2.4	22	90	0	88	18	16	26	37	1.93
1481459--1481497	6	6.5	6	100	0	78	0	15	51	33	1.44
1481580--1481643	22	3.0	22	68	13	71	39	23	18	18	1.93
1481635--1481731	20	4.8	20	70	7	79	41	21	20	16	1.90
1481580--1481698	41	2.9	42	83	7	129	38	22	19	19	1.93
1482124--1482160	18	2.0	19	94	5	67	67	0	0	32	0.91
1482468--1482531	31	2.1	31	84	0	83	21	25	10	42	1.85
1482950--1482999	3	16.0	3	87	4	64	4	28	0	68	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483974--1484025	20	2.7	20	81	3	61	30	15	26	26	1.96
1485052--1485103	15	3.5	15	83	0	68	9	17	63	9	1.50
1496023--1496133	28	3.9	29	81	9	104	23	41	20	14	1.89
1496897--1496964	24	2.8	24	78	8	75	25	14	20	39	1.91
1499312--1499405	20	4.7	20	92	2	154	34	25	22	18	1.96
1499377--1499470	33	2.8	33	88	3	125	42	19	23	14	1.88
1499410--1499478	19	3.8	19	71	21	76	44	15	21	17	1.86
1499487--1499582	33	2.9	34	85	3	122	13	22	21	41	1.88
1499683--1499719	14	2.6	14	86	0	56	48	21	0	29	1.50
1501070--1501180	42	2.6	42	79	12	127	25	18	36	19	1.95
1501097--1501174	21	3.7	21	72	16	72	23	17	37	21	1.94
1501664--1501702	20	2.0	20	94	0	69	46	25	12	15	1.81
1501747--1501815	20	3.5	20	85	0	84	37	24	18	18	1.94
1501860--1502035	20	9.4	20	78	16	164	18	18	21	41	1.90
1501804--1502035	127	1.8	127	81	1	277	20	19	21	39	1.93
1501880--1502013	33	3.8	34	77	7	126	16	18	20	44	1.87
1503880--1503949	20	3.5	20	90	0	86	41	25	17	15	1.89
1503879--1503992	33	3.2	33	73	17	95	43	24	18	13	1.85
1504318--1504383	22	3.0	22	84	0	87	21	16	37	24	1.93
1504582--1504653	20	3.5	20	77	3	81	20	20	20	37	1.95
1507565--1507640	36	2.1	35	92	2	125	28	15	39	15	1.89
1507690--1507772	2	44.0	2	72	11	68	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507690--1507772	38	2.2	37	91	6	132	48	0	0	51	1.00
1507770--1507806	12	3.2	12	96	3	67	18	48	21	10	1.78
1507985--1508051	33	2.0	33	85	0	89	43	13	8	34	1.75
1508046--1508087	21	2.0	21	100	0	84	47	9	14	28	1.75
1509527--1509571	23	2.0	22	91	4	72	73	0	0	26	0.84
1516480--1516560	33	2.5	33	97	0	153	45	12	8	33	1.72
1518805--1518870	31	2.1	31	83	5	80	53	12	9	25	1.67
1519437--1519465	9	3.2	9	100	0	58	31	0	0	68	0.89
1521033--1521123	46	2.0	45	93	2	155	45	16	5	32	1.70
1527323--1527397	31	2.4	30	89	6	114	37	41	9	12	1.74
1527507--1527851	172	2.0	170	96	2	629	40	17	10	31	1.83
1530511--1530547	20	1.9	19	89	10	58	45	10	24	18	1.81
1530662--1530709	17	2.7	18	74	9	53	41	2	4	52	1.32
1539869--1539912	21	2.1	21	91	0	70	59	0	2	38	1.10
1541058--1541101	18	2.6	16	80	13	52	36	0	2	61	1.09
1541066--1541102	18	2.1	18	90	5	58	35	0	2	62	1.10
1541235--1541272	2	18.5	2	94	5	67	50	2	0	47	1.15
1541639--1541739	43	2.3	43	80	6	107	47	10	8	32	1.70
1543004--1543153	79	1.9	79	84	5	203	39	8	13	39	1.74
1545248--1545281	16	2.3	15	90	10	52	76	2	2	17	1.04
1562566--1562716	59	2.6	58	93	2	248	33	5	11	48	1.64
1563615--1564329	273	2.6	269	87	5	965	33	7	21	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571408--1571445	2	19.5	2	94	5	69	50	0	0	50	1.00
1571852--1571880	2	14.5	2	100	0	58	51	0	0	48	1.00
1573630--1573706	9	8.6	9	74	8	59	23	33	7	35	1.84
1573753--1573782	15	2.0	15	93	0	51	23	36	0	40	1.55
1574484--1574557	38	2.0	37	84	5	96	50	5	0	44	1.25
1579307--1579361	6	8.8	6	80	7	56	1	60	0	38	1.08
1582920--1582966	21	2.2	21	92	0	76	17	25	17	40	1.90
1582971--1583040	19	3.6	19	96	1	122	40	17	21	21	1.92
1582971--1583060	19	4.6	20	86	6	105	36	20	21	22	1.95
1583029--1583076	20	2.4	20	92	0	78	25	29	20	25	1.99
1583898--1583951	24	2.2	24	93	0	90	20	18	20	40	1.91
1586204--1586234	12	2.6	12	94	0	53	48	29	6	16	1.70
1586294--1586563	140	1.9	140	95	0	486	29	12	14	42	1.83
1586534--1586716	20	9.8	20	76	15	167	32	20	20	25	1.97
1586534--1586679	54	2.7	54	85	7	206	33	21	20	23	1.97
1586534--1586716	34	4.9	40	73	17	167	32	20	20	25	1.97
1586576--1586758	94	1.9	94	91	0	294	32	20	21	24	1.98
1586534--1586758	74	3.0	74	73	7	206	33	20	20	24	1.97
1588363--1588466	21	5.0	21	72	4	68	21	18	39	21	1.93
1588382--1588463	42	2.0	42	82	4	103	20	15	41	21	1.90
1588960--1589026	20	3.5	18	82	11	71	37	25	17	19	1.94
1588971--1589021	20	2.5	20	93	0	84	35	23	19	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589069--1589116	20	2.4	20	85	0	60	16	25	27	31	1.97
1590961--1591030	20	3.5	20	84	1	88	51	21	15	11	1.75
1591649--1591785	20	6.9	20	83	1	141	24	22	24	28	1.99
1595092--1595155	28	2.3	27	78	7	65	34	7	14	43	1.74
1595084--1595273	29	6.6	29	80	4	186	35	6	14	44	1.70
1595084--1595273	58	3.3	59	85	4	217	35	6	14	44	1.70
1595177--1595299	29	4.2	29	76	13	85	37	3	14	44	1.62
1602471--1602524	18	2.9	18	83	2	63	20	44	22	12	1.85
1602531--1602716	59	3.2	57	79	5	183	35	4	15	44	1.66
1602550--1602716	29	5.7	29	73	4	122	37	4	14	43	1.66
1606739--1606783	20	2.2	20	96	0	81	35	13	24	26	1.92
1607131--1607193	28	2.3	28	83	8	76	42	4	9	42	1.58
1612167--1612197	16	1.9	16	93	0	53	29	3	0	67	1.06
1612750--1612783	12	2.8	12	90	0	50	55	29	0	14	1.40
1612909--1612955	24	1.9	24	91	4	76	25	21	17	36	1.94
1615224--1615259	18	2.0	18	94	0	63	55	25	2	16	1.55
1615699--1615749	14	3.6	14	86	0	75	49	17	0	33	1.47
1620441--1620473	17	1.9	17	88	11	50	66	30	3	0	1.06
1624546--1624576	12	2.7	11	90	9	53	51	9	12	25	1.70
1630196--1630263	32	2.1	32	88	0	100	36	10	16	36	1.82
1636491--1636685	87	2.2	87	91	0	309	34	24	3	37	1.73
1637423--1637451	8	3.6	8	100	0	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639534--1639565	12	2.7	12	95	0	55	37	18	34	9	1.83
1648457--1648500	2	22.0	2	85	0	61	45	6	0	47	1.29
1648810--1648843	15	2.3	15	89	0	50	32	2	2	61	1.26
1651924--1651949	3	8.7	3	100	0	52	69	0	0	30	0.89
1654283--1654327	19	2.4	19	96	3	83	11	11	8	68	1.39
1656889--1656952	23	2.8	23	90	0	101	26	26	28	18	1.98
1656963--1657179	103	2.1	101	97	1	407	36	24	13	25	1.92
1657935--1658158	64	3.5	64	83	6	258	28	18	19	33	1.95
1662640--1662703	23	2.8	23	90	0	101	26	26	28	18	1.98
1662714--1662934	101	2.2	102	95	1	399	37	24	12	25	1.90

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