genome.fa.s8591.2.7.7.80.10.50.1000.7.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: VEPZ01008591.1 Hibiscus syriacus cultivar Beakdansim tig00111540_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1730314

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 896 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)
1395336--1395381	23	2.0	23	95	0	83	36	8	15	39	1.78
1396116--1396166	21	2.4	21	100	0	102	21	31	21	25	1.98
1399608--1399767	15	11.3	14	66	14	78	45	9	11	33	1.72
1399607--1399767	28	5.7	29	84	10	192	45	9	11	34	1.72
1399596--1399662	15	4.5	15	71	16	50	50	7	11	29	1.66
1399599--1399759	14	11.3	15	64	16	65	47	8	11	32	1.70
1399909--1399960	25	2.2	23	82	6	59	53	3	9	32	1.51
1400064--1400208	48	3.0	44	72	18	112	52	2	0	44	1.20
1400064--1400204	54	2.9	48	73	20	123	52	2	0	43	1.21
1400280--1400331	19	2.7	19	79	5	61	59	0	0	40	0.97
1400469--1400532	29	2.2	28	86	2	83	53	10	3	32	1.52
1405921--1405953	16	2.1	16	100	0	66	24	12	30	33	1.91
1408785--1408844	13	4.3	13	80	14	66	65	21	6	6	1.40
1409104--1409132	14	2.1	14	100	0	58	55	17	13	13	1.70
1409170--1409265	40	2.3	40	80	8	122	37	16	11	34	1.85
1417958--1418036	31	2.6	30	82	4	104	39	12	6	41	1.69
1419976--1420029	26	2.1	26	82	6	65	44	3	0	51	1.19
1420151--1420203	26	2.0	26	100	0	106	20	26	26	26	1.99
1432035--1432136	52	2.0	52	88	0	150	29	14	19	36	1.92
1439558--1439594	20	1.9	19	89	10	58	45	10	24	18	1.81
1441778--1441833	3	17.3	3	82	14	67	35	0	0	64	0.94
1441756--1441837	17	5.1	17	78	12	77	34	0	1	64	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441754--1441835	37	2.3	35	83	10	103	34	0	1	64	1.01
1441754--1441830	20	4.0	20	83	13	99	35	0	1	63	1.03
1443266--1443308	18	2.3	18	84	4	50	37	0	6	55	1.27
1444389--1444481	21	4.6	20	81	4	105	38	17	24	19	1.92
1444386--1444481	41	2.3	41	96	0	174	39	16	23	19	1.92
1444389--1444481	20	4.6	20	81	4	105	38	17	24	19	1.92
1444470--1444564	20	4.7	20	80	2	91	34	24	17	23	1.96
1444467--1444544	41	1.9	41	86	0	111	39	21	16	21	1.92
1444752--1444795	22	2.0	22	95	0	79	20	45	15	18	1.85
1445059--1445096	20	1.9	20	88	0	58	13	15	21	50	1.78
1446415--1446459	18	2.5	18	85	0	63	26	42	15	15	1.87
1446932--1446987	20	2.8	20	78	2	60	37	21	23	17	1.94
1446971--1447034	19	3.6	19	72	20	75	45	20	20	14	1.85
1447060--1447163	19	5.4	19	83	4	111	14	21	24	40	1.90
1447071--1447144	39	1.9	38	88	2	112	14	24	22	37	1.92
1449009--1449044	14	2.6	14	90	0	54	30	0	22	47	1.52
1449240--1449337	19	5.7	19	69	22	90	43	19	24	12	1.85
1449240--1449333	33	2.8	33	98	0	179	43	19	24	12	1.85
1449333--1449375	20	2.2	20	87	4	61	16	18	23	41	1.89
1449361--1449394	14	2.4	14	85	0	50	8	23	20	47	1.78
1449517--1449553	14	2.6	14	91	0	65	45	24	0	29	1.53
1450949--1451032	42	2.0	42	85	0	114	22	16	39	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453031--1453215	19	10.1	19	75	14	165	43	21	22	12	1.86
1453031--1453215	33	5.1	38	81	10	165	43	21	22	12	1.86
1453211--1453255	19	2.4	19	92	0	72	8	15	26	48	1.74
1453807--1453858	20	2.6	20	87	6	70	25	17	28	28	1.97
1453889--1453984	41	2.3	41	96	0	138	18	22	18	39	1.92
1453889--1453981	20	4.5	21	77	4	82	18	23	19	38	1.93
1453908--1453981	20	3.7	20	80	3	94	18	22	18	39	1.93
1456803--1456843	2	20.5	2	100	0	82	51	0	0	48	1.00
1457599--1457643	24	2.0	22	83	16	56	40	2	15	42	1.59
1457690--1457761	32	2.2	32	87	0	99	26	27	23	22	1.99
1465162--1465206	22	2.0	22	86	4	63	62	8	15	13	1.54
1469478--1469502	3	8.3	3	100	0	50	0	32	0	68	0.90
1477251--1477284	16	2.1	16	94	0	59	32	26	8	32	1.87
1480012--1480069	23	2.5	23	91	2	89	41	1	0	56	1.09
1482459--1482695	119	2.0	119	98	0	456	35	8	6	48	1.60
1486397--1486462	32	2.1	32	85	5	89	28	25	25	19	1.99
1489602--1489659	28	2.0	29	86	3	82	48	0	1	50	1.11
1490783--1490807	3	8.3	3	100	0	50	0	32	0	68	0.90
1503366--1503403	13	3.1	13	81	11	53	63	2	21	13	1.42
1503917--1504013	42	2.3	41	80	1	104	25	22	21	29	1.99
1504222--1504246	13	1.9	13	100	0	50	32	24	20	24	1.98
1504234--1504335	42	2.4	42	93	0	168	26	22	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504234--1504372	42	3.3	42	86	5	149	28	21	20	29	1.98
1504796--1504916	53	2.3	53	84	5	156	30	19	26	23	1.98
1508085--1508139	24	2.3	23	84	9	67	49	14	5	30	1.66
1508085--1508141	23	2.4	25	85	8	75	49	15	5	29	1.67
1508572--1508607	16	2.2	16	90	0	54	19	13	22	44	1.86
1508773--1508925	2	78.5	2	67	19	65	46	3	7	42	1.49
1509230--1509330	27	3.7	26	75	13	80	28	28	0	42	1.56
1509292--1509392	37	2.7	38	87	4	143	29	25	0	44	1.54
1509334--1509388	19	2.9	19	74	15	60	29	30	0	40	1.57
1509649--1509692	13	3.3	13	82	17	54	47	0	9	43	1.35
1509822--1509873	16	3.2	16	78	10	61	46	13	15	25	1.82
1511282--1511349	12	5.8	12	75	13	61	51	19	14	14	1.76
1511280--1511369	46	2.0	46	88	0	135	48	17	14	18	1.81
1511281--1511386	24	4.5	24	75	7	101	47	17	16	18	1.83
1512914--1513036	63	2.0	63	100	0	246	27	28	9	34	1.89
1513962--1513993	13	2.5	13	100	0	64	12	25	46	15	1.81
1513962--1514028	31	2.2	31	88	0	98	16	20	44	17	1.86
1513970--1514008	18	2.2	18	90	0	60	12	23	46	17	1.83
1517732--1517853	63	2.0	63	96	1	228	27	28	9	35	1.87
1518163--1518550	190	2.0	191	98	0	751	35	20	11	31	1.89
1521825--1521870	23	2.0	23	100	0	92	47	17	17	17	1.83
1521889--1521953	32	2.0	33	96	3	123	27	23	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522338--1522663	162	2.0	163	98	1	636	34	10	13	42	1.78
1523052--1523127	38	2.0	38	84	5	100	27	10	27	34	1.90
1524442--1524534	21	4.6	20	78	4	96	38	18	24	18	1.92
1524439--1524534	41	2.3	41	98	0	183	39	17	23	18	1.92
1524442--1524534	20	4.6	20	78	4	96	38	18	24	18	1.92
1524461--1524595	41	3.3	41	81	6	123	37	20	21	20	1.94
1524523--1524617	20	4.7	20	80	2	91	34	24	17	23	1.96
1524805--1524848	22	2.0	22	95	0	79	20	45	15	18	1.85
1525110--1525147	20	1.9	20	88	0	58	13	15	21	50	1.78
1526450--1526494	18	2.5	18	85	0	63	26	42	15	15	1.87
1526967--1527033	20	3.4	20	81	2	73	38	23	22	14	1.92
1527022--1527078	14	3.8	14	76	17	60	50	26	14	8	1.71
1527006--1527096	32	2.8	33	91	3	148	49	23	16	10	1.77
1527097--1527186	14	5.3	18	70	22	70	10	18	24	46	1.80
1527108--1527186	32	2.4	33	93	2	133	10	20	22	46	1.80
1527171--1527225	20	2.8	19	89	5	83	16	25	23	34	1.95
1529232--1529266	18	1.9	18	100	0	70	40	20	22	17	1.92
1529312--1529369	20	2.9	20	92	0	89	18	22	20	37	1.94
1530423--1530481	24	2.5	24	82	0	73	28	16	18	35	1.93
1532954--1533051	19	5.7	19	69	22	90	43	18	24	13	1.85
1532954--1533047	33	2.8	33	95	0	170	43	18	24	13	1.86
1533047--1533089	20	2.2	20	87	4	61	16	18	23	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533075--1533108	14	2.4	14	85	0	50	8	23	20	47	1.78
1533229--1533265	14	2.6	14	91	0	65	45	24	0	29	1.53
1534656--1534739	42	2.0	42	85	0	114	22	16	39	21	1.92
1536715--1536876	20	8.8	19	71	15	99	43	22	21	12	1.86
1536740--1536839	34	3.0	33	86	4	137	39	27	23	11	1.88
1536877--1536919	19	2.3	18	84	7	59	9	16	27	46	1.77
1536887--1536945	19	3.1	19	82	4	66	11	22	22	44	1.85
1537453--1537546	20	4.7	20	77	2	80	23	17	24	35	1.95
1537535--1537630	41	2.3	41	98	0	147	18	23	17	39	1.92
1537535--1537627	20	4.6	20	78	4	96	18	24	18	38	1.92

Tables:   1   2   3   4   5   6   7   8