genome.fa.s8316.2.7.7.80.10.50.1000.8.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: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2380696

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

This is table  8  of  12  ( 1404 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)
1435199--1435223	13	1.9	13	100	0	50	8	8	48	36	1.62
1436875--1436917	14	3.1	14	75	18	54	41	11	6	39	1.68
1436930--1437097	14	12.6	14	64	27	82	45	11	1	41	1.48
1436878--1437038	26	6.5	25	73	20	135	45	9	2	42	1.51
1437004--1437118	59	1.9	61	89	3	180	48	12	0	39	1.41
1437204--1437229	11	2.4	11	100	0	52	46	15	0	38	1.46
1437364--1437419	21	2.7	20	81	13	60	51	7	0	41	1.29
1437353--1437441	24	3.8	23	80	14	94	48	8	0	42	1.34
1437388--1437489	24	3.9	27	70	14	72	45	6	0	47	1.36
1437435--1437510	23	3.2	24	83	10	93	39	10	1	48	1.46
1437432--1437510	26	3.2	25	83	5	81	39	10	1	49	1.45
1437750--1437814	14	4.7	14	72	11	53	44	12	0	43	1.41
1441735--1441791	28	2.0	29	93	6	98	57	15	0	26	1.38
1442346--1442401	29	1.9	29	88	0	85	16	35	26	21	1.94
1443416--1443459	20	2.1	21	83	4	54	65	4	2	27	1.23
1443584--1443629	20	2.3	20	96	0	83	30	0	32	36	1.58
1452519--1452556	20	1.9	20	94	0	67	10	31	34	23	1.89
1452960--1453064	46	2.3	46	90	1	167	41	5	19	33	1.75
1453242--1453306	17	3.6	17	69	28	53	20	24	29	26	1.99
1453213--1453308	38	2.5	38	89	0	156	25	23	27	23	2.00
1459762--1459836	23	3.3	22	70	15	71	40	8	20	32	1.81
1459744--1459848	46	2.3	46	95	1	185	42	6	18	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459997--1460092	38	2.5	38	86	0	129	26	21	27	25	2.00
1460740--1461158	43	9.8	43	70	15	183	48	7	16	27	1.73
1460829--1461090	44	6.1	44	75	14	185	48	7	17	26	1.74
1460854--1461098	129	1.9	127	86	3	348	48	6	18	26	1.72
1460837--1461177	85	4.0	85	77	13	274	48	7	16	27	1.72
1460888--1461208	45	7.5	42	73	12	176	51	7	14	27	1.68
1461175--1461243	29	2.3	30	80	7	70	60	10	11	17	1.57
1462430--1462495	32	2.1	32	85	5	89	13	16	25	43	1.85
1463075--1463124	14	3.2	17	72	18	54	36	0	0	64	0.94
1463075--1463148	31	2.4	31	84	8	96	36	0	1	62	1.04
1463776--1463831	14	3.9	14	77	13	69	57	1	0	41	1.09
1464059--1464104	18	2.6	18	89	3	67	36	8	26	28	1.86
1473215--1473293	29	2.6	31	76	9	83	59	7	6	26	1.49
1474823--1474989	40	4.2	40	88	1	219	29	16	29	23	1.97
1475303--1475705	169	2.3	171	86	4	542	26	16	22	34	1.95
1475659--1475826	60	2.7	62	88	7	243	25	16	20	38	1.92
1477476--1477510	14	2.5	14	85	0	52	25	11	17	45	1.81
1482329--1482417	29	3.0	28	73	12	81	58	11	7	22	1.58
1494608--1494705	29	3.3	29	72	13	83	59	9	7	24	1.53
1499284--1499675	96	4.1	95	75	7	359	23	15	13	46	1.82
1511913--1512068	31	5.0	31	92	1	251	39	23	17	19	1.93
1513826--1513851	10	2.6	10	100	0	52	0	7	0	92	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513896--1513938	17	2.6	16	78	7	50	39	25	0	34	1.56
1516750--1516892	31	4.6	31	89	3	216	39	20	18	21	1.92
1517779--1517836	20	2.7	22	84	13	84	18	29	24	27	1.98
1519071--1519099	15	1.9	15	100	0	58	55	0	0	44	0.99
1524266--1524338	31	2.3	32	83	9	96	26	6	24	42	1.79
1524266--1524329	32	2.0	33	87	3	94	29	4	21	43	1.73
1524344--1524479	32	4.3	32	78	8	145	16	8	28	45	1.78
1524409--1524463	28	2.0	28	92	0	92	20	7	23	49	1.74
1524904--1524939	16	2.2	16	90	0	54	27	27	5	38	1.79
1535587--1535622	3	12.0	3	100	0	72	0	33	0	66	0.92
1536094--1536138	3	15.0	3	90	0	54	42	0	0	57	0.98
1537740--1537778	19	2.0	21	85	10	55	51	0	0	48	1.00
1541587--1541618	15	2.1	15	94	0	55	28	18	6	46	1.73
1550239--1550520	93	3.0	93	95	2	489	32	15	19	31	1.94
1550425--1550755	115	2.9	115	94	2	569	34	13	21	30	1.92
1551444--1552108	116	5.8	116	90	3	860	37	12	18	30	1.88
1552056--1552141	36	2.4	36	96	0	154	47	11	20	19	1.81
1552090--1552369	124	2.3	119	82	7	341	42	15	17	23	1.88
1552521--1552559	3	13.0	3	88	0	60	38	0	0	61	0.96
1553848--1553882	12	2.9	12	91	0	52	28	5	0	65	1.15
1554175--1554200	2	13.0	2	100	0	52	50	0	0	50	1.00
1555901--1555963	24	2.7	23	76	14	65	23	15	15	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560679--1560823	58	2.4	61	80	7	165	36	13	14	35	1.86
1565983--1566060	33	2.4	33	84	4	104	29	15	19	35	1.92
1566120--1566172	14	3.6	14	79	20	56	64	0	1	33	1.05
1566118--1566169	26	2.1	24	85	7	68	65	0	1	32	1.04
1566971--1567053	32	2.6	32	90	0	130	20	27	27	24	1.99
1567112--1567369	110	2.4	108	87	2	367	22	18	24	34	1.96
1571010--1571055	4	12.2	4	82	17	55	73	0	0	26	0.83
1571001--1571056	19	3.0	18	87	10	78	71	0	1	26	0.96
1571014--1571052	15	2.6	15	84	15	62	74	0	0	25	0.82
1571007--1571048	7	6.1	7	84	15	61	73	0	0	26	0.83
1571545--1571609	33	2.0	33	93	0	112	32	7	18	41	1.79
1572762--1572801	17	2.4	17	91	0	62	45	0	0	55	0.99
1575053--1575136	19	4.4	19	96	0	159	51	9	25	14	1.72
1576361--1576434	29	2.4	31	84	11	107	44	0	2	52	1.15
1576578--1576712	60	2.3	59	80	7	139	37	12	4	45	1.62
1579154--1579186	2	16.5	2	93	0	57	54	0	0	45	0.99
1581664--1581689	2	13.0	2	100	0	52	50	50	0	0	1.00
1585440--1585465	1	26.0	1	100	0	52	100	0	0	0	0.00
1586665--1586697	13	2.6	13	90	4	50	18	0	3	78	0.87
1597463--1597511	21	2.5	19	84	15	57	69	6	4	20	1.27
1597784--1597818	2	17.5	2	93	0	61	48	2	0	48	1.16
1600319--1600366	25	2.0	25	87	4	71	50	14	14	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603938--1604011	21	3.5	21	85	7	114	21	27	17	33	1.96
1604001--1604074	20	3.7	20	89	3	112	40	17	21	20	1.91
1604602--1604661	20	3.0	20	76	13	70	48	20	18	13	1.81
1607946--1608014	2	34.5	2	100	0	138	49	0	0	50	1.00
1608068--1608174	39	2.7	38	80	7	99	43	3	5	46	1.44
1608146--1608201	27	2.0	27	86	3	76	39	3	5	51	1.42
1608095--1608237	66	2.2	63	83	6	180	41	4	4	48	1.44
1608158--1608215	27	2.1	27	83	6	71	43	3	5	48	1.42
1608161--1608318	38	4.2	37	84	7	187	43	4	4	47	1.43
1608161--1608319	74	2.1	75	83	6	207	43	5	4	47	1.45
1608378--1608432	3	18.3	3	85	7	76	30	0	3	65	1.10
1609854--1609905	25	2.2	23	86	6	68	26	1	0	71	0.97
1610358--1610424	23	3.0	21	71	14	55	50	0	0	49	1.00
1610353--1610411	32	1.9	30	86	6	82	52	0	0	47	1.00
1610355--1610422	22	3.0	23	77	10	70	54	0	0	45	0.99
1613990--1614028	17	2.3	17	86	0	51	46	7	2	43	1.46
1618247--1618374	37	3.6	37	73	11	142	40	0	6	53	1.26
1618204--1618319	15	7.3	15	84	13	153	43	0	2	53	1.14
1618299--1618616	32	10.4	32	69	25	163	36	0	10	52	1.36
1618299--1618745	54	8.1	54	73	15	337	35	0	11	52	1.40
1618344--1618840	80	6.0	84	78	15	397	34	0	12	52	1.41
1618348--1618840	134	3.6	134	80	12	640	34	0	12	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618510--1618552	22	2.0	22	100	0	86	34	0	13	51	1.42
1618541--1618593	14	3.5	14	72	18	52	37	0	5	56	1.23
1618649--1618728	32	2.5	32	90	6	135	36	0	10	53	1.34
1618344--1618745	166	2.4	166	83	8	591	34	0	12	52	1.41
1618344--1618808	112	4.2	111	79	13	539	34	0	12	52	1.42
1618788--1618830	22	2.0	22	100	0	86	34	0	13	51	1.42
1618344--1618840	166	3.0	160	76	15	512	34	0	12	52	1.41
1624760--1624785	2	13.0	2	100	0	52	50	0	0	50	1.00
1625296--1625330	18	1.9	18	88	0	52	8	11	8	71	1.31
1629911--1629945	17	2.1	17	88	0	52	51	5	5	37	1.50

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