genome.fa.s8621.2.7.7.80.10.50.1000.9.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: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991651

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

This is table  9  of  11  ( 1297 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)
1508686--1509113	231	1.9	224	84	8	567	31	11	16	41	1.84
1513235--1513307	14	4.5	17	69	22	59	6	21	39	31	1.80
1513232--1513305	32	2.3	32	92	0	130	5	22	41	29	1.76
1514770--1514969	100	2.0	100	98	1	384	33	15	20	32	1.93
1516145--1516220	36	2.1	36	95	4	136	44	7	7	39	1.63
1518126--1518194	34	2.0	34	88	5	104	52	2	7	37	1.44
1518816--1518869	3	18.0	3	92	0	90	29	0	0	70	0.88
1522520--1522561	22	2.0	21	90	4	66	69	7	0	23	1.13
1534529--1534578	2	25.0	2	100	0	100	50	0	0	50	1.00
1541370--1541422	27	2.0	27	92	0	88	35	13	16	33	1.88
1541832--1541909	30	2.6	30	86	8	122	29	20	12	37	1.90
1553227--1553276	21	2.4	21	100	0	100	24	50	6	20	1.70
1554484--1554709	43	5.3	43	95	0	389	25	23	23	27	2.00
1554484--1554735	43	5.9	43	91	2	348	25	21	23	28	1.99
1554479--1554793	129	2.4	129	82	3	294	28	21	22	26	1.99
1554905--1554963	21	2.8	21	84	0	64	55	20	3	20	1.57
1556307--1556374	16	4.4	16	72	20	56	38	32	0	29	1.58
1559172--1559513	41	8.3	41	79	8	340	34	17	19	27	1.95
1559148--1559513	82	4.4	83	81	7	440	33	17	19	28	1.95
1559148--1559513	165	2.2	164	85	3	468	33	17	19	28	1.95
1559782--1559810	2	14.5	2	100	0	58	51	0	0	48	1.00
1559802--1559850	24	2.0	24	84	8	62	38	0	28	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1561272--1561317	22	2.1	22	84	8	58	45	4	6	43	1.49
1561284--1561326	22	2.0	22	81	9	52	48	2	4	44	1.36
1564621--1564683	31	2.0	31	93	0	108	34	17	19	28	1.94
1566970--1567029	29	2.1	29	83	0	75	20	23	3	53	1.60
1567734--1567773	20	2.0	20	85	9	55	35	10	22	32	1.87
1569575--1569615	14	2.9	14	85	0	64	21	31	29	17	1.96
1569606--1569649	10	4.4	10	88	11	72	22	38	29	9	1.85
1569606--1569683	10	7.5	10	77	8	66	24	33	33	8	1.87
1569634--1569720	33	2.6	33	87	3	113	27	26	36	9	1.87
1569724--1569808	29	2.9	29	98	0	161	20	30	37	11	1.88
1576146--1576179	10	3.4	10	91	0	59	35	35	0	29	1.58
1576214--1576281	31	2.3	30	82	9	86	27	0	2	69	1.03
1576242--1576284	15	2.8	16	75	17	54	30	0	0	69	0.88
1576223--1576288	31	2.1	31	85	0	96	31	0	3	65	1.08
1580398--1580431	14	2.3	15	90	5	52	38	2	0	58	1.13
1583059--1583151	3	31.0	3	100	0	186	33	0	0	66	0.92
1583735--1583785	8	6.8	8	86	13	81	33	0	0	66	0.92
1583731--1583786	12	4.5	13	81	4	71	32	0	0	67	0.91
1583743--1583786	21	2.1	21	83	8	54	31	0	0	68	0.90
1584061--1584095	8	4.4	8	100	0	70	74	0	0	25	0.82
1584047--1584098	13	4.2	13	76	18	65	73	0	0	26	0.84
1584042--1584094	21	2.5	21	87	0	79	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588314--1588354	21	1.9	22	90	5	66	19	0	12	68	1.21
1589301--1589411	55	2.0	55	98	0	213	34	8	9	48	1.64
1594263--1594350	41	2.3	37	90	9	133	39	17	25	18	1.91
1594285--1594350	21	3.2	21	78	4	89	39	16	27	16	1.90
1594284--1594411	41	3.1	41	81	6	118	38	20	21	19	1.94
1594339--1594433	20	4.7	20	80	2	91	34	24	17	23	1.96
1594621--1594664	22	2.0	22	95	0	79	20	45	15	18	1.85
1594928--1594965	20	1.9	20	88	0	58	13	15	21	50	1.78
1596285--1596329	18	2.5	18	88	0	72	26	44	15	13	1.83
1596796--1596862	20	3.4	20	81	2	73	38	23	22	14	1.92
1596835--1596929	18	5.7	18	78	17	107	45	21	20	13	1.85
1596941--1596998	14	3.9	14	79	16	71	8	17	25	48	1.75
1596936--1597014	32	2.4	33	95	2	142	10	18	24	46	1.80
1596955--1597072	20	6.4	19	77	11	95	13	20	24	41	1.88
1598838--1598960	42	2.9	41	80	9	106	22	17	35	23	1.95
1600894--1600980	33	2.6	33	90	3	129	37	26	24	11	1.89
1600869--1601034	19	9.1	19	74	16	136	43	22	22	12	1.86
1601030--1601096	19	3.5	19	85	2	89	10	16	25	47	1.78
1601650--1601750	20	4.9	21	71	12	59	18	19	18	42	1.89
1601613--1601706	20	4.7	20	80	2	89	23	18	24	34	1.96
1601634--1601768	41	3.3	41	82	4	139	19	21	20	38	1.94
1601714--1601780	20	3.3	20	79	4	89	16	23	17	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601695--1601770	21	3.7	21	80	3	100	15	25	18	40	1.90
1601695--1601784	41	2.2	41	100	0	180	16	24	17	41	1.90
1602920--1603000	13	5.8	15	68	18	50	51	0	0	48	1.00
1607439--1607472	2	17.0	2	87	0	50	0	44	0	55	0.99
1607438--1607472	12	2.9	12	100	0	70	0	42	0	57	0.99
1608912--1608994	42	2.0	42	92	4	141	31	13	24	31	1.93
1615145--1615198	27	2.0	26	89	3	81	12	9	33	44	1.75
1615772--1615824	18	3.1	17	78	10	63	35	30	1	32	1.69
1619033--1619086	20	2.7	21	72	16	51	50	12	12	24	1.76
1619118--1619155	20	1.9	20	94	0	67	34	15	13	36	1.87
1623157--1623196	16	2.4	17	83	4	55	22	5	25	47	1.71
1623758--1623844	23	3.7	23	72	17	79	20	25	27	26	1.99
1629174--1629213	16	2.4	17	83	4	55	22	5	25	47	1.71
1629779--1629865	23	3.7	23	72	17	79	20	25	27	26	1.99
1634222--1634260	16	2.6	16	88	8	55	64	12	7	15	1.49
1634329--1634389	16	3.8	16	86	0	95	59	21	11	8	1.58
1634749--1634809	14	4.4	14	100	0	122	49	27	16	6	1.70
1634740--1634809	28	2.5	28	95	0	122	51	25	14	8	1.70
1640209--1640240	15	2.1	16	94	5	57	6	25	18	50	1.70
1640991--1641024	16	2.1	16	94	0	59	32	26	8	32	1.87
1648903--1649019	39	3.0	39	87	0	180	48	11	10	29	1.73
1652788--1652818	2	15.5	2	100	0	62	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)
1655227--1655287	30	2.1	29	84	6	79	31	29	8	31	1.86
1662960--1663122	87	1.9	87	92	0	272	42	10	12	33	1.77
1663075--1663122	23	2.1	23	92	0	78	37	10	16	35	1.83
1663258--1664100	182	4.6	182	93	0	1427	27	16	12	43	1.85
1665421--1665787	194	1.9	191	90	6	587	30	18	14	36	1.91
1665953--1666001	19	2.6	19	93	6	82	57	10	2	30	1.43
1668089--1668121	15	2.2	15	94	0	57	9	63	9	18	1.49
1670242--1670715	182	2.6	180	86	3	628	26	16	13	43	1.84
1671513--1671542	15	2.0	15	100	0	60	33	26	0	40	1.57
1673382--1673420	18	2.1	19	85	4	53	28	2	0	69	1.02
1679262--1679308	24	1.9	25	83	12	62	42	2	10	44	1.51
1680160--1680289	30	4.3	30	81	3	147	59	10	13	16	1.61
1680160--1680289	60	2.2	61	87	2	183	59	10	13	16	1.61
1684313--1684393	42	1.9	42	87	9	121	29	24	9	35	1.88
1684412--1684461	24	2.1	24	84	0	64	34	34	6	26	1.81
1686457--1686507	22	2.5	20	80	6	66	37	0	3	58	1.16
1694795--1694833	20	2.0	20	85	10	53	35	2	12	48	1.55
1697273--1697382	29	3.7	28	77	13	80	47	10	19	23	1.79
1697273--1697354	30	2.7	30	83	9	87	46	10	19	23	1.81
1697311--1697458	29	5.1	28	73	10	118	43	11	18	26	1.84
1699347--1699514	29	5.7	29	73	15	123	31	11	12	44	1.78
1700510--1700854	182	1.9	182	90	1	548	42	11	17	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701409--1701443	16	2.2	16	95	5	63	25	11	22	40	1.88
1702507--1703486	200	4.9	198	79	6	1106	37	17	14	31	1.89
1703241--1703286	21	2.1	21	84	4	56	30	15	10	43	1.81
1728291--1728337	17	2.8	17	83	0	58	23	10	10	55	1.65
1728578--1728705	47	2.7	47	85	2	141	37	18	18	25	1.94
1728613--1728697	23	3.6	24	75	10	95	37	18	17	25	1.93
1729505--1729799	149	2.0	151	98	1	576	38	5	6	49	1.50
1729713--1729789	37	2.1	37	85	4	102	48	1	3	46	1.28
1730853--1731383	41	13.0	41	80	5	464	27	22	18	31	1.97
1730853--1731383	164	3.2	164	80	6	520	27	22	18	31	1.97

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