genome.fa.s8504.2.7.7.80.10.50.1000.8.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: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2056749

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

This is table  8  of  10  ( 1190 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)
1538817--1539168	54	6.5	54	87	1	429	26	16	19	36	1.93
1539508--1539672	75	2.2	75	98	0	321	27	23	13	35	1.93
1540318--1540664	54	6.4	54	90	1	482	25	17	22	34	1.96
1548136--1548164	14	2.0	15	93	6	51	75	3	6	13	1.13
1553278--1553403	66	1.9	66	90	0	198	38	19	21	20	1.93
1555380--1555442	3	21.7	3	78	15	62	71	0	0	28	0.86
1555394--1555431	19	2.0	19	89	0	58	78	0	0	21	0.74
1555467--1555527	22	2.7	22	87	7	88	49	9	4	36	1.58
1559682--1559722	21	2.0	21	90	9	66	75	0	7	17	1.02
1562828--1562884	22	2.6	22	94	2	98	33	17	15	33	1.92
1562629--1563083	221	2.1	221	92	0	750	41	15	14	28	1.86
1562849--1563351	199	2.5	199	90	0	781	40	15	15	28	1.88
1562433--1563282	420	2.0	419	92	0	1396	41	15	15	27	1.87
1563377--1563416	21	1.9	21	84	0	53	27	17	12	42	1.85
1563704--1563745	15	2.8	15	85	0	57	19	47	2	30	1.62
1566296--1566348	24	2.2	24	89	0	79	37	1	13	47	1.54
1566521--1567772	200	6.4	186	86	6	1255	42	16	14	27	1.86
1566771--1567888	200	5.6	200	91	0	1641	42	15	14	27	1.86
1566770--1568038	600	2.1	599	85	3	1674	41	15	14	28	1.86
1566784--1568234	600	2.4	598	82	3	1490	40	16	14	29	1.87
1567748--1568292	201	2.7	201	83	3	659	36	15	14	32	1.88
1571879--1572226	180	1.9	183	85	5	479	39	14	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572473--1572517	23	2.0	23	95	0	81	37	20	8	33	1.83
1572389--1572551	87	1.9	87	93	0	281	32	15	11	39	1.84
1574155--1574195	3	13.7	3	100	0	82	68	0	0	31	0.90
1576190--1576379	29	6.6	27	75	12	148	36	21	6	35	1.79
1576190--1576381	58	3.4	57	82	5	226	35	21	6	35	1.79
1579811--1580104	146	2.0	146	98	0	570	27	27	14	30	1.95
1583826--1583953	29	4.4	29	84	2	159	37	21	3	37	1.72
1583826--1583953	57	2.2	58	88	1	195	37	21	3	37	1.72
1585111--1585139	2	15.0	2	92	7	51	51	0	0	48	1.00
1587955--1587990	17	2.1	17	94	0	63	63	0	2	33	1.08
1587988--1588036	2	24.5	2	100	0	98	51	0	0	48	1.00
1593150--1593187	16	2.3	17	86	4	51	2	10	2	84	0.83
1601557--1601590	18	1.9	18	88	5	52	58	0	8	32	1.29
1602142--1602217	24	3.3	23	79	16	77	56	0	1	42	1.07
1602158--1602220	24	2.5	24	87	10	83	55	0	0	44	0.99
1603489--1603538	21	2.4	21	100	0	100	24	34	20	22	1.97
1603877--1603921	19	2.4	19	92	0	72	15	13	28	42	1.85
1605535--1605595	21	2.9	21	83	9	70	31	1	1	65	1.12
1605557--1605627	35	2.0	37	86	5	101	39	1	4	54	1.28
1613072--1613180	31	3.5	31	88	0	155	41	21	17	20	1.91
1613844--1613882	21	1.9	19	90	10	60	17	25	25	30	1.97
1616310--1616361	24	2.2	24	82	0	59	40	25	11	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621404--1621440	17	2.1	18	90	5	58	24	0	37	37	1.56
1621711--1621970	117	2.2	118	87	2	364	23	21	16	38	1.93
1621949--1622063	52	2.3	49	85	11	148	28	20	16	33	1.95
1621896--1622154	137	1.8	138	88	8	398	26	21	15	36	1.94
1621997--1622396	91	4.4	91	85	4	502	25	22	14	37	1.92
1623329--1623418	5	17.8	5	78	12	60	2	22	1	74	0.99
1623345--1623418	32	2.3	32	80	0	85	1	24	1	72	1.00
1636364--1636394	6	5.3	6	92	7	55	12	0	48	38	1.42
1636364--1636394	11	2.7	12	95	5	55	12	0	48	38	1.42
1640968--1641001	16	2.1	16	88	0	50	50	0	2	47	1.16
1641043--1641076	16	2.0	18	88	11	54	26	2	5	64	1.30
1641548--1641581	17	2.0	17	100	0	68	29	5	29	35	1.81
1642204--1642279	35	2.2	35	90	0	116	36	1	22	39	1.63
1643059--1643099	4	10.2	4	100	0	82	0	24	0	75	0.80
1643413--1643543	68	1.9	68	86	6	185	33	15	12	38	1.86
1654143--1654196	25	2.2	25	89	0	81	35	0	35	29	1.58
1658808--1658855	23	2.1	23	92	0	78	25	27	20	27	1.99
1660719--1660913	97	2.0	97	88	0	291	28	12	17	41	1.87
1661518--1662014	250	2.0	250	97	0	931	31	20	14	33	1.92
1663676--1663735	30	2.0	30	86	0	84	25	23	20	31	1.98
1665597--1665792	96	2.0	96	88	3	288	27	12	19	40	1.87
1667974--1667998	13	1.9	13	100	0	50	32	24	8	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668012--1668070	29	2.0	29	83	3	73	25	23	16	33	1.96
1670648--1670704	2	28.5	2	100	0	114	49	0	0	50	1.00
1675308--1675388	16	5.1	16	74	14	87	50	0	0	49	1.00
1676083--1676145	32	2.0	32	90	0	99	46	6	14	33	1.70
1679606--1679661	2	28.0	2	100	0	112	50	0	0	50	1.00
1680194--1680238	2	22.5	2	100	0	90	51	0	0	48	1.00
1680230--1680582	181	2.0	181	85	5	491	38	11	16	33	1.85
1680598--1680640	2	21.5	2	100	0	86	51	0	0	48	1.00
1680411--1680835	221	1.9	220	84	2	557	40	10	13	34	1.80
1680632--1680988	186	1.9	186	84	6	472	38	13	16	31	1.87
1681344--1681440	36	2.6	38	69	11	94	34	15	6	44	1.71
1681257--1681469	73	2.9	73	80	10	247	34	14	5	46	1.66
1682642--1683094	186	2.4	189	80	5	488	32	16	11	39	1.85
1684769--1684887	39	3.1	39	76	12	129	35	15	3	46	1.62
1684882--1684934	22	2.5	21	75	6	54	41	1	1	54	1.22
1688591--1688629	14	2.8	14	84	0	51	35	28	12	23	1.91
1696381--1696477	20	4.8	20	82	2	131	15	22	21	40	1.91
1696469--1696521	22	2.4	22	93	0	97	16	16	28	37	1.91
1696619--1696651	6	5.5	6	100	0	66	33	51	15	0	1.43
1697135--1697166	6	5.3	6	92	0	55	3	12	50	34	1.56
1697135--1697169	18	1.9	18	100	0	70	5	11	48	34	1.63
1703489--1703535	20	2.3	20	89	7	69	44	12	2	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706634--1706703	3	23.3	3	100	0	140	32	0	0	67	0.91
1710070--1710112	19	2.3	19	91	0	68	20	0	27	51	1.48
1710539--1710697	28	5.6	28	88	4	178	33	2	16	46	1.61
1710609--1710659	16	3.4	16	69	20	56	35	0	17	47	1.48
1710591--1710697	28	3.8	28	96	1	187	33	0	17	47	1.54
1713866--1713943	2	44.5	2	68	25	52	47	0	0	52	1.00
1713868--1713945	35	2.3	32	82	12	86	47	0	0	52	1.00
1714549--1714625	41	1.9	40	89	2	118	16	14	18	50	1.78
1714804--1714849	14	3.3	14	77	17	51	39	0	0	60	0.97
1714797--1714871	28	2.6	29	83	10	91	46	1	0	52	1.09
1714812--1714853	19	2.2	20	86	4	59	42	0	0	57	0.99
1714834--1714947	29	3.8	30	72	17	85	48	1	1	48	1.22
1714905--1714968	28	2.2	28	83	8	76	50	1	1	46	1.20
1714926--1714978	20	2.7	19	73	18	54	49	0	1	49	1.12
1714973--1715017	23	2.0	23	86	0	63	53	2	2	42	1.25
1715105--1715168	26	2.8	21	72	20	56	59	0	0	40	0.97
1715360--1715403	14	3.1	15	74	12	56	31	18	6	43	1.76
1715347--1715386	20	2.0	20	85	9	55	35	17	5	42	1.71
1715577--1715618	21	2.0	21	95	0	75	23	11	23	40	1.88
1716299--1716444	3	48.7	3	100	0	292	66	0	0	33	0.92
1718043--1718093	22	2.3	22	89	3	75	29	19	25	25	1.99
1718633--1718704	20	3.6	20	90	0	117	27	18	23	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1718716--1718862	63	2.3	64	85	6	185	34	19	14	32	1.91
1725635--1725773	62	2.2	64	85	2	183	29	20	17	32	1.96
1733055--1733107	24	2.1	24	86	6	70	50	3	1	43	1.30
1733283--1733554	36	7.6	34	87	2	202	28	19	17	35	1.94
1733283--1733554	72	3.8	72	87	5	347	28	19	17	35	1.94
1733354--1733554	108	1.9	108	95	0	357	29	18	17	33	1.95
1733606--1733646	20	2.0	20	90	0	64	51	24	7	17	1.70
1733614--1733700	20	4.4	20	85	2	113	41	20	11	26	1.86
1742191--1742251	26	2.5	25	84	7	72	50	3	1	44	1.28
1745359--1745429	37	1.9	37	83	11	92	70	1	2	25	1.09

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