genome.fa.s8693.2.7.7.80.10.50.1000.8.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: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2243253

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

This is table  8  of  10  ( 1102 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)
1569883--1570275	55	7.2	55	83	2	470	28	19	18	33	1.96
1571296--1571327	3	10.7	3	93	0	55	65	0	31	3	1.08
1573098--1573143	21	2.2	21	100	0	92	34	8	15	41	1.78
1573319--1573641	55	5.9	55	85	2	409	27	20	18	34	1.95
1574712--1574752	8	5.1	8	85	8	57	0	51	2	46	1.14
1578701--1578980	54	5.2	54	87	0	362	31	18	19	31	1.95
1580136--1580184	20	2.5	20	86	3	64	26	26	12	34	1.92
1584069--1584132	21	3.0	20	76	10	65	42	0	0	57	0.98
1588468--1588518	21	2.5	20	84	9	68	45	1	1	50	1.24
1588523--1588630	38	2.9	38	73	19	100	44	12	4	38	1.62
1588561--1588585	13	1.9	13	100	0	50	40	8	8	44	1.63
1588511--1588721	39	5.6	37	72	15	136	41	11	2	44	1.55
1588694--1588750	22	2.5	23	85	8	80	47	14	0	38	1.44
1599583--1599614	15	2.1	15	94	0	55	68	3	3	25	1.18
1600694--1600737	20	2.2	20	88	8	63	70	2	0	27	0.99
1600670--1600731	16	4.2	14	73	18	54	70	3	1	24	1.10
1600670--1600741	25	3.1	25	71	19	73	69	4	1	25	1.14
1602056--1602115	22	2.7	22	82	7	77	43	8	1	46	1.43
1602086--1602156	28	2.5	28	93	0	124	39	7	5	47	1.54
1602086--1602184	28	3.5	27	81	9	101	40	8	5	46	1.55
1602194--1602401	75	2.8	75	83	10	264	41	11	3	43	1.58
1602194--1602442	36	6.8	36	79	11	213	42	11	3	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602194--1602432	111	2.1	108	82	10	293	42	10	3	43	1.56
1602181--1602426	37	6.6	36	80	9	176	41	11	3	43	1.58
1608933--1609254	149	2.2	149	81	3	371	36	11	13	39	1.80
1611799--1611834	2	18.0	2	100	0	72	50	0	0	50	1.00
1623378--1623867	39	12.8	39	76	8	335	41	11	23	24	1.87
1623554--1623786	40	6.0	39	81	6	186	39	13	23	24	1.90
1623554--1623867	79	4.1	78	78	6	264	41	11	23	23	1.87
1623392--1623867	116	4.1	115	73	6	324	40	10	23	25	1.87
1623834--1623883	23	2.3	23	89	6	77	38	8	28	26	1.84
1623806--1623924	60	2.0	62	86	3	170	41	10	25	23	1.85
1623855--1624116	39	6.8	38	75	10	208	40	11	21	26	1.87
1623762--1623948	99	1.9	96	86	3	266	41	10	24	23	1.85
1623855--1624116	78	3.4	75	75	11	233	40	11	21	26	1.87
1630044--1630086	21	2.0	21	82	8	52	16	32	11	39	1.84
1638122--1638172	26	2.1	26	85	10	72	19	39	3	37	1.70
1639188--1639726	56	9.6	56	88	2	749	38	16	10	34	1.83
1646110--1646597	56	8.8	56	89	2	700	38	17	10	33	1.84
1654141--1654316	3	59.3	3	75	7	83	66	8	1	23	1.28
1654468--1654517	26	1.9	26	84	8	66	24	0	24	52	1.48
1654626--1654747	3	40.7	3	80	0	55	66	17	0	16	1.26
1654622--1654954	15	22.4	15	72	12	170	64	14	0	20	1.34
1654623--1654958	27	12.0	27	75	8	206	64	13	0	20	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654624--1654957	21	15.8	21	73	9	171	64	14	0	20	1.33
1654665--1654994	15	22.5	15	73	10	218	64	12	1	22	1.35
1655545--1655636	45	2.1	45	87	2	132	25	20	5	48	1.70
1655650--1656141	81	6.1	81	84	3	616	31	21	10	35	1.88
1655650--1656117	243	1.9	243	87	2	690	31	21	10	36	1.88
1656358--1656751	55	7.1	55	90	0	592	36	18	11	33	1.87
1657208--1657259	19	2.7	20	84	3	70	25	28	15	30	1.96
1657249--1657305	21	2.7	21	100	0	114	28	19	19	33	1.96
1658053--1658123	24	2.7	27	77	16	78	69	12	0	18	1.20
1658047--1658123	9	8.9	9	77	8	79	68	11	0	19	1.19
1658642--1658721	41	2.0	41	82	9	101	68	7	8	15	1.37
1658658--1658735	37	2.2	35	82	11	88	70	6	6	16	1.29
1659023--1659070	18	2.8	16	79	14	60	68	0	4	27	1.07
1664204--1664631	9	45.8	9	70	13	231	63	12	2	21	1.39
1664191--1664634	15	30.2	15	71	7	266	63	12	2	22	1.39
1664242--1664634	21	18.4	21	68	16	96	63	12	2	21	1.40
1664259--1664640	6	64.0	6	68	11	113	64	12	2	21	1.37
1666501--1666557	24	2.4	24	80	8	64	64	1	26	7	1.28
1667040--1667178	3	46.0	3	76	4	73	64	11	2	21	1.36
1667057--1667181	9	14.2	9	74	8	87	64	12	2	20	1.38
1667035--1667178	12	11.9	12	76	4	119	64	11	2	20	1.39
1667035--1667180	36	4.1	35	82	8	154	64	12	2	20	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667514--1667868	6	58.3	6	72	11	168	64	13	1	20	1.36
1667513--1667916	3	135.0	3	69	7	131	63	13	1	21	1.37
1667515--1667916	21	19.2	21	72	8	183	63	13	1	21	1.37
1668439--1668476	20	1.9	20	88	0	58	39	0	0	60	0.97
1668440--1669317	75	12.4	74	72	14	541	36	4	4	54	1.41
1668607--1668748	62	2.3	61	81	7	169	37	4	4	53	1.42
1668553--1668805	132	1.9	137	81	11	317	39	5	4	50	1.45
1668560--1668938	206	1.9	203	86	6	550	37	4	4	53	1.42
1668715--1669257	137	3.9	137	79	8	545	35	4	4	55	1.39
1669238--1669362	65	1.9	64	82	7	155	38	5	2	53	1.37
1670066--1670200	3	44.7	3	74	4	83	62	8	2	25	1.39
1670066--1670203	9	15.2	9	78	4	107	62	9	2	25	1.40
1670520--1671166	15	44.0	15	69	11	320	63	11	3	22	1.41
1670520--1671132	3	205.7	3	72	6	235	63	10	3	22	1.41
1670533--1671154	9	68.2	9	71	13	265	63	11	3	21	1.41
1671280--1671314	18	1.9	18	100	0	70	48	0	0	51	1.00
1671314--1671349	15	2.4	15	100	0	72	36	5	0	58	1.22
1671856--1671893	18	2.1	18	90	9	60	55	0	0	44	0.99
1672008--1672051	21	2.1	21	91	0	70	68	11	2	18	1.30
1672003--1672054	24	2.2	24	96	0	95	67	11	1	19	1.31
1683300--1683486	67	2.8	67	83	6	195	34	13	20	30	1.92
1683340--1683486	67	2.2	67	88	2	233	36	14	21	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685757--1685802	23	2.0	23	91	0	74	43	30	8	17	1.79
1694983--1695025	4	9.8	4	83	14	50	69	2	4	23	1.18
1694983--1695033	27	1.9	26	84	11	68	68	1	3	25	1.17
1698318--1698524	55	3.8	55	85	3	276	30	14	17	36	1.91
1701122--1701173	14	3.7	14	79	5	61	23	28	21	26	1.99
1710689--1710794	46	2.3	47	85	7	146	42	4	0	52	1.22
1710677--1710747	28	2.4	31	73	23	73	46	0	1	52	1.09
1711295--1711319	13	1.9	13	100	0	50	20	0	24	56	1.43
1723747--1723776	3	9.7	3	92	7	51	66	0	0	33	0.92
1723744--1723776	16	2.0	17	94	5	59	66	0	0	33	0.92
1730401--1730523	31	4.1	30	74	5	104	40	2	10	46	1.52
1734624--1734673	19	2.5	19	84	15	66	56	2	10	32	1.44
1734646--1734816	3	55.7	3	70	18	86	62	2	5	29	1.31
1734665--1734774	7	14.1	8	66	30	53	62	3	3	30	1.29
1734691--1734810	16	7.5	15	71	15	73	65	3	4	27	1.27
1734702--1734771	19	3.7	18	80	12	70	64	4	1	30	1.21
1734646--1734808	10	16.0	10	69	17	88	63	3	5	28	1.32
1734642--1734816	13	12.7	13	68	20	63	62	2	5	29	1.31
1735848--1735970	31	4.0	31	97	0	228	38	22	19	19	1.94
1738566--1739021	240	1.9	241	83	3	594	26	15	22	35	1.94
1743462--1743573	26	4.3	26	96	1	208	63	9	14	12	1.52
1743677--1743750	3	24.7	3	100	0	148	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744784--1744814	12	2.6	12	100	0	62	41	19	22	16	1.89
1747068--1747144	3	26.0	3	89	2	111	61	0	0	38	0.96
1747627--1747715	36	2.5	36	94	0	151	20	21	10	48	1.78
1747663--1748308	113	5.7	113	88	4	779	29	19	12	38	1.88
1749129--1749685	83	6.7	83	94	0	979	38	21	12	26	1.89
1749037--1749685	167	3.8	167	95	2	1084	38	22	12	26	1.90
1749037--1749685	250	2.6	250	92	3	1059	38	22	12	26	1.90
1750806--1750847	6	7.0	6	84	15	52	0	19	0	80	0.70
1750807--1750848	12	3.4	12	90	3	66	0	16	0	83	0.65
1758173--1758204	15	2.1	15	94	0	55	46	9	18	25	1.79

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