genome.fa.s8909.2.7.7.80.10.50.1000.6.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: VEPZ01008909.1 Hibiscus syriacus cultivar Beakdansim tig00112206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2327114

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 959 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)
1506249--1506301	24	2.1	26	82	6	65	45	7	0	47	1.31
1508491--1508569	30	2.7	27	81	15	79	46	13	2	36	1.57
1513676--1513718	22	2.0	22	85	0	59	55	4	2	37	1.33
1514968--1515061	35	2.5	36	76	13	84	64	3	4	27	1.27
1514902--1515022	11	10.0	11	66	25	50	71	2	3	22	1.12
1515271--1515305	2	17.5	2	93	0	61	51	0	2	45	1.16
1515506--1515536	2	15.5	2	100	0	62	51	0	0	48	1.00
1515537--1515581	11	4.1	11	83	8	56	66	8	4	20	1.36
1515666--1515710	12	3.7	12	81	3	54	66	0	4	28	1.11
1516280--1516384	37	2.8	37	88	0	147	32	14	13	40	1.84
1517115--1518489	106	13.0	105	89	3	1933	23	17	24	34	1.96
1519299--1519375	22	3.5	22	90	0	127	20	15	27	36	1.93
1519990--1520039	16	3.6	14	82	17	68	0	14	6	80	0.90
1524662--1524728	13	5.1	13	75	8	55	79	4	2	13	1.01
1525115--1525180	21	3.0	22	74	24	68	65	0	4	30	1.13
1525275--1525319	11	4.1	11	83	8	56	66	6	4	22	1.33
1525337--1525388	25	2.0	28	88	11	83	69	1	0	28	0.99
1525340--1525452	24	5.0	24	75	21	95	66	0	4	28	1.17
1525367--1525489	55	2.2	55	77	16	130	62	1	4	30	1.26
1525465--1525492	2	14.0	2	100	0	56	50	0	0	50	1.00
1526029--1526136	37	2.9	37	81	0	135	33	13	12	39	1.83
1536202--1536282	10	8.1	10	68	20	53	9	9	19	60	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536202--1536255	23	2.3	23	87	0	81	11	7	18	62	1.50
1536209--1536282	37	2.0	36	84	7	96	10	9	18	60	1.56
1538670--1538717	16	3.3	14	78	16	53	45	16	10	27	1.80
1548973--1549012	15	2.6	16	88	11	57	15	30	32	22	1.94
1549051--1549090	17	2.4	17	91	0	62	15	27	35	22	1.94
1549286--1549310	9	2.8	9	100	0	50	88	0	0	12	0.53
1553296--1553398	15	6.5	15	78	15	109	44	0	2	52	1.16
1553401--1553443	22	2.0	22	95	0	77	37	0	11	51	1.39
1553378--1553593	32	7.4	32	78	19	265	35	0	11	53	1.37
1553296--1553452	69	2.3	67	90	5	237	42	0	5	52	1.25
1553378--1553610	54	4.1	54	87	10	340	35	0	11	53	1.37
1553455--1553497	22	2.0	22	95	0	77	37	0	11	51	1.39
1553540--1553690	80	1.9	80	95	2	277	32	0	14	52	1.42
1553653--1553695	22	2.0	22	95	0	77	37	0	11	51	1.39
1559313--1559351	14	2.8	14	84	0	60	10	12	17	58	1.61
1559541--1559578	20	1.9	20	94	0	67	21	13	7	57	1.60
1559541--1559579	10	3.9	10	79	0	51	20	12	7	58	1.58
1559606--1559654	23	2.1	23	88	0	71	10	8	20	61	1.53
1559569--1559681	13	9.3	12	68	22	58	10	8	20	60	1.56
1559562--1559677	60	1.9	60	85	0	160	12	9	18	59	1.59
1560593--1560671	39	2.0	39	97	0	149	24	10	18	46	1.80
1569688--1569714	13	2.1	13	100	0	54	37	14	25	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573624--1573654	14	2.2	14	94	0	53	54	6	35	3	1.42
1575245--1575304	29	2.1	29	90	0	93	25	31	31	11	1.91
1575445--1575511	23	2.9	23	100	0	134	22	20	26	29	1.99
1575771--1575854	29	2.9	29	85	0	114	19	28	36	15	1.92
1576872--1576944	20	3.3	20	67	26	58	17	8	47	26	1.75
1576872--1576964	46	2.0	46	97	0	177	18	9	47	24	1.78
1577473--1577516	21	2.1	21	91	0	70	29	0	15	54	1.42
1577493--1577555	28	2.2	30	91	5	103	31	0	11	57	1.34
1578059--1578103	21	2.2	21	84	4	56	35	0	8	55	1.31
1578273--1578317	21	2.2	21	84	4	56	46	6	6	40	1.56
1578364--1578422	26	2.3	25	75	18	66	47	8	3	40	1.51
1581310--1581488	26	7.2	26	79	12	162	43	2	10	44	1.50
1581255--1581524	124	2.2	123	92	2	445	42	1	9	45	1.46
1581313--1581540	14	17.1	14	71	17	105	42	2	8	46	1.47
1581493--1581566	38	1.9	38	83	5	96	45	4	5	44	1.45
1581748--1581780	17	1.9	17	93	0	57	36	6	12	45	1.66
1581694--1581773	24	3.3	23	71	21	67	38	3	8	48	1.52
1583930--1583960	15	2.1	14	94	5	53	54	6	0	38	1.26
1583935--1583981	16	3.0	16	84	9	53	59	10	0	29	1.31
1584022--1584103	34	2.5	34	83	13	93	48	13	0	37	1.42
1584152--1584248	44	2.2	43	79	17	108	46	12	0	41	1.41
1584151--1584275	41	3.0	42	73	15	116	46	12	0	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584165--1584303	41	3.3	40	74	12	93	47	11	0	40	1.45
1584823--1584927	29	3.6	29	94	2	176	23	30	29	16	1.96
1584946--1585002	28	2.0	28	89	0	87	17	35	21	26	1.95
1585005--1585043	20	2.0	20	94	0	69	12	17	30	38	1.88
1585031--1585077	21	2.2	21	100	0	94	14	29	25	29	1.95
1585005--1585044	9	4.2	9	81	12	53	12	17	32	37	1.87
1598234--1598325	46	2.0	46	100	0	184	43	6	13	36	1.69
1598493--1598584	46	2.0	46	97	0	175	43	5	13	38	1.66
1598118--1598638	259	2.0	259	99	0	1024	37	7	12	43	1.69
1600701--1600773	26	2.8	26	87	10	103	30	20	9	39	1.84
1601225--1601278	26	2.1	26	85	0	72	33	24	3	38	1.73
1601280--1601352	31	2.3	32	92	4	130	34	12	10	42	1.78
1604840--1604890	15	3.4	15	94	0	93	19	5	52	21	1.66
1607375--1607401	2	13.5	2	100	0	54	51	0	48	0	1.00
1609682--1609714	12	2.8	12	90	9	50	24	24	6	45	1.75
1613489--1613529	2	20.5	2	100	0	82	48	0	0	51	1.00
1624013--1624073	31	2.0	31	90	0	95	44	8	9	37	1.68
1625181--1625230	17	2.9	16	82	11	55	60	2	0	38	1.09
1628130--1628170	6	6.5	6	89	10	64	36	0	63	0	0.95
1630686--1631134	229	2.0	227	94	2	785	44	8	7	39	1.62
1631200--1631245	20	2.3	19	89	10	74	54	10	17	17	1.70
1631366--1631412	20	2.4	19	79	10	58	55	8	17	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633714--1633779	33	2.0	33	87	0	96	28	1	45	24	1.62
1635570--1635613	19	2.4	19	92	3	72	31	2	9	56	1.43
1635696--1637314	199	8.1	199	97	0	3030	37	15	15	32	1.88
1635696--1637314	397	4.1	399	97	0	3034	37	15	15	32	1.88
1638772--1638839	21	3.4	18	69	21	55	36	10	35	17	1.84
1638772--1638869	6	16.3	6	78	0	61	36	8	34	20	1.82
1638783--1638872	15	6.2	15	80	7	114	35	7	34	22	1.83
1638787--1638873	3	29.0	3	77	0	75	35	6	34	22	1.81
1638775--1638865	42	2.2	42	93	0	155	35	8	35	20	1.84
1640343--1640830	184	2.7	184	97	0	904	35	14	15	34	1.88
1642720--1642783	23	2.8	23	87	0	92	35	6	20	37	1.78
1642720--1642792	23	3.2	23	82	7	85	34	5	20	39	1.76
1643147--1643210	23	2.8	23	87	0	92	35	6	20	37	1.78
1643147--1643219	23	3.2	23	82	7	85	34	5	20	39	1.76
1642621--1643637	427	2.4	428	99	0	2009	40	8	13	37	1.74
1643575--1643639	23	2.8	23	90	0	94	35	7	18	38	1.80
1643843--1643879	18	2.1	18	89	0	56	32	5	10	51	1.60
1643835--1643881	24	2.0	24	86	0	67	34	4	14	46	1.64
1651263--1651313	17	3.1	17	97	2	95	52	0	0	47	1.00
1654698--1654755	21	2.8	21	97	0	107	27	25	24	22	2.00
1655944--1656010	23	2.9	23	84	0	80	49	16	14	19	1.80
1656334--1656366	15	2.2	15	89	10	50	72	3	12	12	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1661545--1661609	30	2.2	30	85	0	85	36	26	24	12	1.91
1661828--1661874	24	1.9	25	86	4	69	40	10	19	29	1.85
1669515--1669539	2	12.5	2	100	0	50	52	0	0	48	1.00
1669698--1669774	31	2.5	31	89	4	111	38	10	16	33	1.83
1669716--1669776	31	2.0	31	96	0	113	36	13	14	36	1.85
1670499--1670570	31	2.3	31	92	0	117	33	15	13	37	1.87
1671132--1671181	24	2.2	24	89	7	77	70	0	0	30	0.88
1681125--1681233	42	2.6	42	89	4	157	22	13	12	51	1.75
1681152--1681240	43	2.1	41	87	4	124	24	12	11	51	1.72
1681422--1681465	22	2.0	23	86	4	63	45	0	0	54	0.99

Tables:   1   2   3   4   5   6   7   8