genome.fa.s8031.2.7.7.80.10.50.1000.8.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: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1788856

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1016 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)
1511323--1511402	40	2.0	40	86	9	112	31	5	7	56	1.49
1511391--1511415	2	12.5	2	100	0	50	48	0	0	52	1.00
1519438--1520215	106	7.5	106	86	5	1007	34	22	19	23	1.96
1520688--1520759	35	2.1	35	97	0	135	40	9	22	27	1.85
1521134--1521173	18	2.3	18	83	8	57	25	5	2	67	1.23
1521233--1521259	2	13.5	2	100	0	54	48	0	0	51	1.00
1521241--1521394	79	1.9	79	82	8	188	34	6	2	56	1.39
1521432--1521462	2	15.5	2	100	0	62	48	0	0	51	1.00
1521462--1521508	23	2.1	23	88	4	69	23	4	0	72	1.02
1523210--1523277	19	3.7	18	74	16	68	70	0	2	26	1.01
1523311--1523341	12	2.6	12	100	0	62	70	0	6	22	1.09
1523999--1524040	12	3.5	12	78	12	50	59	4	0	35	1.19
1523952--1524163	71	2.8	73	87	6	252	58	12	0	28	1.41
1523959--1524163	77	2.8	76	87	7	280	58	11	0	28	1.40
1525984--1526058	24	3.0	24	73	13	62	26	21	8	44	1.80
1529108--1529167	18	3.3	18	72	21	54	68	0	3	28	1.05
1529214--1529243	11	2.7	11	94	0	51	80	0	0	20	0.72
1529859--1530065	77	2.8	76	87	5	280	57	11	1	28	1.44
1531847--1531921	24	3.0	24	73	13	62	26	21	9	42	1.83
1534952--1535011	18	3.3	18	72	21	54	68	0	3	28	1.05
1535734--1535775	12	3.5	12	78	12	50	59	4	0	35	1.19
1535693--1535899	77	2.8	76	88	5	289	58	11	1	28	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537735--1537800	24	2.6	25	79	15	73	27	21	7	43	1.79
1541631--1541658	12	2.3	12	100	0	56	53	0	7	39	1.28
1541665--1541794	44	3.2	42	66	28	111	60	11	1	26	1.40
1541588--1541794	76	2.8	75	86	4	260	57	11	1	28	1.45
1543378--1543431	26	2.1	26	100	0	108	24	11	7	57	1.58
1543902--1543926	2	12.5	2	100	0	50	0	0	48	52	1.00
1543912--1545135	607	2.0	609	95	2	2195	39	12	13	33	1.83
1551926--1551975	2	26.0	2	84	8	50	44	2	6	48	1.39
1551998--1552080	22	3.8	22	79	6	105	32	21	19	26	1.97
1552123--1552276	77	2.0	77	100	0	308	35	24	14	25	1.93
1553833--1553886	26	2.0	25	83	16	65	59	7	7	25	1.51
1554800--1554863	19	3.2	19	75	12	74	29	14	29	26	1.95
1554813--1554887	22	3.6	21	73	12	82	29	12	34	24	1.91
1554800--1554892	41	2.3	41	98	0	177	29	15	30	25	1.95
1554966--1555007	20	2.1	20	86	0	57	28	11	28	30	1.92
1555416--1555685	79	3.4	79	90	1	398	35	11	23	29	1.90
1560060--1561164	558	2.0	557	90	0	1728	34	14	22	28	1.94
1562888--1562951	22	3.0	22	77	8	62	32	14	29	23	1.94
1562829--1563009	96	1.9	95	88	3	274	33	17	23	25	1.96
1562832--1563012	95	1.9	95	87	3	249	33	18	22	25	1.96
1563458--1563731	79	3.5	79	89	1	406	36	10	21	30	1.88
1564789--1564833	23	2.0	23	82	8	56	35	17	2	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567314--1567354	13	3.2	13	96	0	73	63	0	17	19	1.31
1574250--1574295	19	2.5	18	86	6	65	36	2	0	60	1.09
1576086--1576151	14	4.6	14	90	1	78	28	33	16	21	1.95
1576086--1576151	28	2.3	29	86	2	98	28	33	16	21	1.95
1579674--1579724	15	3.2	15	70	24	50	25	1	23	49	1.61
1580318--1580347	13	2.3	13	94	0	51	46	3	3	46	1.35
1580417--1580455	18	2.0	20	85	9	55	61	5	0	33	1.18
1580688--1580776	21	4.3	21	85	8	103	30	24	12	32	1.92
1580695--1580786	41	2.2	42	86	9	134	30	23	13	32	1.93
1580641--1580777	62	2.2	62	79	8	147	31	24	12	31	1.92
1580623--1580837	20	10.6	20	74	8	132	30	24	13	31	1.94
1580749--1580857	20	5.5	20	74	12	82	28	22	14	34	1.93
1580994--1581033	16	2.5	16	83	0	53	27	5	0	67	1.11
1583150--1583180	15	2.1	15	100	0	62	51	19	6	22	1.69
1583321--1583377	20	2.8	20	91	0	87	21	22	17	38	1.93
1583361--1583435	29	2.6	29	93	0	123	28	28	17	26	1.98
1583502--1583652	64	2.4	64	87	3	207	52	14	2	29	1.55
1583631--1583663	13	2.4	14	95	5	59	48	21	0	30	1.50
1584996--1585134	21	6.7	20	80	6	125	23	20	35	20	1.96
1584996--1585131	42	3.2	41	82	6	148	23	20	35	20	1.96
1585011--1585135	63	2.0	63	90	0	196	25	19	34	20	1.96
1586074--1586115	16	2.6	16	96	0	75	64	14	0	21	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587269--1587353	20	4.2	20	69	8	55	35	14	18	31	1.91
1587305--1587350	21	2.2	20	92	3	74	39	15	23	21	1.92
1587419--1587460	20	2.1	20	86	0	57	14	14	21	50	1.78
1597293--1597398	35	3.1	35	74	16	103	49	2	3	44	1.35
1597293--1597423	70	1.9	70	79	9	151	47	6	3	43	1.43
1598074--1598100	13	2.1	13	100	0	54	55	22	7	14	1.64
1598152--1598189	20	1.9	20	88	0	58	31	21	10	36	1.87
1598432--1598462	2	15.5	2	100	0	62	48	0	0	51	1.00
1598629--1598682	21	2.6	21	96	0	99	31	20	20	27	1.97
1598603--1598702	21	4.8	21	81	2	76	35	23	18	24	1.96
1598689--1598918	20	11.5	20	81	5	232	36	24	18	19	1.94
1602077--1602309	33	6.9	33	84	12	255	45	18	22	13	1.84
1602144--1602198	14	3.6	14	73	21	56	45	20	23	10	1.82
1602077--1602309	67	3.5	66	80	11	285	45	18	22	13	1.84
1602091--1602287	19	11.4	19	74	21	202	46	18	21	13	1.84
1602077--1602309	52	4.6	51	84	12	311	45	18	22	13	1.84
1602317--1602430	52	2.2	52	98	0	219	14	23	18	43	1.86
1602334--1602430	19	5.4	19	84	12	141	14	22	17	45	1.85
1604510--1604566	14	3.7	14	77	20	60	45	22	21	10	1.82
1604491--1604583	33	2.8	33	93	0	159	48	21	19	10	1.79
1604454--1604588	19	7.6	19	75	16	119	45	24	18	11	1.82
1604584--1604673	18	5.5	17	69	28	70	7	17	30	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604584--1604672	32	2.8	32	88	10	137	7	17	30	43	1.78
1604737--1605199	91	5.1	93	95	3	852	46	19	12	22	1.83
1604736--1605199	184	2.5	183	96	3	848	46	19	12	21	1.83
1605664--1606092	217	2.0	212	93	5	740	32	18	15	33	1.92
1607093--1607182	14	5.7	14	72	23	72	43	24	24	7	1.80
1607085--1607199	33	3.5	33	96	0	203	46	22	23	7	1.78
1607107--1607204	19	5.7	18	71	22	77	43	24	23	8	1.80
1607215--1607271	14	3.7	14	75	20	60	7	24	24	43	1.79
1607200--1607272	33	2.2	33	95	2	130	6	21	26	45	1.77
1607256--1607330	20	3.8	21	77	12	86	12	25	17	45	1.82
1607398--1607464	33	2.0	33	91	0	107	47	19	22	10	1.79
1607644--1607698	22	2.5	22	81	0	74	20	16	40	23	1.91
1607842--1607993	20	7.7	20	80	5	193	21	19	25	32	1.97
1607842--1608032	60	3.2	59	80	5	217	19	18	25	36	1.95
1608019--1608102	21	4.0	21	73	6	80	26	16	23	33	1.96
1609592--1609625	18	1.9	18	94	5	61	20	0	5	73	1.04
1609598--1609635	18	2.2	18	85	4	51	18	0	5	76	0.97
1610725--1610751	6	4.5	6	100	0	54	0	66	0	33	0.92
1612672--1612720	20	2.5	20	77	6	57	42	2	0	55	1.11
1612686--1612728	23	2.0	21	86	9	59	41	4	0	53	1.21
1613566--1613607	2	21.0	2	100	0	84	50	0	0	50	1.00
1625959--1625995	18	2.1	18	85	14	51	48	10	0	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633070--1633114	11	4.3	10	83	8	54	84	0	11	4	0.76
1633054--1633140	19	5.7	15	74	20	65	78	0	16	5	0.94
1633049--1633113	28	2.4	27	78	14	80	80	0	15	4	0.88
1633055--1633139	9	9.4	9	74	15	52	78	0	15	5	0.93
1633048--1633120	19	3.8	19	82	17	89	78	0	16	5	0.94
1633092--1633138	25	1.9	25	86	4	69	76	0	17	6	0.98
1635064--1635090	14	1.9	14	100	0	54	14	7	11	66	1.43
1638634--1638677	20	2.3	19	88	4	61	25	20	29	25	1.99
1655915--1655956	21	2.0	21	81	9	50	23	19	2	54	1.55
1656730--1656777	25	1.9	26	83	8	64	22	6	6	64	1.39

Tables:   1   2   3   4   5   6   7   8   9