genome.fa.s7860.2.7.7.80.10.50.1000.10.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  10  of  16  ( 1828 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)
1620506--1620552	24	2.0	24	86	0	67	8	8	38	44	1.65
1620546--1620588	19	2.3	19	88	8	61	13	0	37	48	1.43
1621354--1621396	12	3.2	12	77	22	50	51	0	0	48	1.00
1621330--1621483	28	5.8	26	70	18	95	51	0	2	45	1.20
1621436--1621505	31	2.3	30	85	9	90	54	1	1	42	1.18
1621667--1621725	22	2.6	22	76	19	59	44	5	8	42	1.57
1621705--1621745	15	2.6	16	88	7	66	41	4	7	46	1.53
1621663--1621755	20	4.7	19	70	12	62	41	5	6	46	1.52
1621965--1622011	17	2.7	17	93	3	76	42	2	6	48	1.40
1622025--1622085	16	3.5	16	70	20	50	40	9	8	40	1.68
1622200--1622237	14	2.7	14	84	8	51	18	0	34	47	1.49
1622333--1622372	17	2.2	19	86	8	57	42	7	5	45	1.54
1622418--1622553	13	9.0	15	77	15	97	44	2	5	47	1.42
1622427--1622497	28	2.7	26	83	10	90	43	5	5	45	1.51
1622482--1622554	17	4.1	18	86	11	89	47	1	5	45	1.34
1622503--1622555	17	3.1	17	97	2	97	49	0	5	45	1.26
1622418--1622575	17	10.2	16	77	16	83	44	3	5	47	1.41
1622503--1622575	34	2.1	34	85	12	96	46	1	4	47	1.30
1624915--1624998	12	7.0	12	75	10	82	52	15	15	16	1.75
1624917--1624981	5	10.8	6	72	27	50	49	16	16	16	1.80
1624910--1625021	24	4.7	24	82	2	118	50	15	15	19	1.79
1624910--1625035	24	5.2	24	72	12	98	50	15	15	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625493--1625531	19	2.1	19	90	0	60	20	35	15	28	1.93
1625473--1625640	64	2.6	64	82	7	200	30	25	15	29	1.96
1633025--1633083	21	3.0	21	82	7	61	5	45	15	33	1.68
1634071--1634110	21	1.9	21	94	0	71	32	30	15	22	1.94
1634124--1634193	19	3.7	19	90	5	108	22	35	15	25	1.94
1634091--1634254	83	2.0	83	86	3	231	31	26	15	26	1.96
1634271--1634319	19	2.6	19	84	9	57	24	30	18	26	1.98
1638855--1638895	22	2.0	21	85	9	57	58	7	4	29	1.46
1639496--1639579	12	7.0	12	72	10	73	51	17	11	19	1.76
1639491--1639579	24	3.7	24	84	0	115	51	17	11	19	1.75
1639491--1639616	48	2.6	48	82	2	137	49	16	13	20	1.79
1639491--1639602	24	4.7	24	83	2	109	49	16	12	21	1.79
1639539--1639616	24	3.2	24	77	10	79	46	16	16	20	1.85
1642094--1642145	13	4.2	13	71	14	56	13	17	48	21	1.81
1642100--1642149	23	2.2	23	85	3	66	10	16	52	22	1.73
1644251--1644344	24	3.9	24	90	0	116	52	15	14	17	1.76
1644249--1644344	36	2.6	37	79	11	117	52	15	14	17	1.76
1644264--1644344	12	6.8	12	75	10	85	50	16	16	17	1.78
1644249--1644357	24	4.5	24	86	2	94	49	15	15	19	1.80
1651516--1651602	3	29.0	3	90	0	138	35	2	0	62	1.08
1651927--1651964	18	2.2	17	86	13	51	55	18	26	0	1.43
1651927--1651964	17	2.2	18	86	13	53	55	18	26	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652945--1652975	16	2.0	16	93	6	55	48	0	0	51	1.00
1653615--1653664	24	2.1	23	85	3	64	34	2	2	62	1.18
1664297--1664358	1	62.0	1	73	0	52	87	0	12	0	0.55
1664294--1664357	9	7.2	9	89	3	94	85	0	14	0	0.59
1664297--1664359	28	2.3	28	94	5	112	85	0	14	0	0.59
1665510--1666390	83	10.6	83	96	0	1584	26	14	22	37	1.92
1667115--1667681	113	5.0	113	89	3	827	37	13	18	29	1.90
1667115--1667681	229	2.5	228	89	2	858	37	13	18	29	1.90
1668008--1668094	3	29.0	3	88	0	129	34	2	0	63	1.07
1668469--1668506	18	2.2	17	86	13	51	55	18	26	0	1.43
1668469--1668506	17	2.2	18	86	13	53	55	18	26	0	1.43
1671692--1671735	21	2.1	21	83	4	54	22	18	36	22	1.95
1673108--1673196	3	30.0	3	76	15	78	32	2	1	64	1.13
1673106--1673189	31	2.8	29	75	16	91	30	1	1	66	1.07
1673108--1673196	37	2.5	36	80	12	103	32	2	1	64	1.13
1673107--1673190	28	3.0	27	75	16	82	32	1	1	65	1.08
1674515--1674585	29	2.5	30	74	21	71	32	2	4	60	1.30
1674943--1674980	2	19.5	2	91	5	60	55	0	0	44	0.99
1675811--1675899	29	3.0	30	78	3	90	33	17	5	42	1.73
1678110--1678141	16	2.0	16	93	0	55	53	0	0	46	1.00
1678350--1678374	12	2.1	12	100	0	50	68	0	0	32	0.90
1678824--1678857	15	2.3	15	89	0	50	17	0	44	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679332--1679377	23	2.0	24	82	4	58	19	4	10	65	1.41
1680258--1680314	3	18.3	3	75	7	51	43	0	0	56	0.99
1680786--1680820	18	1.9	18	88	0	52	68	25	0	5	1.11
1681628--1681679	27	1.9	27	88	0	77	38	0	0	61	0.96
1682944--1682972	9	3.2	9	100	0	58	31	0	0	68	0.89
1687441--1687513	6	12.5	6	84	7	89	82	0	17	0	0.68
1687453--1687515	11	5.6	11	85	7	83	85	0	14	0	0.59
1687437--1687515	23	3.5	23	83	6	90	82	0	17	0	0.67
1687437--1687521	29	2.9	30	77	8	95	81	0	18	0	0.70
1687437--1687521	6	16.6	5	76	17	61	81	0	18	0	0.70
1692158--1692234	22	3.5	22	94	0	136	33	11	12	41	1.80
1692912--1694010	76	14.5	76	93	0	1874	24	18	21	35	1.96
1694132--1694188	3	18.3	3	75	7	51	43	0	0	56	0.99
1695487--1695538	27	1.9	27	92	0	86	36	0	0	63	0.95
1695494--1695575	27	3.1	25	76	13	67	34	2	1	62	1.16
1698562--1698632	6	11.8	6	81	0	52	12	69	5	12	1.36
1698562--1698638	33	2.3	33	84	0	100	12	68	5	12	1.36
1698562--1698650	30	3.0	30	84	0	97	12	69	5	12	1.34
1701274--1701599	41	8.0	41	80	3	343	34	15	19	29	1.93
1701274--1701608	123	2.7	123	80	1	395	34	15	20	30	1.93
1703341--1703401	27	2.2	29	82	11	74	36	0	18	45	1.49
1704200--1704234	18	1.9	18	94	0	61	25	17	31	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708343--1708376	12	2.9	12	86	4	52	73	0	2	23	0.97
1722621--1722658	15	2.5	15	95	0	67	60	5	34	0	1.19
1724713--1724753	3	13.7	3	94	0	73	68	29	0	2	1.03
1724711--1724786	6	12.7	6	95	0	62	67	15	0	17	1.24
1724746--1724802	3	20.0	3	85	7	75	66	1	1	29	1.12
1724711--1724759	9	5.4	9	92	0	62	67	24	0	8	1.18
1725029--1725084	23	2.4	23	90	0	85	35	21	28	14	1.92
1725085--1725136	22	2.4	22	80	6	52	42	19	11	26	1.85
1731695--1731769	3	25.7	3	91	5	127	65	0	1	33	1.01
1732455--1732507	26	2.0	26	100	0	106	11	32	11	45	1.76
1736216--1736334	40	3.0	40	91	2	188	30	26	18	24	1.98
1736228--1736338	40	2.8	40	94	0	195	32	27	16	23	1.96
1738697--1738737	17	2.4	17	95	0	73	7	29	34	29	1.84
1743313--1743394	24	3.2	24	77	19	85	42	2	0	54	1.13
1743456--1743660	31	7.0	29	71	16	129	57	0	3	38	1.24
1743569--1743647	27	3.0	27	85	5	90	59	0	1	39	1.06
1743608--1743695	27	3.3	24	80	17	79	54	1	2	42	1.20
1748592--1748623	15	2.1	15	94	0	55	53	12	25	9	1.68
1755816--1755910	35	2.7	35	100	0	190	47	12	26	13	1.79
1758298--1758352	16	3.4	16	79	0	65	20	25	18	36	1.94
1758302--1758369	32	2.1	32	83	5	84	23	22	16	38	1.93
1758384--1758421	16	2.3	17	90	4	60	34	15	5	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1758347--1758727	190	2.0	191	95	0	692	38	8	10	42	1.69
1759219--1759282	33	1.9	33	87	12	96	39	4	9	46	1.57
1759225--1759282	17	3.5	17	83	11	68	37	5	10	46	1.60
1759636--1759744	21	5.2	20	77	8	92	22	0	27	50	1.49
1759635--1759744	7	15.7	7	77	0	76	21	0	28	50	1.49
1759892--1759949	22	2.4	25	86	11	86	56	0	1	41	1.09
1764321--1764824	137	3.7	138	81	6	542	28	12	14	44	1.82
1768167--1768226	30	2.0	31	86	3	86	28	8	10	53	1.63
1769569--1769634	24	2.7	26	75	18	68	19	16	0	63	1.31
1771070--1771100	15	2.1	15	100	0	62	41	12	0	45	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16