genome.fa.s8973.2.7.7.80.10.50.1000.9.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: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2070395

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1243 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)
1576966--1577339	113	3.3	114	89	4	574	45	3	7	43	1.48
1577300--1577394	28	3.4	28	97	1	174	44	4	7	44	1.51
1579896--1579994	43	2.3	43	91	1	162	35	36	11	17	1.85
1580110--1580200	24	3.8	24	86	5	139	39	20	12	27	1.88
1580110--1580204	48	2.0	48	91	4	156	40	20	12	27	1.88
1582806--1582851	13	3.8	13	83	11	62	10	17	50	21	1.77
1585012--1585133	40	3.0	40	96	0	226	34	27	15	22	1.95
1588064--1588158	43	2.2	43	94	0	163	37	37	9	14	1.79
1588274--1588368	24	4.0	24	89	5	147	38	20	15	25	1.92
1588284--1588391	48	2.3	48	82	4	130	43	18	13	24	1.86
1590921--1590973	13	4.3	13	81	13	76	13	22	47	16	1.82
1590927--1590974	23	2.1	23	96	0	87	10	22	50	16	1.76
1609966--1610056	22	4.0	22	80	10	119	51	16	0	31	1.45
1610018--1610065	22	2.4	19	78	18	53	52	14	0	33	1.42
1610036--1610277	32	8.7	31	68	29	181	52	13	0	33	1.40
1609917--1610111	102	1.9	102	94	0	345	51	13	0	34	1.46
1610068--1610110	22	2.0	22	90	0	68	53	9	0	37	1.33
1609988--1610347	134	2.7	134	98	0	702	52	13	0	33	1.41
1609902--1610142	54	4.6	54	87	8	370	51	12	0	35	1.43
1609902--1610190	156	1.9	154	86	7	413	51	13	0	34	1.44
1610073--1610240	80	2.1	79	88	2	246	53	13	0	33	1.39
1610152--1610198	22	2.4	19	77	19	51	53	14	0	31	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610202--1610244	22	2.0	22	90	0	68	53	9	0	37	1.33
1610287--1610382	22	4.2	22	70	7	84	51	10	0	38	1.37
1609902--1610347	54	8.4	54	77	12	338	52	13	0	34	1.42
1610327--1610474	15	9.5	15	82	10	181	50	2	0	46	1.17
1610287--1610429	67	2.1	67	87	5	198	50	6	0	42	1.29
1610836--1610869	16	2.1	16	100	0	68	0	32	26	41	1.56
1611023--1611110	31	2.8	30	80	10	97	40	1	3	54	1.24
1611180--1611232	28	1.9	27	88	3	79	60	5	1	32	1.31
1611798--1611883	31	2.8	29	82	8	100	54	3	1	40	1.25
1611793--1611865	20	3.8	20	74	16	57	54	2	2	39	1.29
1623567--1623621	20	2.9	20	86	7	71	47	0	9	43	1.35
1623591--1623634	17	2.5	17	89	10	63	56	0	0	43	0.99
1623707--1623738	2	16.0	2	100	0	64	50	0	0	50	1.00
1625341--1625414	37	1.9	40	81	8	91	50	2	5	41	1.39
1628792--1628839	20	2.4	20	92	0	78	16	25	20	37	1.93
1631604--1631633	12	2.5	12	88	0	51	16	13	30	40	1.87
1631937--1631986	23	2.2	23	96	0	91	24	4	28	44	1.72
1633053--1633119	23	2.9	24	73	6	66	52	10	5	31	1.60
1634189--1634222	18	1.9	18	94	5	61	52	8	2	35	1.47
1640186--1640220	17	2.1	17	89	10	54	17	5	20	57	1.60
1649860--1649914	24	2.4	24	85	11	71	14	10	3	70	1.28
1652211--1652261	17	2.7	19	76	17	61	41	5	0	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669720--1669774	27	2.0	27	100	0	110	29	18	7	45	1.76
1673400--1673540	22	6.8	22	82	6	154	19	22	29	29	1.98
1673488--1673540	18	2.9	18	81	10	63	22	18	30	28	1.98
1680341--1680461	22	5.7	22	81	7	151	19	21	28	30	1.97
1680338--1680481	40	3.5	40	84	5	189	19	20	28	31	1.97
1683378--1683412	18	1.9	18	94	0	61	51	11	20	17	1.75
1683478--1683532	27	2.0	27	96	0	101	27	18	7	47	1.74
1688978--1689100	29	4.3	29	78	6	117	48	8	7	34	1.62
1689206--1689268	30	2.1	31	82	8	76	39	4	1	53	1.31
1690618--1690656	13	3.1	12	82	10	51	17	0	5	76	0.96
1691401--1691659	95	2.7	96	84	3	317	30	17	18	33	1.94
1692211--1692647	84	5.3	84	78	5	395	23	18	24	33	1.96
1692260--1692647	162	2.4	165	81	3	433	23	17	25	32	1.96
1692945--1693508	116	4.9	116	87	1	781	31	23	19	25	1.98
1693510--1694053	84	6.5	84	80	4	486	33	23	17	24	1.96
1695824--1695865	15	3.0	14	89	6	59	23	0	0	76	0.79
1695822--1695860	21	1.9	20	84	5	51	23	0	0	76	0.78
1695845--1695875	11	2.9	11	95	4	55	32	0	0	67	0.91
1695833--1695885	25	2.1	25	82	6	63	28	3	0	67	1.07
1697459--1697520	26	2.4	26	86	0	88	19	20	43	16	1.88
1697856--1697880	2	12.5	2	100	0	50	52	0	0	48	1.00
1698406--1698884	84	5.7	84	84	2	552	23	19	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1698888--1699383	116	4.3	116	87	1	717	25	18	24	31	1.98
1700624--1700882	95	2.7	96	81	4	265	33	16	16	33	1.92
1701771--1702062	116	2.5	116	89	1	442	31	23	19	26	1.98
1702080--1702606	84	6.3	83	80	4	493	32	24	18	24	1.97
1702079--1702606	168	3.1	166	81	4	549	32	24	18	24	1.97
1703144--1703195	19	2.5	21	81	9	63	44	1	0	53	1.11
1703363--1703425	26	2.4	26	86	0	90	19	41	20	19	1.91
1704625--1704688	26	2.6	23	71	17	56	25	3	0	71	1.00
1704568--1704660	43	2.1	46	82	11	115	16	8	3	72	1.23
1704587--1704658	35	2.0	37	84	13	96	19	8	1	70	1.20
1710523--1710552	13	2.3	13	94	0	51	50	0	0	50	1.00
1710744--1710777	16	2.1	16	89	10	52	58	2	0	38	1.13
1711764--1711789	8	3.2	8	100	0	52	88	0	0	11	0.52
1712259--1712284	2	13.0	2	100	0	52	50	0	0	50	1.00
1712466--1712527	33	1.9	31	81	12	72	12	12	4	69	1.34
1722866--1722924	6	9.0	6	76	23	57	81	1	16	0	0.78
1722866--1722924	21	2.9	20	81	18	77	81	1	16	0	0.78
1724058--1724287	100	2.2	105	83	7	276	33	23	20	21	1.97
1725002--1725079	2	41.0	2	81	14	94	50	1	1	47	1.17
1726511--1726559	21	2.4	21	83	10	66	24	8	0	67	1.18
1727022--1727065	19	2.3	18	81	11	52	36	4	4	54	1.41
1734646--1734691	18	2.6	18	92	0	74	26	50	10	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734683--1734718	18	2.0	18	100	0	72	16	50	22	11	1.77
1734669--1734705	13	2.8	13	87	0	56	18	48	18	13	1.80
1736003--1736037	18	1.9	18	88	0	52	54	0	17	28	1.43
1745832--1745864	2	16.5	2	100	0	66	51	0	0	48	1.00
1745930--1746003	35	2.1	35	87	0	103	35	27	27	10	1.90
1746082--1746165	24	3.5	24	81	3	116	35	19	16	28	1.93
1751602--1751649	18	2.6	18	83	6	51	12	4	2	81	0.93
1754820--1754867	23	2.0	23	88	8	69	72	2	18	6	1.15
1755936--1756025	32	2.8	31	80	9	101	30	13	21	35	1.91
1757179--1757290	37	3.1	37	89	2	172	28	22	10	38	1.87
1757177--1757285	36	3.0	36	90	1	164	28	22	11	38	1.88
1758237--1758273	13	2.8	13	91	0	56	21	45	18	13	1.84
1758249--1758290	18	2.4	18	84	4	59	21	45	16	16	1.86
1763729--1763759	14	2.2	14	94	0	53	48	9	22	19	1.78
1766242--1766313	27	2.7	27	87	4	94	44	4	4	47	1.41
1766265--1766319	27	2.0	27	100	0	110	40	5	7	47	1.54
1766358--1766434	21	3.5	21	84	8	84	49	1	3	45	1.28
1766338--1766395	2	29.0	2	84	6	73	48	0	3	48	1.18
1766358--1766443	21	3.7	23	78	13	79	46	1	3	48	1.26
1767552--1767590	20	1.9	21	85	15	55	20	7	10	61	1.52
1770472--1770530	31	1.9	31	89	0	91	32	15	20	32	1.93
1771790--1771848	28	2.1	28	87	0	82	28	20	5	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773502--1773819	155	2.0	158	96	2	597	45	15	5	33	1.70
1775545--1775577	14	2.2	16	89	10	52	39	0	3	57	1.14
1777499--1777608	55	2.0	55	89	0	166	42	13	22	20	1.87
1782218--1782279	17	3.6	17	95	0	115	62	0	27	9	1.26
1782218--1782412	17	11.8	17	75	11	70	77	0	19	3	0.90
1782278--1782414	7	20.1	7	85	7	169	83	0	16	0	0.64
1782218--1782324	34	3.1	34	84	7	119	69	0	25	5	1.10
1782267--1782413	8	19.0	8	82	12	105	82	0	17	0	0.67
1782316--1782404	1	89.0	1	79	0	97	89	0	10	0	0.47
1782279--1782414	22	6.3	22	82	11	158	83	0	16	0	0.64

Tables:   1   2   3   4   5   6   7   8   9   10   11