genome.fa.s9579.2.7.7.80.10.50.1000.9.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  9  of  29  ( 3390 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)
1631693--1631790	19	5.4	19	82	13	134	15	21	17	45	1.84
1631897--1631933	14	2.6	14	91	0	65	45	21	0	32	1.52
1633847--1634005	19	8.6	19	83	7	166	46	24	18	10	1.80
1633863--1634000	38	3.8	37	86	4	185	48	23	18	9	1.77
1634017--1634043	14	1.9	14	100	0	54	7	14	29	48	1.71
1634001--1634095	33	2.9	33	89	6	147	7	15	27	49	1.71
1634001--1634129	19	7.3	19	77	17	134	8	15	27	48	1.74
1634174--1634456	93	3.1	93	98	0	541	45	18	12	22	1.83
1636155--1636218	20	3.2	20	77	4	83	46	15	23	14	1.82
1636202--1636257	14	3.7	14	78	17	67	42	23	25	8	1.82
1636153--1636274	32	3.5	33	85	13	156	45	18	23	11	1.82
1636291--1636347	14	3.7	14	75	20	60	8	24	22	43	1.81
1636275--1636355	33	2.5	33	95	0	144	8	22	22	46	1.78
1636332--1636407	21	3.7	21	83	3	109	11	25	17	46	1.82
1636331--1636408	41	1.9	41	97	0	147	12	25	16	44	1.83
1636487--1636557	33	2.2	33	94	0	124	47	16	23	11	1.79
1636938--1637111	20	8.6	20	86	5	235	19	18	27	34	1.95
1636937--1637130	20	9.6	20	84	2	66	19	18	26	36	1.94
1639437--1639472	2	18.5	2	94	5	65	50	0	0	50	1.00
1639437--1639525	8	10.8	8	75	10	54	57	2	2	38	1.24
1653159--1653240	32	2.6	32	90	0	128	13	34	17	35	1.88
1653312--1653369	24	2.4	24	77	5	64	34	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658855--1658912	21	2.8	20	84	5	71	51	22	1	24	1.57
1658953--1659019	7	9.6	7	78	0	53	52	26	0	20	1.47
1658952--1659019	14	4.9	14	85	0	82	51	27	0	20	1.48
1658952--1659019	28	2.4	28	90	0	109	51	27	0	20	1.48
1661836--1661946	24	4.8	24	77	9	72	30	23	24	21	1.99
1661862--1661923	23	2.7	23	80	7	63	37	20	22	19	1.95
1670005--1670049	21	2.1	21	88	8	65	40	2	0	57	1.11
1672646--1672678	2	16.5	2	100	0	66	51	0	0	48	1.00
1676001--1676318	41	7.8	40	70	10	132	33	18	21	27	1.96
1676088--1676277	82	2.3	82	83	7	244	35	19	18	26	1.95
1676223--1676383	82	2.0	82	80	10	186	36	14	16	32	1.89
1676246--1676383	41	3.4	42	85	5	176	34	13	17	34	1.89
1676255--1676416	84	1.9	84	81	9	188	37	12	15	34	1.86
1682092--1682160	18	3.7	18	81	7	75	23	17	26	33	1.96
1682108--1682165	20	3.1	19	78	9	73	29	15	22	32	1.95
1682092--1682165	38	1.9	38	88	0	112	25	17	25	31	1.97
1684039--1684071	12	2.8	12	90	0	57	42	0	48	9	1.35
1688855--1688925	18	3.8	18	72	7	61	21	14	30	33	1.92
1696054--1696258	43	4.7	43	81	4	171	33	24	15	26	1.95
1698051--1698090	6	6.7	6	94	0	71	0	50	0	50	1.00
1698897--1699204	152	2.0	153	99	0	609	28	18	17	35	1.94
1706338--1706436	52	1.9	52	85	0	135	34	2	3	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707723--1707772	22	2.2	23	85	3	66	52	6	0	42	1.26
1707810--1707861	25	2.2	24	82	6	61	42	3	19	34	1.69
1708130--1708178	22	2.2	22	78	7	55	44	0	10	44	1.37
1709813--1709958	73	2.0	73	100	0	292	41	8	8	42	1.64
1714783--1714827	18	2.6	18	92	3	74	48	8	42	0	1.34
1719590--1719986	200	2.0	199	97	2	753	34	18	13	34	1.89
1720169--1720228	14	4.1	15	93	4	97	36	30	18	15	1.91
1720169--1720228	29	2.1	30	90	6	97	36	30	18	15	1.91
1720365--1720411	12	3.9	12	94	0	76	38	23	2	36	1.67
1720777--1720823	18	2.6	18	86	6	60	23	27	21	27	1.99
1720713--1720888	63	2.8	65	82	6	209	25	20	22	31	1.98
1720713--1720936	64	3.5	63	81	7	188	26	20	21	31	1.98
1727254--1727300	15	3.1	15	100	0	94	34	31	19	14	1.92
1727445--1727480	12	3.0	12	87	0	54	36	22	5	36	1.78
1727786--1728010	64	3.5	64	80	8	219	27	20	20	32	1.97
1729398--1729442	18	2.6	18	89	3	65	48	8	40	2	1.47
1731219--1731290	5	13.8	5	76	16	67	18	6	0	75	1.02
1731229--1731290	16	3.8	16	76	16	65	17	6	0	75	1.00
1735132--1735316	94	2.0	94	88	4	275	34	18	17	29	1.94
1736401--1736964	84	6.8	83	77	5	446	32	22	19	25	1.98
1736409--1736874	249	1.9	249	88	0	698	31	22	20	25	1.98
1738458--1738522	29	2.2	30	81	13	82	24	4	4	66	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738611--1738662	16	3.3	15	81	7	68	21	1	1	75	1.00
1738602--1738690	45	2.0	45	82	8	110	22	4	2	70	1.16
1738602--1738664	16	3.8	17	74	15	60	23	1	1	73	1.01
1738821--1738862	2	21.5	2	95	4	77	47	0	0	52	1.00
1738946--1739012	5	13.2	5	75	17	59	17	7	0	74	1.04
1738943--1739028	9	9.2	9	71	15	59	16	8	1	74	1.11
1738960--1739075	62	1.9	57	83	11	144	15	11	2	70	1.26
1739091--1739195	52	2.0	52	100	0	210	32	11	20	35	1.89
1739806--1739854	24	2.0	24	100	0	98	38	4	36	20	1.72
1743407--1743431	2	12.5	2	100	0	50	52	0	0	48	1.00
1747035--1747270	41	5.7	42	73	10	184	33	21	15	30	1.94
1747048--1747274	122	1.9	123	87	2	341	34	21	14	29	1.93
1747919--1748239	160	2.0	160	100	0	642	19	16	15	48	1.81
1749075--1749144	35	2.0	35	100	0	140	34	17	17	31	1.93
1754401--1754454	17	3.2	17	71	23	60	14	14	14	55	1.70
1758449--1758506	20	2.9	20	79	5	55	25	20	22	31	1.98
1758731--1758921	93	2.1	93	100	0	382	30	11	43	13	1.80
1760161--1760201	18	2.3	18	100	0	82	7	31	56	4	1.48
1760224--1760350	15	8.3	15	71	14	89	1	27	14	56	1.47
1760265--1760365	18	6.1	18	71	19	85	0	30	12	55	1.44
1760227--1760356	30	4.1	33	80	8	155	1	28	13	56	1.47
1762695--1762732	11	3.5	11	96	0	67	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764963--1764987	13	1.9	13	100	0	50	48	0	0	52	1.00
1770490--1770525	2	18.0	2	100	0	72	50	0	0	50	1.00
1771011--1771056	19	2.3	20	81	7	58	28	30	15	26	1.96
1771752--1771838	14	5.5	14	68	24	57	11	22	21	43	1.85
1771747--1771862	33	3.5	33	89	1	169	12	24	21	42	1.87
1771830--1771887	20	2.9	20	75	10	55	13	22	18	44	1.85
1773440--1773622	91	2.0	90	89	8	282	22	12	18	46	1.82
1773811--1773899	42	2.1	42	80	0	106	21	38	16	23	1.93
1775415--1775492	19	4.4	19	79	15	94	47	19	20	12	1.82
1775452--1775505	14	3.5	14	73	22	54	46	22	22	9	1.80
1775433--1775505	33	2.2	33	95	0	128	46	20	21	10	1.81
1775521--1775613	33	2.8	33	96	1	170	12	24	19	43	1.86
1775517--1775632	19	6.7	19	71	17	83	13	23	20	42	1.88
1777869--1777894	12	2.2	12	100	0	52	0	26	0	73	0.84
1777800--1777989	95	2.0	95	98	1	373	12	24	14	48	1.79
1777964--1778000	12	3.1	12	96	0	65	2	24	0	72	0.97
1777968--1778000	15	2.2	15	89	10	50	3	24	0	72	0.98
1778186--1778232	24	2.0	24	86	0	67	34	14	19	31	1.92
1779010--1779061	21	2.5	21	87	3	70	38	17	23	21	1.93
1781444--1781497	20	2.7	20	88	0	81	37	24	24	14	1.93
1781484--1781559	33	2.4	31	91	4	116	42	22	19	15	1.89
1781442--1781543	20	5.6	18	73	18	77	41	22	21	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781549--1781625	14	4.7	18	72	23	71	12	19	22	45	1.84
1781549--1781625	33	2.4	33	97	2	147	12	19	22	45	1.84
1781612--1781655	20	2.2	20	91	0	70	15	22	20	40	1.90
1781619--1781664	20	2.3	20	88	0	65	17	19	23	39	1.92
1783451--1783524	20	3.8	20	81	1	69	43	22	17	16	1.88
1783757--1783799	21	2.0	21	95	0	77	18	16	44	20	1.87
1783987--1784036	19	2.6	20	84	6	59	24	20	28	28	1.99
1784045--1784097	20	2.7	20	88	2	81	26	18	22	32	1.97
1786523--1786570	25	2.0	24	84	12	62	54	0	6	39	1.26
1788956--1788993	20	1.9	20	100	0	76	36	10	28	23	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29