genome.fa.s8214.2.7.7.80.10.50.1000.9.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: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2117680

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

This is table  9  of  11  ( 1291 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)
1611977--1612033	11	4.7	12	78	18	55	56	0	0	43	0.99
1611988--1612041	3	18.3	3	78	17	60	59	0	0	40	0.98
1611979--1612041	22	2.8	24	73	22	55	57	0	0	42	0.99
1612195--1613132	76	12.4	76	97	0	1749	34	22	19	23	1.96
1616465--1616672	113	1.8	113	93	0	362	31	19	16	32	1.94
1618313--1618374	32	1.9	32	93	0	106	17	17	19	45	1.86
1618981--1619030	13	3.8	13	84	10	57	0	16	2	82	0.77
1618990--1619030	14	2.9	15	79	13	52	0	12	2	85	0.70
1619332--1619367	2	18.0	2	100	0	72	50	0	0	50	1.00
1621567--1621609	17	2.7	15	83	16	52	62	9	11	16	1.53
1624918--1624973	2	28.0	2	92	0	94	46	0	0	53	1.00
1626243--1626328	11	8.3	11	80	14	85	56	0	0	43	0.99
1626254--1626324	3	24.3	3	78	16	78	59	0	0	40	0.98
1626254--1626324	25	2.8	26	83	10	94	59	0	0	40	0.98
1626254--1626337	36	2.2	38	78	16	70	59	0	1	39	1.05
1629018--1629045	6	4.7	6	100	0	56	71	0	0	28	0.86
1630435--1630479	13	3.1	14	84	12	56	71	4	0	24	1.05
1630435--1630468	15	2.2	16	84	5	52	70	2	0	26	1.01
1639245--1639312	23	3.0	23	80	2	84	32	25	25	17	1.97
1639378--1639436	20	2.7	22	72	17	52	35	22	15	27	1.94
1639773--1639820	19	2.6	18	86	3	60	52	14	2	31	1.54
1641106--1641135	13	2.3	13	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641245--1641302	6	9.3	6	76	14	55	77	0	5	17	0.94
1641253--1641307	19	2.9	19	77	0	65	76	0	5	18	0.97
1641247--1641342	19	5.2	18	68	7	59	76	1	6	16	1.05
1641247--1641375	44	2.9	44	79	12	131	73	0	6	19	1.09
1646139--1646238	21	4.7	21	75	11	96	24	38	18	20	1.93
1646139--1646238	43	2.4	42	83	8	114	24	38	18	20	1.93
1649376--1649415	21	1.9	21	89	0	62	30	10	10	50	1.69
1649637--1649715	21	3.7	21	74	15	72	24	35	18	21	1.96
1650519--1650694	90	2.0	89	90	1	280	37	10	7	44	1.66
1655399--1655478	15	5.4	15	73	19	62	76	2	3	17	1.05
1655417--1655470	27	2.0	27	85	3	72	75	3	3	16	1.08
1655400--1655480	25	3.2	26	76	11	87	77	2	3	16	1.01
1655409--1655480	18	4.2	16	70	16	56	79	2	2	15	0.97
1655581--1655610	10	3.0	10	100	0	60	60	10	10	20	1.57
1656713--1656753	16	2.4	18	88	11	61	75	2	0	21	0.92
1656767--1656933	39	4.2	41	75	19	151	47	7	0	44	1.36
1656758--1656933	83	2.2	81	87	8	252	48	7	0	43	1.35
1657002--1657063	14	4.6	14	90	7	76	53	0	0	46	1.00
1657018--1657063	2	23.0	2	100	0	92	50	0	0	50	1.00
1656950--1657030	34	2.2	39	82	12	109	46	3	1	48	1.27
1661690--1661716	13	2.1	13	100	0	54	37	14	7	40	1.74
1669107--1669205	43	2.3	43	82	6	121	36	21	22	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671009--1671081	35	2.1	35	82	10	87	28	1	27	42	1.64
1671017--1671109	42	2.2	42	84	3	116	27	1	27	43	1.62
1671055--1671125	21	3.4	21	81	9	74	26	0	28	45	1.54
1671017--1671136	42	2.9	41	73	11	111	27	2	27	42	1.68
1672803--1672892	27	3.3	27	87	4	128	0	18	26	54	1.44
1672803--1672890	26	3.3	26	88	4	131	0	19	26	54	1.44
1673262--1673298	17	2.2	17	95	0	65	24	16	29	29	1.96
1673283--1673346	11	5.6	11	78	7	65	31	23	21	23	1.99
1673283--1673347	23	2.8	23	97	0	121	30	24	21	23	1.99
1673578--1673617	19	2.2	19	86	4	55	35	2	0	62	1.09
1673971--1674015	24	1.9	24	90	4	74	37	24	31	6	1.81
1680443--1680510	29	2.3	31	82	5	86	47	4	16	32	1.66
1681463--1681568	40	2.7	39	88	2	142	28	16	35	18	1.93
1689392--1689491	29	3.4	29	100	0	200	27	25	13	35	1.92
1689759--1689838	25	3.1	25	94	3	133	23	12	25	38	1.90
1690039--1690074	12	2.8	13	87	12	56	36	0	11	52	1.37
1691513--1691636	42	3.0	42	87	3	164	27	38	11	22	1.88
1691534--1691636	39	2.5	41	87	4	147	28	39	11	20	1.87
1691736--1691911	21	8.4	21	76	4	133	24	9	31	34	1.88
1691746--1691887	63	2.3	63	84	0	194	23	9	31	35	1.87
1691764--1691911	63	2.3	63	83	2	181	24	10	30	35	1.88
1692320--1692371	21	2.5	21	93	6	88	21	42	13	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693717--1693774	20	2.6	22	86	10	75	25	24	20	29	1.99
1693762--1693923	63	2.5	64	76	6	161	25	22	19	32	1.98
1695039--1695192	31	5.0	31	96	1	274	38	22	19	19	1.94
1695863--1695907	21	2.1	21	87	0	63	15	24	28	31	1.96
1698285--1698342	20	2.6	22	86	10	75	25	24	20	29	1.99
1702900--1702942	3	14.3	3	100	0	86	0	34	0	65	0.93
1703186--1703239	24	2.2	24	96	0	99	42	20	16	20	1.89
1703202--1703253	24	2.2	24	82	0	59	40	21	15	23	1.91
1704216--1704273	20	2.9	20	89	0	89	50	15	10	24	1.75
1704272--1704449	20	8.9	20	87	0	221	26	15	20	37	1.92
1704272--1704449	60	3.0	60	89	1	250	26	15	20	37	1.92
1704270--1704528	20	12.9	19	79	11	189	28	13	22	35	1.92
1704497--1704550	20	2.7	20	94	0	90	31	7	25	35	1.84
1704436--1704590	82	1.9	82	82	2	195	30	10	24	34	1.89
1705167--1705226	20	3.0	21	82	4	70	31	23	20	25	1.98
1705231--1705280	19	2.6	19	96	0	91	34	6	22	38	1.78
1705228--1705336	19	5.4	19	77	13	83	34	4	27	33	1.77
1705758--1705859	21	4.9	21	82	7	136	16	15	25	42	1.88
1705785--1705878	41	2.3	41	96	0	170	19	18	27	35	1.95
1705806--1705878	20	3.6	20	78	10	85	21	19	27	31	1.97
1705904--1705940	19	1.9	19	88	0	56	24	16	27	32	1.96
1706509--1706539	15	2.1	15	100	0	62	19	12	22	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708828--1708946	5	23.6	5	98	1	229	59	0	0	40	0.97
1711650--1711689	19	2.0	21	85	9	57	32	12	5	50	1.62
1711923--1711997	15	4.9	15	69	9	53	45	5	8	41	1.56
1712258--1712299	22	2.0	21	85	4	57	26	11	7	54	1.62
1714098--1714139	20	2.1	20	91	8	68	71	0	4	23	1.05
1714209--1714258	13	4.2	12	80	11	52	54	4	2	40	1.31
1714217--1714259	13	3.4	13	87	3	61	55	4	2	37	1.33
1714290--1714333	2	22.0	2	100	0	88	50	0	0	50	1.00
1714317--1714617	35	8.4	35	74	18	151	43	4	2	49	1.37
1714327--1714516	65	2.8	65	85	11	226	44	4	3	47	1.40
1714387--1714442	25	2.1	27	83	6	71	46	3	3	46	1.37
1714317--1714617	38	8.4	34	74	19	224	43	4	2	49	1.37
1714533--1714600	20	3.4	20	68	22	61	39	5	0	54	1.25
1715266--1716112	84	10.2	83	77	8	798	25	19	24	31	1.98
1715263--1716112	165	5.1	165	77	7	774	25	19	24	31	1.98
1715269--1716112	249	3.4	249	89	1	1264	25	19	24	31	1.98
1717085--1717269	95	1.9	96	93	1	318	31	16	17	34	1.92
1719724--1719890	86	1.9	86	95	0	298	43	12	17	26	1.85
1719445--1720152	365	1.9	365	96	0	1299	36	14	19	29	1.92
1721749--1721788	17	2.3	18	80	20	50	80	0	2	17	0.83
1723120--1723165	4	11.5	4	80	17	51	73	0	2	23	0.94
1723119--1723165	9	5.2	9	80	19	62	74	0	2	23	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1723165--1723192	2	14.0	2	100	0	56	50	0	0	50	1.00
1723250--1723290	12	3.4	12	87	9	57	53	4	2	39	1.35
1723249--1723285	12	2.9	13	88	8	58	45	5	2	45	1.40
1723293--1723599	38	8.2	37	80	9	311	44	4	3	46	1.42
1723293--1723640	76	4.6	77	78	13	339	45	4	3	46	1.42
1723293--1723641	37	9.2	36	76	16	170	44	4	4	46	1.43
1726689--1726725	19	1.9	19	88	0	56	51	2	5	40	1.39
1728489--1729060	111	5.1	111	91	1	862	46	14	13	25	1.81
1728933--1729383	181	2.5	179	88	3	665	43	13	15	27	1.84
1730289--1730329	17	2.4	17	88	8	57	63	0	14	21	1.30

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