genome.fa.s9074.2.7.7.80.10.50.1000.9.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: VEPZ01009074.1 Hibiscus syriacus cultivar Beakdansim tig00112507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2143704

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

This is table  9  of  11  ( 1290 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)
1524583--1524877	147	2.0	146	97	2	556	30	31	2	35	1.72
1531252--1531484	117	2.0	117	99	0	457	27	23	12	36	1.90
1535927--1535961	17	2.1	17	94	0	61	17	14	17	51	1.77
1536220--1536262	14	3.2	13	75	12	50	48	4	6	39	1.51
1538626--1538690	29	2.2	29	81	5	78	27	7	10	53	1.62
1539976--1540022	3	15.3	3	86	4	67	38	0	2	59	1.09
1539971--1540016	22	2.1	21	92	4	74	41	0	2	56	1.11
1541391--1541437	15	3.0	17	85	11	57	29	6	4	59	1.41
1541833--1542815	490	2.0	491	99	0	1941	29	27	16	25	1.97
1543537--1543574	2	19.5	2	94	5	69	50	0	0	50	1.00
1543609--1543639	13	2.3	14	94	5	55	41	0	0	58	0.98
1544386--1544451	28	2.4	27	82	9	80	34	6	0	59	1.22
1544377--1544456	30	2.7	30	75	9	76	33	5	0	61	1.18
1550635--1550697	23	2.8	23	80	9	67	25	36	22	15	1.94
1557052--1557187	72	1.9	72	89	0	209	28	19	16	34	1.94
1559898--1560054	75	2.1	75	85	5	212	29	16	21	31	1.95
1560911--1561063	54	2.8	54	84	0	198	37	13	22	27	1.91
1562049--1562566	45	11.5	45	94	0	865	23	22	20	33	1.97
1562097--1562172	20	3.2	26	62	30	69	22	25	21	31	1.98
1562733--1562758	13	2.0	13	100	0	52	53	0	0	46	1.00
1562916--1562956	19	2.1	20	86	4	57	24	12	14	48	1.78
1564156--1564203	16	3.0	17	85	8	57	29	6	4	60	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564217--1564298	3	28.7	3	71	18	52	28	2	2	67	1.16
1564218--1564290	23	3.4	21	71	16	60	26	2	2	68	1.16
1564233--1564298	12	5.5	11	78	18	62	27	1	3	68	1.13
1564307--1564332	2	13.0	2	100	0	52	50	0	0	50	1.00
1566450--1566567	15	7.5	15	79	13	130	45	0	2	50	1.21
1566547--1566644	32	3.4	31	73	26	115	37	0	9	53	1.33
1566465--1566622	69	2.3	67	85	8	205	43	0	5	50	1.28
1566547--1567203	54	12.1	54	68	20	272	34	0	12	52	1.39
1566615--1566662	22	2.4	18	73	23	51	33	0	14	52	1.42
1566671--1567106	32	14.7	31	72	22	211	35	0	11	52	1.38
1566704--1566746	22	2.0	22	95	0	77	34	0	11	53	1.37
1566545--1567074	220	2.4	218	84	9	780	35	0	11	52	1.38
1566758--1566800	22	2.0	22	90	0	68	37	0	9	53	1.33
1566730--1567283	80	6.8	80	84	10	707	34	0	13	52	1.40
1566924--1567042	22	5.0	22	75	18	112	36	0	11	51	1.39
1566725--1567298	242	2.3	239	89	8	877	34	0	12	52	1.40
1567045--1567101	18	3.4	17	70	20	57	33	0	10	56	1.34
1567026--1567105	14	5.0	16	69	22	69	35	0	10	55	1.34
1567157--1567204	22	2.4	18	73	23	51	33	0	14	52	1.42
1567246--1567288	22	2.0	22	100	0	86	34	0	13	51	1.42
1566672--1567298	54	11.6	54	75	11	550	34	0	12	52	1.39
1567313--1567371	31	1.9	31	89	6	93	42	8	6	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571052--1571445	55	7.2	54	83	7	315	28	24	15	30	1.96
1571052--1571445	109	3.6	108	83	8	419	28	24	15	30	1.96
1572763--1572859	7	14.6	7	74	20	59	7	18	0	74	1.04
1572788--1572935	8	17.2	8	74	22	72	10	14	0	75	1.05
1572753--1572859	44	2.5	44	78	18	120	6	18	0	74	1.02
1572763--1572828	15	4.1	15	75	16	62	7	18	0	74	1.05
1572747--1572851	16	7.0	15	74	21	64	6	19	0	74	1.03
1572855--1572887	9	3.6	9	95	4	57	18	0	0	81	0.68
1572855--1572887	10	3.4	10	91	8	59	18	0	0	81	0.68
1572891--1572929	17	2.3	17	86	0	51	7	12	0	79	0.93
1572769--1572940	19	10.3	16	69	21	65	9	15	0	75	1.05
1579365--1579452	45	1.9	46	90	4	142	35	21	12	30	1.91
1581705--1581762	20	2.6	22	86	10	75	29	20	20	29	1.98
1582542--1582683	18	7.9	18	93	0	239	18	22	32	26	1.97
1589149--1589187	20	2.0	19	85	5	51	48	12	17	20	1.80
1589169--1589604	230	1.9	228	89	2	678	39	12	14	32	1.84
1593431--1593472	22	1.9	22	90	9	68	52	0	2	45	1.13
1597287--1597346	29	2.1	29	96	0	111	25	11	13	50	1.75
1601929--1601987	29	2.0	29	96	0	109	25	13	11	49	1.76
1608561--1608716	65	2.4	64	83	7	201	28	23	17	30	1.97
1614334--1614455	21	5.6	21	73	10	77	29	26	21	22	1.99
1614334--1614431	45	2.2	44	85	5	135	29	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614349--1614437	23	3.9	23	73	15	78	28	25	22	23	1.99
1614808--1614847	19	2.2	19	86	4	55	65	10	2	22	1.35
1616400--1616456	27	2.1	27	87	6	80	26	3	12	57	1.50
1617069--1617193	65	1.9	65	88	6	191	29	20	19	30	1.97
1625072--1625129	27	2.2	26	84	3	71	32	1	0	65	1.03
1625956--1625989	15	2.2	16	89	5	52	47	0	5	47	1.26
1627923--1627956	17	2.1	16	88	5	50	76	0	8	14	1.01
1638063--1638096	17	2.1	16	88	5	50	76	0	8	14	1.01
1646223--1646287	24	2.7	24	82	0	85	32	26	24	16	1.96
1649345--1649517	86	2.0	86	96	0	319	38	23	16	21	1.93
1652742--1653241	243	2.0	246	98	1	970	34	16	16	34	1.90
1658099--1658181	23	3.7	23	83	3	107	26	14	25	33	1.94
1658728--1658758	16	1.9	16	93	0	53	38	6	12	41	1.69
1659069--1659107	12	3.1	13	88	7	62	17	10	46	25	1.80
1661318--1661359	13	3.3	13	77	16	52	66	4	11	16	1.40
1664337--1664389	23	2.3	23	83	3	61	35	26	13	24	1.92
1664355--1664473	21	5.6	21	75	4	87	37	21	13	26	1.91
1667383--1667468	42	2.0	42	100	0	172	27	23	9	39	1.85
1677545--1677707	60	2.8	60	77	11	165	42	5	19	31	1.74
1679247--1679284	20	1.9	20	88	0	58	18	23	28	28	1.98
1681561--1681619	23	2.6	23	83	0	64	20	22	13	44	1.86
1690580--1690609	4	7.8	4	92	7	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692157--1692221	21	3.2	21	82	4	80	49	0	3	47	1.17
1692158--1692235	21	3.7	21	77	8	79	47	0	2	50	1.15
1703334--1703393	21	2.9	21	97	0	111	16	11	40	31	1.85
1706756--1706793	17	2.3	16	83	16	51	73	0	2	23	0.95
1707558--1707826	2	141.5	2	66	28	83	51	7	1	39	1.40
1707550--1707836	7	39.6	7	70	16	167	52	7	1	38	1.39
1707555--1707836	20	13.6	19	70	21	114	52	7	1	38	1.39
1707555--1707851	15	19.3	15	68	17	141	51	7	2	39	1.41
1707560--1707836	5	54.6	5	66	21	57	51	7	1	38	1.40
1707621--1707776	75	2.1	74	83	10	196	53	9	0	37	1.34
1707798--1707853	19	3.1	19	74	10	62	55	1	3	39	1.28
1707803--1707853	17	2.8	18	73	5	50	54	1	3	39	1.30
1709490--1709566	23	3.0	25	85	9	86	42	3	0	53	1.19
1709501--1709594	28	3.5	29	79	15	87	40	3	0	56	1.15
1709571--1709803	116	2.0	115	94	0	412	44	9	9	36	1.68
1710347--1710464	60	2.0	61	89	1	184	31	17	6	44	1.75
1713871--1713902	11	2.9	11	95	0	55	71	0	0	28	0.86
1713868--1713896	11	2.5	12	88	11	51	75	0	0	24	0.80
1743376--1743421	14	3.3	14	100	0	92	6	15	28	50	1.69
1743391--1743441	24	2.1	24	85	0	66	11	11	21	54	1.68
1744458--1744532	10	7.7	10	69	21	61	9	12	21	57	1.62
1744464--1744528	16	4.1	16	95	0	121	7	12	23	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744597--1744629	16	2.1	16	100	0	66	6	12	24	57	1.57
1745882--1745931	26	1.9	26	91	0	82	40	16	18	26	1.90
1748470--1748595	63	2.0	62	85	1	171	29	20	7	42	1.78
1752616--1752671	22	2.6	21	91	2	85	33	16	26	23	1.95
1752618--1752671	21	2.5	22	90	3	83	35	16	24	24	1.95
1758391--1758444	20	2.7	20	97	0	99	18	18	37	25	1.94
1758972--1759010	19	2.1	19	90	0	60	41	5	0	53	1.23
1759160--1759190	16	1.9	16	93	0	53	0	9	35	54	1.33
1759530--1759579	22	2.3	21	83	6	64	40	14	22	24	1.90
1761591--1761632	21	2.0	21	85	0	57	40	26	7	26	1.81

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