genome.fa.s7782.2.7.7.80.10.50.1000.9.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2174 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)
1508494--1508556	27	2.3	28	86	5	92	55	1	0	42	1.09
1513130--1513154	11	2.3	11	100	0	50	40	0	8	52	1.31
1519609--1519677	26	2.7	26	97	0	129	47	17	7	27	1.73
1522197--1522228	15	2.1	15	100	0	64	50	18	6	25	1.70
1526424--1526497	10	7.6	10	68	22	50	58	20	9	12	1.61
1526431--1526499	16	4.3	16	86	0	75	57	20	8	13	1.61
1527113--1527158	14	3.3	14	87	6	58	58	23	8	8	1.56
1527137--1527168	14	2.3	14	100	0	64	50	21	15	12	1.77
1527093--1527161	24	2.9	24	84	0	93	59	18	8	13	1.59
1530534--1530575	19	2.1	21	86	8	61	45	11	14	28	1.80
1531087--1531120	17	2.1	17	88	5	52	32	23	5	38	1.79
1532941--1532972	15	2.1	15	100	0	64	50	18	6	25	1.70
1533244--1533297	19	2.7	19	85	8	63	29	22	16	31	1.96
1537832--1537886	25	2.2	26	86	3	76	23	1	1	72	1.04
1537858--1537894	18	2.1	18	94	0	65	29	0	0	70	0.88
1537846--1537893	25	1.9	25	86	0	69	29	2	0	68	1.01
1539815--1539994	35	5.1	35	86	1	234	23	22	19	34	1.97
1539815--1539994	71	2.6	71	83	4	231	23	22	19	34	1.97
1542755--1542787	2	16.5	2	100	0	66	48	0	0	51	1.00
1552294--1552358	15	4.3	15	92	0	112	16	24	30	27	1.97
1558552--1558590	20	2.0	20	100	0	78	10	30	33	25	1.89
1565454--1565491	20	1.9	20	100	0	76	10	31	34	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581479--1581534	27	2.1	27	86	0	76	66	10	14	8	1.45
1583234--1583282	25	2.0	25	95	0	89	24	18	28	28	1.98
1584258--1584300	21	2.0	22	86	4	61	27	4	27	39	1.76
1586151--1586969	274	3.0	274	92	1	1318	27	16	22	34	1.95
1589817--1589869	25	2.1	25	86	6	72	3	26	0	69	1.05
1589817--1589875	15	4.3	15	77	14	65	5	27	0	67	1.11
1589824--1589884	16	4.2	16	65	26	55	4	29	0	65	1.13
1591275--1591318	15	3.3	15	70	29	53	61	0	31	6	1.22
1591268--1591341	25	2.9	25	93	2	121	62	0	31	6	1.21
1592009--1592064	20	2.8	20	88	0	85	41	19	23	16	1.90
1592049--1592105	30	1.9	30	85	0	78	38	24	28	8	1.85
1593792--1593883	27	3.4	27	70	18	75	55	2	5	36	1.35
1593744--1593824	39	2.1	37	82	11	92	51	0	2	45	1.14
1595336--1595362	2	13.5	2	100	0	54	48	0	0	51	1.00
1597773--1597930	21	7.8	20	72	7	95	38	24	17	19	1.93
1597898--1598066	20	8.4	20	79	5	153	38	26	16	18	1.92
1597917--1598047	60	2.2	60	83	8	169	36	27	16	19	1.93
1598759--1598805	24	2.0	24	87	8	69	25	14	21	38	1.92
1598980--1599004	12	2.1	12	100	0	50	72	0	28	0	0.86
1601303--1601536	72	3.3	72	81	8	295	46	17	22	13	1.83
1601289--1601558	53	5.1	52	90	8	415	46	17	22	13	1.83
1601270--1601563	72	4.2	68	78	13	276	45	18	22	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601289--1601558	105	2.6	105	91	7	426	46	17	22	13	1.83
1601535--1601650	53	2.2	52	86	3	160	18	22	18	39	1.92
1601573--1601660	19	4.8	19	79	14	114	13	21	15	48	1.80
1601751--1601787	14	2.6	14	91	0	65	45	21	0	32	1.52
1603711--1603850	19	7.6	19	79	8	137	45	25	19	10	1.81
1603862--1603920	14	3.9	14	76	20	64	6	16	28	47	1.72
1603846--1603969	33	3.7	33	91	1	185	8	17	27	45	1.78
1603846--1603937	19	5.4	18	72	24	83	7	17	28	46	1.75
1603895--1603951	14	3.7	14	72	20	51	8	22	24	43	1.81
1604017--1604390	93	4.1	93	98	1	709	45	18	12	22	1.84
1606075--1606171	20	5.2	20	72	18	100	46	17	24	11	1.81
1606073--1606137	21	3.1	21	82	4	96	47	15	26	10	1.78
1606122--1606178	14	3.7	14	75	20	60	43	22	24	8	1.81
1606073--1606195	33	3.5	33	90	8	165	46	18	24	10	1.81
1606212--1606268	14	3.7	14	75	20	60	8	24	22	43	1.81
1606196--1606275	33	2.4	33	95	0	142	8	21	22	47	1.78
1606256--1606329	21	3.5	21	80	7	96	14	20	17	47	1.83
1606409--1606479	33	2.2	33	94	0	124	47	16	23	11	1.79
1606859--1607010	20	7.6	20	85	2	189	19	19	26	34	1.96
1607885--1607959	27	2.8	27	76	19	84	56	0	4	40	1.18
1607886--1607973	24	3.5	24	81	13	81	55	0	3	40	1.16
1607888--1607973	26	3.3	26	82	11	88	55	0	3	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614404--1614573	91	1.9	91	88	2	261	26	14	11	47	1.78
1616289--1616327	19	2.1	19	100	0	78	51	10	15	23	1.73
1616360--1616442	2	41.0	2	97	2	157	49	1	0	49	1.08
1618303--1618354	13	4.0	13	78	9	52	36	15	19	28	1.92
1619652--1619689	19	2.0	19	89	0	58	47	0	2	50	1.15
1623485--1623547	3	21.0	3	96	0	117	66	1	0	31	1.01
1623831--1624020	43	4.4	42	66	16	109	27	17	28	25	1.97
1623818--1624168	131	2.7	130	82	2	416	27	15	29	27	1.96
1624170--1624487	44	7.6	42	66	17	146	27	18	22	31	1.97
1624116--1624585	124	3.8	124	87	2	590	27	18	24	30	1.98
1625981--1626049	25	2.8	24	84	4	84	5	15	0	78	0.94
1626002--1626035	10	3.4	10	88	12	52	0	11	0	88	0.52
1626002--1626045	14	3.0	14	90	6	61	0	13	0	86	0.57
1625993--1626049	25	2.3	26	90	6	91	3	14	0	82	0.80
1626003--1626049	15	3.2	14	85	14	60	0	14	0	85	0.61
1626003--1626045	9	4.7	9	80	13	52	0	13	0	86	0.58
1631805--1631877	30	2.4	30	88	4	103	41	8	16	34	1.78
1631805--1631895	30	3.1	30	85	1	94	41	6	15	36	1.73
1633792--1633906	61	1.9	61	89	3	178	24	17	26	31	1.97
1634013--1634194	45	4.0	45	87	1	249	40	7	20	31	1.80
1636128--1636211	3	28.0	3	90	0	123	65	4	1	28	1.20
1640377--1640488	32	3.5	32	80	0	116	36	12	15	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641514--1641567	28	1.9	28	88	7	83	35	11	7	46	1.67
1644182--1644238	23	2.5	23	82	5	71	14	28	12	45	1.80
1647363--1647450	36	2.5	33	81	12	113	52	13	10	23	1.71
1647363--1647462	36	2.9	34	79	10	112	53	14	10	23	1.70
1648168--1648239	36	2.1	34	87	12	103	36	8	18	37	1.81
1648116--1648669	143	3.9	143	84	3	695	33	12	18	36	1.88
1651654--1651688	3	11.3	3	93	6	61	2	31	0	65	1.07
1659305--1659338	17	1.9	18	88	5	52	5	23	2	67	1.26
1662659--1662714	17	3.3	17	79	0	58	25	25	19	30	1.98
1662702--1662747	22	2.1	22	84	8	58	36	28	17	17	1.92
1663509--1663556	13	3.7	13	77	0	51	27	22	18	31	1.97
1663717--1663787	2	35.5	2	100	0	142	49	0	0	50	1.00
1669316--1669346	15	2.1	15	93	0	53	54	0	0	45	0.99
1673182--1673206	2	12.5	2	100	0	50	48	0	0	52	1.00
1676547--1676594	19	2.6	19	93	3	80	20	20	33	25	1.97
1683249--1683341	43	2.1	44	88	4	134	31	12	18	37	1.88
1701539--1701664	49	2.7	46	78	8	119	68	0	9	21	1.23
1701363--1702363	484	2.0	494	86	7	1420	57	5	12	24	1.56
1703314--1703382	17	3.7	18	69	19	52	65	0	0	34	0.93
1703310--1703399	40	2.5	35	76	23	96	65	1	0	33	1.00
1703294--1703362	15	4.4	15	71	16	59	72	0	0	27	0.85
1703310--1703388	40	2.0	38	88	9	115	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703476--1703502	13	2.1	13	100	0	54	40	14	7	37	1.74
1703453--1703758	69	4.3	68	80	11	323	42	11	4	41	1.61
1703453--1703801	35	9.8	35	78	11	329	42	10	4	41	1.60
1710690--1710842	77	2.0	78	82	10	188	43	5	9	41	1.61
1731515--1731562	2	24.0	2	100	0	96	50	0	0	50	1.00
1735453--1735492	20	2.0	21	85	5	55	20	0	15	65	1.28
1735422--1735491	22	3.2	21	76	13	70	21	0	12	65	1.25
1739739--1740641	105	8.6	105	94	0	1527	22	22	18	36	1.95
1741562--1741670	8	14.0	8	82	11	86	7	11	0	80	0.89
1741557--1741650	18	5.3	17	83	9	100	5	10	0	84	0.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19