genome.fa.s3744.2.7.7.80.10.50.1000.7.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: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457414

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

This is table  7  of  11  ( 1317 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)
1522425--1522463	15	2.6	14	88	8	51	0	12	0	87	0.55
1532061--1532114	14	3.8	14	90	2	81	33	16	29	20	1.95
1546302--1546354	24	2.2	25	82	3	63	28	7	0	64	1.21
1547620--1547644	12	2.1	12	100	0	50	24	0	0	76	0.80
1554193--1554587	79	5.0	79	95	0	729	34	17	18	28	1.94
1557114--1557183	31	2.2	33	75	14	76	35	5	2	55	1.38
1557326--1557403	29	2.7	29	89	2	111	43	15	6	34	1.72
1561239--1561283	12	3.6	12	82	11	63	37	22	31	8	1.85
1561231--1561283	26	2.0	26	100	0	106	37	20	30	11	1.88
1561231--1561275	14	3.4	14	81	12	67	37	17	31	13	1.89
1561261--1561368	32	3.3	32	78	16	130	37	16	18	27	1.93
1561235--1561320	26	3.1	27	76	20	79	38	16	23	22	1.93
1561265--1561368	31	3.2	32	77	17	113	36	17	19	26	1.94
1566057--1566088	11	2.8	12	86	13	50	62	6	31	0	1.20
1566206--1566237	2	16.0	2	100	0	64	50	0	0	50	1.00
1567502--1567556	21	2.6	21	94	0	101	36	20	16	27	1.93
1569582--1569606	3	8.3	3	100	0	50	68	0	0	32	0.90
1572404--1572429	12	2.2	12	100	0	52	15	7	7	69	1.35
1575210--1575248	2	19.5	2	100	0	78	51	0	0	48	1.00
1575320--1575349	13	2.3	13	100	0	60	46	6	16	30	1.73
1575320--1575371	13	4.0	13	87	0	59	40	13	17	28	1.87
1576736--1576802	35	2.0	33	85	5	89	31	17	14	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578801--1578888	44	2.0	44	97	0	167	29	10	27	32	1.90
1579993--1580026	2	17.5	2	93	6	61	50	0	0	50	1.00
1580450--1580492	22	2.0	22	100	0	86	44	4	9	41	1.57
1581231--1581281	20	2.5	20	90	0	84	41	19	11	27	1.86
1585749--1585788	21	1.9	21	94	0	71	35	32	15	17	1.91
1585799--1586064	21	12.8	20	74	15	220	21	19	24	34	1.96
1585790--1586061	42	6.5	42	94	0	458	20	19	24	35	1.96
1586256--1586280	4	6.2	4	100	0	50	76	0	0	24	0.80
1586444--1586469	2	13.0	2	100	0	52	50	0	0	50	1.00
1588319--1588375	3	20.0	3	79	16	59	68	1	0	29	1.00
1588320--1588377	25	2.6	21	73	21	55	68	1	0	29	0.99
1589144--1589241	40	2.5	40	100	0	196	20	22	9	47	1.78
1588711--1589201	113	4.3	113	87	2	707	27	18	15	38	1.91
1589028--1589359	153	2.2	153	96	0	601	24	20	14	40	1.89
1598065--1598117	26	2.0	28	85	7	74	60	0	5	33	1.20
1598634--1598671	17	2.2	18	85	4	51	44	0	2	52	1.14
1600760--1600812	3	19.0	3	81	14	60	66	1	0	32	1.03
1600760--1600815	19	3.0	18	79	7	67	66	1	0	32	1.03
1600738--1600816	22	3.8	21	77	14	74	62	1	0	36	1.04
1600760--1600823	22	2.9	22	77	13	69	67	3	0	29	1.06
1617839--1617877	18	2.2	18	86	4	53	15	2	7	74	1.15
1621068--1621114	24	2.0	24	95	0	85	23	12	27	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622638--1622715	20	3.9	20	87	0	111	35	8	32	23	1.86
1623867--1623896	12	2.4	13	88	11	53	70	0	0	30	0.88
1626318--1626362	20	2.2	20	100	0	90	33	48	4	13	1.62
1626601--1626659	21	2.8	21	84	0	91	6	28	42	22	1.79
1628976--1629115	38	3.9	38	85	14	208	43	15	15	25	1.86
1629649--1629687	20	1.9	20	84	5	51	17	15	5	61	1.51
1630861--1630894	16	2.1	16	100	0	68	55	0	5	38	1.24
1636076--1636147	21	3.3	22	81	13	69	30	20	16	31	1.95
1636116--1636194	23	3.5	22	75	13	79	31	21	18	27	1.97
1636775--1636808	18	1.9	18	94	5	61	23	23	17	35	1.95
1645892--1646047	60	2.6	60	79	5	172	41	3	21	33	1.69
1646448--1646476	14	2.1	14	93	6	51	65	0	0	34	0.93
1647793--1648792	193	5.0	200	85	7	1188	40	6	10	43	1.64
1647793--1648711	381	2.3	389	84	7	1153	39	6	10	42	1.66
1649210--1649258	17	2.9	17	79	8	55	55	0	4	40	1.19
1649311--1649352	6	7.2	6	78	5	50	59	2	2	35	1.23
1649311--1649352	17	2.4	17	84	11	50	59	2	2	35	1.23
1649311--1649352	12	3.6	11	87	9	57	59	2	2	35	1.23
1653122--1653190	30	2.3	31	87	5	97	24	2	4	68	1.22
1653274--1653335	29	2.1	29	85	5	81	45	3	0	51	1.17
1653303--1653369	34	2.0	34	85	5	91	40	8	0	50	1.34
1653378--1653528	31	4.7	31	72	8	97	51	1	5	41	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653370--1653443	32	2.2	33	85	4	96	51	0	5	43	1.24
1653495--1653587	26	3.4	26	80	14	73	62	3	3	31	1.27
1655896--1655930	12	2.9	12	95	0	61	14	34	28	22	1.93
1658585--1658623	21	1.9	20	89	5	60	28	23	17	30	1.97
1659761--1659792	16	2.0	17	88	11	50	43	0	3	53	1.16
1660673--1660753	30	2.6	30	84	7	101	45	6	9	38	1.62
1666376--1666412	2	18.5	2	100	0	74	48	0	51	0	1.00
1671909--1671948	20	2.0	21	85	14	57	42	5	7	45	1.54
1672179--1672217	19	2.1	19	95	0	69	20	38	15	25	1.92
1672165--1672325	65	2.5	65	86	3	218	30	26	16	27	1.96
1672165--1672345	64	2.8	64	83	2	220	29	26	17	27	1.97
1678097--1678198	44	2.3	44	80	8	118	28	24	18	28	1.98
1678610--1678634	10	2.5	10	100	0	50	88	0	0	12	0.53
1679448--1679487	20	2.0	21	85	14	57	42	5	7	45	1.54
1679718--1679756	19	2.1	19	95	0	69	20	38	15	25	1.92
1679704--1679866	65	2.5	64	85	3	220	31	26	14	27	1.95
1682726--1682754	2	14.5	2	100	0	58	51	0	0	48	1.00
1691230--1691312	31	2.7	31	89	9	118	32	7	13	46	1.70
1693059--1693333	120	2.2	123	80	5	317	30	12	16	41	1.85
1698560--1698617	21	2.8	21	81	5	73	37	27	18	15	1.92
1702023--1702097	38	2.0	37	84	5	98	48	4	1	46	1.29
1723389--1723424	16	2.2	17	90	5	56	63	2	0	33	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734498--1734534	19	2.0	19	89	5	58	56	16	10	16	1.66
1738729--1738754	2	13.0	2	100	0	52	50	0	0	50	1.00
1738831--1738892	30	2.1	30	87	6	90	50	8	17	24	1.73
1740069--1740125	22	2.6	22	76	13	55	45	17	7	29	1.75
1742144--1742178	16	2.2	16	89	0	52	37	2	0	60	1.12
1764108--1764144	19	1.9	19	88	0	56	56	2	0	40	1.13
1765352--1765380	15	2.0	15	93	6	51	44	0	0	55	0.99
1765829--1765887	31	1.9	31	89	0	91	44	5	6	44	1.52
1765904--1765958	22	2.3	26	72	21	73	43	5	0	50	1.25
1765911--1766646	22	33.5	22	81	2	798	46	9	0	44	1.38
1768413--1768471	32	1.9	32	82	6	77	35	1	5	57	1.31
1768278--1769489	606	2.0	608	97	0	2284	35	10	12	41	1.77
1774360--1774384	13	1.9	13	100	0	50	64	0	0	36	0.94
1774887--1774929	20	2.1	20	86	4	59	55	16	9	18	1.67
1776586--1776699	44	2.6	45	86	9	155	45	3	5	45	1.43
1786675--1786736	3	21.0	3	86	3	72	59	0	1	38	1.07
1786910--1787710	37	21.3	37	71	11	468	23	18	22	36	1.95
1786974--1787286	116	2.7	116	91	2	488	23	18	23	33	1.97
1787104--1787462	188	1.9	189	87	2	535	22	18	21	37	1.94
1786922--1787667	304	2.5	303	87	4	1049	22	18	22	36	1.95
1787293--1787591	116	2.6	116	89	1	440	22	19	22	36	1.95
1786922--1787705	79	10.4	72	68	16	186	23	18	22	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796287--1796388	30	3.4	30	91	1	152	32	26	19	21	1.97
1796287--1796405	60	2.0	59	81	1	139	33	26	20	20	1.97
1797304--1797377	19	3.6	19	72	15	58	21	28	24	25	1.99
1800540--1800589	26	1.9	26	84	8	66	42	28	2	28	1.67
1800889--1800979	30	3.1	30	91	1	148	32	25	19	21	1.97
1803118--1803178	20	2.9	21	85	7	70	16	24	32	26	1.96
1806978--1807017	21	1.9	21	85	10	55	35	10	2	52	1.48
1810652--1810707	21	2.7	21	91	0	94	16	17	21	44	1.86
1814359--1814423	18	3.6	18	93	4	105	20	21	27	30	1.98
1815300--1815330	16	1.9	16	93	0	53	19	12	19	48	1.81

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