genome.fa.s6936.2.7.7.80.10.50.1000.7.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: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2176229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 982 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)
1615015--1615057	22	2.0	22	85	0	59	18	23	13	44	1.86
1615011--1615063	22	2.4	22	75	12	54	20	22	15	41	1.89
1615415--1615757	167	2.0	170	97	2	658	34	24	2	37	1.71
1620708--1620789	25	3.4	24	78	5	76	29	23	20	26	1.99
1620920--1621010	15	6.1	15	78	10	87	39	19	4	36	1.72
1620920--1621014	29	3.1	30	79	10	95	38	20	4	36	1.72
1620953--1620998	14	3.2	14	81	6	56	43	17	2	36	1.61
1624644--1624672	6	4.8	6	100	0	58	48	0	0	51	1.00
1624775--1624814	12	3.3	12	96	0	71	35	40	25	0	1.56
1626852--1626916	10	6.5	10	84	12	89	29	1	1	67	1.09
1626857--1626914	13	4.4	14	82	14	70	27	1	1	68	1.08
1626852--1626916	19	3.2	20	91	6	89	29	1	1	67	1.09
1626869--1626916	3	15.3	3	87	8	69	29	0	2	68	1.01
1626852--1626916	16	4.1	16	83	16	75	29	1	1	67	1.09
1629013--1629193	10	18.3	9	68	20	62	19	3	2	75	1.05
1629010--1629092	18	4.8	17	72	19	64	21	3	1	73	1.05
1629067--1629193	52	2.4	51	80	15	134	19	3	2	74	1.06
1629009--1629192	42	4.4	41	70	20	130	19	3	2	75	1.05
1629009--1629190	22	8.7	21	66	22	71	19	3	2	74	1.06
1629117--1629217	29	3.5	29	86	5	89	22	2	0	74	0.96
1629580--1629621	12	3.4	13	77	9	52	42	0	2	54	1.13
1634368--1634398	16	1.9	16	100	0	62	16	25	19	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635633--1635848	108	2.0	108	100	0	432	29	14	24	31	1.95
1638780--1638812	16	2.1	16	100	0	66	27	18	18	36	1.94
1643405--1643449	22	2.0	23	83	12	58	37	0	2	60	1.09
1643452--1643532	43	1.9	42	87	2	117	51	0	1	46	1.08
1644595--1644968	194	2.0	189	81	5	448	40	10	10	38	1.73
1647811--1647861	16	3.1	16	68	15	50	49	11	23	15	1.78
1654410--1654657	124	2.0	124	99	0	487	35	16	12	35	1.86
1654802--1654835	16	2.1	16	88	0	50	47	2	2	47	1.32
1654874--1654907	16	2.0	18	88	11	54	26	2	5	64	1.30
1655369--1655612	128	1.9	128	88	3	375	35	13	15	35	1.87
1656009--1656084	35	2.2	35	88	4	109	35	1	22	40	1.62
1658137--1658162	3	8.7	3	100	0	52	0	30	0	69	0.89
1661979--1662038	2	31.5	2	90	9	99	48	0	0	51	1.00
1662868--1662943	31	2.4	32	82	2	91	13	26	28	31	1.93
1663584--1663625	20	2.1	20	100	0	84	28	28	23	19	1.98
1669518--1669627	54	2.0	54	94	3	195	29	9	14	47	1.75
1670455--1670853	200	2.0	199	99	0	789	24	21	14	40	1.90
1672639--1672708	30	2.3	30	95	0	122	20	8	52	18	1.71
1675217--1675329	32	3.6	32	80	2	120	34	16	20	28	1.95
1676325--1676400	15	5.3	15	72	15	70	52	0	1	46	1.08
1685556--1685881	162	2.0	163	99	0	645	32	14	17	34	1.90
1688486--1688529	21	2.1	21	82	0	52	25	15	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692832--1692878	20	2.3	20	81	0	58	31	12	21	34	1.91
1699151--1699216	23	2.9	23	81	0	78	24	18	22	34	1.96
1699143--1699221	23	3.4	23	78	0	77	21	20	24	34	1.97
1704952--1704988	16	2.1	19	85	14	53	35	0	24	40	1.55
1705985--1706040	23	2.4	23	87	0	85	25	19	23	32	1.98
1707403--1707459	22	2.6	21	83	10	62	7	29	1	61	1.32
1707784--1707825	19	2.2	19	86	0	57	19	21	26	33	1.97
1719546--1719603	22	2.6	21	78	10	62	37	13	18	29	1.90
1729216--1729263	2	23.5	2	87	4	69	47	2	2	47	1.25
1730580--1730903	159	2.0	160	87	1	472	33	23	17	25	1.96
1731854--1731888	16	2.2	16	94	0	61	20	37	20	22	1.95
1735292--1735329	3	13.0	3	94	5	69	0	34	0	65	0.93
1747035--1747126	7	13.0	7	82	1	112	58	20	0	20	1.39
1747030--1747126	14	6.9	14	91	1	149	56	20	0	22	1.42
1747184--1747333	40	3.8	40	88	0	228	34	28	15	22	1.94
1747652--1747699	24	2.0	24	95	0	87	43	10	12	33	1.77
1754257--1754306	7	7.0	7	83	2	64	58	22	0	20	1.40
1754247--1754306	14	4.2	14	84	2	75	55	20	0	25	1.44
1754364--1754473	40	2.8	40	97	0	211	32	30	16	20	1.95
1754607--1754728	22	5.5	22	74	18	78	49	1	4	45	1.31
1754620--1754677	22	2.7	21	86	5	80	50	1	0	48	1.11
1754623--1754675	23	2.4	22	87	6	72	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1754670--1754714	23	1.9	24	86	4	65	46	2	8	42	1.47
1757456--1757489	11	3.1	11	95	0	59	20	0	26	52	1.46
1759471--1759508	16	2.4	16	83	12	51	42	2	0	55	1.14
1759473--1759509	17	2.2	16	90	4	56	40	2	0	56	1.13
1760497--1760552	27	2.0	27	86	10	78	21	33	37	7	1.81
1760762--1760819	10	5.6	10	73	15	55	10	20	46	22	1.81
1760854--1760923	29	2.4	29	82	0	104	12	31	38	17	1.87
1763182--1763272	33	2.8	33	81	0	101	39	21	18	19	1.92
1765685--1765758	29	2.5	29	84	4	85	32	20	13	33	1.91
1768452--1768566	58	2.0	58	82	1	140	30	13	15	40	1.87
1772813--1772837	13	1.9	13	100	0	50	40	12	24	24	1.88
1788762--1788807	20	2.3	19	82	17	58	52	6	0	41	1.27
1792085--1792131	18	2.5	19	82	6	60	38	4	23	34	1.74
1797677--1797882	65	3.2	64	72	16	176	25	18	23	31	1.98
1798356--1798416	2	30.5	2	100	0	122	50	0	0	49	1.00
1804644--1804677	17	2.0	17	100	0	68	5	29	5	58	1.45
1805990--1806036	20	2.3	20	85	0	67	44	23	12	19	1.85
1806002--1806136	40	3.4	40	70	15	116	39	22	16	22	1.92
1806022--1806140	20	5.9	21	79	11	108	36	23	18	21	1.95
1806187--1806235	18	2.7	19	81	9	57	32	20	14	32	1.92
1807375--1807399	12	2.1	12	100	0	50	72	0	28	0	0.86
1809461--1809501	6	6.8	6	88	0	64	60	19	2	17	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809461--1809508	12	4.0	12	83	0	60	58	22	2	16	1.49
1809461--1809508	24	2.0	24	95	0	87	58	22	2	16	1.49
1810045--1810098	28	1.9	28	84	0	72	48	20	0	31	1.50
1810062--1810098	14	2.6	14	100	0	74	48	21	0	29	1.50
1810559--1813449	961	3.0	961	99	0	5674	36	18	14	31	1.91
1813166--1813203	20	1.9	20	94	0	67	52	26	15	5	1.64
1813567--1813624	22	2.7	22	84	5	75	29	12	37	20	1.89
1813731--1813913	20	9.1	20	80	1	195	19	14	22	42	1.88
1813733--1813912	81	2.2	80	85	3	245	20	15	23	41	1.89
1813763--1813920	60	2.6	61	91	1	246	20	13	23	43	1.87
1813920--1813977	20	2.9	20	84	0	71	27	17	17	37	1.92
1813972--1814025	20	2.7	21	80	8	67	25	16	29	27	1.97
1819401--1819718	54	5.9	54	92	0	510	28	18	20	32	1.96
1819419--1819785	162	2.3	162	85	2	434	29	18	19	32	1.96
1820125--1820171	23	2.1	22	84	7	60	31	0	10	57	1.33
1826681--1826714	17	2.0	17	100	0	68	41	11	17	29	1.85
1829727--1829774	25	1.9	25	83	8	62	6	18	8	66	1.39
1831261--1831321	2	31.0	2	96	3	115	49	0	0	50	1.00
1835272--1835313	22	1.9	22	100	0	84	26	23	23	26	2.00
1835513--1835561	19	2.6	19	100	0	98	44	10	4	40	1.57
1844559--1844600	22	1.9	22	85	0	57	52	4	16	26	1.63
1847616--1848042	228	1.9	227	89	0	656	32	24	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852995--1853395	8	49.8	8	90	4	449	37	23	10	27	1.88
1852995--1853395	36	11.2	36	82	6	336	37	23	10	27	1.88
1853398--1853443	21	2.2	21	88	0	65	26	0	6	67	1.15
1853418--1853466	17	2.9	16	77	22	55	22	2	6	69	1.21
1853414--1853472	8	7.2	8	75	20	52	22	1	5	71	1.15
1855650--1855720	18	3.9	18	92	0	106	29	32	18	19	1.96
1856265--1856316	19	2.5	22	77	20	58	23	26	17	32	1.96
1856934--1856968	3	11.3	3	93	6	61	65	0	34	0	0.93
1862316--1862373	19	2.8	22	82	15	86	41	6	10	41	1.66
1869354--1869443	33	2.8	32	88	3	135	45	5	18	30	1.72

Tables:   1   2   3   4   5   6   7   8   9