genome.fa.s7950.2.7.7.80.10.50.1000.9.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: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1941792

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

This is table  9  of  10  ( 1138 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)
1592139--1592193	18	2.8	18	86	10	65	41	9	5	43	1.59
1592188--1592262	18	4.3	18	72	24	63	44	2	9	44	1.50
1592205--1592291	33	2.6	33	85	0	120	43	5	6	43	1.55
1592241--1592277	16	2.4	15	90	4	56	48	2	5	43	1.40
1592350--1592484	59	2.2	61	92	2	220	46	8	10	34	1.69
1593137--1593179	12	3.7	12	84	6	61	48	37	6	6	1.57
1594952--1595070	6	19.8	6	77	0	85	47	40	5	6	1.52
1597763--1597820	20	2.9	20	80	10	73	17	8	13	60	1.58
1598036--1598199	43	3.8	42	79	7	141	26	12	25	35	1.91
1598163--1598331	88	1.9	89	81	3	207	28	13	20	38	1.89
1603029--1603092	5	12.8	5	94	0	83	6	40	37	15	1.73
1603090--1603180	6	15.2	6	97	0	146	4	16	49	29	1.65
1604597--1604754	81	2.0	81	92	0	262	27	21	37	12	1.90
1606598--1606725	42	3.1	42	84	8	165	28	21	15	33	1.94
1607653--1607736	38	2.3	38	78	19	97	54	3	2	39	1.31
1607899--1607938	16	2.5	16	87	0	53	35	17	25	22	1.95
1611631--1611973	172	2.0	171	99	0	677	21	12	22	43	1.86
1618142--1618190	2	24.5	2	100	0	98	51	0	0	48	1.00
1619852--1619896	21	2.1	21	87	0	63	31	28	24	15	1.96
1619922--1619966	22	2.0	22	86	4	63	31	33	26	8	1.87
1620817--1620891	2	37.5	2	100	0	150	50	0	0	49	1.00
1621172--1621325	30	5.1	30	96	1	274	21	22	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624335--1624378	21	2.2	20	87	4	61	31	27	25	15	1.96
1625273--1625315	2	21.5	2	100	0	86	51	0	0	48	1.00
1625578--1625743	30	5.5	30	97	2	307	22	24	22	31	1.98
1633542--1633594	20	2.7	20	90	0	79	47	22	16	13	1.82
1633603--1633894	20	14.4	20	80	7	261	39	23	17	19	1.92
1633561--1633894	40	8.2	40	80	8	302	39	23	17	19	1.92
1633603--1633894	101	2.9	99	79	11	315	39	23	17	19	1.92
1633542--1633835	121	2.4	122	85	2	394	39	23	18	19	1.92
1633561--1633894	121	2.7	121	83	3	359	39	23	17	19	1.92
1634556--1634589	12	2.8	12	90	0	50	55	29	0	14	1.40
1637300--1637387	14	5.6	14	70	23	59	44	19	25	11	1.84
1637281--1637408	33	3.8	33	93	1	202	42	20	23	13	1.87
1637314--1637412	19	5.7	19	68	22	83	44	19	23	13	1.85
1637418--1637483	19	3.7	19	73	19	70	12	22	18	46	1.81
1637433--1637483	17	3.1	17	69	25	54	13	23	17	45	1.84
1637590--1637626	14	2.6	14	91	0	65	45	21	0	32	1.52
1638976--1639061	42	2.0	42	80	8	95	20	18	37	23	1.94
1639491--1639646	19	8.6	19	73	16	125	44	23	20	11	1.84
1639531--1639624	33	2.8	33	93	0	161	44	21	23	10	1.83
1639672--1639777	19	5.4	19	81	7	115	14	17	21	46	1.84
1639671--1639761	38	2.3	38	88	3	128	13	18	19	48	1.81
1639842--1640104	94	2.8	95	88	3	406	46	17	13	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641800--1641872	19	4.1	19	74	16	84	46	17	23	12	1.82
1641892--1641983	21	4.8	21	69	24	76	11	21	17	48	1.79
1642522--1642760	20	11.7	20	75	12	209	19	18	25	36	1.94
1642524--1642759	41	5.8	41	85	6	309	19	18	25	36	1.94
1642542--1642798	81	3.1	82	79	9	274	19	17	24	38	1.93
1642746--1642798	20	2.7	20	88	5	72	15	16	24	43	1.87
1642521--1642843	123	2.6	123	84	5	316	20	17	24	37	1.94
1644394--1644439	23	2.0	23	91	0	74	13	21	15	50	1.78
1644626--1644658	16	2.1	16	100	0	66	57	24	12	6	1.57
1644724--1644798	10	7.7	10	69	21	61	57	21	12	9	1.62
1644728--1644792	16	4.1	16	95	0	121	56	23	12	7	1.61
1645104--1645230	63	2.0	63	100	0	254	26	20	12	40	1.88
1645589--1645663	24	3.1	24	79	11	73	54	20	12	13	1.70
1645589--1645664	38	2.0	38	89	5	118	53	19	13	13	1.71
1645609--1645653	14	3.2	14	96	0	81	53	22	13	11	1.71
1645621--1645674	24	2.2	24	76	0	63	46	25	16	11	1.80
1646188--1646257	2	35.0	2	100	0	140	50	0	0	50	1.00
1648716--1648753	19	2.0	19	89	0	58	47	10	10	31	1.72
1652940--1652997	30	2.0	29	83	10	73	48	15	5	31	1.67
1652940--1652999	29	2.0	30	87	6	86	46	15	6	31	1.71
1654214--1654261	19	2.5	20	86	3	62	29	14	6	50	1.67
1655405--1655444	21	1.9	22	90	10	66	12	10	40	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655545--1655612	19	3.8	19	79	15	81	19	20	38	22	1.94
1655565--1655594	15	2.0	15	93	0	51	20	23	36	20	1.95
1655546--1655612	34	2.0	34	93	0	116	19	20	37	22	1.95
1662656--1662732	31	2.5	31	82	0	91	27	11	12	48	1.76
1663634--1663675	20	2.2	19	87	8	59	54	2	11	30	1.49
1664207--1664285	31	2.5	31	81	0	95	39	13	10	36	1.79
1670695--1670747	22	2.4	22	93	3	88	15	26	30	28	1.96
1671178--1671215	20	1.9	19	89	5	58	63	0	2	34	1.09
1671432--1671510	37	2.1	37	92	0	131	18	20	21	39	1.93
1679517--1679548	17	1.9	16	93	6	55	40	0	0	59	0.97
1681558--1681607	24	2.1	23	85	14	66	26	6	6	62	1.42
1684854--1684885	15	2.1	15	94	0	55	25	18	9	46	1.79
1692195--1692263	11	6.3	11	75	6	68	81	0	17	1	0.77
1692195--1692263	21	3.1	21	76	15	68	81	0	17	1	0.77
1692212--1692260	19	2.5	19	86	3	62	79	0	18	2	0.83
1692196--1692263	34	2.0	34	88	0	100	80	0	17	1	0.78
1693521--1693871	92	3.8	92	94	1	580	29	14	20	35	1.92
1694168--1694365	95	2.1	95	100	0	396	37	14	15	32	1.88
1694661--1695341	113	6.0	113	86	4	894	37	14	18	28	1.91
1694661--1695341	229	3.0	229	91	2	1038	37	14	18	28	1.91
1694661--1695341	342	2.0	337	85	5	924	37	14	18	28	1.91
1695569--1695625	3	19.0	3	82	10	64	35	0	0	64	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695569--1695625	19	2.7	22	86	10	75	35	0	0	64	0.93
1695570--1695625	13	4.4	13	84	8	62	35	0	0	64	0.94
1699738--1699810	26	2.8	26	76	12	71	65	8	4	21	1.36
1700250--1700290	21	2.0	21	90	0	64	17	7	48	26	1.73
1701860--1701924	25	2.6	25	79	16	64	64	3	1	30	1.18
1701952--1701980	10	2.9	10	100	0	58	41	0	37	20	1.53
1706669--1706876	43	4.9	41	86	5	265	22	19	22	36	1.96
1707891--1707955	33	2.0	33	90	0	103	41	6	32	20	1.77
1710461--1710501	20	2.0	20	100	0	82	46	19	4	29	1.71
1717188--1717257	24	2.9	24	89	0	95	12	11	14	61	1.57
1733555--1733600	2	23.0	2	91	8	76	50	0	2	47	1.13
1735037--1735124	29	3.0	29	80	3	106	20	32	31	14	1.93
1736036--1736102	28	2.3	30	79	12	84	20	22	46	10	1.81
1737005--1737041	2	18.5	2	100	0	74	51	0	0	48	1.00
1737041--1737088	2	24.5	2	95	4	89	50	0	50	0	1.00
1738584--1739630	535	2.0	535	90	1	1645	33	15	17	33	1.92
1740748--1740797	19	2.6	19	96	0	91	22	18	30	30	1.97
1743185--1743235	22	2.3	22	82	3	57	39	15	21	23	1.92
1744084--1744126	21	2.0	22	90	4	70	30	16	27	25	1.97
1744403--1744452	21	2.4	21	79	0	55	28	14	24	34	1.93
1746480--1746518	20	2.0	20	84	0	51	28	7	2	61	1.37
1749570--1749694	31	4.0	31	92	2	198	36	23	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750498--1750542	21	2.1	21	87	0	63	15	24	28	31	1.96
1757377--1757470	46	2.0	46	100	0	188	38	6	17	38	1.75
1763279--1763339	13	4.6	13	71	18	54	57	3	3	36	1.31
1764917--1764990	13	5.6	13	80	7	87	32	20	13	33	1.91
1770669--1770714	22	2.1	22	88	8	67	34	23	15	26	1.94
1770678--1770714	12	3.2	12	81	14	51	35	24	18	21	1.96
1770785--1770842	24	2.5	24	85	2	64	44	15	12	27	1.82
1770677--1770864	23	8.2	23	71	9	82	44	18	13	24	1.85
1773566--1773591	12	2.2	12	100	0	52	34	23	7	34	1.83
1777006--1777040	17	1.9	19	88	11	56	65	0	0	34	0.93

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