genome.fa.s8912.2.7.7.80.10.50.1000.9.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

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

This is table  9  of  18  ( 2121 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)
1573136--1573177	19	2.2	18	88	12	66	35	30	19	14	1.91
1573143--1573180	19	2.0	19	100	0	76	36	26	21	15	1.93
1574095--1574132	18	2.1	18	90	0	58	5	36	0	57	1.21
1574316--1574381	33	2.0	32	94	2	114	25	43	0	30	1.55
1574415--1574458	21	2.1	21	91	0	70	15	34	9	40	1.79
1574540--1574572	15	2.2	15	100	0	66	12	57	6	24	1.57
1574851--1574906	24	2.5	23	80	11	71	50	3	0	46	1.19
1576854--1577345	182	2.7	182	88	1	736	27	17	14	41	1.87
1581979--1582014	18	1.9	19	88	5	56	44	13	16	25	1.85
1582945--1583015	36	1.9	38	85	5	101	22	14	14	49	1.78
1587901--1588012	57	2.0	57	94	0	197	29	25	23	22	1.99
1591357--1591398	20	2.0	21	86	4	59	50	0	2	47	1.14
1591680--1591817	73	1.9	73	83	3	179	16	12	23	47	1.80
1591947--1592104	20	7.8	20	70	10	90	32	25	12	29	1.92
1592252--1592298	22	2.1	22	92	0	76	19	46	17	17	1.84
1592659--1592691	14	2.3	15	89	5	50	9	15	24	51	1.72
1592648--1592730	34	2.4	35	86	6	116	16	12	21	49	1.78
1592672--1592710	20	2.0	20	90	5	62	17	10	17	53	1.71
1594232--1594397	42	4.0	42	83	3	176	24	36	15	23	1.94
1594497--1594687	21	9.1	21	68	11	95	20	11	34	34	1.89
1594514--1594687	63	2.8	63	74	5	172	20	12	34	32	1.90
1594506--1594687	42	4.3	41	70	9	127	19	12	34	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594998--1595114	42	2.8	42	77	10	121	19	37	13	29	1.90
1595017--1595093	21	3.7	21	89	0	118	19	40	15	24	1.90
1594985--1595122	21	6.6	21	81	3	100	21	36	14	27	1.92
1596682--1596777	20	4.8	20	76	0	75	40	21	14	22	1.90
1596701--1596776	40	1.9	40	83	5	100	42	19	15	22	1.89
1596711--1596789	40	2.0	40	82	5	97	39	18	18	22	1.93
1596804--1596842	20	2.0	20	89	0	60	17	20	23	38	1.93
1599431--1599489	24	2.5	24	88	0	91	37	16	18	27	1.93
1600401--1600570	20	8.4	20	76	5	153	41	11	23	24	1.87
1600393--1600570	40	4.4	40	80	7	189	41	11	23	24	1.87
1600393--1600570	60	2.9	60	80	8	216	41	11	23	24	1.87
1600432--1600592	20	8.0	19	73	11	74	39	10	22	27	1.87
1600583--1600653	20	3.6	20	69	17	58	25	12	28	33	1.92
1602731--1602791	31	1.9	32	83	9	81	31	3	6	59	1.39
1603535--1603593	7	7.7	7	78	10	55	37	0	3	59	1.14
1603536--1603601	17	3.3	21	72	23	63	36	0	4	59	1.18
1606206--1606276	20	3.5	20	73	7	79	40	9	25	23	1.85
1606189--1606276	42	2.2	40	89	4	131	40	10	23	25	1.86
1606206--1606293	20	4.3	21	71	13	67	38	10	25	26	1.87
1606289--1606359	20	3.6	20	69	17	58	25	12	28	33	1.92
1608435--1608495	31	1.9	32	83	9	81	31	3	6	59	1.39
1609238--1609296	7	7.7	7	78	10	55	37	0	3	59	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609239--1609304	17	3.3	21	72	23	63	36	0	4	59	1.18
1616860--1616901	21	2.0	21	90	0	66	23	21	21	33	1.97
1616996--1617047	27	1.9	27	84	7	70	17	9	32	40	1.82
1629538--1629643	7	15.1	7	74	3	70	45	30	0	23	1.59
1629538--1629640	21	4.9	21	75	7	84	45	30	0	23	1.59
1629538--1629643	35	3.0	35	83	2	124	45	30	0	23	1.59
1630197--1630251	25	2.2	26	83	9	69	47	3	5	43	1.44
1630574--1630603	14	2.1	14	93	0	51	43	0	6	50	1.28
1631114--1631505	183	2.1	187	90	4	625	42	3	7	46	1.49
1633888--1634041	31	5.0	31	92	0	245	37	22	18	21	1.95
1635329--1635376	21	2.3	21	79	17	55	60	0	6	33	1.22
1635368--1635405	18	2.1	19	85	5	51	57	2	5	34	1.35
1636391--1636461	24	2.9	24	76	12	63	57	12	9	19	1.63
1639850--1639889	20	2.0	20	85	4	55	27	2	2	67	1.16
1642866--1643001	18	7.6	18	69	9	107	24	6	19	50	1.71
1642903--1643131	54	4.3	54	74	4	212	25	5	21	47	1.71
1642885--1643131	18	13.8	18	71	5	133	25	4	21	47	1.71
1642867--1643094	36	6.4	36	89	3	352	25	5	21	47	1.72
1643929--1644018	42	2.1	42	81	0	99	22	12	20	45	1.83
1646250--1646479	36	6.4	36	79	5	205	30	11	19	39	1.87
1646418--1646504	36	2.4	36	88	3	122	29	10	24	35	1.88
1648735--1648805	21	3.4	21	86	0	88	33	9	21	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648770--1648811	21	2.0	21	95	0	75	35	9	19	35	1.84
1648990--1649090	45	2.3	44	79	11	111	62	2	0	34	1.11
1649645--1649716	22	3.3	22	84	3	92	20	6	13	58	1.59
1650197--1650227	16	1.9	16	100	0	62	29	12	19	38	1.89
1650539--1650564	2	13.0	2	100	0	52	50	0	0	50	1.00
1650562--1650614	20	2.5	21	78	6	54	30	0	3	66	1.10
1657113--1657150	18	2.1	18	90	0	58	42	5	13	39	1.66
1658342--1658400	17	3.5	17	86	4	75	54	1	0	44	1.10
1658806--1658853	24	2.0	24	87	0	69	12	10	20	56	1.65
1675585--1675648	29	2.2	30	91	2	103	28	25	21	25	1.99
1676205--1676326	40	3.0	40	95	0	226	33	25	17	23	1.96
1689154--1689178	2	12.5	2	100	0	50	52	0	0	48	1.00
1689818--1689884	35	1.9	35	90	0	107	31	14	35	17	1.91
1689981--1690029	23	2.1	24	84	3	64	51	0	0	48	1.00
1689957--1690027	29	2.4	29	75	11	81	52	0	0	47	1.00
1692186--1692226	13	2.9	14	85	10	57	41	0	2	56	1.13
1696675--1696774	38	2.6	37	79	13	98	24	21	10	45	1.82
1702451--1702572	64	2.0	61	83	4	154	40	4	8	47	1.52
1704557--1704584	14	2.0	14	100	0	56	14	21	0	64	1.29
1705252--1705547	149	2.0	147	90	2	468	54	14	13	17	1.71
1707820--1707860	18	2.3	18	86	0	55	19	2	19	58	1.50
1708497--1708543	20	2.4	20	75	13	53	36	17	10	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1710231--1710255	7	3.6	7	100	0	50	24	28	32	16	1.96
1710257--1710304	9	5.1	9	78	9	51	29	29	27	14	1.95
1716442--1716488	20	2.4	20	75	13	53	36	17	10	36	1.84
1723552--1723578	2	13.5	2	100	0	54	48	0	0	51	1.00
1723810--1723890	10	7.6	10	78	17	83	34	2	23	39	1.68
1723820--1723886	33	2.0	33	85	11	91	35	2	22	38	1.70
1723810--1723892	20	3.9	20	79	14	94	34	2	24	38	1.68
1726300--1726365	17	3.7	18	71	28	68	53	30	13	3	1.55
1726792--1726947	73	2.1	73	97	1	294	40	8	3	47	1.52
1727739--1727798	21	2.9	21	82	0	84	25	40	26	8	1.84
1735308--1735365	17	3.4	17	73	4	62	43	0	0	56	0.99
1735305--1735371	19	3.6	19	72	13	68	40	0	0	59	0.97
1738224--1739556	139	9.6	139	88	1	1803	34	24	18	22	1.97
1741423--1741462	21	1.9	21	89	0	62	32	10	7	50	1.64
1741478--1741660	75	2.4	75	89	3	271	40	12	14	32	1.82
1741635--1741706	23	3.1	23	87	0	99	36	16	12	34	1.87
1741689--1741849	75	2.1	75	88	0	232	40	11	13	35	1.80
1741838--1741901	23	2.8	23	92	0	110	28	14	15	42	1.86
1741485--1741902	196	2.1	196	86	0	577	38	12	14	34	1.84
1742468--1742745	108	2.6	108	85	2	344	37	15	10	37	1.81
1742592--1743074	226	2.1	226	88	3	706	32	15	13	39	1.86
1744180--1744306	36	3.5	36	82	3	148	48	9	11	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744440--1744834	116	3.4	115	80	6	451	26	22	16	34	1.95
1747409--1747456	2	23.5	2	87	4	69	45	0	4	50	1.21
1747534--1747585	26	2.0	25	92	3	86	48	3	7	40	1.50
1753718--1753771	27	2.0	27	92	0	90	33	22	18	25	1.97
1757405--1757523	24	5.0	24	90	4	177	25	15	20	39	1.91
1757641--1757733	43	2.2	43	98	0	177	16	10	36	36	1.83
1771341--1771615	98	2.8	98	78	4	266	31	16	21	31	1.95
1771586--1771872	93	3.1	92	82	2	297	28	13	24	33	1.93
1773304--1773345	18	2.3	18	100	0	84	23	23	11	40	1.88
1776013--1776682	155	4.3	157	81	4	757	31	16	4	46	1.68

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