genome.fa.s7838.2.7.7.80.10.50.1000.7.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1485 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)
1491865--1491913	20	2.5	20	79	0	62	42	24	14	18	1.87
1491924--1491966	19	2.2	20	87	4	61	23	20	16	39	1.92
1494224--1494269	21	2.2	21	84	0	56	21	13	34	30	1.91
1494286--1494335	21	2.4	21	80	6	57	20	12	38	30	1.88
1494677--1494795	42	2.8	42	88	0	166	22	33	19	24	1.97
1494681--1494795	21	5.5	20	74	10	88	22	33	20	23	1.97
1496281--1496324	20	2.2	20	87	0	61	38	25	18	18	1.92
1496439--1496474	16	2.2	16	90	0	54	19	0	13	66	1.24
1496540--1496611	20	3.6	20	80	0	81	18	18	19	44	1.87
1499197--1499274	24	3.2	24	96	0	138	38	20	20	20	1.94
1499989--1500027	16	2.4	16	82	0	51	66	0	5	28	1.12
1500184--1500253	20	3.5	19	74	16	54	34	10	21	34	1.87
1500286--1500337	20	2.5	21	84	6	70	19	13	23	44	1.86
1500327--1500404	41	1.9	41	97	0	147	23	16	21	38	1.93
1500326--1500392	21	3.2	21	67	12	66	20	16	26	35	1.94
1507838--1507872	15	2.4	15	90	4	54	57	0	5	37	1.23
1511216--1511274	27	2.2	27	100	0	118	38	13	23	23	1.91
1513546--1513595	23	2.2	23	100	0	100	52	32	4	12	1.57
1523481--1523511	6	5.2	6	96	0	53	48	3	0	48	1.17
1524846--1524875	15	2.0	15	100	0	60	33	0	20	46	1.51
1525344--1525386	24	1.9	24	86	13	65	39	0	0	60	0.97
1525355--1525460	30	3.5	30	78	10	85	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525355--1525437	33	2.5	32	83	11	98	43	0	0	56	0.99
1525350--1525460	33	3.6	30	76	15	95	41	0	0	58	0.98
1527206--1527277	21	3.5	21	79	11	85	19	34	25	20	1.96
1527790--1527889	34	2.9	34	87	0	155	52	6	5	37	1.48
1528292--1528695	127	3.2	127	91	2	664	33	22	23	21	1.98
1532434--1532462	15	1.9	15	100	0	58	48	27	6	17	1.72
1532597--1532961	183	2.0	184	92	2	619	41	3	8	46	1.50
1534899--1534986	28	3.1	28	93	0	149	30	13	11	44	1.79
1534982--1535053	27	2.7	27	82	0	90	27	11	25	36	1.90
1538191--1538246	24	2.3	24	96	0	103	35	5	17	41	1.73
1545974--1546121	75	2.0	75	86	5	210	27	8	6	57	1.54
1546926--1546984	31	1.9	31	89	0	91	42	3	8	45	1.51
1547005--1547262	22	11.7	22	90	4	308	50	6	0	42	1.29
1547586--1547626	21	2.0	20	86	9	57	53	9	2	34	1.47
1553144--1553304	60	2.7	59	85	3	198	42	4	22	30	1.75
1557302--1557746	242	1.8	242	94	0	791	32	24	10	32	1.89
1564766--1564842	31	2.5	31	78	2	82	14	25	31	28	1.95
1565828--1565854	5	5.4	5	100	0	54	0	37	0	62	0.95
1570504--1570538	2	17.5	2	100	0	70	48	0	0	51	1.00
1576411--1576459	2	24.5	2	100	0	98	51	0	0	48	1.00
1582005--1582124	35	3.3	36	88	6	172	43	19	5	32	1.72
1582053--1582116	20	3.4	20	66	29	59	45	18	4	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586616--1586702	37	2.4	36	86	5	122	42	17	4	35	1.70
1594341--1594411	31	2.2	32	85	2	90	30	30	23	14	1.94
1598665--1598967	149	2.0	148	91	0	489	27	15	21	36	1.93
1598945--1598990	23	2.0	23	91	0	74	21	23	26	28	1.99
1612379--1612416	20	1.9	20	88	0	58	26	2	10	60	1.43
1612477--1612510	17	2.1	16	88	5	50	32	0	2	64	1.08
1621543--1621583	2	21.5	2	90	9	68	51	0	0	48	1.00
1629945--1630003	7	9.2	6	82	17	50	77	0	18	3	0.90
1629933--1630002	14	4.9	14	75	21	56	77	0	18	4	0.93
1631262--1631928	55	12.1	54	87	3	795	27	16	23	32	1.96
1633259--1633291	2	17.0	2	93	6	59	48	0	0	51	1.00
1633386--1633418	2	16.5	2	93	0	57	48	0	3	48	1.17
1636636--1636677	21	2.0	20	86	4	57	76	7	4	11	1.15
1636650--1636676	12	2.2	12	100	0	54	85	7	0	7	0.75
1642643--1642706	27	2.4	27	78	5	67	12	9	7	70	1.34
1643536--1643585	21	2.4	21	96	0	91	28	14	32	26	1.94
1643728--1643765	19	2.0	19	89	0	58	47	0	7	44	1.32
1645952--1645995	22	1.9	24	86	9	65	54	6	2	36	1.40
1647109--1647180	36	2.0	37	81	13	87	47	1	4	47	1.30
1647325--1647363	20	2.0	20	84	0	51	25	25	7	41	1.82
1647659--1647684	13	2.0	13	100	0	52	30	0	0	69	0.89
1647672--1647735	31	2.1	31	82	5	76	29	3	4	62	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648994--1649118	64	2.0	63	87	6	180	37	5	39	17	1.73
1649310--1649424	60	1.9	60	85	7	162	33	18	5	42	1.72
1656619--1656658	2	20.0	2	100	0	80	50	0	0	50	1.00
1660669--1660724	27	2.1	28	83	6	71	46	3	14	35	1.62
1664366--1664441	39	1.9	39	94	0	134	30	28	6	34	1.83
1677158--1677186	7	4.1	7	100	0	58	41	13	17	27	1.87
1683505--1683545	21	2.0	20	86	9	57	29	0	4	65	1.13
1683623--1683708	2	43.0	2	97	0	163	50	1	0	48	1.08
1690476--1691252	386	2.0	386	96	2	1454	36	17	13	32	1.89
1691361--1691414	21	2.5	22	78	6	65	27	24	27	20	1.99
1691630--1691690	31	2.0	30	87	9	88	34	24	4	36	1.77
1692549--1692578	3	9.7	3	92	7	51	66	0	33	0	0.92
1692549--1692581	16	2.0	17	94	5	59	66	0	33	0	0.92
1694657--1694701	21	2.1	21	87	0	63	31	28	24	15	1.96
1695497--1695620	31	4.0	31	91	3	189	20	20	22	37	1.95
1696865--1696945	23	3.5	23	94	0	135	20	29	23	25	1.99
1704257--1704407	46	3.3	46	97	0	277	32	18	6	42	1.76
1704814--1704882	35	1.9	36	97	2	131	20	28	33	17	1.95
1708186--1708214	2	14.5	2	100	0	58	48	0	0	51	1.00
1709784--1709946	30	5.4	30	96	0	299	31	24	20	23	1.98
1709784--1709971	90	2.1	91	92	1	315	32	25	19	22	1.97
1709784--1709971	30	6.2	30	93	0	277	32	25	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1710198--1710298	4	25.2	4	97	0	184	49	22	0	27	1.50
1712603--1712849	30	8.2	30	99	0	485	32	23	19	23	1.97
1714601--1714723	31	4.0	31	93	2	194	20	20	21	37	1.95
1716508--1716571	21	3.2	20	70	16	62	25	28	21	25	1.99
1716715--1716911	46	4.3	46	96	0	360	32	18	6	42	1.75
1726388--1726432	19	2.4	19	88	7	65	20	26	26	26	1.99
1735660--1735700	22	1.9	22	90	5	66	68	0	0	31	0.90
1738555--1738608	19	2.7	21	77	11	58	53	1	0	44	1.11
1739053--1739077	10	2.5	10	100	0	50	92	0	8	0	0.40
1740429--1741026	199	3.0	198	89	3	909	34	18	17	28	1.94
1747691--1747729	19	2.0	20	85	5	53	20	2	10	66	1.33
1748447--1748471	9	2.8	9	100	0	50	12	12	12	64	1.51
1748564--1748640	36	2.2	35	83	6	93	38	1	7	51	1.39
1750086--1750162	31	2.5	31	82	4	102	28	29	27	14	1.95
1751462--1751488	9	3.0	9	100	0	54	11	11	22	55	1.66
1754165--1754246	38	2.2	38	84	0	101	46	18	24	10	1.81
1755577--1755675	33	3.1	33	92	2	157	24	14	23	38	1.91
1757303--1757369	22	3.0	22	95	2	116	25	28	26	19	1.99
1759059--1759103	21	2.1	21	87	0	63	15	24	28	31	1.96
1760247--1760271	7	3.6	7	100	0	50	16	24	0	60	1.36
1762248--1762314	22	3.0	22	95	2	116	25	28	26	19	1.99
1763997--1764041	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1768331--1768396	31	2.1	33	82	5	82	24	12	24	39	1.89
1769587--1769619	16	2.1	16	94	0	57	63	0	0	36	0.95
1769891--1769965	37	2.0	37	94	0	132	26	25	18	29	1.98
1772028--1772080	15	3.5	15	89	2	79	7	67	16	7	1.38
1777283--1777307	12	2.1	12	100	0	50	52	0	0	48	1.00
1777251--1777327	38	2.1	37	85	11	104	48	1	1	49	1.17
1777275--1777411	72	1.9	71	83	4	177	47	5	7	39	1.55
1783050--1783079	11	2.9	10	90	9	51	66	0	0	33	0.92
1783864--1783952	32	2.8	31	77	3	88	34	20	19	25	1.96
1785405--1785463	14	3.9	17	70	29	53	54	0	3	42	1.17

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13