genome.fa.s8103.2.7.7.80.10.50.1000.9.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: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1996589

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

This is table  9  of  11  ( 1263 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)
1441867--1441909	20	2.3	19	84	11	61	25	30	6	37	1.82
1445367--1445424	26	2.2	25	80	14	64	22	10	10	56	1.62
1447756--1447814	20	2.9	20	84	2	73	16	25	35	22	1.95
1454377--1454401	9	2.8	9	100	0	50	92	0	8	0	0.40
1454793--1454847	28	2.0	26	89	6	83	23	10	7	58	1.57
1454785--1454847	28	2.5	24	75	20	67	23	12	7	55	1.63
1460078--1460107	2	15.5	2	93	6	53	50	0	0	50	1.00
1462315--1462729	38	10.5	38	75	11	300	26	19	16	38	1.92
1462349--1462731	80	4.9	76	77	11	303	26	18	16	38	1.92
1462316--1462731	118	3.5	116	78	8	421	26	18	16	37	1.92
1463948--1464008	2	30.5	2	100	0	122	50	0	0	49	1.00
1475515--1475604	36	2.5	35	90	3	135	43	22	16	17	1.88
1475793--1475840	11	4.5	11	76	2	53	41	4	2	52	1.32
1479454--1481096	38	41.8	38	79	9	1575	25	18	16	39	1.91
1479454--1481094	80	20.8	78	80	8	1485	25	18	16	39	1.91
1479454--1481096	118	13.9	115	83	6	1632	25	18	16	39	1.91
1481020--1481399	45	8.8	45	73	11	208	22	18	17	40	1.91
1481234--1481500	45	5.7	45	76	9	182	22	19	20	37	1.94
1481368--1481531	51	3.2	51	80	4	145	23	21	18	35	1.95
1482055--1482425	133	2.8	133	88	4	545	28	18	20	32	1.96
1482512--1482584	6	12.2	6	83	0	92	34	2	1	61	1.19
1482512--1482584	9	8.1	9	85	0	92	34	2	1	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488276--1488313	16	2.3	17	86	4	51	36	0	5	57	1.21
1489668--1489700	3	11.0	3	100	0	66	66	0	0	33	0.92
1489795--1489845	21	2.4	21	90	0	75	19	27	0	52	1.46
1490989--1491073	29	2.9	29	81	10	93	49	4	11	34	1.60
1492691--1492746	26	2.2	25	90	3	85	23	14	28	33	1.94
1492983--1493032	26	1.9	26	100	0	100	36	16	20	28	1.93
1498336--1498395	29	2.1	29	100	0	120	45	13	13	28	1.81
1501003--1501040	20	1.9	20	88	0	58	36	13	15	34	1.87
1502500--1502544	23	2.0	23	86	0	63	28	33	6	31	1.83
1511379--1511441	20	3.2	20	95	0	108	33	12	22	31	1.91
1515156--1515189	17	2.1	16	88	5	50	14	8	0	76	1.01
1525344--1525377	17	2.1	16	88	5	50	14	8	0	76	1.01
1542235--1542602	131	2.8	130	84	2	468	39	15	11	32	1.84
1545918--1546018	22	4.8	22	80	4	120	19	23	28	27	1.99
1547080--1547937	133	6.4	133	82	4	869	31	15	20	31	1.94
1547080--1547937	268	3.2	265	83	3	985	31	15	20	31	1.94
1547080--1547937	401	2.1	401	82	4	1025	31	15	20	31	1.94
1554574--1554940	131	2.8	131	83	3	436	40	15	11	31	1.84
1556126--1556352	110	2.1	110	95	1	411	17	34	22	25	1.96
1557190--1557214	3	8.3	3	100	0	50	68	0	0	32	0.90
1558881--1558931	12	4.2	12	78	14	52	27	1	3	66	1.20
1558881--1558931	24	2.1	24	82	13	61	27	1	3	66	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560968--1561023	24	2.3	23	79	8	67	23	0	7	69	1.12
1565024--1565055	15	2.1	15	100	0	64	18	40	6	34	1.76
1568405--1568440	18	1.9	18	94	5	63	44	0	0	55	0.99
1576646--1576678	2	16.5	2	100	0	66	48	0	0	51	1.00
1577505--1577533	15	1.9	15	100	0	58	44	6	20	27	1.77
1583555--1583594	14	2.8	14	84	3	53	42	12	32	12	1.80
1586841--1586882	18	2.4	17	88	7	66	42	7	9	40	1.65
1590440--1590495	13	4.2	13	79	20	55	75	0	3	21	0.96
1590453--1590508	15	3.4	18	72	20	59	73	0	3	23	0.99
1590440--1590507	31	2.2	31	86	5	93	72	0	4	23	1.03
1590451--1590515	32	2.1	32	83	16	84	70	0	3	26	1.01
1593226--1593272	22	2.2	21	84	3	58	0	21	2	76	0.89
1593226--1593265	15	2.9	15	85	10	50	0	22	0	77	0.77
1595147--1595515	188	1.9	190	94	3	656	29	18	21	31	1.97
1601204--1601236	8	4.0	8	92	7	57	48	0	3	48	1.17
1601197--1601235	17	2.3	17	90	0	60	48	2	2	46	1.29
1601204--1601244	17	2.3	18	95	4	75	48	0	4	46	1.23
1601283--1601322	20	2.0	20	100	0	80	50	15	5	30	1.65
1601613--1601693	20	4.0	20	76	10	74	14	25	35	23	1.93
1606032--1606086	14	4.3	13	82	17	71	7	14	25	52	1.67
1606033--1606093	24	2.6	23	94	2	104	8	13	24	54	1.66
1607099--1607198	10	10.7	10	71	23	76	10	12	20	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607105--1607194	16	6.1	16	75	17	104	8	12	21	57	1.61
1607107--1607184	31	2.5	31	87	2	102	8	12	20	57	1.62
1607099--1607198	26	3.7	26	81	12	128	10	12	20	58	1.62
1607261--1607292	16	2.1	15	94	5	55	6	12	25	56	1.59
1614486--1614529	22	2.0	22	86	0	61	68	4	13	13	1.36
1614667--1614696	2	15.0	2	100	0	60	50	0	0	50	1.00
1614774--1614820	16	2.9	16	75	15	51	70	0	4	25	1.05
1624186--1624424	36	6.5	36	87	8	333	44	3	4	46	1.41
1624247--1624297	25	2.0	25	84	7	66	45	3	3	47	1.40
1624156--1624424	149	1.8	151	88	7	424	44	4	5	46	1.44
1624185--1624426	113	2.2	113	90	4	388	45	3	4	46	1.41
1624479--1624530	7	6.9	7	81	14	59	13	1	0	84	0.70
1624497--1624529	17	1.9	17	93	0	57	15	3	0	81	0.80
1626455--1626500	17	2.9	16	84	12	60	52	0	2	45	1.13
1627013--1627633	119	5.0	119	82	9	735	34	18	15	32	1.92
1627240--1627313	20	3.7	19	78	3	67	32	21	21	24	1.98
1627239--1627314	40	1.9	40	83	5	100	32	21	21	25	1.97
1627121--1627434	139	2.3	139	90	0	502	33	19	16	30	1.94
1627379--1627418	21	2.0	21	85	5	55	30	25	17	27	1.97
1627022--1627553	259	2.1	258	89	1	825	33	18	16	31	1.93
1627499--1627552	20	2.7	20	82	0	54	29	20	22	27	1.98
1628211--1628254	20	2.1	21	87	8	63	38	13	11	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628345--1628455	57	2.0	56	89	1	168	29	20	8	41	1.81
1635929--1635974	17	2.9	16	84	12	60	52	2	0	45	1.13
1637161--1637217	20	2.9	19	79	7	60	21	5	1	71	1.14
1638241--1638370	59	2.2	59	80	4	136	37	11	13	37	1.80
1639377--1639453	37	2.1	37	85	4	102	48	1	3	46	1.28
1639932--1639999	31	2.2	31	84	5	84	51	2	0	45	1.16
1640007--1640046	20	2.0	21	85	5	55	45	7	0	47	1.31
1639974--1640084	51	2.2	51	100	0	222	45	9	1	43	1.46
1644145--1644174	13	2.3	13	94	0	51	56	0	0	43	0.99
1644456--1644789	165	2.0	170	90	4	534	35	25	10	28	1.89
1645386--1645446	31	2.0	31	87	12	90	39	18	3	39	1.67
1646304--1646347	2	22.0	2	100	0	88	50	0	0	50	1.00
1653890--1653967	31	2.4	34	78	8	90	79	0	17	2	0.84
1653888--1654014	45	2.8	47	80	12	133	74	0	18	6	1.02
1653902--1653976	24	3.1	24	75	17	68	77	0	18	4	0.92
1653890--1653988	30	3.4	28	79	9	83	76	0	19	4	0.94
1653888--1653978	40	2.3	38	83	3	110	78	0	18	3	0.89
1656439--1656471	15	2.2	15	94	0	57	36	27	0	36	1.57
1659745--1660317	134	4.3	134	83	4	710	29	14	22	32	1.94
1659747--1660317	267	2.1	265	84	3	745	29	14	22	32	1.94
1661996--1662064	23	2.9	23	72	12	59	5	21	0	72	1.05
1662021--1662082	28	2.2	29	83	11	83	11	14	0	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668921--1668962	3	14.0	3	89	0	66	66	0	2	30	1.04
1669017--1669587	133	4.3	133	84	5	699	33	22	14	29	1.94
1669017--1669587	265	2.2	265	85	5	760	33	22	14	29	1.94
1669746--1669783	3	13.3	3	83	10	53	34	0	0	65	0.93
1672243--1672293	21	2.4	21	100	0	102	56	7	0	35	1.28
1674580--1674675	38	2.5	38	96	0	174	26	28	21	23	1.99
1674582--1674646	17	3.6	17	69	15	58	27	30	21	20	1.98
1674577--1674680	21	5.3	20	66	18	76	25	27	21	25	1.99
1684933--1684975	2	21.5	2	100	0	86	51	0	0	48	1.00
1691062--1691139	3	26.3	3	84	7	70	35	2	1	60	1.19

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