genome.fa.s7918.2.7.7.80.10.50.1000.6.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: VEPZ01007918.1 Hibiscus syriacus cultivar Beakdansim tig00110321_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2302251

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1022 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)
1424504--1424641	36	3.9	35	78	7	143	31	18	13	36	1.89
1424616--1424853	105	2.3	102	82	7	277	30	19	11	37	1.88
1424815--1424918	36	3.0	36	80	6	117	32	20	11	35	1.88
1425160--1425258	29	3.5	28	78	9	103	28	13	11	47	1.76
1425232--1425456	120	1.9	119	80	8	269	30	13	12	43	1.81
1425354--1425478	64	2.0	63	88	1	187	32	13	11	43	1.79
1425635--1425693	15	3.9	15	95	0	100	30	20	5	44	1.73
1425923--1426022	35	3.0	34	70	20	95	23	21	14	42	1.88
1426115--1426305	40	4.6	40	73	14	152	24	30	18	25	1.98
1426105--1426265	83	1.9	83	85	7	223	24	31	19	24	1.98
1426274--1426441	91	1.8	93	84	5	234	26	32	16	23	1.96
1426634--1426706	3	24.3	3	78	15	80	31	0	0	68	0.90
1426634--1426706	19	4.1	19	82	10	91	31	0	0	68	0.90
1426634--1426697	13	4.9	13	82	17	64	29	0	0	70	0.88
1426648--1426711	17	3.6	17	81	12	58	31	0	0	68	0.90
1428745--1428788	22	2.0	22	81	0	52	27	4	15	52	1.63
1460296--1460365	32	2.2	32	84	0	86	50	12	1	35	1.50
1460915--1460939	13	1.9	13	100	0	50	88	0	0	12	0.53
1461504--1461546	22	2.0	21	86	8	61	74	2	0	23	0.93
1463689--1463715	3	9.0	3	100	0	54	33	0	0	66	0.92
1473188--1473226	21	1.9	20	94	5	69	33	10	7	48	1.66
1473188--1473232	21	2.1	21	88	8	65	35	11	6	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476840--1476882	23	1.9	22	85	4	59	48	2	4	44	1.36
1480490--1480712	114	1.9	115	93	2	387	27	12	9	49	1.72
1483691--1483786	50	2.0	49	86	10	135	35	2	15	46	1.58
1483971--1484108	59	2.6	52	79	14	154	19	14	27	38	1.91
1484002--1484118	59	2.0	59	94	0	207	23	14	24	36	1.93
1485759--1485820	26	2.4	26	86	0	79	46	1	33	17	1.58
1500180--1500258	36	2.2	36	95	2	142	56	6	10	26	1.56
1501763--1501820	26	2.2	26	81	0	71	50	0	3	46	1.18
1501766--1501828	28	2.2	30	75	18	71	49	0	3	47	1.17
1502887--1502914	2	14.0	2	100	0	56	50	0	0	50	1.00
1528928--1529104	88	2.0	88	95	0	318	21	18	20	40	1.92
1528948--1529127	88	2.0	87	87	5	236	23	17	21	37	1.94
1535109--1535814	352	2.0	353	99	0	1387	39	18	18	22	1.92
1542284--1542335	25	2.1	25	92	0	86	15	7	17	59	1.58
1547035--1547095	6	10.2	6	89	0	68	54	0	22	22	1.45
1547035--1547095	18	3.4	18	81	0	77	54	0	22	22	1.45
1547152--1547192	18	2.3	19	87	8	59	73	2	0	24	0.96
1551877--1551967	43	2.1	43	87	0	128	35	6	7	50	1.57
1557515--1557666	74	2.1	74	100	0	304	20	21	18	40	1.92
1575097--1575182	39	2.2	39	100	0	172	36	17	4	41	1.70
1577352--1577602	130	1.9	132	83	4	330	41	28	9	20	1.83
1580445--1580494	3	17.3	3	91	8	86	34	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582075--1582283	115	1.8	113	85	2	292	37	9	10	43	1.70
1584417--1584455	14	2.8	14	88	0	60	28	12	5	53	1.60
1588045--1588106	19	3.4	19	72	14	58	75	0	20	3	0.94
1588049--1588110	17	3.8	16	75	14	56	75	0	20	3	0.94
1588045--1588109	26	2.5	26	73	14	62	76	0	20	3	0.91
1590288--1590491	113	1.8	113	93	0	354	31	16	18	32	1.94
1592556--1592713	54	3.0	53	83	6	198	36	16	22	24	1.94
1593082--1593136	22	2.5	22	87	0	83	34	14	14	36	1.87
1593805--1594565	113	6.7	113	81	6	872	38	14	18	28	1.90
1594041--1594087	24	2.0	23	84	12	60	55	6	21	17	1.64
1593571--1594565	234	4.3	230	80	9	996	38	14	18	28	1.90
1594249--1594563	114	2.8	112	85	3	445	39	14	18	28	1.90
1593569--1594601	348	3.0	346	82	7	1199	38	14	18	27	1.90
1594835--1594904	3	22.3	3	83	13	88	34	0	0	65	0.93
1594832--1594905	28	2.6	29	89	8	116	35	0	0	64	0.94
1596421--1596452	8	3.8	9	88	12	50	21	6	0	71	1.07
1596494--1596703	115	1.8	114	89	1	330	36	10	10	43	1.73
1596482--1596726	115	2.1	114	84	3	323	37	8	9	44	1.68
1601242--1601291	26	1.9	26	84	8	66	56	8	0	36	1.29
1604130--1604191	27	2.3	28	76	15	69	59	3	22	14	1.49
1604124--1604191	25	2.7	24	78	19	75	58	2	23	14	1.50
1606257--1606312	14	4.3	14	73	17	57	10	10	23	55	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606264--1606333	24	2.9	24	82	4	88	12	8	18	60	1.58
1607059--1607135	16	4.8	16	96	0	145	7	12	23	55	1.63
1607087--1607139	10	6.1	10	68	31	50	7	11	22	58	1.57
1607206--1607238	16	2.1	16	100	0	66	6	12	24	57	1.57
1607605--1608086	229	2.1	223	93	2	820	43	8	7	40	1.63
1608363--1608409	20	2.4	19	89	10	76	55	10	17	17	1.69
1608152--1608623	181	2.6	182	89	2	682	43	14	16	26	1.86
1608544--1608590	20	2.4	19	82	10	67	53	10	17	19	1.72
1608553--1608595	20	2.3	19	88	11	63	51	11	16	20	1.75
1612669--1612701	17	1.9	17	100	0	66	48	12	33	6	1.65
1612914--1614063	197	5.8	199	96	2	2036	36	15	16	31	1.90
1615517--1615603	12	6.9	12	75	8	75	35	6	35	21	1.81
1615514--1615575	18	3.4	18	79	0	79	37	8	35	19	1.81
1615514--1615603	6	14.3	6	74	8	54	36	6	35	21	1.80
1615529--1615607	3	27.0	3	77	2	72	35	5	35	24	1.77
1615517--1615593	36	2.1	36	92	0	127	35	7	35	22	1.83
1617065--1617546	181	2.6	182	93	2	824	34	14	16	34	1.89
1619999--1620063	25	2.6	25	80	0	85	35	9	13	41	1.77
1620404--1620476	23	3.2	23	88	0	101	34	4	21	39	1.73
1620899--1620935	18	2.1	18	89	0	56	32	5	10	51	1.60
1620891--1620937	24	2.0	24	86	0	67	34	4	14	46	1.64
1621193--1621279	39	2.2	39	89	0	138	48	18	13	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621631--1621677	21	2.2	22	77	11	53	38	12	10	38	1.78
1621693--1621765	23	3.2	23	88	0	101	34	4	21	39	1.73
1627129--1627169	20	2.0	20	100	0	82	14	39	14	31	1.87
1633618--1633646	3	9.7	3	100	0	58	68	0	0	31	0.89
1636971--1637003	17	2.0	17	94	5	59	57	0	0	42	0.98
1644818--1645052	121	1.9	122	98	0	454	26	12	20	40	1.88
1647048--1647092	19	2.5	19	85	7	58	17	20	2	60	1.47
1647539--1647608	33	2.2	32	87	7	97	40	1	2	55	1.23
1655267--1655299	17	2.0	17	88	5	50	33	21	12	33	1.90
1655356--1655405	3	17.0	3	91	4	84	30	0	0	70	0.88
1689926--1689964	15	2.6	15	95	0	69	30	0	25	43	1.55
1699652--1699682	15	2.1	15	100	0	62	32	0	61	6	1.21
1702301--1702336	15	2.4	15	90	0	54	38	0	2	58	1.13
1702337--1702372	16	2.2	16	90	0	54	27	13	19	38	1.90
1703732--1703769	13	2.8	13	96	4	67	21	18	5	55	1.62
1703839--1703960	57	2.2	56	90	1	190	28	14	22	34	1.94
1704189--1704215	14	1.9	14	100	0	54	70	0	0	29	0.88
1720702--1720784	44	1.9	44	85	7	116	26	7	9	56	1.57
1720806--1720890	30	2.8	31	83	5	102	27	7	14	51	1.67
1722615--1722711	35	2.8	34	89	4	140	31	6	16	45	1.72
1727194--1727263	35	2.0	35	100	0	140	28	5	20	45	1.73
1727235--1727279	21	2.1	21	95	0	81	33	4	20	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727246--1727287	10	4.1	10	77	17	50	30	2	23	42	1.67
1728641--1728698	2	29.0	2	92	0	98	48	1	1	48	1.22
1731774--1731860	45	1.9	45	88	0	129	28	21	16	33	1.95
1731866--1731904	19	2.1	19	95	0	69	23	20	23	33	1.97
1737866--1737960	30	3.3	28	77	13	104	45	0	1	53	1.07
1741425--1741855	213	2.0	213	100	0	862	37	8	17	36	1.81
1741951--1742036	21	4.1	21	86	0	109	22	19	25	32	1.97
1741954--1742036	42	2.0	42	90	0	130	20	20	26	32	1.97
1742891--1743313	211	2.0	212	99	0	839	26	9	21	41	1.84
1743270--1743380	55	2.0	55	100	0	222	21	10	18	49	1.77

Tables:   1   2   3   4   5   6   7   8   9