genome.fa.s8211.2.7.7.80.10.50.1000.7.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: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2208279

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

This is table  7  of  10  ( 1099 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)
1350543--1350587	16	2.6	17	86	6	56	37	6	31	24	1.81
1351152--1351219	28	2.3	29	82	5	84	39	19	8	32	1.82
1351152--1351234	29	2.9	29	74	3	87	36	26	10	26	1.89
1359583--1359646	3	21.3	3	96	0	119	65	1	32	0	1.02
1360136--1360179	21	2.1	21	86	0	61	36	15	2	45	1.59
1360747--1360879	59	2.2	59	87	2	185	34	18	15	31	1.92
1363006--1363061	29	2.0	29	82	10	71	50	12	1	35	1.51
1365746--1365799	28	1.9	28	81	7	65	42	11	18	27	1.84
1370229--1370275	16	2.9	17	90	9	80	61	4	0	34	1.15
1376248--1376280	17	1.9	17	93	0	57	51	0	3	45	1.16
1379236--1379293	26	2.2	26	87	0	89	41	15	18	24	1.89
1379880--1380044	60	2.8	60	81	1	161	36	7	21	33	1.81
1387017--1387056	20	2.0	20	95	0	71	35	15	12	37	1.85
1387263--1387328	2	33.0	2	100	0	132	50	0	50	0	1.00
1391735--1391772	19	2.1	18	85	9	51	15	10	34	39	1.82
1392633--1392677	2	23.0	2	95	4	83	51	0	0	48	1.00
1395469--1395515	17	2.8	16	87	6	58	65	4	6	23	1.33
1401564--1401588	13	1.9	13	100	0	50	44	16	0	40	1.47
1414915--1414954	20	2.0	20	100	0	80	50	5	15	30	1.65
1425463--1425493	3	10.7	3	93	6	55	70	0	29	0	0.87
1428000--1428465	234	2.0	233	92	1	783	39	11	13	35	1.80
1429927--1429957	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430585--1430614	6	5.0	6	91	0	51	30	33	36	0	1.58
1430761--1430822	27	2.3	27	97	0	115	29	20	29	20	1.98
1430761--1430843	27	2.7	32	75	21	95	33	20	26	19	1.96
1438696--1438739	10	4.4	10	83	11	63	20	9	11	59	1.59
1439283--1439382	31	3.2	31	83	5	130	32	14	2	52	1.53
1449035--1449072	15	2.6	14	88	12	58	28	5	23	42	1.76
1461355--1461416	31	2.0	31	90	6	99	30	12	14	41	1.83
1464926--1464980	27	2.0	28	85	3	76	47	3	12	36	1.59
1472489--1472637	60	2.5	60	80	7	160	35	20	6	38	1.77
1479313--1479353	12	3.3	12	86	3	55	53	4	41	0	1.22
1479644--1479689	22	2.1	22	95	0	83	15	4	26	54	1.59
1485441--1485564	60	2.1	60	81	6	144	33	16	18	31	1.94
1486398--1486451	25	2.2	25	82	0	63	24	24	16	35	1.95
1489448--1489561	59	1.9	59	82	3	140	37	19	12	30	1.88
1490555--1490605	2	25.5	2	100	0	102	50	0	0	49	1.00
1491796--1491930	60	2.2	60	85	5	175	34	25	4	36	1.76
1491997--1492139	60	2.4	60	85	0	187	37	5	20	35	1.77
1492478--1492528	3	16.0	3	80	11	57	31	33	0	35	1.58
1492479--1492528	13	3.8	13	97	0	82	30	34	0	36	1.58
1493793--1493851	30	2.0	30	87	9	86	38	3	13	44	1.61
1500209--1500252	2	22.0	2	100	0	88	50	0	0	50	1.00
1500554--1500589	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510049--1510074	2	13.0	2	100	0	52	50	0	50	0	1.00
1513606--1513630	13	1.9	13	100	0	50	52	0	0	48	1.00
1513971--1514014	21	2.1	21	95	0	79	40	13	20	25	1.89
1516639--1516683	18	2.5	17	85	7	63	57	2	0	40	1.11
1518079--1518106	14	2.0	14	100	0	56	21	28	21	28	1.99
1518258--1518315	3	19.3	3	100	0	116	65	0	34	0	0.93
1519091--1519162	36	1.9	37	83	10	94	50	1	4	44	1.30
1519140--1519185	17	2.6	17	79	3	56	50	4	2	43	1.34
1519302--1519344	20	2.3	18	80	11	50	20	25	9	44	1.81
1519571--1519616	24	1.9	24	86	0	65	13	23	15	47	1.80
1526785--1526848	23	3.1	19	84	11	65	21	32	28	17	1.96
1526806--1526848	19	2.2	19	87	4	59	23	32	30	13	1.93
1538290--1538384	47	2.0	47	97	0	181	28	14	22	34	1.93
1544903--1545191	145	2.0	145	99	0	569	28	12	23	35	1.92
1545990--1546081	23	4.0	23	88	0	130	31	26	27	15	1.95
1547480--1547522	21	2.0	21	86	0	59	16	25	27	30	1.97
1553569--1553969	202	2.0	197	93	3	687	32	16	17	33	1.93
1558841--1558986	21	7.1	21	71	4	118	17	17	24	39	1.91
1558845--1559007	41	4.0	41	88	3	231	18	18	23	39	1.92
1558845--1559026	82	2.2	82	86	6	255	19	18	23	39	1.93
1559013--1559067	22	2.5	22	85	8	85	18	16	25	40	1.91
1559167--1559203	6	6.5	6	96	3	60	29	54	16	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559813--1559862	26	1.9	26	87	0	73	42	20	16	22	1.89
1559877--1559989	20	5.6	20	79	14	133	39	23	23	13	1.90
1559856--1560010	61	2.5	60	82	9	215	36	25	20	16	1.94
1559980--1560031	21	2.5	21	93	0	86	28	30	17	23	1.97
1567946--1568004	25	2.3	25	82	8	66	38	5	5	50	1.46
1567956--1568007	25	2.1	25	89	7	79	46	3	1	48	1.31
1572061--1572118	31	1.9	30	82	3	71	25	12	1	60	1.41
1573444--1573511	18	3.7	18	73	23	70	4	13	30	51	1.60
1582552--1582614	3	21.0	3	100	0	126	33	0	0	66	0.92
1594517--1594542	12	2.2	12	100	0	52	15	23	42	19	1.89
1608036--1608069	2	17.0	2	100	0	68	50	0	50	0	1.00
1610024--1610357	175	1.9	175	97	0	632	38	22	8	31	1.83
1612311--1612405	42	2.3	41	85	5	138	50	1	0	48	1.07
1615542--1615581	21	2.0	20	86	13	57	47	10	7	35	1.65
1617395--1617627	114	2.0	114	95	0	421	38	18	7	36	1.79
1621357--1621470	51	2.2	50	78	6	113	40	10	9	39	1.73
1627271--1627302	2	16.0	2	100	0	64	50	0	0	50	1.00
1632232--1632569	161	2.1	162	90	0	525	41	14	17	27	1.88
1634797--1634861	21	3.1	21	93	0	103	41	10	30	16	1.83
1634895--1634958	33	1.9	33	87	0	92	28	0	45	26	1.54
1636893--1637640	200	3.8	200	91	4	1254	35	14	18	30	1.91
1639138--1639213	6	12.7	6	82	0	71	39	7	32	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639155--1639217	3	21.0	3	80	0	63	38	6	33	22	1.79
1639138--1639213	12	6.3	12	89	0	98	39	7	32	19	1.81
1640427--1641182	183	4.1	183	97	0	1413	34	14	16	33	1.90
1643968--1644035	23	3.0	23	88	0	109	35	5	20	38	1.77
1644457--1644524	23	3.0	23	93	0	118	33	5	22	38	1.78
1643734--1647327	489	7.4	489	96	1	6440	41	7	11	39	1.69
1644946--1645013	23	3.0	23	93	0	118	33	5	22	38	1.78
1645435--1645502	23	3.0	23	93	0	118	33	5	22	38	1.78
1645919--1645991	23	3.2	23	92	0	119	34	5	21	38	1.77
1646414--1646481	23	3.0	23	91	0	109	35	5	20	38	1.77
1646898--1646947	23	2.2	23	88	0	73	34	4	22	40	1.72
1647961--1647991	16	1.9	16	93	0	53	54	16	9	19	1.68
1662268--1662302	18	1.9	18	88	0	52	40	11	5	42	1.65
1667419--1667707	42	7.2	42	87	8	422	31	24	21	22	1.98
1667421--1667575	21	7.4	21	65	17	81	32	24	21	21	1.98
1667547--1667611	32	2.0	32	96	0	121	36	21	24	16	1.94
1667577--1667648	20	3.5	20	70	17	67	31	22	25	20	1.98
1672453--1672480	14	2.0	14	100	0	56	14	21	14	50	1.78
1680466--1680504	17	2.2	18	86	4	53	35	2	2	58	1.25
1683286--1683328	22	2.0	22	81	9	52	44	0	4	51	1.22
1687519--1687601	29	2.8	30	81	5	96	43	7	19	30	1.78
1687972--1688052	39	2.1	38	93	2	135	29	17	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690493--1690529	13	2.8	13	95	0	65	51	0	0	48	1.00
1696040--1696308	118	2.2	119	83	7	330	43	7	16	33	1.75
1697092--1697155	27	2.4	27	86	0	83	56	0	1	42	1.09
1697113--1697201	27	3.4	26	81	17	89	53	0	2	43	1.13
1697116--1697201	25	3.3	25	77	18	86	53	0	2	44	1.13
1697135--1697211	25	3.2	23	80	10	66	53	0	3	42	1.19
1698286--1698314	2	14.5	2	100	0	58	48	0	0	51	1.00
1698320--1698358	20	2.0	20	84	0	51	41	5	2	51	1.38
1698857--1698899	20	2.2	20	86	0	59	37	6	30	25	1.82
1699994--1700065	31	2.3	32	90	4	121	34	8	13	43	1.75

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