genome.fa.s8316.2.7.7.80.10.50.1000.7.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: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2380696

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

This is table  7  of  12  ( 1404 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)
1328398--1328490	33	2.8	33	90	1	132	43	24	21	10	1.84
1328486--1328598	20	6.1	19	79	13	137	11	23	20	45	1.83
1328491--1328590	33	2.8	34	84	15	123	11	22	22	45	1.83
1330285--1330656	94	4.0	94	94	2	619	21	12	19	46	1.82
1330748--1330818	19	3.7	19	84	3	97	49	16	22	11	1.78
1330824--1330888	33	1.9	34	87	3	96	9	15	26	49	1.74
1330821--1330928	19	5.8	19	76	13	91	11	17	24	47	1.80
1331373--1331439	21	3.2	21	66	6	55	23	35	20	19	1.95
1331321--1331439	42	2.8	42	81	5	107	22	36	18	22	1.95
1332788--1332824	14	2.6	14	88	12	58	32	0	18	48	1.49
1332931--1333015	33	2.5	33	84	5	109	48	22	17	11	1.80
1333016--1333166	19	8.7	19	65	21	89	11	24	19	44	1.84
1333020--1333146	33	3.8	33	93	0	209	11	24	18	45	1.82
1333130--1333212	20	4.2	20	72	15	64	22	20	22	33	1.97
1335689--1335735	24	2.0	24	95	0	85	36	21	21	21	1.96
1336569--1336706	21	6.7	21	88	0	163	39	17	23	20	1.92
1337033--1337065	2	16.5	2	100	0	66	51	0	0	48	1.00
1338831--1338890	30	2.0	30	90	0	93	46	1	1	50	1.21
1340968--1341009	19	2.2	19	83	8	50	52	7	7	33	1.56
1341401--1341520	64	2.0	61	83	8	154	22	11	17	48	1.79
1344404--1344451	3	15.3	3	78	8	51	58	0	0	41	0.98
1344414--1344459	22	2.1	22	88	8	67	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344398--1344453	16	3.5	16	76	16	62	55	0	0	44	0.99
1344608--1345218	76	8.0	76	96	0	1096	34	21	21	22	1.97
1346084--1346138	22	2.5	22	93	0	101	40	14	10	34	1.81
1346489--1346656	55	3.1	54	91	1	255	23	22	14	39	1.91
1348779--1349232	114	4.0	113	91	1	656	33	21	13	31	1.92
1351712--1351747	2	18.0	2	100	0	72	50	0	0	50	1.00
1353978--1354018	14	2.9	15	82	10	52	58	9	17	14	1.62
1353978--1354018	6	5.9	7	81	18	50	58	9	17	14	1.62
1358757--1358825	16	4.8	16	74	22	64	53	0	0	46	1.00
1358790--1358835	22	2.1	22	88	8	67	52	0	0	47	1.00
1365236--1365328	21	4.5	21	75	4	91	39	17	24	18	1.91
1365236--1365328	41	2.3	41	98	0	177	39	17	24	18	1.91
1365314--1365364	20	2.5	20	77	3	57	45	19	15	19	1.86
1365902--1365968	19	3.5	19	85	2	89	47	25	16	10	1.78
1365964--1366148	19	10.1	19	75	14	165	11	21	22	44	1.85
1365964--1366148	33	5.1	38	78	12	165	11	21	22	44	1.85
1366091--1366148	20	2.9	20	80	10	64	13	24	18	43	1.87
1368150--1368272	42	2.9	42	80	2	122	22	36	17	22	1.95
1368206--1368272	21	3.2	21	66	6	55	23	35	20	19	1.95
1369631--1369666	14	2.6	14	95	0	63	30	0	25	44	1.54
1369845--1369995	19	8.7	19	64	21	80	15	22	20	41	1.89
1369849--1369975	33	3.9	32	87	8	193	14	22	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369842--1369974	66	2.0	66	97	0	248	16	22	19	41	1.90
1372244--1372268	12	2.1	12	100	0	50	0	28	0	72	0.86
1372442--1372495	24	2.3	23	87	6	81	37	20	16	25	1.93
1373552--1373596	20	2.2	20	96	0	81	33	24	22	20	1.97
1373552--1373609	20	2.9	20	89	0	71	39	20	20	18	1.92
1373632--1373705	19	4.5	16	83	16	66	13	20	18	47	1.82
1373628--1373695	19	3.8	19	87	12	101	13	22	17	47	1.82
1375714--1375780	19	3.5	19	83	4	89	37	23	23	14	1.93
1375769--1375826	14	3.9	14	79	16	71	48	25	17	8	1.75
1375753--1375831	32	2.4	33	95	2	142	46	24	18	10	1.80
1375854--1375916	14	4.3	14	81	16	74	7	19	25	47	1.76
1375843--1375933	32	2.8	33	86	3	130	9	18	23	48	1.78
1375855--1375933	14	4.8	17	71	25	62	8	20	24	46	1.78
1375918--1375972	20	2.8	19	83	8	65	16	23	23	36	1.94
1376445--1376489	18	2.5	18	88	0	72	13	15	44	26	1.83
1377808--1377845	20	1.9	20	88	0	58	50	21	15	13	1.78
1378109--1378152	22	2.0	22	95	0	79	18	15	45	20	1.85
1378340--1378433	20	4.7	20	80	2	89	23	18	24	34	1.96
1378320--1378434	20	5.7	20	78	5	88	23	17	23	35	1.95
1378423--1378515	20	4.5	21	78	4	100	17	24	18	39	1.91
1378362--1378496	41	3.3	41	82	4	139	19	21	20	38	1.94
1378423--1378515	41	2.3	41	100	0	186	17	24	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1380971--1381047	35	2.2	35	86	6	102	44	22	0	33	1.53
1381043--1381120	35	2.2	35	84	6	104	43	0	16	39	1.48
1382432--1382570	41	3.4	41	83	5	183	41	27	2	28	1.70
1382431--1382548	40	2.9	40	86	5	166	39	27	3	29	1.73
1382473--1382537	21	3.2	21	62	16	55	41	26	1	30	1.65
1388066--1388111	17	2.6	18	83	16	60	63	0	0	36	0.95
1391397--1391458	32	2.0	31	84	9	81	33	3	4	58	1.36
1400512--1400537	2	13.0	2	100	0	52	50	0	0	50	1.00
1401429--1401517	29	3.1	29	71	12	83	39	17	3	39	1.67
1405948--1406002	24	2.3	25	81	9	69	23	36	29	10	1.89
1406067--1406123	22	2.5	22	80	2	69	5	56	17	21	1.60
1406457--1406494	17	2.2	18	95	4	69	15	0	39	44	1.47
1406461--1406504	7	6.9	7	85	15	60	15	0	40	43	1.47
1408375--1408470	11	8.0	11	80	16	102	46	9	1	42	1.43
1408449--1408644	8	22.3	9	70	26	102	51	13	0	35	1.45
1408368--1408643	35	7.9	35	86	8	355	50	11	0	37	1.45
1408439--1408643	68	3.0	68	94	1	356	51	13	0	34	1.44
1408411--1408538	11	12.2	11	74	22	82	49	13	0	37	1.42
1408851--1409172	49	6.6	49	90	3	472	45	11	0	42	1.46
1408980--1409105	18	7.6	17	66	16	50	44	11	0	44	1.39
1408994--1409026	13	2.4	14	90	5	50	39	18	0	42	1.50
1412015--1412041	14	1.9	14	100	0	54	66	0	7	25	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412215--1412297	34	2.5	33	77	14	91	51	8	1	38	1.40
1412281--1412316	15	2.3	16	95	4	65	47	13	0	38	1.44
1412207--1412359	80	1.9	81	93	1	263	49	9	2	38	1.48
1412804--1412857	28	1.9	28	96	0	99	57	12	0	29	1.36
1412800--1412864	28	2.3	28	84	10	96	55	10	0	33	1.35
1412834--1412882	21	2.3	21	85	3	71	53	16	0	30	1.43
1416173--1416266	40	2.3	41	85	8	140	43	23	13	19	1.86
1416194--1416262	20	3.5	20	78	7	86	44	26	11	17	1.82
1417443--1417470	3	9.3	3	100	0	56	64	0	35	0	0.94
1419019--1419236	30	7.2	30	94	0	364	34	24	17	23	1.96
1419464--1419492	4	7.2	4	100	0	58	48	24	0	27	1.51
1420350--1420490	64	2.2	63	83	5	167	27	19	17	36	1.93
1424424--1424459	18	2.0	18	94	0	63	55	25	2	16	1.55
1425360--1425396	18	2.1	18	89	0	56	32	5	10	51	1.60
1425352--1425404	24	2.2	24	86	0	70	35	3	13	47	1.61
1426353--1426388	18	2.0	18	88	0	54	55	27	2	13	1.52
1428001--1428099	21	4.7	21	77	3	92	24	18	31	26	1.97
1428001--1428101	42	2.4	42	79	0	112	24	17	30	26	1.97
1428333--1428382	21	2.4	21	100	0	100	32	18	20	30	1.96
1430823--1430921	20	4.9	20	89	0	135	18	15	25	41	1.89
1430822--1430978	60	2.6	59	85	6	192	19	14	24	40	1.89
1430823--1430933	40	2.8	40	83	0	141	18	15	25	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430827--1430933	20	5.3	20	84	6	128	18	14	25	42	1.88
1430827--1430954	40	3.2	40	81	6	118	20	14	24	41	1.89
1431714--1431749	2	18.0	2	100	0	72	50	0	0	50	1.00
1433844--1433883	21	1.9	21	100	0	80	27	0	15	57	1.38
1433897--1433996	40	2.5	40	79	9	116	37	1	12	50	1.46
1433901--1433996	36	2.4	42	81	16	123	35	1	12	51	1.47
1433921--1434003	43	1.9	43	88	9	125	37	1	13	48	1.50
1433920--1434013	44	2.2	43	81	9	111	39	1	12	46	1.49
1434415--1434512	30	3.3	28	82	10	90	39	1	14	44	1.52
1434434--1434514	30	2.7	30	90	1	128	38	1	16	44	1.55

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