genome.fa.s8912.2.7.7.80.10.50.1000.8.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  8  of  18  ( 2121 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)
1354928--1355029	34	3.0	33	81	5	116	34	19	23	22	1.97
1358970--1359027	30	1.9	30	100	0	116	27	17	13	41	1.87
1359029--1359144	42	2.8	42	93	0	205	18	18	18	43	1.88
1359206--1359240	14	2.5	14	100	0	70	20	14	11	54	1.70
1359364--1359510	79	1.8	79	80	7	172	47	0	1	50	1.14
1359378--1359478	54	1.9	52	84	11	134	49	0	0	48	1.14
1359375--1359530	29	5.2	30	69	19	112	47	1	1	50	1.17
1359696--1359765	20	3.5	20	92	0	122	37	12	10	40	1.77
1359748--1359829	15	5.5	15	88	2	121	35	19	7	37	1.80
1359748--1359829	30	2.8	30	94	1	139	35	19	7	37	1.80
1359748--1359834	45	2.0	44	93	2	147	33	19	6	40	1.78
1367940--1367966	7	3.9	7	100	0	54	55	0	29	14	1.40
1373209--1373254	20	2.4	19	85	3	56	63	2	8	26	1.35
1373480--1373573	49	1.9	49	86	0	134	26	14	7	51	1.69
1375893--1375987	15	6.4	14	68	13	57	43	0	5	51	1.24
1375897--1375966	30	2.3	30	100	0	140	42	0	7	50	1.30
1375926--1375982	20	2.8	20	69	12	53	45	0	5	49	1.24
1378321--1378451	59	2.3	58	84	6	162	38	14	6	39	1.73
1378386--1378570	90	2.1	90	84	6	241	38	15	9	36	1.81
1379180--1379209	15	2.0	15	93	0	51	33	10	0	56	1.32
1379265--1379343	26	3.0	26	86	0	113	48	8	10	32	1.68
1386259--1386331	28	2.5	28	86	8	94	36	24	8	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388452--1388584	13	10.0	13	70	11	72	45	11	12	30	1.76
1388486--1388597	26	4.3	26	85	4	145	46	9	15	28	1.77
1390095--1390134	18	2.2	18	100	0	80	27	22	5	45	1.73
1390487--1390596	45	2.4	45	89	0	175	18	17	19	45	1.86
1390508--1390671	75	2.2	75	93	0	274	17	18	20	43	1.88
1390487--1390659	45	3.8	44	81	7	125	16	18	21	43	1.88
1390489--1390644	30	5.2	30	74	14	106	17	17	19	44	1.86
1390583--1390678	45	2.1	45	92	0	156	17	19	20	41	1.90
1391370--1391413	15	2.7	17	82	13	65	40	18	9	31	1.81
1391445--1391478	17	1.9	17	88	5	50	47	20	0	32	1.51
1391463--1391560	19	5.4	19	68	22	68	47	14	3	34	1.59
1391463--1391559	34	2.6	39	78	17	125	48	14	3	34	1.59
1391500--1391548	17	2.9	17	76	8	55	42	12	6	38	1.67
1392151--1392188	20	1.9	20	94	0	67	28	28	7	34	1.85
1394276--1394315	21	2.0	20	90	5	62	12	20	2	65	1.38
1394929--1395005	39	2.0	39	94	0	136	23	28	15	32	1.95
1395059--1395105	3	15.7	3	91	8	78	31	0	0	68	0.90
1395234--1395659	130	3.2	132	82	6	504	25	32	19	22	1.97
1397443--1397633	30	6.5	30	78	7	176	17	14	8	58	1.61
1402968--1403075	36	3.0	36	83	5	137	35	19	9	36	1.84
1403383--1403528	40	3.6	40	71	12	125	22	35	17	23	1.95
1403381--1403571	83	2.3	83	82	3	215	26	34	16	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403476--1403721	131	1.9	131	82	3	307	28	29	16	25	1.97
1403462--1403746	131	2.2	130	77	5	295	26	31	16	24	1.97
1404184--1404209	4	6.5	4	100	0	52	23	0	0	76	0.78
1404177--1404218	13	3.1	13	78	21	50	26	0	0	73	0.83
1404520--1404560	18	2.3	18	87	8	57	31	46	9	12	1.74
1405728--1405887	30	5.3	29	75	8	133	16	15	8	59	1.60
1405696--1405887	60	3.2	60	76	11	162	17	14	8	59	1.60
1417167--1417207	21	2.0	21	90	0	64	26	12	9	51	1.70
1417419--1417584	64	2.6	64	89	1	246	30	30	21	16	1.96
1422133--1422182	25	2.0	25	100	0	100	28	32	12	28	1.92
1428959--1428983	13	1.9	13	100	0	50	76	0	8	16	1.02
1432407--1432497	21	4.4	21	75	12	98	24	24	16	35	1.95
1434220--1434267	23	2.0	24	84	4	62	52	0	0	47	1.00
1434363--1434406	21	2.1	21	86	0	61	31	29	15	22	1.95
1436026--1436065	17	2.4	17	87	8	55	30	0	2	67	1.04
1436026--1436066	9	4.8	9	79	8	50	29	0	2	68	1.03
1438170--1438214	18	2.3	20	81	18	67	24	31	2	42	1.67
1438177--1438214	18	2.1	18	100	0	76	23	34	0	42	1.55
1442094--1442192	23	4.5	21	92	6	112	29	17	16	37	1.91
1442107--1442192	23	3.8	23	96	1	156	27	16	17	38	1.91
1445489--1445540	15	3.5	15	75	15	54	71	0	5	23	1.07
1445584--1445632	18	2.7	18	81	12	73	67	0	2	30	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452813--1452929	43	2.8	43	84	5	132	29	17	20	33	1.95
1453596--1453664	33	2.1	33	100	0	138	36	11	18	33	1.87
1453792--1453927	43	3.1	44	78	2	150	33	18	20	27	1.96
1455706--1455735	11	2.7	11	89	0	51	20	0	0	80	0.72
1455745--1455818	27	2.8	27	82	13	75	18	5	0	75	0.99
1455745--1455846	12	7.9	13	73	10	66	16	4	1	76	1.05
1455767--1455820	26	2.0	27	86	10	76	18	3	0	77	0.91
1455751--1455848	14	6.5	14	69	19	63	17	4	2	76	1.04
1455986--1456023	7	5.6	7	93	6	51	31	0	0	68	0.90
1455986--1456023	20	1.9	20	88	0	58	31	0	0	68	0.90
1461149--1461326	36	4.9	36	89	6	202	30	20	11	37	1.88
1461173--1461326	36	4.2	37	91	4	233	31	20	11	37	1.87
1461292--1461537	130	1.9	130	92	0	413	26	18	12	42	1.85
1461468--1461580	37	3.1	37	82	9	144	23	19	15	41	1.89
1461607--1461716	36	3.0	37	86	2	168	23	21	15	39	1.92
1461795--1461844	15	3.4	15	75	5	57	34	10	12	44	1.75
1461785--1461844	29	2.1	28	90	3	93	40	11	10	38	1.75
1463180--1463229	22	2.2	23	82	13	68	16	8	0	76	1.02
1466395--1466550	42	3.7	41	75	11	138	32	19	19	28	1.96
1469786--1470035	81	3.1	80	77	7	252	31	19	19	30	1.96
1472237--1472533	43	6.9	43	82	6	352	24	24	18	32	1.97
1472243--1472522	85	3.3	85	83	5	352	25	23	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479111--1479170	23	2.9	20	87	9	77	21	33	26	18	1.96
1483848--1484026	97	1.8	97	92	0	304	30	16	15	36	1.90
1486438--1486478	20	2.2	19	86	8	57	43	0	41	14	1.45
1500624--1500665	22	1.9	22	85	9	59	19	11	11	57	1.65
1507924--1507962	19	2.1	19	95	0	69	33	5	17	43	1.72
1514268--1514372	17	6.1	17	75	17	83	40	12	11	36	1.79
1514268--1514372	34	3.0	35	81	12	128	40	12	11	36	1.79
1515332--1515377	21	2.2	21	84	7	58	28	13	17	41	1.86
1520904--1520972	31	2.3	30	84	2	84	46	7	15	30	1.73
1521170--1521212	20	2.2	19	91	4	68	30	0	27	41	1.56
1534866--1534906	21	2.0	21	85	0	55	48	12	14	24	1.78
1542401--1542554	40	3.9	39	79	4	146	29	14	14	41	1.86
1542668--1542704	17	2.1	18	95	5	67	51	5	21	21	1.68
1542995--1543034	22	1.9	22	85	10	57	32	2	22	42	1.67
1548017--1548053	18	2.1	18	100	0	74	27	27	10	35	1.90
1550643--1550690	19	2.5	19	77	9	53	54	4	0	41	1.20
1551553--1551602	23	2.2	23	92	0	82	38	8	22	32	1.83
1551516--1551678	87	1.9	87	97	0	308	42	12	13	31	1.81
1551702--1552393	198	3.5	200	84	5	895	30	15	14	39	1.87
1554874--1554922	19	2.6	19	80	0	62	53	6	4	36	1.45
1556526--1557293	200	3.9	199	87	2	1078	31	16	14	37	1.89
1561464--1562424	200	4.8	199	85	2	1203	31	16	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562790--1562838	19	2.6	19	96	0	89	57	10	0	32	1.32
1565755--1565800	7	6.7	7	80	14	60	21	28	32	17	1.96
1565797--1565850	18	3.0	18	97	0	99	16	14	50	18	1.79
1565860--1565896	10	3.8	10	85	7	58	37	27	21	13	1.91
1565853--1565894	19	2.2	18	88	12	66	35	30	19	14	1.91
1565860--1565897	19	2.0	19	100	0	76	36	26	21	15	1.93
1573056--1573086	7	4.4	7	91	0	53	22	29	32	16	1.95
1573098--1573133	18	2.0	18	100	0	72	16	16	50	16	1.79
1573082--1573118	12	2.9	13	84	8	58	21	13	45	18	1.84
1573143--1573179	10	3.8	10	85	7	58	37	27	21	13	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18