genome.fa.s7790.2.7.7.80.10.50.1000.6.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: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2956777

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

This is table  6  of  11  ( 1250 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)
1427425--1427479	28	2.0	26	82	6	65	50	3	0	45	1.19
1427642--1427707	32	2.1	32	91	0	105	45	3	6	45	1.43
1439404--1439472	34	2.0	34	88	0	102	28	8	8	53	1.61
1446628--1446666	2	19.5	2	100	0	78	51	0	0	48	1.00
1447744--1447791	3	15.3	3	87	8	69	62	0	2	35	1.07
1448087--1448447	129	2.8	129	82	4	399	26	18	30	24	1.98
1448157--1448405	46	5.7	45	70	14	135	24	18	32	24	1.97
1448855--1448948	35	2.7	35	75	3	93	39	12	18	29	1.88
1448737--1448973	118	2.0	119	96	0	440	37	13	18	30	1.89
1449053--1449134	32	2.5	32	76	2	83	30	14	18	36	1.91
1459712--1459747	18	2.1	18	89	5	56	22	0	19	58	1.40
1467763--1467838	23	3.3	23	100	0	152	3	32	27	35	1.75
1474964--1475551	292	2.0	295	98	1	1146	28	11	17	42	1.84
1478852--1478881	16	1.9	16	93	6	53	33	0	6	60	1.23
1481423--1481766	173	2.0	171	94	2	609	32	16	18	33	1.93
1485926--1486061	63	2.2	62	82	5	168	27	25	19	27	1.99
1486682--1486715	16	2.1	17	94	5	61	26	11	5	55	1.58
1493569--1493732	58	2.8	59	90	6	248	31	4	4	59	1.38
1493596--1493686	29	3.1	29	67	10	87	34	3	5	57	1.38
1493627--1493715	29	3.1	29	66	6	81	26	3	4	65	1.28
1493743--1493806	31	2.0	32	93	3	112	57	6	6	29	1.48
1494904--1494963	25	2.4	25	75	5	59	48	3	1	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494977--1495030	23	2.3	24	80	3	65	48	0	5	46	1.25
1495804--1495842	16	2.5	15	83	4	51	15	17	15	51	1.77
1496256--1496299	23	1.9	23	86	9	63	40	4	0	54	1.21
1496266--1496375	50	2.2	48	87	6	159	40	7	0	51	1.29
1502661--1502729	28	2.5	28	100	0	138	18	14	5	60	1.53
1504458--1504496	21	1.9	20	84	5	51	20	30	5	43	1.73
1508062--1508114	20	2.7	20	74	11	63	28	32	15	24	1.95
1508103--1508251	20	7.3	20	73	3	136	31	22	18	28	1.97
1508123--1508189	21	3.2	21	65	4	64	25	23	16	34	1.95
1508094--1508249	41	3.8	41	91	0	224	30	21	17	30	1.96
1508225--1508371	40	3.7	41	76	10	144	41	22	15	20	1.90
1508225--1508365	60	2.4	61	80	7	164	41	21	15	20	1.89
1508256--1508377	20	6.1	20	88	0	145	43	21	15	19	1.88
1508480--1508537	22	2.6	22	91	0	89	20	44	15	18	1.86
1508886--1508944	20	3.2	20	66	26	58	47	22	18	11	1.81
1508898--1508932	14	2.5	14	90	0	52	42	20	20	17	1.89
1508947--1509038	40	2.3	39	88	5	148	13	17	20	48	1.80
1508955--1509027	20	3.7	20	100	0	146	9	20	21	47	1.78
1511164--1511267	21	4.9	21	76	13	79	23	34	17	25	1.96
1511164--1511266	42	2.5	42	76	6	109	23	33	17	25	1.96
1513111--1513160	25	2.0	25	96	0	91	44	22	8	26	1.80
1513232--1513310	20	4.2	20	67	18	71	35	22	21	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513269--1513317	20	2.5	20	75	0	62	28	22	26	22	1.99
1513332--1513381	20	2.5	20	93	0	82	16	20	22	42	1.89
1513665--1513700	18	2.0	18	88	0	54	16	5	22	55	1.62
1515967--1516018	24	2.2	24	82	0	59	36	21	19	23	1.95
1516972--1517058	19	4.5	19	91	2	129	29	10	22	36	1.88
1517025--1517140	20	5.8	20	70	13	78	20	14	23	41	1.89
1517043--1517172	40	3.3	40	86	5	167	20	16	23	40	1.91
1517162--1517212	20	2.5	20	80	0	66	23	17	35	23	1.95
1517743--1517775	16	2.1	16	94	0	57	57	21	12	9	1.62
1517841--1517899	10	6.7	10	71	28	62	57	22	11	8	1.61
1517845--1517893	16	3.1	16	100	0	98	57	24	12	6	1.58
1517841--1517899	26	2.3	26	85	5	75	57	22	11	8	1.61
1518647--1518702	14	4.3	14	82	17	75	51	25	14	8	1.70
1518627--1518701	24	3.1	24	90	3	107	54	21	12	12	1.69
1518640--1518687	10	4.4	10	78	19	51	54	22	12	10	1.68
1528214--1528420	35	5.9	35	85	1	238	36	21	19	22	1.95
1528488--1528528	22	2.0	21	85	9	57	48	4	17	29	1.67
1528423--1529630	216	5.6	215	92	1	1942	33	15	18	31	1.93
1528761--1528849	42	2.1	41	83	2	106	25	23	17	32	1.97
1529489--1529760	130	2.1	129	90	2	420	36	13	17	32	1.89
1536925--1537003	29	2.6	29	78	13	79	41	10	20	27	1.84
1540142--1540194	13	4.3	12	79	9	54	60	0	18	20	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541365--1541454	39	2.3	39	90	0	135	30	20	28	21	1.98
1542149--1542200	18	2.9	18	82	0	68	30	25	26	17	1.97
1548984--1549032	23	2.0	25	88	7	75	16	20	42	20	1.89
1549520--1549575	29	1.9	29	85	0	76	35	16	8	39	1.80
1557857--1557889	15	2.1	16	88	5	50	9	24	15	51	1.72
1568966--1569004	20	2.0	20	89	0	60	41	20	0	38	1.53
1570176--1570241	29	2.3	30	84	10	84	22	19	12	45	1.83
1577702--1577825	39	3.2	39	83	5	153	28	25	19	26	1.99
1582182--1582220	20	2.0	20	94	0	69	38	23	0	38	1.55
1583388--1583457	29	2.4	29	90	4	106	25	20	11	42	1.85
1596068--1596187	39	3.1	39	87	2	161	28	25	18	27	1.98
1607660--1607697	19	2.0	19	100	0	76	26	10	21	42	1.85
1610696--1610753	18	3.2	18	90	0	80	25	12	24	37	1.90
1620627--1620667	21	2.0	20	86	9	57	31	19	19	29	1.96
1631668--1631705	20	2.1	18	85	14	51	34	15	21	28	1.94
1637868--1637982	59	1.9	59	87	3	169	33	26	14	25	1.95
1639777--1639920	31	4.6	31	95	0	234	32	15	12	38	1.85
1640646--1640704	24	2.5	22	76	23	59	49	3	1	45	1.28
1640656--1640706	24	2.0	23	85	14	66	50	5	1	41	1.37
1643006--1643073	21	3.3	21	66	4	66	48	8	11	30	1.70
1642989--1643074	41	2.2	39	93	4	145	41	10	16	31	1.82
1643461--1643507	4	11.8	4	77	8	51	27	17	27	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643469--1643515	8	5.9	8	82	9	51	25	17	29	27	1.97
1647994--1648106	51	2.2	51	84	7	140	23	10	15	49	1.76
1659161--1659248	45	1.9	46	83	2	115	29	19	25	26	1.98
1660369--1660412	21	2.1	21	82	0	52	31	13	43	11	1.80
1661974--1662067	44	2.1	44	84	11	122	32	20	25	21	1.97
1661968--1662048	24	3.6	23	72	14	78	30	22	24	22	1.99
1670393--1670422	14	2.1	14	93	0	51	36	6	20	36	1.79
1670431--1670467	14	2.6	14	86	4	56	32	10	27	29	1.90
1670777--1670823	23	2.0	23	83	0	58	46	2	2	48	1.25
1670856--1670951	26	3.8	25	72	25	78	44	2	1	52	1.19
1670891--1670963	31	2.4	29	84	6	83	46	0	2	50	1.15
1670920--1670965	21	2.1	23	88	8	69	52	0	2	45	1.13
1670913--1670973	29	2.1	29	81	6	70	49	0	1	49	1.10
1681363--1681625	81	3.2	81	89	2	384	39	9	17	33	1.82
1681573--1681671	51	1.9	51	97	0	189	40	9	18	32	1.82
1681492--1681737	132	1.9	132	87	1	368	36	11	19	32	1.88
1692800--1692824	10	2.5	10	100	0	50	32	8	0	60	1.26
1692793--1692832	13	3.4	12	83	16	57	30	10	0	60	1.30
1693610--1693657	17	2.8	17	90	0	69	31	16	14	37	1.89
1695094--1695257	7	23.7	7	97	2	314	73	0	26	0	0.84
1696725--1696784	13	4.2	13	78	19	66	16	46	18	18	1.84
1696713--1696784	31	2.3	31	88	4	101	19	45	18	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696731--1696771	18	2.3	18	91	0	64	19	48	17	14	1.81
1696748--1696790	13	3.3	13	86	0	59	18	46	20	13	1.83
1699425--1700151	54	13.4	54	85	0	916	26	17	20	35	1.95
1707351--1707428	22	3.7	21	74	19	72	35	14	24	25	1.93
1707769--1707887	55	2.2	55	84	3	150	35	8	18	37	1.81
1708018--1708509	81	6.1	81	89	0	687	35	11	22	30	1.90
1711625--1711839	45	4.9	45	84	3	235	40	13	18	27	1.87
1718461--1718602	45	3.2	45	94	0	248	40	11	19	28	1.86
1718572--1718682	35	3.1	35	81	10	111	39	9	22	27	1.86
1718600--1718740	45	3.3	45	73	18	131	35	9	26	28	1.88

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