genome.fa.s7923.2.7.7.80.10.50.1000.7.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   

This is table  7  of  40  ( 4704 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)
1501064--1501111	19	2.5	20	82	3	53	41	0	2	56	1.11
1502583--1502621	13	2.9	14	84	7	62	48	0	12	38	1.42
1506729--1506801	16	4.7	15	73	17	60	75	2	6	15	1.13
1506729--1506798	30	2.3	28	79	15	77	75	2	7	14	1.12
1506906--1506934	2	14.5	2	100	0	58	51	0	0	48	1.00
1507272--1507406	4	32.5	4	68	16	53	67	2	3	26	1.19
1509380--1509784	106	4.0	98	83	6	397	22	17	25	34	1.96
1509322--1509784	201	2.2	205	82	6	526	23	17	25	34	1.96
1509476--1509784	106	2.9	105	89	1	474	21	16	26	35	1.95
1510894--1510942	8	6.7	7	82	17	64	0	18	2	79	0.83
1510888--1510940	6	8.8	6	76	15	56	0	16	1	81	0.79
1510894--1510941	23	2.1	22	88	11	71	0	16	2	81	0.79
1510979--1511015	7	5.0	7	90	9	56	0	18	0	81	0.70
1510979--1511013	15	2.3	15	100	0	70	0	17	0	82	0.66
1510907--1511042	73	1.9	72	86	10	197	11	20	8	59	1.57
1521212--1521274	16	4.1	16	76	17	62	74	1	7	15	1.12
1522477--1522556	10	8.3	9	78	13	70	16	28	26	28	1.97
1522476--1522550	29	2.5	30	89	8	118	17	26	26	29	1.97
1522558--1522601	12	3.8	12	82	11	65	18	47	25	9	1.77
1522553--1522604	22	2.4	22	96	3	97	19	50	23	7	1.73
1522552--1522610	22	3.2	17	77	22	66	18	45	23	11	1.83
1524181--1524265	27	2.9	28	74	11	73	68	3	3	24	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533197--1533235	15	2.7	14	84	7	51	48	23	0	28	1.51
1533355--1533476	31	4.0	31	90	2	192	39	19	18	22	1.92
1533355--1533476	61	2.0	62	90	1	192	39	19	18	22	1.92
1534559--1534956	196	2.0	196	99	0	778	29	21	16	32	1.95
1540231--1540285	22	2.5	23	91	8	96	27	14	18	40	1.89
1540233--1540294	22	2.8	22	87	4	54	30	12	16	40	1.86
1540303--1540350	23	2.1	23	88	0	69	37	8	16	37	1.79
1540784--1541240	182	2.5	182	91	1	720	27	15	12	44	1.83
1541110--1541460	112	3.1	112	93	0	578	25	15	14	44	1.84
1548614--1548664	15	3.3	15	78	10	57	76	1	1	19	0.98
1548971--1548998	2	14.0	2	100	0	56	50	0	0	50	1.00
1549040--1549066	2	13.5	2	100	0	54	51	0	0	48	1.00
1549048--1549145	52	1.9	51	83	10	128	61	1	5	32	1.25
1549179--1549221	3	15.0	3	90	9	72	65	0	0	34	0.93
1549214--1549270	17	3.2	18	78	16	64	78	0	5	15	0.91
1549127--1549307	14	12.2	14	67	16	62	71	3	3	21	1.15
1549186--1549296	46	2.4	47	79	14	122	74	0	4	20	0.99
1549179--1549293	9	12.3	9	72	17	74	73	0	4	22	1.01
1549180--1549296	6	19.3	6	71	15	53	74	0	4	21	0.99
1550929--1551422	85	5.8	85	82	3	559	26	15	21	36	1.94
1556913--1556963	15	3.2	16	81	10	52	74	3	1	19	1.07
1556924--1556970	20	2.2	22	85	7	62	74	6	0	19	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557098--1557158	21	2.8	21	70	9	52	73	0	6	19	1.04
1558505--1558562	3	18.7	3	89	7	89	31	3	0	65	1.09
1558661--1558693	6	5.5	6	96	0	57	27	0	0	72	0.85
1558765--1558837	26	2.8	25	72	15	67	20	6	1	71	1.17
1559013--1559140	27	4.7	27	71	17	77	21	4	3	69	1.23
1559337--1559366	13	2.3	13	94	0	51	33	13	0	53	1.40
1560083--1560113	12	2.6	12	100	0	62	9	16	6	67	1.39
1561857--1562036	88	2.0	88	89	0	270	32	17	18	31	1.94
1563240--1563457	83	2.6	84	84	1	312	35	24	18	21	1.96
1563398--1563516	59	2.0	59	88	0	175	36	23	18	21	1.95
1563318--1563596	143	2.0	142	91	2	452	35	25	18	20	1.96
1563460--1563729	84	3.2	84	89	3	384	33	26	18	22	1.96
1563669--1563793	64	2.0	64	88	0	187	31	24	17	26	1.97
1563278--1564437	248	4.9	231	82	8	1030	32	25	17	24	1.97
1563585--1563877	148	2.0	148	88	2	437	31	26	17	24	1.97
1563733--1564573	84	10.2	83	81	6	848	30	25	18	25	1.98
1563729--1564590	248	3.5	247	81	6	926	30	25	18	25	1.98
1563755--1564590	164	5.1	162	82	6	887	30	25	18	25	1.98
1565225--1565260	18	2.1	17	94	5	63	36	5	0	58	1.22
1566368--1566489	3	38.0	3	73	16	70	33	4	1	60	1.25
1566406--1566489	32	2.7	29	76	18	87	29	5	1	63	1.26
1566404--1566500	33	2.9	32	76	17	90	29	6	1	62	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567058--1567108	20	2.7	19	79	8	52	11	7	5	74	1.21
1567502--1567548	24	1.9	25	86	4	69	78	0	4	17	0.90
1567506--1567623	63	1.9	62	84	8	159	67	2	5	24	1.23
1567692--1567741	3	17.0	3	91	4	84	68	0	0	32	0.90
1567696--1567792	6	15.3	6	75	14	54	73	1	4	21	1.07
1578920--1578962	22	1.9	23	85	4	61	53	13	0	32	1.41
1593285--1593338	7	7.6	7	95	2	90	0	40	31	27	1.57
1594065--1594132	31	2.2	30	82	7	82	36	1	0	61	1.05
1594066--1594132	8	8.6	8	72	16	52	37	1	0	61	1.05
1594067--1594132	15	4.3	15	73	7	60	37	1	0	60	1.06
1598514--1598746	113	2.0	115	90	1	362	36	7	18	36	1.80
1601887--1601932	19	2.4	19	100	0	92	23	15	19	41	1.89
1614811--1614851	21	1.9	22	85	5	57	21	14	19	43	1.87
1614916--1614977	23	2.6	24	94	2	108	35	16	17	30	1.92
1620682--1620743	30	2.2	30	82	8	76	38	3	3	54	1.32
1620995--1621095	32	3.1	32	72	5	103	42	4	7	44	1.55
1621106--1621247	53	2.7	49	77	14	131	58	2	4	35	1.29
1621068--1621316	30	9.0	29	70	20	108	56	2	4	37	1.29
1621076--1621283	28	7.8	25	74	14	113	57	1	2	37	1.25
1621134--1621286	25	6.0	24	77	9	117	56	1	3	37	1.27
1621078--1621283	77	2.6	77	77	11	193	57	1	2	37	1.25
1621326--1621406	25	3.3	25	71	22	89	44	2	4	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621314--1621410	49	2.0	49	97	0	185	44	2	7	46	1.42
1644102--1644130	15	1.9	15	100	0	58	31	48	6	13	1.69
1644713--1644788	31	2.4	31	80	2	89	27	31	26	14	1.95
1644665--1644788	63	2.0	63	82	9	155	26	29	27	16	1.97
1645658--1645696	7	5.9	7	88	11	64	25	30	28	15	1.96
1645662--1645696	13	2.7	13	100	0	70	25	31	28	14	1.95
1645690--1645747	17	3.4	17	95	0	107	17	24	41	17	1.90
1645741--1645811	19	3.7	20	88	5	101	26	29	25	18	1.98
1645743--1645811	9	7.1	10	76	12	72	27	30	23	18	1.98
1653049--1653077	15	1.9	15	100	0	58	31	48	6	13	1.69
1653660--1653735	31	2.4	31	80	2	89	27	31	26	14	1.95
1653612--1653735	63	2.0	63	82	9	155	26	29	27	16	1.97
1654605--1654643	7	5.9	7	88	11	64	25	30	28	15	1.96
1654609--1654643	13	2.7	13	100	0	70	25	31	28	14	1.95
1654637--1654694	17	3.4	17	95	0	107	17	24	41	17	1.90
1654688--1654758	19	3.7	20	88	5	101	26	29	25	18	1.98
1654690--1654758	9	7.1	10	76	12	72	27	30	23	18	1.98
1655756--1655803	20	2.5	20	96	3	89	58	12	20	8	1.60
1656864--1656953	42	2.1	41	82	10	110	45	0	0	54	0.99
1656895--1656954	29	2.1	29	84	12	79	46	0	0	53	1.00
1656935--1656975	21	2.0	20	85	4	55	56	0	0	43	0.99
1656873--1656994	50	2.5	48	80	10	124	46	0	0	52	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657017--1657144	42	2.7	51	69	23	127	46	3	1	47	1.30
1658668--1658709	22	2.0	21	86	13	59	28	0	7	64	1.20
1661236--1661283	15	3.2	15	84	0	60	41	0	18	39	1.51
1661719--1661778	23	2.6	23	84	5	68	25	26	23	25	2.00
1665293--1665413	64	1.9	64	86	1	172	36	23	16	23	1.94
1665293--1665454	63	2.5	64	79	8	179	33	22	17	25	1.96
1666500--1666547	15	3.2	15	84	0	60	41	0	18	39	1.51
1666985--1667065	23	3.5	23	93	0	135	18	28	25	27	1.98
1668914--1668972	2	30.0	2	96	3	111	50	0	0	49	1.00
1671003--1671066	31	2.1	31	91	2	103	40	15	21	21	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40