genome.fa.s1563.2.7.7.80.10.50.1000.1.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: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  849978

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 555 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)
453--546	8	11.9	8	73	9	52	5	12	1	80	0.92
519--546	1	28.0	1	100	0	56	0	0	0	100	0.00
4313--4870	287	2.0	281	93	4	962	59	6	11	22	1.55
4693--4722	14	2.1	14	93	0	51	53	6	16	23	1.66
6263--6315	19	2.8	19	82	2	63	49	1	13	35	1.53
6266--6320	18	3.0	18	84	5	65	45	3	14	36	1.63
6351--6442	28	3.4	28	86	7	129	50	2	25	22	1.61
6401--6442	18	2.3	18	84	15	59	50	0	28	21	1.49
6403--6446	19	2.3	19	84	7	63	52	0	27	20	1.47
6482--6546	18	3.4	18	72	12	67	29	4	16	49	1.66
6484--6565	39	2.1	38	97	2	155	26	4	18	50	1.67
8367--8397	15	2.1	15	100	0	62	45	0	19	35	1.51
8656--8696	20	2.2	18	86	8	55	29	4	4	60	1.38
9301--9367	2	33.5	2	87	0	80	41	0	58	0	0.98
9301--9364	10	6.4	10	92	0	92	40	0	59	0	0.97
10869--10916	2	24.0	2	100	0	96	50	0	0	50	1.00
12557--12613	30	1.9	29	82	10	71	40	0	24	35	1.56
15830--16068	89	2.7	88	85	5	301	33	16	19	30	1.94
17550--17574	6	4.2	6	100	0	50	52	16	16	16	1.76
17546--17601	27	2.1	27	83	3	69	53	8	19	17	1.70
18396--18434	19	2.1	19	95	0	69	20	38	15	25	1.92
18382--18544	65	2.5	65	85	3	222	30	26	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25905--25943	19	2.1	19	95	0	69	20	38	15	25	1.92
28360--28519	66	2.4	66	89	2	232	39	16	19	24	1.92
30683--30776	3	33.0	3	81	10	117	63	0	0	36	0.94
30684--30776	31	3.2	29	84	6	125	64	0	0	35	0.94
30683--30779	34	2.9	34	86	4	135	63	0	0	36	0.94
37251--37277	2	13.5	2	100	0	54	0	48	0	51	1.00
37277--37319	2	21.5	2	100	0	86	48	0	0	51	1.00
38155--38477	30	11.1	29	72	12	146	40	8	0	49	1.39
38151--38277	59	2.2	59	85	2	175	37	11	0	49	1.45
38153--38277	29	4.2	29	78	9	110	37	11	0	50	1.44
38151--38412	30	8.8	29	75	4	157	39	9	1	49	1.44
38358--38459	27	3.8	25	74	19	82	43	6	0	50	1.29
38383--38462	27	3.2	25	81	8	99	45	5	0	50	1.23
38383--38477	27	3.5	26	80	11	95	43	5	0	51	1.24
38500--38600	29	3.5	28	72	10	78	54	0	3	40	1.26
38644--38696	18	2.9	19	75	8	56	43	0	15	41	1.46
38947--39013	31	2.2	31	97	0	125	23	23	8	43	1.82
39191--39225	16	2.2	16	89	0	52	71	0	0	28	0.86
39808--39857	16	3.0	16	86	13	66	42	0	0	58	0.98
40875--40916	16	2.4	18	76	11	52	52	9	2	35	1.47
44667--44705	18	2.2	18	86	9	53	71	7	5	15	1.26
46060--46118	24	2.5	23	76	15	57	74	0	8	16	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46102--46173	7	10.3	7	96	0	135	73	0	26	0	0.83
46170--46341	26	6.8	26	72	20	116	47	6	2	43	1.41
46207--46331	49	2.5	50	80	8	157	45	7	2	44	1.44
46245--46285	20	2.1	20	90	4	66	41	7	4	46	1.53
46207--46340	50	2.7	50	78	10	157	44	7	2	45	1.44
46720--47194	224	2.1	225	80	3	526	32	17	19	30	1.95
47261--47301	19	2.2	19	91	8	66	29	19	29	21	1.98
52469--52508	20	2.1	18	86	9	53	77	2	10	10	1.08
52709--52773	32	2.0	32	100	0	130	26	12	27	33	1.92
55502--55538	3	12.3	3	100	0	74	67	0	0	32	0.91
55572--55622	20	2.4	21	83	9	68	45	5	1	47	1.38
55559--55665	47	2.2	48	85	6	146	47	7	0	43	1.37
55623--55665	19	2.3	19	87	0	59	44	9	0	46	1.35
55548--55694	48	3.1	47	80	9	151	43	8	2	45	1.48
56474--56522	21	2.3	21	92	0	80	10	30	38	20	1.86
59448--59481	14	2.3	15	95	5	61	11	23	14	50	1.76
61156--61201	21	2.2	20	85	11	58	45	28	13	13	1.80
65603--65639	18	2.1	18	94	0	65	13	21	48	16	1.80
66512--66568	20	2.9	20	77	12	64	50	1	3	43	1.29
66561--66595	16	2.2	16	89	0	52	57	0	0	42	0.99
66799--66885	42	2.1	41	85	6	113	50	16	4	28	1.64
66868--66894	14	1.9	14	100	0	54	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)
70073--70187	40	2.9	40	92	2	196	21	17	29	31	1.96
76690--76823	40	3.4	40	85	2	173	22	20	26	31	1.98
77574--77671	2	53.0	2	67	15	50	53	0	0	46	1.00
77593--77671	34	2.3	35	85	8	94	54	0	0	45	0.99
78600--78711	24	4.7	24	90	0	170	34	22	20	22	1.96
82681--82758	23	3.4	23	90	0	129	30	34	17	16	1.93
83109--83166	19	2.7	21	82	17	59	75	5	17	1	1.06
85948--85987	2	20.0	2	100	0	80	50	0	0	50	1.00
87618--87657	16	2.5	16	95	0	71	40	7	20	32	1.80
93400--93478	6	13.2	6	71	0	59	58	13	22	5	1.55
93402--93446	12	3.8	12	87	0	72	60	15	22	2	1.46
93403--93476	30	2.5	31	84	4	98	59	13	21	5	1.54
95144--95199	15	3.8	15	73	17	55	35	1	0	62	1.06
96760--96804	17	2.6	17	92	0	72	31	31	6	31	1.83
102047--102356	129	2.4	131	78	6	301	34	18	16	31	1.93
102902--102981	41	2.0	41	80	11	94	40	1	8	50	1.42
102922--102999	33	2.4	30	78	14	84	42	0	7	50	1.31
102960--103040	26	3.1	25	75	20	67	45	0	7	46	1.31
102981--103061	29	2.7	30	79	9	94	46	0	7	45	1.31
102970--103023	22	2.4	22	82	14	58	44	0	5	50	1.25
104072--104766	207	3.2	212	91	4	1116	51	7	12	28	1.67
104966--105003	11	3.5	11	88	0	58	50	2	2	44	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105009--105062	17	3.1	17	86	2	72	44	0	3	51	1.19
105008--105061	24	2.3	23	78	15	65	42	0	3	53	1.18
105229--105337	24	4.2	24	69	15	76	42	8	8	41	1.65
105222--105281	13	4.6	13	74	0	66	46	8	5	40	1.56
105332--105380	18	2.8	17	78	9	53	48	4	2	44	1.33
105377--105453	31	2.7	28	88	8	102	37	6	5	50	1.51
105459--105500	20	2.1	20	82	8	50	45	9	2	42	1.49
105508--105643	53	2.5	53	85	8	177	39	8	8	43	1.65
105617--105667	24	2.1	25	88	3	77	39	7	5	47	1.57
105553--105705	80	2.0	75	87	6	216	41	9	6	43	1.62
105446--105681	18	13.0	18	70	21	136	40	8	6	44	1.62
105651--105719	33	2.2	32	89	5	104	43	10	5	40	1.62
105690--105770	24	3.2	24	78	13	67	40	7	7	44	1.60
105736--105770	18	1.9	18	88	0	52	45	5	2	45	1.41
105675--105777	20	4.9	20	64	21	50	43	8	5	41	1.59
105773--105876	27	3.9	27	93	0	181	33	9	8	48	1.67
105863--105901	20	2.0	20	89	0	60	46	7	0	46	1.31
105970--106025	19	2.7	20	76	17	60	48	5	1	44	1.36
105999--106253	33	7.8	33	73	17	192	43	6	7	41	1.60
105997--106264	18	15.2	18	68	17	170	44	6	7	41	1.59
105997--106162	51	3.2	51	87	3	251	45	6	6	41	1.56
105997--106162	53	3.2	53	88	3	250	45	6	6	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106136--106297	51	3.0	51	85	7	207	43	7	8	40	1.62
106136--106297	58	3.0	53	85	9	211	43	7	8	40	1.62
106171--106264	25	3.7	25	75	13	84	44	6	7	41	1.58
105999--106297	142	2.1	137	87	6	424	44	7	7	41	1.59
106851--107070	113	1.9	113	82	7	277	29	28	6	35	1.82
107216--107293	11	6.9	11	82	5	102	51	46	1	1	1.17
107204--107310	6	18.5	6	80	7	114	47	45	1	4	1.34
107224--107286	17	3.7	17	91	0	90	50	46	1	1	1.20
107198--107293	34	2.8	34	88	1	138	47	45	2	4	1.33
107528--107664	2	68.5	2	100	0	274	50	0	0	49	1.00

Tables:   1   2   3   4   5