genome.fa.s5203.2.7.7.80.10.50.1000.1.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: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1490345

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 934 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)
1808--1866	12	4.9	12	87	0	82	35	10	33	20	1.86
1805--1896	6	15.3	6	77	0	58	36	7	32	22	1.83
1820--1900	3	27.0	3	71	0	63	35	6	32	25	1.81
1808--1878	36	2.0	36	91	0	115	35	9	33	21	1.86
1816--1900	12	7.1	12	82	0	80	35	7	31	25	1.83
6124--6188	25	2.6	25	80	0	85	35	9	13	41	1.77
6463--6509	21	2.2	22	77	11	53	38	12	10	38	1.78
6531--6572	21	2.0	21	90	0	66	33	7	21	38	1.81
7002--7069	23	3.0	23	88	0	109	33	5	20	39	1.77
7002--7094	46	2.0	45	81	8	107	33	7	17	41	1.77
6188--7696	476	3.2	478	94	4	2666	38	7	12	41	1.71
7477--7539	23	2.8	23	80	7	76	33	6	22	38	1.79
7477--7545	21	3.2	21	76	13	68	33	5	20	40	1.76
7896--7968	23	3.2	23	92	0	119	34	5	21	38	1.77
13147--13207	23	2.7	23	81	0	68	42	18	16	22	1.89
13624--13721	3	32.7	3	95	4	180	33	0	0	66	0.92
13984--14264	151	1.9	150	87	5	415	49	6	16	27	1.70
19347--19396	3	16.7	3	91	8	84	68	0	0	32	0.90
19533--19819	121	2.4	123	81	6	327	23	18	16	42	1.88
19746--20192	115	4.0	110	83	8	535	28	17	14	38	1.90
20982--21269	94	3.1	93	92	3	488	35	19	15	30	1.92
22224--22252	11	2.7	11	94	5	51	0	17	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26446--26501	3	18.7	3	92	7	96	67	0	0	32	0.91
26851--27185	115	3.0	111	85	4	424	28	17	15	38	1.91
27965--28251	94	3.1	93	93	4	497	35	19	15	29	1.92
29208--29245	6	6.5	6	82	17	53	0	15	0	84	0.63
29209--29245	11	3.2	12	85	11	51	0	16	0	83	0.64
29208--29245	17	2.2	17	95	4	67	0	15	0	84	0.63
40613--40645	14	2.3	15	85	15	52	69	0	0	30	0.88
42042--42085	3	14.7	3	90	9	72	68	0	0	31	0.90
42042--42091	19	2.6	19	93	3	82	66	0	2	32	1.03
47631--47683	21	2.5	21	81	6	72	20	26	18	33	1.96
47692--47847	20	7.7	20	79	8	145	33	26	17	22	1.96
47690--47867	41	4.4	41	85	4	225	34	25	17	21	1.96
47712--47787	21	3.7	21	79	10	102	40	25	17	17	1.90
48586--48639	24	2.2	24	90	0	81	24	14	18	42	1.88
51139--51193	19	2.8	19	83	2	65	38	21	21	18	1.94
51184--51238	14	3.6	14	73	21	56	45	20	23	10	1.82
51166--51292	33	3.8	33	96	0	227	45	18	23	11	1.83
51146--51257	19	6.4	19	72	20	100	43	19	23	13	1.86
51146--51296	19	8.7	18	68	22	92	44	19	23	11	1.84
51302--51381	33	2.4	33	93	0	133	10	21	22	46	1.81
51321--51381	19	3.5	19	72	21	69	11	22	21	44	1.84
51488--51524	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52889--52969	21	3.9	21	67	12	67	24	20	30	23	1.99
52905--52992	42	2.1	42	84	0	113	25	15	35	23	1.95
53184--53408	94	2.5	91	91	5	373	45	19	12	22	1.84
55182--55436	20	12.6	20	75	11	153	25	19	20	34	1.96
55200--55436	41	5.8	41	74	9	189	26	19	19	34	1.96
55177--55354	81	2.2	82	77	8	186	26	19	20	33	1.96
55303--55375	21	3.5	21	79	3	76	36	17	21	23	1.94
55429--55478	21	2.4	22	76	6	59	38	18	24	20	1.93
59196--59270	31	2.5	31	86	2	98	42	1	10	45	1.47
62944--62968	8	3.1	8	100	0	50	40	36	0	24	1.55
64836--64864	2	15.0	2	92	7	51	51	0	0	48	1.00
64835--64864	15	2.0	15	100	0	60	53	0	0	46	1.00
64838--64863	13	2.0	13	100	0	52	53	0	0	46	1.00
67662--67703	16	2.6	16	81	7	50	42	2	2	52	1.27
70615--70705	29	3.1	29	98	0	173	16	31	34	17	1.92
71316--71359	21	2.1	21	91	0	70	29	0	15	54	1.42
71336--71389	28	1.9	28	96	0	99	29	0	12	57	1.36
71358--71466	47	2.5	44	82	12	134	41	0	8	49	1.39
71900--71944	21	2.2	21	84	4	56	35	0	8	55	1.31
72205--72263	26	2.3	25	75	18	66	47	8	3	40	1.51
75145--75717	26	23.2	26	78	14	468	43	2	10	43	1.51
75090--75709	122	5.0	124	88	8	760	43	2	10	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75145--75634	150	3.3	150	90	4	719	44	2	10	43	1.52
75145--75750	272	2.2	272	94	2	1071	43	2	9	44	1.50
75270--75785	37	13.8	37	67	18	119	43	2	9	44	1.49
75148--75769	14	46.1	14	69	19	201	43	2	9	44	1.50
75722--75795	38	1.9	38	83	5	96	45	4	5	44	1.45
75977--76009	17	1.9	17	93	0	57	36	6	12	45	1.66
75923--76002	24	3.3	23	71	21	67	38	3	8	48	1.52
78153--78183	15	2.1	14	94	5	53	54	6	0	38	1.26
78178--78212	8	4.4	8	96	0	61	62	14	0	22	1.31
78158--78204	16	3.0	16	87	9	62	59	8	0	31	1.27
78253--78334	34	2.5	34	83	13	93	48	13	0	37	1.42
78375--78475	43	2.2	47	86	10	138	47	11	0	40	1.40
78658--78703	23	2.0	23	100	0	92	8	39	4	47	1.54
78849--78904	27	2.1	27	100	0	112	25	21	25	28	1.99
78980--79059	29	2.8	29	92	3	126	21	32	31	15	1.94
79078--79134	28	2.0	28	93	0	96	17	36	21	24	1.94
79137--79176	9	4.2	9	81	12	53	12	17	32	37	1.87
79137--79175	20	2.0	20	94	0	69	12	17	30	38	1.88
80460--80494	13	2.6	13	95	4	61	42	17	17	22	1.88
82352--82514	83	2.0	83	91	0	263	41	10	18	30	1.84
84991--85022	15	2.1	15	94	0	55	59	15	6	18	1.57
86028--86074	12	4.0	12	81	13	53	31	17	2	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91439--91469	16	1.9	16	100	0	62	29	19	12	38	1.89
91440--91481	16	2.7	16	88	3	59	28	21	11	38	1.89
94621--94838	115	1.9	115	91	0	355	41	10	10	37	1.74
94936--94980	22	2.0	22	86	8	63	57	0	0	42	0.98
100612--100667	22	2.5	23	73	23	64	50	0	7	42	1.30
100624--100667	22	2.1	21	91	8	72	52	0	4	43	1.22
101217--101248	13	2.5	13	94	0	55	25	21	25	28	1.99
101227--101523	85	3.5	85	93	0	497	29	21	17	31	1.96
101582--101610	2	14.5	2	100	0	58	48	0	0	51	1.00
101900--101969	2	35.0	2	87	5	97	51	1	2	44	1.25
111465--111553	14	6.2	14	66	21	51	29	0	2	68	1.02
111605--111688	13	6.6	13	72	20	52	35	2	1	60	1.17
111647--111688	9	4.7	9	85	8	59	40	0	2	57	1.12
111577--111694	53	2.2	52	84	10	159	32	1	1	64	1.13
111605--111688	19	4.4	19	72	10	64	35	2	1	60	1.17
111598--111742	63	2.3	63	87	5	197	34	4	2	58	1.31
111766--111869	4	24.8	4	74	18	79	20	3	1	74	1.08
111770--111870	18	5.7	17	72	20	66	19	3	1	74	1.08
111760--111871	27	4.1	26	73	19	86	18	3	2	75	1.08
111772--111869	41	2.3	44	83	10	109	20	4	2	73	1.10
111938--111981	18	2.4	19	81	7	56	13	9	4	72	1.24
111947--111983	14	2.7	13	88	12	56	10	13	2	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121793--121928	71	1.9	70	85	4	184	58	11	17	12	1.62
124908--125049	70	2.0	68	82	14	166	31	1	2	64	1.17
125010--125039	2	15.5	2	93	6	53	46	0	0	53	1.00
124839--125062	56	3.9	57	74	12	174	31	2	3	63	1.22
125172--125224	21	2.3	25	84	12	69	15	9	3	71	1.26
125302--125338	14	2.7	13	88	12	56	10	16	0	72	1.10
125880--125920	3	13.7	3	94	0	73	29	2	0	68	1.03
126117--126149	2	16.5	2	100	0	66	48	0	0	51	1.00
126789--126839	15	3.3	15	71	15	50	37	0	1	60	1.08
126779--126842	31	2.0	33	87	6	96	35	0	3	60	1.12

Tables:   1   2   3   4   5   6   7   8