genome.fa.s7703.2.7.7.80.10.50.1000.1.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: VEPZ01007703.1 Hibiscus syriacus cultivar Beakdansim tig00109916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1017536

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 603 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)
2061--2729	184	3.7	184	94	2	1188	33	15	14	35	1.88
4183--4266	3	28.0	3	76	0	78	23	34	5	35	1.80
4183--4281	12	8.0	12	78	6	72	22	34	7	36	1.81
4196--4278	42	2.0	42	92	0	139	21	34	8	34	1.84
4214--4281	21	3.4	18	69	21	55	19	35	8	36	1.83
4187--4281	6	15.3	6	76	6	64	21	34	7	36	1.81
5725--7117	196	7.1	198	94	3	2408	32	15	14	37	1.88
9017--9082	33	2.0	33	87	0	96	24	45	1	28	1.62
11175--11227	24	2.2	24	83	6	63	26	7	13	52	1.66
11371--11417	20	2.4	19	79	10	58	19	17	8	55	1.67
11539--11584	20	2.3	20	89	10	76	17	17	10	54	1.70
11648--12089	223	2.0	222	92	4	748	39	7	8	45	1.63
12399--12443	2	23.0	2	95	4	83	48	0	0	51	1.00
12682--12708	12	2.2	12	100	0	54	48	0	0	51	1.00
23148--23199	21	2.5	20	78	9	59	19	1	40	38	1.63
23163--23287	42	3.0	42	78	0	133	25	0	28	45	1.54
23190--23287	21	4.7	21	69	14	67	28	0	25	45	1.53
23227--23288	14	4.4	14	78	8	54	27	0	25	46	1.53
25687--25717	12	2.6	12	89	0	53	35	25	16	22	1.94
25754--25785	16	2.0	16	93	0	55	12	9	25	53	1.68
27114--27157	13	3.5	13	81	15	56	29	0	0	70	0.88
27410--27462	8	7.0	8	85	12	67	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27411--27451	21	2.0	21	90	0	64	68	0	0	31	0.90
28994--29166	72	2.4	72	84	0	211	26	15	29	28	1.96
51075--51335	128	2.0	128	91	1	425	26	21	18	34	1.95
60802--60901	44	2.2	44	94	1	173	44	6	6	44	1.53
61122--61279	8	18.1	10	73	26	155	56	0	0	43	0.99
61122--61279	17	9.1	20	73	26	155	56	0	0	43	0.99
61125--61279	5	29.8	5	98	1	256	57	0	0	42	0.98
62526--62555	10	3.0	10	100	0	60	10	10	0	80	0.92
63812--64191	204	1.9	204	90	0	616	36	15	14	33	1.88
67719--67827	54	2.0	54	100	0	218	14	18	14	52	1.75
75693--75823	35	3.7	35	89	0	172	13	15	19	51	1.75
78323--78356	17	2.1	17	94	5	61	23	11	0	64	1.26
90875--90955	10	8.1	10	72	20	55	9	9	19	60	1.56
90915--90954	20	2.0	20	95	0	71	7	15	22	55	1.65
91020--91052	16	2.1	16	100	0	66	6	12	24	57	1.57
94526--94557	6	5.2	6	96	3	55	34	15	18	31	1.93
95998--96059	32	2.0	31	87	3	88	24	9	29	37	1.87
96638--96675	19	2.1	19	85	5	51	39	5	0	55	1.23
97419--97448	14	2.1	14	93	0	51	50	6	0	43	1.28
97599--97625	14	1.9	14	100	0	54	44	33	0	22	1.53
97883--97914	15	2.1	15	100	0	64	28	9	31	31	1.88
102879--102970	39	2.3	39	90	1	139	23	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102879--102974	20	4.8	20	92	2	149	23	28	19	28	1.99
103197--103272	20	3.8	20	89	3	109	42	23	19	14	1.88
103278--103348	33	2.2	33	81	0	79	19	19	21	39	1.93
104922--105013	42	2.2	42	86	1	132	21	15	41	21	1.90
104949--105009	21	3.0	20	78	7	77	22	13	40	22	1.89
105350--105402	20	2.7	20	87	0	70	33	28	13	24	1.93
105356--105423	20	3.4	20	87	0	82	33	27	20	17	1.95
105487--105548	19	3.5	19	77	20	80	11	17	19	51	1.75
105504--105562	14	3.9	14	78	20	64	10	16	22	50	1.75
105487--105578	33	2.8	33	94	0	157	13	18	19	48	1.80
105485--105578	19	5.5	18	69	23	69	13	19	19	47	1.82
105563--105606	20	2.2	20	88	4	63	22	25	15	36	1.94
106071--106118	18	2.7	18	90	0	78	16	12	43	27	1.84
106963--107005	20	2.2	20	91	0	68	51	20	18	9	1.74
107505--107597	20	4.7	20	95	0	168	24	19	29	26	1.98
107585--107643	21	2.8	21	97	0	109	13	13	23	49	1.78
107670--107722	21	2.5	22	72	6	56	37	16	24	20	1.93
107932--108030	37	2.7	37	87	4	139	53	0	5	41	1.23
108053--108118	18	3.5	18	85	6	78	65	0	1	33	1.02
108051--108121	16	3.8	18	71	23	56	63	0	2	33	1.09
108855--109184	48	7.1	48	78	10	321	13	13	45	28	1.80
108924--109004	36	2.2	36	93	0	135	13	13	46	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108894--109049	84	1.9	84	95	0	285	12	14	45	26	1.81
108852--109187	132	2.4	137	81	8	346	13	13	45	28	1.80
108964--109226	144	1.8	144	84	0	355	12	11	46	29	1.77
111901--111938	17	2.2	17	90	0	58	13	21	44	21	1.85
111915--111960	22	2.1	22	100	0	92	8	23	47	19	1.77
111963--112056	19	4.8	19	74	16	61	31	27	23	17	1.96
111963--112053	9	9.4	10	75	11	75	31	28	24	15	1.95
111982--112056	29	2.5	31	85	8	111	32	26	24	17	1.97
119228--119264	17	2.2	17	95	0	65	13	24	40	21	1.89
119260--119358	9	10.3	9	70	16	56	32	26	25	16	1.96
119266--119359	39	2.4	40	79	15	115	32	26	23	17	1.96
119260--119358	19	5.2	19	69	17	53	32	26	25	16	1.96
125259--125303	6	7.5	6	100	0	90	17	48	0	33	1.48
125675--125723	12	4.2	12	79	10	57	34	0	2	63	1.06
125682--125845	66	2.5	68	88	8	236	42	0	2	55	1.13
125714--125815	22	4.5	22	71	20	86	46	0	1	51	1.12
125805--125871	16	4.4	16	74	20	54	38	1	1	58	1.17
125840--125901	19	3.3	18	78	15	63	35	1	0	62	1.05
125851--125907	19	2.9	19	73	19	55	35	0	1	63	1.05
126367--126426	31	1.9	31	89	0	93	45	10	5	40	1.60
128955--129113	42	3.8	42	78	9	146	33	20	14	32	1.92
128952--129075	43	2.9	43	82	5	144	33	19	13	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129295--129343	25	2.0	24	88	4	71	42	8	14	34	1.75
131391--131428	19	2.0	20	89	5	60	44	21	13	21	1.85
133443--133477	15	2.4	14	90	9	52	20	8	0	71	1.11
133443--133477	8	4.6	8	93	6	56	20	8	0	71	1.11
135452--135500	18	2.8	17	75	6	53	28	28	8	34	1.86
143988--144059	32	2.3	32	92	2	119	45	4	37	12	1.61
144873--144948	34	2.4	31	80	8	80	32	2	2	61	1.23
156150--156215	28	2.3	29	82	12	82	65	0	0	34	0.93
156175--156212	7	5.4	7	81	12	51	71	0	0	28	0.87
156149--156212	21	2.9	21	81	6	65	64	0	0	35	0.94
157056--157131	28	2.7	27	83	4	89	43	17	9	30	1.80
157483--157555	31	2.4	31	92	0	128	17	9	15	57	1.64
162926--162965	21	1.9	21	94	0	71	30	25	25	20	1.99
168653--168708	21	2.7	21	100	0	112	32	16	17	33	1.92
169211--169248	12	3.0	13	80	7	51	34	7	7	50	1.61
169816--169844	15	1.9	15	100	0	58	34	6	31	27	1.83
170657--170681	2	12.5	2	100	0	50	48	0	0	52	1.00
171480--171519	21	1.9	21	100	0	80	32	25	22	20	1.98
174329--174371	23	1.9	22	81	13	52	65	6	11	16	1.46
175397--175431	18	1.9	18	94	0	61	45	8	0	45	1.34
175445--175700	59	4.2	57	71	11	181	36	6	2	54	1.41
175445--175713	29	8.9	29	74	10	173	36	6	2	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
175995--176082	44	2.0	44	97	0	167	52	5	9	32	1.57
178218--178259	21	2.0	22	90	4	68	50	2	0	47	1.14
178280--178400	28	4.5	25	78	12	82	47	4	10	36	1.60
180301--180337	18	2.1	18	89	0	56	48	16	0	35	1.46
186104--186156	19	2.9	17	86	8	61	26	18	30	24	1.98
186135--186305	64	2.6	65	80	7	193	26	15	23	33	1.95
186203--186253	19	2.7	19	85	8	70	29	15	31	23	1.95
188803--188882	24	3.5	23	75	14	85	28	22	25	23	1.99
194677--194856	64	2.8	63	76	15	183	27	16	26	30	1.97
194803--194853	19	2.7	19	85	8	70	29	15	31	23	1.95

Tables:   1   2   3   4   5   6