genome.fa.s8464.2.7.7.80.10.50.1000.1.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: VEPZ01008464.1 Hibiscus syriacus cultivar Beakdansim tig00111277_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  593006

Tables:   1   2   3   4   

This is table  1  of  4  ( 367 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)
4757--4851	21	4.6	21	81	3	113	38	18	41	1	1.58
4809--4841	17	1.9	17	93	0	57	33	21	45	0	1.52
4815--4848	17	2.0	17	88	0	50	32	23	44	0	1.54
6888--7246	82	4.4	82	79	2	368	33	18	17	30	1.94
6889--7246	81	4.4	80	77	8	314	33	18	17	30	1.94
6882--7246	163	2.2	162	84	2	464	33	18	17	30	1.94
7503--7542	16	2.5	16	100	0	80	50	0	37	12	1.41
7891--7926	18	2.0	18	100	0	72	22	5	27	44	1.75
9382--9427	23	2.0	24	91	4	76	47	6	4	41	1.49
16918--16961	22	2.0	22	86	8	63	38	11	11	38	1.77
17297--17321	13	1.9	13	100	0	50	28	16	8	48	1.74
17589--17812	95	2.4	96	91	1	353	42	14	22	20	1.88
24461--24494	18	1.9	18	88	5	52	64	5	20	8	1.43
27847--27876	11	2.7	11	94	0	51	50	10	23	16	1.75
29929--30002	19	4.1	18	81	6	87	40	8	21	29	1.82
33534--33568	17	2.1	17	100	0	70	17	11	28	42	1.83
35367--35407	21	1.9	22	90	5	66	39	17	19	24	1.92
38230--38270	21	1.9	22	90	5	66	36	17	19	26	1.94
41412--41458	24	2.0	24	86	0	67	31	4	19	44	1.70
45153--45245	12	7.8	12	67	13	57	20	10	18	50	1.76
45157--45247	24	3.8	24	85	0	119	20	10	17	50	1.76
45387--45469	31	2.7	29	78	12	94	12	26	30	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46415--46671	58	4.4	58	83	2	295	35	7	12	43	1.71
46415--46630	58	3.7	58	86	1	299	33	8	12	45	1.72
46415--46630	115	1.9	116	88	0	326	33	8	12	45	1.72
46415--46671	115	2.2	115	84	4	322	35	7	12	43	1.71
47132--47240	30	3.5	30	82	5	101	27	15	26	30	1.96
48090--48368	97	2.9	96	80	3	301	37	9	12	39	1.77
48294--48430	39	3.5	40	82	5	172	39	6	16	37	1.74
48294--48518	88	2.7	83	80	9	219	39	6	13	40	1.71
48381--48479	49	2.0	49	84	3	128	40	7	13	39	1.71
48430--48530	39	2.6	39	82	4	107	35	5	10	47	1.63
53765--53816	20	2.6	19	70	8	50	28	28	17	25	1.97
53823--53933	20	5.4	20	76	5	82	28	22	10	37	1.88
53823--53914	40	2.2	41	86	7	125	29	23	10	35	1.89
53847--53947	20	5.1	20	76	10	84	26	21	11	39	1.88
53846--53996	60	2.5	61	76	11	159	29	22	10	37	1.88
53951--54000	20	2.5	20	76	0	55	38	24	8	30	1.84
54744--54777	12	2.8	12	90	0	50	55	29	0	14	1.40
54897--54946	24	2.1	24	92	0	82	24	20	18	38	1.93
54903--54956	24	2.2	24	93	0	90	22	16	18	42	1.89
56734--56885	42	3.6	42	86	2	209	35	36	8	19	1.83
56726--56898	21	8.3	21	77	5	154	34	34	9	21	1.85
57049--57179	42	3.1	42	89	0	208	26	13	35	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59817--59987	20	8.4	20	72	9	105	35	13	23	27	1.92
61043--61087	23	2.0	23	86	0	63	48	17	22	11	1.78
63132--63177	24	1.9	24	86	0	65	78	2	6	13	1.04
63239--63271	17	2.1	16	88	11	50	63	0	6	30	1.18
63269--63317	20	2.4	20	80	10	55	73	12	0	14	1.10
63452--63624	64	2.6	64	76	13	172	57	2	3	35	1.30
64037--64141	37	2.8	37	88	0	156	29	13	15	41	1.85
65145--65263	30	3.9	29	81	8	114	24	20	22	32	1.98
66435--66566	71	1.9	71	87	3	194	48	8	9	34	1.65
66721--66754	2	17.5	2	87	6	52	52	2	0	44	1.16
66818--67162	2	175.5	2	67	19	149	46	4	6	42	1.50
66806--66920	19	6.4	18	70	22	82	46	4	4	45	1.43
67470--67554	40	2.2	39	80	2	89	37	24	1	36	1.64
67924--67961	14	2.8	13	82	17	51	47	0	10	42	1.38
67986--68111	37	3.3	37	72	17	98	43	9	3	42	1.55
74591--74643	16	3.4	15	74	7	52	66	0	0	33	0.92
87021--87060	16	2.6	16	88	7	57	60	17	10	12	1.59
87447--87480	10	3.4	10	87	0	50	58	11	14	14	1.63
88210--88261	21	2.5	21	83	0	68	36	7	15	40	1.76
88427--88498	25	3.0	24	75	22	62	56	4	0	38	1.18
95707--95757	23	2.2	23	96	0	93	49	13	15	21	1.79
102423--102528	32	3.4	31	77	11	90	31	32	23	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104030--104424	197	2.0	195	97	1	736	29	24	14	30	1.95
116170--116249	32	2.6	31	80	5	90	48	20	11	20	1.79
118877--118968	45	2.0	45	97	0	175	30	42	18	8	1.80
120861--121238	187	2.0	190	97	2	719	35	12	21	30	1.91
121960--121996	2	19.0	2	94	5	67	48	0	0	51	1.00
122404--122441	17	2.2	18	85	4	51	36	7	7	47	1.62
124063--124111	24	2.1	23	85	11	64	16	0	6	77	0.96
124302--124331	15	2.0	15	100	0	60	20	6	0	73	1.05
125113--125160	25	1.9	25	91	0	78	18	31	14	35	1.91
125113--125166	25	2.2	24	87	6	74	16	37	14	31	1.89
125311--125349	18	2.1	19	90	4	62	17	5	0	76	0.96
126804--126842	20	2.0	20	94	0	69	17	20	17	43	1.88
128174--128247	8	8.8	8	76	15	60	82	2	10	4	0.90
128207--128258	1	52.0	1	76	0	50	88	1	3	5	0.68
128207--128258	10	5.3	10	83	4	70	88	1	3	5	0.68
128213--128258	19	2.4	18	86	10	65	89	0	4	6	0.60
128174--128272	21	4.9	20	75	15	80	80	2	12	5	0.95
135590--135684	2	47.5	2	100	0	190	50	49	0	0	1.00
135844--136152	54	5.8	53	80	7	277	34	9	15	39	1.80
135874--136113	105	2.2	107	85	4	315	33	10	16	40	1.82
135928--136152	53	4.2	54	80	10	239	33	9	17	39	1.82
137345--137386	18	2.3	19	84	12	61	61	4	9	23	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146470--146627	56	3.3	45	73	19	122	34	18	21	25	1.96
146522--146627	56	1.9	56	100	0	212	33	18	21	25	1.96
146635--146692	20	2.6	22	86	10	75	31	18	22	27	1.97
148250--148313	23	2.8	23	90	0	92	14	25	25	35	1.93
150507--150627	64	1.9	63	87	1	179	34	21	18	25	1.96
150513--150668	63	2.5	64	82	5	165	34	23	17	24	1.96
151326--151376	2	25.5	2	100	0	102	49	0	0	50	1.00
152301--152357	23	2.5	23	91	0	96	22	24	24	28	2.00
154618--154686	23	3.0	23	76	0	75	33	24	23	18	1.97
157212--157246	2	18.0	2	94	5	63	48	0	0	51	1.00
159011--159068	20	2.6	22	86	10	75	31	18	22	27	1.97
160622--160685	23	2.8	23	92	0	101	14	25	26	34	1.94
163374--163700	136	2.4	137	82	4	378	33	18	21	25	1.96
163710--163821	42	2.7	41	83	4	127	31	25	16	26	1.97
168591--168960	190	1.9	190	83	3	476	40	4	8	46	1.56
179233--179296	3	22.0	3	78	12	71	67	1	3	28	1.15
179235--179298	32	2.0	32	90	6	103	65	3	4	26	1.27
179465--179870	40	9.4	45	73	13	268	24	19	30	25	1.98
179462--179881	129	3.3	129	97	0	788	25	19	29	25	1.98
179889--179942	28	1.9	28	85	7	74	50	16	12	20	1.78
180337--180371	15	2.3	15	95	0	61	40	2	20	37	1.67
180539--180662	63	2.0	63	87	1	178	42	12	13	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
180882--181176	64	4.5	64	95	3	509	46	11	11	30	1.76
181138--181193	26	2.1	27	90	3	87	44	16	7	32	1.74
181128--181194	27	2.5	28	83	11	86	43	14	7	34	1.74
181109--181477	138	2.6	141	90	3	559	42	15	11	30	1.82
181419--181566	28	5.5	25	79	14	111	50	14	8	27	1.71
181420--181559	29	5.0	29	82	9	148	48	15	7	28	1.72
181420--181559	57	2.5	57	79	10	148	48	15	7	28	1.72
181807--181910	36	3.0	36	81	4	124	35	11	20	32	1.88
181808--181926	36	3.4	36	79	6	111	36	12	21	30	1.90
181878--182111	105	2.3	102	82	7	276	37	12	19	30	1.89

Tables:   1   2   3   4