genome.fa.s8350.2.7.7.80.10.50.1000.1.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: VEPZ01008350.1 Hibiscus syriacus cultivar Beakdansim tig00111084_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  573897

Tables:   1   2   

This is table  1  of  2  ( 209 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)
9--58	18	2.7	19	84	12	68	14	4	0	82	0.82
11--58	19	2.6	19	83	3	62	12	4	0	83	0.79
18--58	13	3.2	12	86	10	55	12	2	0	85	0.70
20--49	16	1.9	16	93	6	53	13	0	0	86	0.57
17035--17189	60	2.6	59	80	7	161	30	20	6	41	1.77
19131--19190	31	1.9	31	93	0	102	26	8	16	48	1.75
27463--27513	2	25.5	2	100	0	102	50	0	0	49	1.00
35540--35599	26	2.4	25	83	8	68	48	1	0	50	1.11
35540--35608	25	2.7	25	80	6	68	49	1	0	49	1.09
39964--40238	91	3.0	89	92	2	433	28	14	13	44	1.83
40356--40993	198	3.2	197	87	3	865	38	15	15	30	1.89
41208--41244	16	2.3	16	95	0	65	35	21	8	35	1.83
41391--41438	19	2.6	19	96	3	89	25	0	4	70	1.04
42709--42764	24	2.3	24	96	0	103	30	17	14	37	1.90
50523--50562	20	2.0	20	90	0	62	72	0	2	25	0.97
50566--50612	24	2.0	24	86	0	67	46	2	0	51	1.13
53620--53665	21	2.2	21	81	14	60	32	2	0	65	1.05
53622--53665	20	2.2	20	88	8	63	31	2	0	65	1.05
60781--60815	2	17.5	2	100	0	70	51	0	0	48	1.00
60877--60967	31	3.0	31	96	3	168	32	6	17	42	1.75
61032--61097	19	3.5	19	89	2	89	39	10	13	36	1.80
61203--61244	21	2.0	21	95	0	75	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61272--61311	20	1.9	21	85	10	55	37	37	10	15	1.80
64214--64260	22	2.1	22	96	0	85	55	8	2	34	1.42
64419--64509	31	3.0	31	96	3	168	32	6	17	42	1.75
64574--64639	19	3.5	19	89	2	89	39	10	13	36	1.80
64814--64853	20	1.9	21	85	10	55	37	37	10	15	1.80
65068--65137	34	2.1	32	89	5	104	31	15	30	22	1.95
66515--66575	33	1.9	31	83	12	79	57	1	0	40	1.08
66835--66859	2	12.5	2	100	0	50	0	48	0	52	1.00
73704--73732	3	9.7	3	100	0	58	68	0	0	31	0.89
90157--90222	33	2.0	33	96	0	123	50	9	13	27	1.72
94133--94189	26	2.2	26	100	0	114	31	12	21	35	1.90
96645--96677	17	2.0	17	88	5	50	39	6	0	54	1.25
103387--103481	50	1.9	50	100	0	190	24	18	12	44	1.85
105442--105631	60	3.2	59	76	7	170	41	5	24	29	1.77
107677--107736	29	2.1	29	87	6	88	53	6	10	30	1.60
116582--116614	2	17.0	2	87	6	50	48	0	0	51	1.00
117790--117834	21	2.2	20	96	4	81	22	4	37	35	1.74
119990--120023	12	2.9	12	95	4	61	8	8	50	32	1.64
120041--120101	24	2.6	25	78	17	69	44	0	0	55	0.99
120941--120970	11	2.6	12	89	10	53	33	0	0	66	0.92
135165--135202	19	2.0	19	94	0	67	31	5	28	34	1.80
135706--135743	19	2.0	19	100	0	76	47	15	15	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137148--137189	12	3.5	12	90	0	66	50	0	0	50	1.00
137131--137221	35	2.6	34	75	21	91	48	1	1	49	1.15
137326--137369	22	2.0	22	90	0	70	54	0	2	43	1.12
137309--137378	32	2.2	34	82	10	85	52	0	2	44	1.15
140652--140729	32	2.4	32	84	0	93	44	10	24	20	1.82
146717--146882	87	1.9	87	91	0	269	34	12	14	38	1.83
154901--154975	30	2.6	29	84	2	105	41	25	4	29	1.73
157316--157374	24	2.5	24	94	0	100	30	33	6	28	1.83
158255--158323	35	1.9	37	82	5	88	39	2	2	55	1.30
161482--161713	116	2.0	116	100	0	464	29	20	25	25	1.99
163676--163739	31	2.1	31	96	0	119	31	28	7	32	1.85
168758--168804	22	2.3	20	86	13	62	29	29	17	23	1.97
168767--168818	22	2.4	22	93	0	86	28	28	21	21	1.98
170200--170320	64	1.9	64	84	3	163	28	19	17	34	1.94
175387--175440	3	18.3	3	96	3	101	66	0	0	33	0.92
185352--185419	20	3.4	20	76	13	77	23	13	23	39	1.90
189131--189177	21	2.2	21	84	0	58	61	4	0	34	1.15
191545--191747	43	4.7	44	76	12	142	53	5	14	26	1.62
196874--196974	30	3.4	30	71	23	79	43	6	6	42	1.58
197968--198044	17	4.7	16	70	22	61	46	2	9	41	1.49
198069--198240	89	1.9	89	83	6	224	30	19	15	34	1.93
199726--200146	216	2.0	210	91	2	689	31	18	10	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
204231--204277	22	2.1	22	84	0	58	53	25	12	8	1.67
209860--209906	17	2.7	18	83	3	69	36	2	0	61	1.08
220380--220427	7	6.7	7	80	4	51	6	2	4	87	0.73
220378--220449	14	5.2	14	76	3	74	6	4	4	84	0.85
220388--220449	27	2.3	26	81	13	72	8	3	4	83	0.88
221205--221257	18	2.9	18	72	8	54	37	5	0	56	1.23
223147--223216	37	2.0	35	91	8	115	55	11	8	24	1.63
232568--232594	10	2.7	10	100	0	54	25	18	22	33	1.97
239702--239737	18	2.1	18	89	5	56	55	2	0	41	1.14
243218--243261	22	2.0	22	100	0	88	31	0	9	59	1.29
244555--244599	2	23.0	2	90	4	74	51	0	0	48	1.00
245199--245258	16	3.8	16	90	0	102	61	21	8	8	1.51
246160--246186	14	1.9	14	100	0	54	59	25	7	7	1.51
256041--256078	18	2.1	19	90	9	62	10	0	31	57	1.32
265127--265166	21	1.9	21	100	0	80	27	5	22	45	1.73
266084--266133	23	2.2	23	81	0	55	66	0	4	30	1.10
277449--277482	2	17.5	2	93	6	61	50	0	0	50	1.00
292230--292267	19	2.0	19	90	10	60	28	0	0	71	0.87
295847--295930	42	2.0	42	83	4	107	32	29	22	15	1.95
297830--297877	21	2.3	21	92	0	78	27	27	22	22	1.99
298606--298715	49	2.2	49	84	4	159	45	10	15	28	1.80
304440--304772	187	1.8	181	84	7	460	31	8	5	54	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304773--304797	7	3.6	7	100	0	50	28	0	0	72	0.86
305064--305121	13	4.2	14	76	10	57	29	1	5	63	1.25
305026--305100	31	2.3	32	77	6	80	29	5	5	60	1.41
305075--305129	28	2.0	28	82	7	67	29	3	3	63	1.28
305183--305214	15	2.1	15	100	0	64	50	12	15	21	1.77
319721--319748	14	2.0	14	100	0	56	35	0	14	50	1.43
321049--321097	21	2.3	21	89	0	71	30	30	22	16	1.96
321098--321146	21	2.3	21	85	0	62	18	24	24	32	1.97
321108--321148	21	2.0	21	95	0	73	17	24	21	36	1.94
321113--321161	21	2.2	21	89	7	71	20	22	18	38	1.93
321725--321854	19	6.6	19	86	6	188	40	19	20	20	1.91
323965--323992	14	2.0	14	100	0	56	42	0	7	50	1.30
324424--324475	21	2.5	22	78	9	63	42	30	0	26	1.56
324532--324575	22	2.0	22	91	4	72	43	4	0	52	1.22
335178--335214	2	18.5	2	100	0	74	51	0	0	48	1.00
339924--339966	21	2.0	21	82	8	52	30	25	25	18	1.98
339993--340030	20	1.9	20	88	0	58	23	34	31	10	1.89
340504--340721	103	2.1	103	97	0	418	24	11	25	38	1.90
340738--340800	23	2.7	23	90	0	99	22	26	26	23	2.00
346841--346883	21	2.0	21	82	8	52	30	25	25	18	1.98
346910--346949	21	1.9	21	89	0	62	22	32	30	15	1.94
347402--347565	86	1.9	86	96	0	301	25	12	27	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347619--347681	23	2.7	23	87	0	90	23	26	25	23	2.00
349656--349975	103	3.1	103	96	0	579	26	13	24	36	1.92
349991--350059	23	3.0	23	93	0	111	20	26	26	27	1.99
356567--356606	19	2.0	21	90	9	66	55	0	2	42	1.13
357142--357175	13	2.6	13	90	9	52	26	23	32	17	1.97
368658--368683	2	13.0	2	100	0	52	50	0	0	50	1.00
372968--373015	21	2.3	21	96	0	87	41	12	18	27	1.86
380998--381154	80	2.0	80	82	2	190	41	10	16	31	1.83
382991--383025	15	2.4	14	90	4	52	2	11	0	85	0.69
384870--384898	14	2.1	14	100	0	58	44	6	13	34	1.71

Tables:   1   2