genome.fa.s7724.2.7.7.80.10.50.1000.1.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: VEPZ01007724.1 Hibiscus syriacus cultivar Beakdansim tig00109971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1221931

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 706 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)
1277--1321	21	2.1	21	87	0	63	31	28	24	15	1.96
2939--2983	23	2.0	23	86	0	63	20	24	28	26	1.99
5133--5195	21	3.0	21	83	0	81	36	26	11	25	1.90
10126--10161	17	2.1	17	94	0	63	19	22	5	52	1.66
12427--12478	21	2.5	21	96	0	95	13	15	30	40	1.86
14962--15049	24	3.7	23	81	6	95	20	14	15	48	1.80
14985--15054	12	5.8	12	72	12	54	17	14	17	51	1.77
14985--15056	24	3.0	24	85	0	99	18	13	16	51	1.77
17083--17116	11	3.1	11	82	0	50	11	14	23	50	1.76
23368--23443	16	4.8	16	84	9	75	76	0	19	3	0.94
23354--23435	15	5.1	15	73	15	58	71	0	23	4	1.04
23369--23458	38	2.3	36	80	14	99	76	0	16	6	0.99
23369--23442	23	3.2	22	73	19	69	77	0	18	4	0.93
23358--23441	16	5.2	15	75	12	60	73	0	22	3	0.98
31462--31492	13	2.4	13	94	0	53	45	9	0	45	1.36
37475--37528	15	3.6	15	73	9	56	18	11	27	42	1.84
37454--37564	30	3.6	30	82	10	109	20	10	27	40	1.86
39026--39112	41	2.0	41	89	10	131	51	18	11	18	1.75
43812--43903	48	1.9	48	84	4	123	20	15	15	48	1.80
43832--43903	24	3.0	24	81	0	90	19	13	16	50	1.79
45223--45248	3	8.7	3	100	0	52	34	0	0	65	0.93
48207--48279	24	3.0	24	83	0	92	20	9	13	56	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49063--49168	44	2.4	45	83	1	142	30	22	16	31	1.95
49063--49181	45	2.7	44	81	1	139	31	22	15	29	1.95
49230--49383	36	4.2	35	80	13	161	30	15	7	46	1.74
49230--49383	73	2.1	73	82	11	183	30	15	7	46	1.74
49799--49850	25	2.2	24	82	6	61	59	15	7	17	1.58
52924--53024	5	20.2	5	100	0	202	59	0	0	40	0.97
53911--53962	25	2.0	26	88	3	79	65	1	0	32	1.04
53898--53959	31	2.0	32	87	3	90	64	3	0	32	1.09
54938--55384	225	2.0	223	86	5	616	39	12	14	33	1.84
55246--55512	108	2.5	108	86	0	363	36	14	13	35	1.85
60422--60461	21	1.9	21	89	0	62	10	25	40	25	1.86
60443--60493	23	2.3	23	86	6	79	19	21	41	17	1.91
64314--64353	21	1.9	21	90	10	64	37	10	0	52	1.35
67761--67791	15	2.1	15	93	0	53	54	12	3	29	1.53
72096--72272	88	2.0	88	98	0	345	28	12	10	48	1.74
73682--73720	20	2.0	20	84	0	51	17	23	35	23	1.95
74115--74150	17	2.1	17	100	0	72	41	5	5	47	1.50
74438--74509	23	3.1	23	87	0	99	33	12	16	37	1.86
74484--74645	74	2.2	75	87	1	236	34	14	12	38	1.84
74639--74692	23	2.3	23	87	0	81	40	12	14	31	1.84
74828--74900	23	3.2	23	76	0	83	35	12	13	38	1.83
74677--74854	75	2.4	74	82	2	248	35	12	10	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74389--75246	196	4.4	196	87	1	1155	34	14	12	38	1.84
74751--74975	121	1.9	122	86	0	326	34	14	12	39	1.83
74875--75039	75	2.2	75	91	0	276	31	15	14	38	1.88
75025--75086	23	2.7	23	89	0	97	33	9	19	37	1.84
75046--75096	23	2.2	23	85	0	66	35	13	13	37	1.85
75071--75253	75	2.4	75	88	1	269	34	14	10	40	1.80
76098--76128	16	1.9	16	93	0	53	58	0	0	41	0.98
80074--80281	105	2.0	105	89	1	319	37	22	10	29	1.88
86459--86496	2	19.0	2	100	0	76	50	0	0	50	1.00
87331--87384	18	3.0	18	91	0	90	31	33	14	20	1.93
88048--88116	20	3.7	20	69	21	60	20	23	21	34	1.96
88049--88116	35	1.9	35	85	5	93	19	23	22	35	1.96
94489--94540	22	2.3	22	80	3	59	26	28	25	19	1.98
95417--95474	21	2.8	21	100	0	116	27	31	27	13	1.94
97206--97263	21	2.8	21	94	2	100	20	31	29	18	1.97
98838--98876	18	2.2	18	90	0	60	46	23	30	0	1.53
99336--99362	14	1.9	14	100	0	54	37	0	14	48	1.45
108672--108716	20	2.2	20	88	0	63	6	20	28	44	1.76
114440--114530	15	6.1	14	72	15	58	81	1	7	9	0.93
114482--114530	1	49.0	1	79	0	53	89	0	10	0	0.48
114482--114530	21	2.3	21	93	6	82	89	0	10	0	0.48
114483--114530	10	4.7	10	87	12	71	89	0	10	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115239--115283	23	2.0	23	95	0	81	13	22	37	26	1.91
117914--117950	3	12.7	3	94	5	67	32	0	0	67	0.91
118999--119044	2	23.0	2	100	0	92	50	0	0	50	1.00
119207--119249	21	2.1	21	83	12	54	23	2	6	67	1.27
119464--119597	29	4.5	29	73	10	94	22	13	8	55	1.64
119464--119580	59	2.0	60	80	13	134	23	13	6	55	1.62
119553--119627	28	2.5	30	82	8	91	16	10	13	60	1.60
122951--122991	20	2.0	20	95	0	73	31	19	12	36	1.89
124055--124109	20	2.8	20	85	0	83	34	9	23	32	1.86
125046--125172	21	5.8	22	78	10	116	18	18	23	39	1.92
125060--125136	23	3.4	23	89	3	95	16	19	24	38	1.92
131429--131467	21	1.9	20	84	5	51	38	20	15	25	1.92
142390--142462	23	3.3	21	85	11	94	17	17	21	42	1.89
142390--142462	21	3.3	22	86	7	103	17	17	21	42	1.89
144050--144080	2	15.5	2	100	0	62	48	0	0	51	1.00
146091--146133	23	1.9	22	95	4	77	23	41	20	13	1.88
146605--146849	130	1.9	129	86	2	348	24	33	17	24	1.96
148129--148194	2	33.0	2	100	0	132	50	0	0	50	1.00
148718--148778	30	2.0	30	87	0	86	13	9	13	63	1.51
150287--150315	14	2.1	14	100	0	58	55	0	0	44	0.99
154492--154535	20	2.2	20	100	0	88	34	20	4	40	1.73
155570--155594	4	6.2	4	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157319--157910	111	5.3	111	91	0	891	32	11	11	44	1.76
157538--157578	21	2.0	21	85	4	57	34	12	4	48	1.62
158431--158614	91	2.0	91	91	3	300	32	10	9	48	1.69
158581--158742	81	2.0	81	95	0	288	30	11	12	45	1.77
158660--159213	111	5.0	110	93	2	889	31	13	11	44	1.78
158660--159213	221	2.5	222	93	1	925	31	13	11	44	1.78
159173--159213	21	2.1	19	86	9	55	39	9	7	43	1.65
159454--159904	135	3.3	135	96	0	805	35	12	10	41	1.78
159879--159927	23	2.1	23	84	0	62	34	16	10	38	1.82
159955--160044	23	3.9	23	94	0	153	35	20	7	36	1.81
159964--160054	23	4.0	23	92	0	128	37	18	8	35	1.82
159879--160129	133	1.9	133	92	0	421	35	15	9	40	1.79
164532--164606	27	2.8	26	76	13	73	40	22	10	26	1.87
167297--167402	39	2.7	39	73	13	110	44	0	17	36	1.56
177724--177851	61	2.1	61	81	8	145	42	0	8	48	1.39
179337--179373	13	2.9	13	80	19	51	40	0	0	59	0.97
182007--182060	20	2.8	20	94	2	92	33	11	12	42	1.79
182147--182185	20	1.9	21	84	5	53	53	10	15	20	1.70
182064--182353	144	2.0	144	91	1	465	47	11	15	25	1.78
182208--182580	180	2.1	182	92	2	617	44	12	15	28	1.82
184359--184415	23	2.5	23	82	2	71	47	0	5	47	1.24
185057--185095	18	2.2	18	95	0	69	56	0	35	7	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
187097--187121	11	2.3	11	100	0	50	36	8	8	48	1.62
188813--189369	199	2.8	198	85	4	719	37	14	14	32	1.87
190996--191043	19	2.5	19	96	0	87	31	6	10	52	1.60
193757--194250	201	2.5	198	87	4	681	37	14	14	32	1.87
194816--194846	14	2.2	14	100	0	62	29	0	6	64	1.18
196816--197146	54	6.1	54	83	5	350	27	19	20	32	1.97
196816--197132	162	2.0	162	82	5	390	27	19	20	32	1.97
198336--198393	29	2.0	29	100	0	116	37	10	6	44	1.65
198987--199027	21	2.0	21	85	9	57	43	4	7	43	1.53
202289--202329	15	2.7	15	96	0	73	31	19	31	17	1.95

Tables:   1   2   3   4   5   6