genome.fa.s8120.2.7.7.80.10.50.1000.1.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: VEPZ01008120.1 Hibiscus syriacus cultivar Beakdansim tig00110670_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  639723

Tables:   1   2   3   

This is table  1  of  3  ( 306 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)
2845--2927	29	2.8	29	90	1	130	42	9	15	32	1.80
4241--4269	2	14.5	2	100	0	58	48	0	0	51	1.00
4845--4896	21	2.5	21	81	3	61	38	19	25	17	1.93
4885--4951	20	3.7	20	72	25	76	31	23	19	25	1.98
4904--4931	13	2.2	13	100	0	56	32	21	21	25	1.98
4885--4951	33	2.0	33	97	0	125	31	23	19	25	1.98
4918--5005	41	2.2	41	87	2	124	39	23	14	21	1.91
5169--5212	22	2.0	22	95	0	79	20	45	15	18	1.85
5452--5515	20	3.2	20	84	0	74	17	18	20	43	1.88
5650--5706	25	2.3	26	82	14	75	21	8	17	52	1.71
6893--6952	21	2.9	21	85	5	77	28	21	26	23	1.99
7641--7678	2	19.5	2	94	5	69	52	0	0	47	1.00
8475--8524	19	2.7	20	81	12	61	68	0	2	30	1.01
11483--11541	28	2.1	28	83	0	73	33	10	10	45	1.72
12245--12296	2	26.0	2	100	0	104	50	0	0	50	1.00
15370--15423	21	2.5	21	78	3	63	44	5	1	48	1.37
16814--16871	2	29.0	2	100	0	116	50	0	0	50	1.00
26961--27115	36	4.3	36	90	3	231	36	24	20	19	1.95
27346--28218	51	16.6	51	81	8	826	32	19	24	22	1.97
27346--28218	155	5.5	155	83	8	939	32	19	24	22	1.97
27345--28218	206	4.2	205	81	9	894	32	19	24	22	1.97
28207--28818	55	11.2	55	80	7	599	30	14	26	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28180--28818	217	2.9	215	81	7	677	30	15	26	27	1.96
28246--28761	109	4.8	108	83	7	582	30	15	26	27	1.96
33013--33093	40	2.0	40	95	0	144	37	11	16	35	1.84
36951--37009	21	2.8	21	89	5	93	30	20	25	23	1.98
38587--38633	25	1.9	24	91	4	76	70	0	4	25	1.05
42671--42710	2	20.0	2	100	0	80	50	0	0	50	1.00
43190--43275	23	4.2	21	66	18	56	34	5	11	47	1.64
44113--44155	22	2.0	22	85	0	59	46	4	2	46	1.36
45580--45631	2	26.0	2	100	0	104	50	0	0	50	1.00
47538--47618	40	2.0	40	95	0	144	37	11	16	35	1.84
49449--49482	16	2.1	16	94	0	59	47	14	0	38	1.45
50948--51002	21	2.6	21	85	5	67	32	23	23	20	1.98
51461--51487	2	13.5	2	100	0	54	51	0	0	48	1.00
51688--51732	20	2.3	20	81	7	58	62	4	0	33	1.15
52596--52649	20	2.8	18	83	10	56	66	0	5	27	1.13
52605--52649	20	2.2	20	88	7	65	66	0	6	26	1.16
57169--57227	28	2.1	27	93	3	100	38	10	1	49	1.47
58947--58974	10	2.8	10	100	0	56	32	50	0	17	1.47
59685--59765	40	2.0	40	100	0	162	35	12	17	34	1.87
62046--62225	87	2.1	87	92	2	299	33	5	6	55	1.48
69414--69572	55	2.9	54	84	5	187	23	23	21	31	1.98
69566--70132	55	10.3	55	89	1	807	28	25	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69479--70132	110	6.0	110	85	2	820	27	25	16	31	1.97
71142--71166	8	3.1	8	100	0	50	12	0	0	88	0.53
81157--81194	16	2.3	16	95	4	67	36	28	7	26	1.84
86877--86915	13	3.0	13	88	0	60	30	17	23	28	1.97
86748--86905	85	1.9	85	89	0	244	29	18	20	31	1.96
89418--89450	12	2.5	13	90	9	50	51	0	9	39	1.34
90276--90306	16	1.9	16	93	0	53	70	0	0	29	0.87
90343--90447	39	2.7	39	81	10	135	43	0	19	37	1.51
99820--99858	17	2.4	17	87	8	55	41	5	0	53	1.23
101749--101773	7	3.6	7	100	0	50	0	0	24	76	0.80
109284--109358	29	2.5	30	84	4	116	20	36	29	14	1.92
109406--109496	10	8.7	10	75	21	89	25	37	27	9	1.87
109409--109436	14	2.0	14	100	0	56	21	42	28	7	1.79
109423--109496	20	3.7	20	98	0	139	25	36	28	9	1.87
109505--109558	23	2.3	23	87	9	83	27	25	35	11	1.90
109616--109673	23	2.5	23	82	0	71	12	36	25	25	1.91
109656--109687	14	2.3	14	94	0	55	9	31	34	25	1.87
110551--110587	2	18.5	2	100	0	74	48	0	0	51	1.00
111654--111705	25	2.1	25	85	7	70	36	5	17	40	1.73
113227--113278	3	17.3	3	100	0	104	67	0	0	32	0.91
119651--119688	9	4.3	9	84	15	53	78	2	0	18	0.86
119655--119713	18	3.1	18	81	13	73	76	3	3	16	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119780--119813	18	1.9	17	94	5	59	73	2	11	11	1.20
121793--122691	84	10.7	84	80	2	955	24	18	24	32	1.97
121768--122850	251	4.4	251	80	4	1069	24	18	24	32	1.97
121772--122849	167	6.5	166	82	3	1137	24	18	24	32	1.97
122542--122839	151	2.0	151	91	0	488	23	18	25	32	1.97
123699--123799	31	3.3	31	77	10	100	33	17	16	31	1.93
125160--125287	19	6.7	19	98	0	247	21	30	16	32	1.95
127287--127519	95	2.4	97	84	3	283	30	18	18	32	1.95
127287--127549	95	2.7	95	82	4	260	31	18	17	33	1.94
128974--129024	20	2.5	20	87	0	75	31	29	17	21	1.96
129560--129620	22	2.8	22	84	0	77	16	22	27	32	1.96
135776--135830	20	2.8	20	82	0	74	29	27	20	23	1.99
135777--135840	20	3.2	19	71	8	56	29	23	21	25	1.99
136220--136266	24	1.9	25	83	12	62	40	2	21	36	1.65
136364--136489	22	5.7	22	90	0	198	18	25	28	27	1.98
137426--137501	39	1.9	39	94	0	134	18	36	11	32	1.87
138064--138115	21	2.4	22	83	3	61	17	36	1	44	1.60
140483--140541	5	12.2	5	73	20	54	79	1	3	15	0.94
140571--140604	7	4.9	7	100	0	68	73	0	14	11	1.10
141071--141120	22	2.3	21	76	10	55	52	2	0	46	1.12
142562--142622	24	2.5	24	97	0	113	9	16	16	57	1.64
142637--142697	29	2.1	29	100	0	122	36	9	13	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
143540--143577	18	2.1	19	90	5	60	0	13	2	84	0.73
145909--145958	22	2.3	23	80	16	61	62	0	2	36	1.07
147657--147688	14	2.2	15	94	5	57	46	0	0	53	1.00
148959--149083	3	42.0	3	77	4	119	56	0	2	41	1.12
149338--149982	110	5.8	112	84	7	779	28	19	14	37	1.91
150764--151516	83	9.2	82	95	1	1194	36	22	13	27	1.92
152595--152637	15	2.9	15	93	3	70	0	11	0	88	0.52
152597--152632	18	1.9	19	94	5	65	0	11	0	88	0.50
152590--152637	20	2.3	21	89	10	73	0	12	0	87	0.54
163025--163083	19	3.2	18	76	9	57	61	0	1	37	1.07
163708--163747	14	3.1	13	82	10	55	60	0	0	40	0.97
164903--164946	16	2.8	16	100	0	88	18	18	56	6	1.62
165048--165077	2	15.0	2	100	0	60	50	0	0	50	1.00
165075--165180	3	35.3	3	80	0	122	57	0	2	39	1.13
165048--165176	12	11.2	12	74	19	91	55	0	2	42	1.12
165051--165180	15	8.1	16	77	10	108	56	0	2	41	1.12
167855--167968	54	2.0	57	80	8	126	35	7	8	49	1.61
169954--170060	34	3.1	33	78	14	85	34	0	3	61	1.14
169987--170065	34	2.4	34	85	8	101	37	0	1	60	1.05
170205--170258	17	3.2	17	72	0	54	31	0	3	64	1.11
177374--177441	19	3.6	19	77	15	70	32	19	7	41	1.79
196890--196941	24	2.2	24	82	0	59	30	17	19	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199657--199687	14	2.2	14	94	0	53	25	0	0	74	0.82
199708--199747	14	2.7	14	84	7	53	32	2	0	65	1.06
199910--199934	13	1.9	13	100	0	50	12	8	0	80	0.92
200110--200210	48	2.1	48	80	10	109	18	4	3	72	1.19
200141--200210	22	3.0	22	70	23	54	17	4	4	74	1.14
203203--203253	13	3.8	14	82	15	63	74	3	17	3	1.12
203201--203253	28	2.0	26	89	10	81	75	3	16	3	1.10
204901--204975	37	2.0	38	86	2	107	30	20	13	36	1.91
204982--205067	37	2.4	37	86	2	120	24	19	15	40	1.90
204982--205269	36	8.4	36	69	16	137	27	18	13	40	1.88

Tables:   1   2   3