genome.fa.s9596.2.7.7.80.10.50.1000.1.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: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1846166

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 926 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)
5688--5736	8	6.0	8	78	2	53	79	6	4	10	1.03
5688--5729	16	2.6	17	85	11	61	78	4	4	11	1.06
6504--6532	12	2.3	13	94	5	51	68	0	0	31	0.89
9069--9174	33	3.0	36	83	9	146	14	11	33	40	1.81
9745--9785	18	2.4	18	88	8	59	31	19	0	48	1.49
13341--13377	20	1.9	18	89	10	56	51	10	16	21	1.74
13524--13593	37	1.9	36	88	2	104	47	2	0	50	1.16
13918--13974	24	2.4	24	87	0	87	28	21	24	26	1.99
14085--14109	11	2.3	11	100	0	50	32	8	24	36	1.84
14771--14843	23	3.2	23	90	0	110	35	4	21	38	1.73
15260--15332	23	3.2	23	90	0	110	35	5	20	38	1.76
14348--18634	488	8.8	488	93	2	7117	41	7	10	40	1.68
15746--15841	23	4.2	23	87	0	129	37	5	18	38	1.74
16257--16329	23	3.2	23	84	3	85	36	4	17	41	1.69
16683--16727	22	2.0	22	83	8	56	42	11	8	37	1.72
16745--16817	23	3.2	23	94	0	128	34	5	21	38	1.77
17234--17306	23	3.2	23	88	0	92	36	4	17	41	1.69
14348--18632	975	4.4	975	92	3	7069	41	7	10	40	1.68
17720--17792	23	3.2	23	90	0	101	36	4	19	39	1.71
18148--18192	22	2.0	22	86	0	63	40	11	11	37	1.76
18211--18260	23	2.2	23	92	0	82	36	8	20	36	1.82
16768--18634	468	3.9	466	87	7	2515	41	7	10	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23260--23409	74	2.0	75	96	1	275	41	9	22	26	1.84
29927--30142	76	2.9	75	90	2	308	29	0	11	57	1.40
29942--30059	24	4.7	24	68	20	80	28	0	11	58	1.39
30828--30880	21	2.5	22	81	3	63	24	3	0	71	1.02
35040--35268	114	2.0	115	98	0	442	35	14	6	44	1.70
47068--47134	27	2.3	29	75	7	75	50	4	0	44	1.22
50415--50480	33	2.0	32	88	2	96	28	13	9	48	1.73
56369--56416	17	2.7	18	77	9	53	37	0	8	54	1.31
57258--57313	16	3.4	16	83	9	69	57	3	0	39	1.16
57471--57531	27	2.3	27	97	0	113	11	31	37	19	1.87
58137--58182	24	2.0	23	86	4	65	47	2	2	47	1.26
58190--58245	22	2.5	22	80	5	60	44	1	1	51	1.22
58198--58254	22	2.9	19	73	16	53	47	1	1	49	1.22
58287--58354	35	2.0	34	82	2	82	33	7	4	54	1.48
61700--61762	28	2.3	28	83	5	76	6	55	7	30	1.54
61715--61770	28	2.0	28	82	6	69	10	48	10	30	1.72
63456--63509	27	2.0	27	85	3	72	18	3	38	38	1.69
63548--63593	21	2.2	21	92	0	74	21	17	41	19	1.90
70266--70305	21	1.9	22	85	10	57	30	2	5	62	1.29
70271--70315	22	2.1	21	83	4	54	26	4	6	62	1.39
77461--77704	122	2.0	122	88	2	323	42	22	13	22	1.88
88911--91218	577	4.0	578	96	0	4214	36	18	14	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91408--91457	20	2.5	20	81	9	57	74	4	22	0	0.99
91395--91472	31	2.6	29	78	6	75	73	2	23	1	1.03
91468--91518	16	3.2	16	79	15	61	74	0	17	7	1.05
91485--91532	21	2.2	21	85	10	62	75	2	16	6	1.11
91485--91532	22	2.2	20	82	17	53	75	2	16	6	1.11
91480--91527	13	3.8	12	79	15	51	77	0	18	4	0.93
93911--93956	20	2.3	20	84	0	56	23	21	26	28	1.99
94210--94264	20	2.8	20	88	0	83	25	25	20	29	1.99
94632--94690	30	2.0	29	87	9	84	35	10	15	38	1.81
94635--94705	30	2.3	31	80	9	83	36	8	16	38	1.80
95079--95105	14	1.9	14	100	0	54	48	0	0	51	1.00
95205--95304	30	3.5	28	68	23	73	36	1	2	61	1.14
96056--96103	21	2.3	21	100	0	96	75	4	12	8	1.18
100881--100917	2	18.5	2	100	0	74	48	0	0	51	1.00
101966--102271	150	2.0	151	97	1	571	31	15	19	33	1.93
103234--103292	31	1.9	31	96	0	109	42	8	6	42	1.61
105667--105697	14	2.2	14	94	0	53	38	0	0	61	0.96
107046--107119	25	3.0	24	72	14	69	31	1	5	62	1.26
107099--107161	32	2.0	32	84	6	83	38	0	3	58	1.14
107183--107207	2	12.5	2	100	0	50	48	0	0	52	1.00
116345--116402	22	2.6	22	91	0	89	29	18	15	36	1.92
117079--117328	73	3.4	73	87	2	347	27	21	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117454--117778	123	2.6	122	86	5	424	40	14	19	25	1.90
118588--118623	18	2.0	18	100	0	72	16	27	22	33	1.95
119530--119604	25	3.0	25	74	12	73	30	1	6	61	1.30
119584--119646	32	2.0	32	84	6	83	38	0	3	58	1.14
121168--121292	65	1.9	66	86	1	180	36	18	21	24	1.95
121355--121389	12	2.9	12	82	0	52	51	14	25	8	1.70
123646--123728	23	3.6	23	90	0	121	16	22	24	36	1.95
124560--124624	27	2.4	28	86	2	96	20	10	24	44	1.83
125538--125579	19	2.2	19	86	0	57	30	19	28	21	1.97
126782--126872	40	2.3	40	90	1	139	28	27	19	24	1.99
127478--127516	20	2.0	20	94	0	69	28	33	28	10	1.90
131929--131975	18	2.7	18	90	3	69	34	8	29	27	1.87
132352--132438	37	2.3	38	88	7	133	39	37	11	11	1.78
135845--135877	4	8.5	4	86	6	50	24	3	0	72	0.98
135839--135880	15	2.9	15	83	16	61	23	2	0	73	0.94
135925--136074	81	1.9	81	91	0	246	31	22	14	32	1.93
136706--136911	113	1.8	112	79	12	242	48	6	6	38	1.55
136826--136876	20	2.7	18	80	11	66	58	0	1	39	1.09
136742--136963	113	2.0	114	84	9	294	45	8	7	39	1.61
137043--137121	26	3.0	26	82	12	83	64	1	3	30	1.19
137066--137119	12	4.6	11	79	18	56	64	1	1	31	1.14
137066--137126	24	2.6	24	85	12	74	65	3	1	29	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
150831--151043	103	2.1	103	97	0	399	26	13	23	36	1.92
151060--151127	23	3.0	23	88	0	91	20	26	26	26	1.99
151879--152175	145	2.1	144	98	0	576	34	21	17	25	1.95
152721--152764	2	22.0	2	100	0	88	50	0	0	50	1.00
152954--152986	2	16.5	2	100	0	66	48	0	0	51	1.00
153110--153143	18	1.9	18	88	5	52	23	17	5	52	1.66
153635--153795	64	2.5	63	85	8	200	26	21	18	33	1.96
156942--157256	149	2.1	149	98	0	603	34	21	17	26	1.95
157803--157848	2	23.0	2	100	0	92	50	0	0	50	1.00
158180--158214	18	1.9	18	88	11	54	22	17	5	54	1.64
158704--158828	64	1.9	66	90	6	202	27	20	16	35	1.94
159874--159926	16	3.2	16	72	5	52	30	1	26	41	1.66
160559--160599	22	1.9	21	85	5	55	36	0	2	60	1.10
160554--160621	20	3.3	20	70	15	50	30	1	2	64	1.17
162012--162121	26	4.2	26	97	0	202	29	7	1	61	1.33
162025--162106	19	4.6	18	65	20	55	31	7	0	60	1.24
162388--162448	21	3.2	20	65	26	51	32	4	14	47	1.66
162387--162457	36	2.0	35	94	2	124	32	5	15	46	1.69
166633--166657	13	1.9	13	100	0	50	80	0	12	8	0.92
166933--166965	2	16.5	2	100	0	66	51	0	0	48	1.00
167291--167345	24	2.3	23	84	9	74	67	0	7	25	1.16
167304--167343	12	3.3	12	82	0	53	65	0	5	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
167895--167999	37	2.8	37	86	0	147	30	14	15	40	1.87
168727--170198	106	14.0	106	90	1	2133	23	18	24	34	1.96
171006--171082	22	3.5	22	90	0	127	22	14	25	37	1.92
172103--172143	11	3.6	11	87	6	55	65	4	4	24	1.32
172161--172212	25	2.0	28	88	11	83	69	1	0	28	0.99
172227--172271	12	3.7	12	81	3	54	66	0	4	28	1.11
172835--172935	37	2.8	36	84	3	139	30	12	15	40	1.85
173275--173357	36	2.4	35	87	4	114	32	9	15	42	1.80
173296--173356	21	3.2	21	60	26	53	32	4	14	47	1.66
191933--192015	42	2.0	42	88	4	123	24	15	21	38	1.92

Tables:   1   2   3   4   5   6   7   8