genome.fa.s8192.2.7.7.80.10.50.1000.1.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: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1702141

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1079 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)
1150--1219	11	6.5	11	76	16	60	80	0	17	2	0.84
1140--1220	15	5.2	15	73	21	69	79	0	18	2	0.85
1140--1219	18	4.4	19	77	13	64	80	0	17	2	0.83
1140--1218	8	10.3	7	76	14	68	79	0	17	2	0.84
2357--2627	83	3.3	83	96	0	497	26	13	22	37	1.91
3445--4277	113	7.4	113	93	1	1368	36	15	19	28	1.92
4625--4736	21	5.5	21	79	6	122	41	2	0	56	1.13
4625--4738	6	19.0	6	81	0	120	41	2	0	56	1.13
4625--4738	24	4.6	24	84	6	156	41	2	0	56	1.13
4853--4893	16	2.6	16	92	0	64	9	58	17	14	1.62
6097--6136	12	3.1	13	82	10	55	40	0	0	60	0.97
7635--7674	15	2.5	16	88	8	55	57	0	7	35	1.27
11383--11413	3	10.3	3	100	0	62	35	0	0	64	0.94
11431--11491	29	2.1	29	87	0	86	44	1	16	37	1.58
11438--11502	29	2.2	29	81	5	78	47	1	15	35	1.55
11696--11728	17	1.9	17	100	0	66	36	12	9	42	1.74
12447--12472	13	2.0	13	100	0	52	38	7	15	38	1.76
15342--15548	64	3.2	64	87	2	256	34	20	17	27	1.95
16203--16265	31	2.0	31	90	0	99	17	17	25	39	1.91
18932--19108	64	2.8	64	89	1	248	33	20	18	27	1.96
19763--19887	31	4.0	31	92	0	205	19	16	24	40	1.91
22576--22616	21	2.0	21	90	0	64	24	24	7	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22581--22625	21	2.1	21	84	8	56	24	22	13	40	1.90
22619--22707	20	4.4	20	95	0	160	41	20	19	19	1.91
22903--22966	22	2.9	21	81	9	83	26	35	14	23	1.93
23306--23374	20	3.5	20	82	2	86	11	13	21	53	1.70
25201--25357	20	8.5	20	75	18	135	41	21	19	18	1.91
25224--25378	34	4.4	34	73	13	143	42	20	20	16	1.89
25408--25493	20	4.3	20	96	0	154	27	18	20	32	1.96
25408--25530	20	6.2	20	92	0	147	24	18	22	34	1.96
25794--25916	20	6.2	20	92	0	147	24	17	22	35	1.95
25794--25916	40	3.1	40	89	0	165	24	17	22	35	1.95
25346--26114	386	2.0	386	98	0	1502	30	17	15	35	1.92
26400--26498	21	4.7	21	74	3	83	23	35	19	22	1.96
26397--26518	42	2.9	42	73	7	113	22	35	18	23	1.96
28047--28122	33	2.3	34	90	2	118	43	18	25	13	1.86
30515--30568	24	2.2	24	90	0	81	40	18	20	20	1.91
31409--31455	20	2.3	20	92	0	76	21	19	27	31	1.97
31442--31595	20	7.7	20	84	1	209	21	19	19	39	1.92
31585--31637	21	2.5	21	93	0	88	35	16	24	22	1.95
35920--36103	60	3.1	59	81	6	201	33	21	6	39	1.79
36232--36400	60	2.8	59	76	11	175	36	4	21	37	1.73
40243--40441	102	2.0	102	90	0	317	22	13	24	40	1.89
40379--40499	37	3.3	37	88	6	142	28	7	24	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40417--40499	37	2.2	37	100	0	166	31	6	26	36	1.81
42077--42115	15	2.6	14	80	11	51	7	7	38	46	1.61
46606--46678	26	2.8	26	87	4	67	68	12	1	17	1.27
46618--46673	26	2.4	22	78	21	76	66	14	0	19	1.26
46909--47054	6	22.8	6	73	19	50	73	2	3	19	1.09
46942--46994	14	3.9	14	80	11	56	75	1	0	22	0.90
46956--47015	3	18.7	3	83	10	66	70	0	1	28	0.97
46956--47015	15	3.7	16	84	10	77	70	0	1	28	0.97
49611--49647	17	2.2	17	90	0	56	43	8	0	48	1.32
52390--52435	3	16.3	3	86	8	62	67	2	0	30	1.03
52595--52636	2	21.5	2	90	4	59	57	0	0	42	0.99
52678--52805	8	16.0	8	70	20	65	74	2	3	20	1.07
52662--52706	23	1.9	23	86	4	63	77	4	2	15	1.02
52688--52801	6	18.5	6	68	22	51	75	2	2	19	1.04
52685--52778	9	10.6	9	74	18	56	75	3	1	20	1.00
52691--52727	3	12.7	3	83	16	51	70	0	0	29	0.88
52688--52801	12	10.3	11	70	20	69	75	2	2	19	1.04
52687--52779	17	5.3	17	76	16	66	76	3	1	19	0.99
53762--53864	24	4.3	24	94	0	179	27	20	25	27	1.99
56499--56539	18	2.4	16	88	8	55	29	0	0	70	0.87
67799--67859	3	20.3	3	85	6	70	32	6	0	60	1.22
70050--70175	31	4.1	31	92	0	207	26	19	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70050--70175	62	2.0	62	98	0	243	26	19	19	35	1.95
70865--70922	20	2.9	20	89	0	89	25	17	18	37	1.93
72454--72504	13	3.7	13	80	12	57	64	1	3	29	1.22
81767--81815	3	16.3	3	100	0	98	32	0	0	67	0.91
82160--82207	23	2.1	23	84	7	62	45	4	8	41	1.53
84703--84883	73	2.4	74	86	2	238	24	19	26	29	1.98
90698--90734	16	2.3	16	90	0	56	51	13	10	24	1.73
100755--100987	116	2.0	116	99	0	457	40	10	22	26	1.86
104491--104525	3	11.7	3	100	0	70	0	34	0	65	0.93
106679--106721	20	2.2	20	83	8	52	41	4	4	48	1.44
107332--107374	14	3.1	14	74	12	52	30	2	18	48	1.60
110120--110183	26	2.5	26	75	10	67	43	9	0	46	1.35
110216--110321	29	3.8	28	76	16	96	54	0	3	41	1.18
110216--110350	29	4.8	28	71	13	91	54	0	3	40	1.23
110216--110282	29	2.3	29	89	2	98	58	0	2	38	1.14
110255--110311	22	2.4	25	74	17	66	52	0	3	43	1.18
110198--110350	53	2.8	54	80	9	159	56	0	4	38	1.25
110216--110361	30	5.1	29	69	13	88	54	1	3	40	1.26
110294--110438	77	1.9	77	80	8	172	52	1	7	38	1.39
110391--110471	30	2.7	30	75	9	92	50	0	9	39	1.36
113223--113557	66	5.1	66	86	0	391	18	33	14	33	1.91
114411--114527	57	2.1	57	90	0	180	40	11	12	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114830--114894	22	3.0	22	80	10	73	43	0	1	55	1.09
114858--114948	34	2.8	32	80	12	107	38	1	0	60	1.04
115389--115445	26	2.1	26	83	9	69	45	3	0	50	1.18
118465--118523	28	2.1	28	93	0	100	44	6	13	35	1.71
118716--118752	18	2.0	19	94	5	67	62	5	0	32	1.18
119353--119387	16	2.2	16	89	0	52	42	20	17	20	1.89
133806--133844	20	2.0	20	94	0	69	35	5	17	41	1.72
133858--133897	20	2.0	21	85	5	55	35	5	12	47	1.63
133805--133954	53	2.9	52	93	3	257	32	5	12	49	1.63
133911--133950	20	2.0	20	90	0	62	37	2	12	47	1.55
138523--138561	20	2.0	20	89	0	60	38	5	15	41	1.69
138575--138614	20	2.0	20	95	0	71	37	5	12	45	1.64
143617--143885	137	2.0	136	88	2	396	29	19	16	34	1.94
147739--147773	17	2.1	17	94	0	61	68	0	0	31	0.90
151417--151474	31	1.9	30	82	10	73	39	8	12	39	1.73
155024--155079	2	28.5	2	96	3	105	50	0	0	50	1.00
155915--156046	4	32.2	4	73	14	56	70	3	2	24	1.13
155898--155965	24	2.8	24	80	10	68	76	0	5	17	0.98
155917--156018	12	8.7	11	72	13	62	74	3	2	18	1.10
156472--156559	11	8.5	10	73	19	56	71	1	5	21	1.13
156473--156517	23	2.0	23	95	0	81	71	2	4	22	1.15
156531--156634	21	4.9	21	67	26	60	67	0	4	26	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157192--157292	37	2.7	37	85	0	130	30	14	12	41	1.84
157946--159426	106	14.0	106	91	1	2228	22	18	24	33	1.96
159802--159837	17	2.0	18	89	10	56	38	38	5	16	1.72
160242--160296	22	2.5	22	96	0	101	23	10	27	38	1.88
160912--160963	16	3.5	15	80	19	65	0	9	7	82	0.84
160900--160965	16	4.3	15	79	13	64	1	9	7	81	0.92
160913--160966	18	2.9	18	84	10	65	0	9	7	83	0.82
160912--160978	31	2.3	29	82	12	75	0	11	8	79	0.95
162459--162487	15	1.9	15	100	0	58	17	20	27	34	1.95
165244--165338	24	3.8	23	77	13	73	73	4	4	17	1.15

Tables:   1   2   3   4   5   6   7   8   9