genome.fa.s8495.2.7.7.80.10.50.1000.18.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  18  of  21  ( 2505 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)
4187404--4187437	13	2.5	14	85	4	52	67	0	11	20	1.21
4195355--4195390	14	2.6	14	91	4	56	50	2	11	36	1.53
4197174--4197204	15	2.1	15	93	0	53	35	0	9	54	1.33
4197334--4197383	15	3.2	15	72	10	55	22	30	28	20	1.98
4197333--4197402	32	2.2	32	86	0	104	22	28	25	22	1.99
4197428--4197482	15	3.4	16	80	7	67	29	30	27	12	1.93
4198456--4198571	57	2.0	57	80	9	130	21	8	10	59	1.57
4203055--4203156	42	2.5	41	76	9	109	32	23	16	27	1.96
4203319--4203425	42	2.6	40	74	11	99	35	20	18	25	1.95
4202788--4203849	276	3.9	276	85	6	1379	36	18	15	29	1.92
4202786--4203849	550	1.9	550	86	2	1528	36	18	15	29	1.92
4205874--4205925	9	5.6	9	74	17	52	1	21	0	76	0.87
4205886--4205925	14	2.8	14	84	3	53	2	22	0	75	0.93
4209857--4209884	2	14.0	2	100	0	56	50	0	0	50	1.00
4241599--4241636	19	2.0	19	100	0	76	36	26	26	10	1.89
4249181--4249228	24	2.0	23	84	11	62	64	2	4	29	1.23
4253745--4254622	80	10.9	79	82	5	854	23	18	23	33	1.97
4253743--4254620	240	3.6	239	83	4	1061	23	18	23	33	1.97
4253743--4254622	160	5.5	161	83	5	1003	23	18	23	33	1.97
4259535--4259646	11	9.2	12	69	16	61	75	4	2	16	1.08
4259564--4259694	5	24.4	5	74	19	61	74	3	8	12	1.18
4259567--4259619	26	2.0	27	88	7	81	71	7	5	15	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4259535--4259640	30	3.4	29	72	19	88	75	4	2	16	1.09
4260873--4260917	5	9.0	5	92	0	63	57	4	0	37	1.19
4260925--4260951	13	2.1	13	100	0	54	62	0	0	37	0.95
4260956--4261344	37	10.8	36	79	12	336	47	5	3	43	1.44
4261201--4261347	76	1.9	80	87	8	223	51	6	3	39	1.44
4261710--4261741	16	1.9	17	93	6	57	53	25	9	12	1.68
4261859--4261961	43	2.4	43	77	3	109	36	19	24	19	1.94
4261886--4261982	43	2.3	43	79	0	104	28	18	26	25	1.98
4261945--4262128	43	4.3	43	79	5	167	25	22	21	30	1.98
4262452--4262528	21	3.7	21	78	0	73	5	37	15	41	1.70
4266109--4266184	34	2.3	33	85	14	104	30	28	9	31	1.88
4267278--4267302	2	12.5	2	100	0	50	48	0	0	52	1.00
4268005--4268078	24	2.9	24	77	14	85	28	2	0	68	1.03
4267995--4268075	28	2.9	29	83	9	105	27	2	0	70	1.00
4268003--4268059	8	7.2	8	77	18	66	26	1	0	71	0.95
4270124--4270263	68	2.0	69	97	1	264	22	15	21	40	1.91
4270568--4270605	20	1.9	20	94	0	67	42	15	13	28	1.85
4278962--4278996	17	2.0	18	88	5	54	28	31	14	25	1.95
4288225--4288271	22	2.2	22	88	3	69	31	0	14	53	1.42
4288315--4288490	60	2.9	60	80	9	198	32	21	5	40	1.76
4288631--4288800	60	2.8	60	80	7	166	45	5	18	30	1.72
4307775--4308000	116	1.9	119	85	4	316	54	3	11	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4307969--4308081	29	3.9	29	87	4	140	58	1	5	34	1.31
4307963--4308078	57	2.0	57	83	6	146	57	1	5	35	1.31
4308567--4308613	21	2.2	21	100	0	94	29	14	12	42	1.83
4310656--4310749	35	2.7	35	81	0	116	32	14	21	30	1.94
4311494--4311580	46	1.9	45	83	2	111	25	10	5	58	1.53
4315751--4315784	17	1.9	18	94	5	61	67	17	14	0	1.23
4321003--4321045	17	2.5	17	84	0	50	44	25	6	23	1.78
4326970--4327212	40	5.7	42	74	12	192	22	18	34	25	1.96
4326868--4327076	40	5.0	40	74	12	125	25	18	31	25	1.98
4326915--4327202	130	2.2	129	90	1	459	24	17	31	25	1.97
4326970--4327205	43	5.6	40	73	13	156	23	18	33	25	1.97
4327232--4327301	28	2.5	28	83	4	79	47	14	14	24	1.81
4327613--4327690	29	2.7	29	80	4	77	46	10	12	30	1.75
4327613--4327673	29	2.1	30	84	3	79	45	9	9	34	1.70
4328443--4328488	14	3.4	14	85	8	60	23	2	23	50	1.61
4332045--4332106	32	1.9	32	86	0	88	61	9	12	16	1.56
4347449--4347506	26	2.2	27	78	3	64	58	3	3	34	1.32
4348368--4348405	19	2.0	20	94	5	69	44	2	0	52	1.14
4347843--4349917	725	2.9	710	80	9	2368	37	11	14	36	1.82
4356094--4356315	43	5.2	43	73	8	175	37	19	19	23	1.94
4356098--4356315	84	2.6	84	78	8	226	36	19	19	23	1.95
4360813--4360981	81	2.1	82	88	3	252	33	16	21	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4360813--4360981	41	4.1	41	89	1	250	33	16	21	28	1.95
4361095--4361150	18	3.1	18	100	0	112	32	17	23	26	1.97
4366126--4366209	41	2.0	41	100	0	168	19	20	16	44	1.87
4381925--4382322	133	3.0	130	82	2	463	40	16	10	32	1.81
4382765--4382840	26	3.0	25	88	5	109	68	10	6	14	1.38
4382799--4382917	63	1.9	63	85	3	168	57	10	12	19	1.62
4384667--4384737	28	2.6	28	77	6	74	33	7	2	56	1.41
4388857--4388895	16	2.4	16	91	0	60	28	20	5	46	1.72
4389790--4389817	11	2.5	11	100	0	56	35	10	25	28	1.89
4396222--4396248	7	3.9	7	100	0	54	85	0	14	0	0.61
4397487--4397768	92	3.0	92	84	7	392	32	15	19	32	1.93
4397673--4397888	115	1.9	114	89	2	335	35	13	20	30	1.91
4398577--4399141	116	4.9	115	93	1	877	36	12	19	30	1.90
4399074--4399208	40	3.4	40	71	11	134	45	9	22	22	1.81
4399074--4399219	78	1.9	78	94	0	256	43	10	21	23	1.84
4399137--4399466	123	2.7	121	89	5	483	41	14	16	27	1.87
4401780--4401826	18	2.5	19	82	3	60	72	0	6	21	1.07
4403478--4403829	132	2.7	133	83	3	435	32	16	19	31	1.94
4403481--4403875	132	3.0	132	80	6	426	31	16	19	32	1.94
4404332--4404454	42	3.0	42	78	3	106	32	22	18	26	1.97
4405952--4406035	44	1.9	44	97	0	159	33	19	13	34	1.90
4412537--4412880	131	2.6	132	89	1	523	39	16	11	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4420442--4420520	39	2.0	39	100	0	158	15	25	27	31	1.95
4431601--4431735	32	4.2	32	80	0	135	33	21	11	34	1.89
4441225--4441270	20	2.3	19	85	14	58	50	8	13	28	1.70
4451485--4451530	20	2.3	19	85	14	58	50	8	15	26	1.73
4458852--4458920	36	1.9	36	82	5	86	27	27	11	33	1.91
4466423--4466711	117	2.5	116	84	4	366	27	19	14	38	1.90
4466682--4466897	50	4.6	48	76	8	203	37	17	18	26	1.93
4466683--4466856	94	1.9	92	84	2	231	38	17	18	25	1.92
4466683--4466894	45	4.6	45	75	12	160	37	17	17	26	1.93
4467108--4467271	45	3.7	45	74	7	136	35	18	18	28	1.94
4473201--4473227	14	1.9	14	100	0	54	81	0	18	0	0.69
4473614--4473695	41	2.0	41	100	0	164	29	17	7	46	1.74
4477286--4477340	15	3.6	15	82	4	56	10	30	0	58	1.33
4480542--4480644	51	2.0	51	100	0	206	28	11	25	34	1.91
4483398--4483430	17	1.9	18	88	11	52	45	0	12	42	1.41
4484953--4485268	55	5.7	55	85	1	409	34	12	18	34	1.89
4484953--4485227	111	2.5	110	86	0	388	33	12	20	34	1.90
4484953--4485265	166	1.9	165	85	2	439	34	12	19	33	1.89
4488311--4488335	12	2.1	12	100	0	50	24	24	8	44	1.80
4491050--4491110	27	2.3	27	94	0	104	31	9	13	45	1.75
4491408--4491458	19	2.5	22	90	9	81	39	15	15	29	1.89
4491816--4492129	55	5.7	55	90	1	472	34	11	18	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4492984--4493027	9	4.9	9	81	18	56	2	22	0	75	0.92
4492984--4493028	17	2.5	18	89	7	65	2	24	0	73	0.95
4492990--4493056	8	8.7	7	76	14	53	2	20	0	76	0.92
4507900--4508027	47	2.7	47	80	2	141	32	10	10	46	1.72
4511820--4511880	17	3.4	17	71	18	52	78	1	6	13	1.01
4511825--4511858	10	3.5	10	92	4	52	82	0	11	5	0.83
4511875--4512008	43	3.1	43	78	16	123	62	2	2	31	1.25
4511893--4512003	44	2.5	42	84	11	134	63	2	2	31	1.23
4512557--4512631	37	2.0	37	100	0	150	30	16	13	40	1.86
4513205--4515056	84	22.4	84	78	5	1834	25	19	24	30	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21