genome.fa.s9587.2.7.7.80.10.50.1000.20.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  20  of  29  ( 3457 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)
4348030--4348076	24	2.0	24	87	8	69	38	21	14	25	1.92
4348769--4348997	20	11.4	20	87	1	235	19	17	26	36	1.94
4354326--4354479	21	7.4	21	69	17	99	37	22	18	22	1.94
4354322--4354500	42	4.3	42	94	1	308	35	23	18	22	1.95
4354347--4354524	21	8.6	21	74	13	154	34	25	18	21	1.96
4366243--4366485	123	2.0	123	81	3	283	31	15	23	30	1.95
4367728--4367870	72	1.9	75	87	5	211	25	18	16	39	1.91
4379429--4379490	33	1.9	31	83	6	79	14	3	30	51	1.58
4381606--4381647	21	2.0	22	90	4	68	16	23	23	35	1.95
4382122--4382176	13	4.2	13	75	13	58	49	12	3	34	1.59
4382162--4382260	33	3.0	33	94	1	164	45	15	7	32	1.73
4382255--4382294	21	1.9	21	94	0	71	47	7	15	30	1.72
4385764--4385814	19	2.6	20	90	3	77	43	23	17	15	1.88
4385764--4386041	20	13.6	20	75	8	112	38	19	23	18	1.93
4385868--4386039	40	4.2	40	82	6	191	36	16	26	20	1.94
4385868--4386041	83	2.1	83	91	0	276	35	17	26	20	1.95
4386032--4386071	20	2.0	20	90	0	62	52	17	17	12	1.74
4385884--4386059	40	4.3	40	74	5	133	39	15	25	19	1.91
4386149--4386214	6	11.5	6	96	1	102	28	54	16	0	1.42
4386905--4386941	6	6.5	6	96	3	60	0	16	54	29	1.43
4387029--4387327	20	14.6	20	77	8	154	18	23	19	39	1.93
4387031--4387222	40	4.7	40	81	5	231	20	25	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4387039--4387222	83	2.2	83	93	0	305	20	26	17	35	1.95
4387236--4387290	21	2.7	21	91	2	85	10	18	18	52	1.73
4387277--4387327	19	2.6	20	90	3	77	15	17	23	43	1.88
4389400--4389432	2	16.5	2	100	0	66	48	0	0	51	1.00
4389790--4389827	14	2.5	15	83	16	51	39	2	0	57	1.12
4390411--4390468	18	3.1	18	76	16	55	20	10	0	68	1.18
4390667--4390712	19	2.3	20	92	7	85	60	34	0	4	1.16
4391039--4391586	182	3.0	182	88	1	776	27	14	13	44	1.83
4391556--4391639	41	2.0	41	90	0	132	33	14	5	46	1.69
4398323--4398491	84	2.0	83	98	1	329	24	17	28	28	1.98
4404229--4404254	10	2.6	10	100	0	52	38	7	0	53	1.30
4419132--4419285	65	2.4	65	88	2	202	31	18	20	30	1.96
4429398--4429437	17	2.4	17	91	0	62	32	20	25	22	1.98
4429761--4429806	24	2.0	23	82	4	56	54	10	6	28	1.60
4429931--4430170	42	5.6	43	78	8	213	50	6	17	26	1.70
4429950--4430186	128	1.8	129	82	6	302	48	6	18	26	1.71
4431395--4431644	48	5.2	48	79	4	254	16	24	27	32	1.96
4433867--4433944	35	2.2	35	90	0	120	25	32	14	28	1.94
4434530--4434574	21	2.1	22	84	8	58	17	4	13	64	1.44
4436392--4436436	23	2.0	23	90	0	72	42	8	15	33	1.78
4436337--4436733	158	2.5	156	90	1	634	40	13	13	31	1.84
4437032--4437111	2	40.5	2	97	2	153	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4437757--4437799	20	2.2	20	86	0	59	34	13	18	32	1.90
4443172--4443214	20	2.2	20	86	0	59	34	13	18	32	1.90
4444600--4444635	2	18.0	2	100	0	72	50	0	0	50	1.00
4446389--4447324	199	4.8	198	84	7	1180	32	14	12	40	1.83
4446611--4447315	187	3.7	187	84	9	866	32	14	12	40	1.84
4453526--4453571	21	2.2	21	88	0	65	30	10	19	39	1.86
4455914--4455959	16	2.6	19	76	20	62	17	0	28	54	1.43
4456221--4456285	34	2.1	31	83	13	80	38	3	27	30	1.72
4457833--4457889	24	2.4	24	85	2	71	49	14	1	35	1.53
4457839--4457896	24	2.4	25	80	11	75	50	13	3	32	1.59
4459312--4459345	15	2.3	15	94	0	59	23	32	2	41	1.69
4460486--4460533	15	2.9	16	80	17	62	27	2	43	27	1.66
4460832--4462015	191	6.1	199	89	2	1660	30	17	14	37	1.89
4460853--4462146	191	6.7	192	85	6	1562	30	16	14	38	1.89
4465727--4465776	19	2.6	19	84	6	66	46	30	2	22	1.63
4466771--4466911	66	2.1	67	74	10	146	24	40	2	33	1.67
4467019--4467049	15	2.1	15	93	0	53	12	58	6	22	1.58
4470459--4470494	18	2.0	18	88	0	54	27	5	16	50	1.68
4470207--4470680	180	2.6	180	89	3	671	28	16	12	43	1.83
4473987--4474046	31	1.9	31	96	0	111	23	15	18	43	1.87
4477908--4478032	47	2.6	49	77	7	139	32	13	21	32	1.92
4478014--4478211	46	4.1	46	77	12	198	40	15	21	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4478109--4478138	10	2.9	10	95	5	51	20	20	26	33	1.97
4478062--4478181	56	2.1	56	85	0	177	38	14	22	25	1.91
4478021--4478211	102	1.9	102	91	0	310	40	14	21	23	1.90
4485396--4485461	25	2.5	27	80	7	73	62	10	1	25	1.37
4485621--4485654	6	5.8	6	89	3	52	67	11	2	17	1.34
4486188--4486432	124	2.0	124	88	0	364	38	16	20	25	1.92
4505318--4505703	214	1.8	214	95	0	700	40	10	21	27	1.86
4511434--4511583	25	6.0	25	97	0	282	36	0	16	46	1.52
4516661--4516704	21	2.1	21	87	4	63	38	15	0	45	1.47
4519248--4519442	29	6.9	28	79	6	187	34	5	21	39	1.75
4519248--4519442	28	6.9	28	81	6	205	34	5	21	39	1.75
4519240--4519442	55	3.6	57	80	7	189	33	4	20	40	1.74
4520148--4520236	24	3.7	24	76	0	97	26	15	15	41	1.88
4520144--4520264	48	2.5	48	89	0	170	25	17	15	41	1.89
4520144--4520260	24	4.9	24	74	0	90	24	17	16	41	1.90
4526521--4526696	29	6.1	28	77	12	144	34	4	18	42	1.71
4526521--4526696	57	3.1	57	86	4	239	34	4	18	42	1.71
4526529--4526696	86	2.0	86	82	4	205	35	4	19	41	1.72
4527398--4527518	24	5.0	24	76	0	107	26	17	15	40	1.89
4527398--4527518	48	2.5	48	90	0	179	26	17	15	40	1.89
4534459--4534602	64	2.2	63	79	6	146	29	17	22	29	1.97
4534569--4534621	20	2.7	20	96	0	97	20	16	28	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4542185--4542218	17	2.1	16	88	5	50	14	8	0	76	1.01
4547106--4547137	14	2.3	14	100	0	64	12	31	28	28	1.93
4548571--4548613	20	2.1	21	87	8	63	18	13	0	67	1.23
4548570--4548619	20	2.5	20	75	15	59	18	18	0	64	1.30
4552437--4552470	17	2.1	16	88	5	50	14	8	0	76	1.01
4553000--4553039	21	1.9	21	85	10	55	35	10	2	52	1.48
4555470--4555837	126	2.8	126	84	11	413	45	9	8	36	1.68
4555973--4556019	23	2.0	24	87	4	69	65	2	0	31	1.04
4557562--4557589	2	14.0	2	100	0	56	50	0	0	50	1.00
4557778--4558389	76	8.0	76	94	0	1028	33	22	22	22	1.98
4559072--4559122	22	2.3	22	86	0	75	41	13	13	31	1.84
4561330--4561555	114	2.0	114	91	0	371	30	20	15	33	1.94
4568254--4568478	64	3.5	64	80	7	210	32	20	20	26	1.97
4568787--4568833	12	3.9	12	94	0	76	36	2	23	38	1.67
4568978--4569054	15	5.1	15	100	0	154	14	19	32	33	1.92
4575257--4575398	64	2.2	63	82	9	164	31	18	21	28	1.97
4575771--4575817	12	3.9	12	94	0	76	36	2	23	38	1.67
4575962--4576023	15	4.1	15	91	0	106	16	20	30	32	1.95
4576007--4576062	22	2.8	19	75	17	60	26	17	28	26	1.98
4577095--4577148	16	3.6	15	83	14	67	72	0	1	25	0.95
4577654--4578021	126	2.8	127	83	11	424	46	9	8	34	1.68
4578157--4578203	23	2.0	24	87	4	69	65	2	0	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4579756--4579802	3	15.3	3	82	4	58	61	0	0	38	0.96
4585446--4585542	38	2.6	38	96	1	178	32	16	6	44	1.73
4586793--4586841	20	2.5	20	86	6	64	30	14	24	30	1.94
4587973--4588029	19	3.0	20	78	17	66	42	1	0	56	1.10
4588613--4588662	18	2.7	19	84	3	57	46	2	0	52	1.12
4589301--4589335	13	2.7	13	86	0	52	37	5	2	54	1.39
4589644--4589689	24	2.0	24	82	4	58	58	2	2	36	1.22
4590341--4590477	62	2.2	62	89	0	220	31	16	26	26	1.96
4591038--4591077	3	13.0	3	89	5	62	30	0	0	70	0.88
4591035--4591073	12	3.2	12	92	0	69	25	0	0	74	0.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29