genome.fa.s761.2.7.7.80.10.50.1000.16.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

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

This is table  16  of  23  ( 2686 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)
3935079--3935144	1	66.0	1	73	0	51	4	6	3	86	0.78
3935079--3935147	11	5.7	12	77	10	61	4	7	2	85	0.81
3935127--3935157	15	2.1	14	94	5	53	6	16	0	77	0.97
3942926--3943040	39	2.9	38	84	5	140	17	26	24	32	1.97
3942927--3943068	39	3.6	39	79	7	126	20	24	21	33	1.97
3946944--3946975	16	2.0	16	93	0	55	59	0	6	34	1.23
3947882--3947907	12	2.2	12	100	0	52	7	0	30	61	1.24
3948616--3948644	14	2.1	14	100	0	58	55	13	6	24	1.63
3948767--3948804	15	2.5	15	91	4	58	47	5	0	47	1.24
3948883--3948930	24	2.0	24	88	4	71	37	10	8	43	1.69
3964776--3964800	10	2.5	10	100	0	50	52	20	8	20	1.71
3973467--3973760	147	2.0	147	99	0	579	37	11	21	30	1.89
3981618--3981685	32	2.1	34	84	10	90	22	30	14	32	1.94
3981964--3982005	21	2.0	21	90	0	66	26	30	21	21	1.98
3982112--3982153	19	2.2	19	86	0	57	35	9	14	40	1.78
3985320--3985384	30	2.1	31	86	8	89	40	15	7	36	1.76
3993213--3993251	21	1.9	20	84	5	51	69	20	0	10	1.17
3996586--3996627	9	4.7	9	90	0	66	0	21	2	76	0.90
3998229--3998256	14	2.0	14	100	0	56	21	7	28	42	1.79
3999877--3999952	36	2.1	36	85	7	100	48	1	2	47	1.24
4000092--4000136	20	2.4	18	82	13	63	20	24	6	48	1.73
4000102--4000148	20	2.3	20	88	0	67	23	19	6	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4006278--4006403	54	2.3	54	91	2	200	30	19	22	27	1.97
4006785--4006844	21	2.9	21	87	0	75	41	5	21	31	1.75
4007000--4007052	23	2.3	23	86	0	70	28	15	22	33	1.94
4013189--4013319	54	2.4	54	88	3	183	32	17	22	27	1.97
4013867--4013923	21	2.7	21	86	5	80	22	14	29	33	1.93
4015501--4015571	17	4.2	17	76	7	63	40	8	14	36	1.76
4017982--4018044	8	7.5	8	74	15	56	1	19	1	77	0.93
4017982--4018045	9	7.4	9	75	21	66	1	18	1	78	0.92
4017999--4018045	19	2.5	19	82	10	60	2	17	2	78	0.94
4019451--4019516	17	3.8	17	78	6	53	45	9	12	33	1.73
4021109--4021142	15	2.3	15	100	0	68	17	11	20	50	1.77
4023670--4023699	15	2.0	15	100	0	60	20	13	20	46	1.83
4027528--4027658	62	2.1	62	84	5	178	31	25	4	38	1.76
4029481--4029662	35	5.0	34	77	11	141	43	3	9	42	1.54
4029501--4029624	38	3.4	36	83	7	153	45	3	6	45	1.45
4029501--4029662	38	4.4	34	82	8	137	44	3	9	43	1.52
4029520--4029663	38	3.9	38	82	9	140	44	3	8	43	1.51
4029631--4029682	20	2.4	22	87	9	72	44	3	9	42	1.55
4029608--4029747	58	2.3	60	83	10	162	43	4	9	42	1.56
4029706--4029755	22	2.3	22	78	0	55	44	6	4	46	1.47
4029728--4029789	29	2.1	29	82	11	74	38	1	6	53	1.37
4029785--4030278	5	98.8	5	99	0	961	20	19	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4030285--4030335	26	2.1	23	85	10	66	23	3	5	66	1.30
4031698--4031727	5	5.8	5	96	4	51	0	20	0	80	0.72
4041194--4041254	23	2.7	23	78	0	77	26	26	26	21	1.99
4053144--4053186	19	2.3	19	91	0	68	27	6	9	55	1.57
4058717--4059392	134	5.1	134	88	2	952	32	19	18	28	1.96
4059011--4059205	41	4.5	42	69	18	132	30	21	19	28	1.98
4058717--4059392	267	2.5	266	89	3	1002	32	19	18	28	1.96
4060044--4060392	45	7.9	45	78	5	302	41	18	15	24	1.89
4060050--4060661	76	7.4	87	79	7	355	41	17	16	24	1.90
4060172--4060370	87	2.3	87	86	2	292	41	19	14	25	1.89
4060172--4061160	76	12.6	82	80	8	728	41	16	17	24	1.89
4060311--4061164	38	22.2	38	82	4	946	41	16	17	24	1.89
4062946--4063032	7	11.9	7	70	11	59	8	13	1	77	1.05
4066724--4066889	85	2.0	83	83	11	212	29	18	18	33	1.95
4066909--4066951	2	21.5	2	100	0	86	48	0	0	51	1.00
4070874--4070924	24	2.1	25	81	3	59	29	3	60	5	1.38
4073898--4073926	2	15.0	2	92	7	51	51	0	0	48	1.00
4083473--4083498	2	13.0	2	100	0	52	50	0	0	50	1.00
4083990--4084017	2	14.0	2	100	0	56	50	0	0	50	1.00
4084276--4084551	80	3.4	81	77	6	238	32	16	19	31	1.94
4084288--4084597	81	3.8	81	78	7	236	31	17	19	31	1.95
4084837--4084917	21	3.9	21	80	9	85	12	45	14	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4085049--4085136	25	3.5	25	98	0	167	47	3	26	22	1.67
4090646--4090689	21	2.1	21	86	0	61	25	0	27	47	1.52
4093875--4093937	3	21.3	3	87	9	94	33	1	1	63	1.13
4093941--4093971	2	16.0	2	93	6	55	51	0	0	48	1.00
4101255--4101443	20	9.6	18	70	21	96	77	1	17	3	0.97
4101252--4101443	22	8.7	22	70	25	104	77	1	18	3	0.99
4101255--4101451	7	27.6	7	71	19	122	77	1	17	3	0.97
4101255--4101452	55	3.5	53	76	18	159	77	1	17	3	0.99
4101301--4101437	32	4.4	31	78	16	92	77	1	17	3	0.99
4101335--4101451	47	2.5	47	78	13	127	76	1	17	3	1.00
4103547--4103585	17	2.3	17	95	0	69	48	2	25	23	1.63
4103664--4104470	91	8.9	91	90	0	1283	37	16	21	24	1.93
4104460--4104546	40	2.2	40	85	4	122	31	27	16	25	1.96
4104816--4104883	8	8.2	8	75	24	54	36	1	0	61	1.05
4104816--4104880	23	2.8	22	86	9	76	36	1	0	61	1.05
4109066--4109141	3	26.0	3	94	5	138	67	0	0	32	0.91
4109345--4109539	39	5.0	39	85	3	250	23	21	11	43	1.85
4109359--4109539	77	2.3	77	88	0	263	22	21	12	43	1.85
4109598--4110078	45	10.6	45	88	2	585	29	19	22	28	1.98
4109598--4110078	135	3.5	135	89	2	687	29	19	22	28	1.98
4110738--4110811	22	3.4	22	90	3	114	37	13	12	36	1.82
4110753--4110819	22	3.0	22	85	8	84	40	11	13	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4111182--4111289	54	2.0	54	92	0	180	25	25	14	33	1.95
4115731--4115814	42	2.0	42	81	4	98	21	17	11	48	1.79
4122872--4122910	19	2.1	18	85	9	51	35	15	7	41	1.76
4123062--4123152	46	1.9	49	82	6	116	29	20	14	35	1.92
4124236--4124260	10	2.5	10	100	0	50	92	0	0	8	0.40
4125844--4125910	3	23.0	3	80	6	75	62	0	2	34	1.10
4128492--4128570	23	3.4	23	92	0	131	45	25	13	15	1.83
4132616--4132703	35	2.5	36	90	1	133	34	21	15	28	1.94
4132630--4132717	36	2.6	34	85	8	124	36	19	15	28	1.93
4133563--4133738	88	2.0	88	97	0	334	47	14	16	22	1.82
4138592--4138625	17	2.1	16	88	5	50	14	8	0	76	1.01
4144980--4145022	20	2.1	21	87	8	63	18	13	0	67	1.23
4144979--4145028	20	2.5	20	75	15	59	18	18	0	64	1.30
4148853--4148886	17	2.1	16	88	5	50	14	8	0	76	1.01
4152340--4152376	16	2.3	16	100	0	74	32	32	18	16	1.93
4158465--4158532	13	5.2	13	94	0	109	26	22	17	33	1.96
4158504--4158669	85	2.0	85	82	7	203	31	21	17	29	1.96
4166133--4166186	26	2.1	26	92	0	90	22	11	29	37	1.89
4184650--4184699	26	1.9	26	87	0	73	24	12	30	34	1.91
4191552--4191601	21	2.3	21	96	3	91	38	0	22	40	1.54
4202375--4202579	59	3.5	59	92	2	319	26	16	23	33	1.95
4206617--4206658	20	2.1	20	86	8	59	33	2	11	52	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4206980--4207101	60	2.0	60	92	1	201	27	13	21	37	1.91
4207853--4207897	19	2.3	19	92	3	72	20	15	4	60	1.52
4210603--4210642	21	1.9	21	89	0	62	50	10	15	25	1.74
4210642--4210674	13	2.7	13	90	9	52	69	0	9	21	1.15
4213213--4213258	23	2.0	24	82	4	58	60	8	2	28	1.38
4214406--4214464	3	20.0	3	85	3	84	62	0	0	37	0.95
4214827--4215384	122	4.6	121	90	3	809	26	19	15	38	1.91
4215784--4215837	22	2.5	22	96	0	99	37	12	16	33	1.87
4216204--4216382	54	3.3	54	83	2	200	31	21	12	33	1.91
4220620--4220645	7	3.7	7	100	0	52	0	23	0	76	0.78

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