genome.fa.s18.2.7.7.80.10.50.1000.10.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: NW_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  10  of  11  ( 1249 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)
3543356--3543497	74	1.9	74	94	0	248	40	4	8	46	1.54
3543354--3543512	74	2.1	74	89	0	246	40	5	7	45	1.56
3543580--3543624	15	3.1	14	81	18	56	44	0	0	55	0.99
3543588--3543646	22	2.7	22	79	10	68	38	0	0	61	0.96
3545716--3545847	44	3.0	43	84	7	153	37	23	13	25	1.92
3555028--3555067	12	3.2	12	96	3	71	22	0	25	52	1.47
3556906--3556936	6	5.3	6	92	7	55	80	0	19	0	0.71
3568837--3568933	26	3.8	26	71	8	90	40	12	13	34	1.82
3568831--3568928	51	1.9	51	91	0	160	40	12	12	34	1.80
3574792--3574826	16	2.1	17	89	5	54	60	2	37	0	1.12
3584589--3584628	21	2.0	21	85	5	55	35	15	15	35	1.88
3590165--3590195	2	15.5	2	100	0	62	48	0	0	51	1.00
3601449--3601519	29	2.5	28	86	4	97	42	14	7	36	1.72
3601363--3601525	28	5.6	28	74	13	143	40	10	8	40	1.70
3606896--3606940	21	2.2	20	84	11	56	26	2	0	71	0.98
3610826--3611029	73	2.8	74	77	2	205	25	20	13	39	1.90
3613343--3613382	20	2.0	20	85	0	53	35	20	7	37	1.81
3617945--3618122	72	2.4	74	78	4	200	28	19	11	40	1.87
3619301--3619520	70	3.1	70	91	3	336	44	16	16	22	1.86
3621827--3621901	37	2.0	37	100	0	150	30	13	24	32	1.93
3628683--3628720	20	1.9	20	94	0	67	60	7	21	10	1.54
3628682--3628727	20	2.3	19	85	10	65	60	6	23	8	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3633027--3633074	21	2.3	20	82	7	51	60	6	2	31	1.33
3635513--3635554	21	2.0	20	86	4	57	40	0	7	52	1.29
3635503--3635547	23	2.0	23	86	8	65	42	0	6	51	1.28
3639556--3639714	49	3.2	49	81	1	185	28	8	24	37	1.85
3639552--3639736	49	3.8	49	81	2	167	28	9	23	38	1.86
3645449--3645489	22	2.0	22	85	9	59	56	7	2	34	1.40
3649153--3649191	19	2.0	20	85	5	53	15	33	5	46	1.68
3650922--3650949	2	14.0	2	100	0	56	50	0	0	50	1.00
3654929--3654979	23	2.1	24	86	13	70	41	0	0	58	0.98
3656428--3656479	2	26.0	2	100	0	104	50	0	50	0	1.00
3662884--3662927	21	2.2	20	83	4	52	45	4	4	45	1.44
3663740--3663764	12	2.1	12	100	0	50	76	16	0	8	1.02
3664189--3664218	15	2.0	15	100	0	60	40	20	33	6	1.78
3665112--3665188	31	2.5	31	80	4	102	48	9	16	25	1.76
3671958--3672112	73	2.1	73	82	0	184	38	16	19	25	1.92
3674366--3674390	11	2.3	11	100	0	50	36	0	24	40	1.55
3678355--3678475	60	2.0	60	83	0	152	26	15	32	25	1.96
3679965--3679997	17	1.9	17	88	11	50	42	12	3	42	1.57
3680139--3680308	29	5.8	28	76	7	142	38	12	10	38	1.79
3681678--3681719	21	1.9	23	90	9	70	61	9	14	14	1.55
3684401--3684476	21	3.6	21	90	0	107	26	15	18	39	1.91
3685004--3685070	28	2.4	28	89	0	98	31	11	20	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3685065--3685211	34	4.3	34	81	6	118	26	10	31	31	1.91
3688106--3688188	26	3.1	26	63	24	64	25	16	6	51	1.67
3688237--3688270	14	2.4	14	90	0	59	44	32	0	23	1.54
3696270--3696325	20	2.8	20	84	10	62	37	16	17	28	1.91
3697985--3698036	21	2.5	21	90	0	86	36	17	9	36	1.82
3709505--3709547	12	3.8	12	81	6	54	51	13	0	34	1.42
3711358--3711415	24	2.2	27	85	11	77	77	3	5	13	1.07
3715643--3715682	15	2.4	18	80	12	50	45	0	5	50	1.23
3716937--3716966	15	1.9	15	93	6	51	70	0	10	20	1.16
3740480--3740517	20	1.9	20	94	0	67	28	7	21	42	1.81
3744932--3745136	77	2.7	77	81	6	220	34	10	16	38	1.83
3747186--3747347	73	2.2	73	81	4	184	38	17	20	22	1.93
3757226--3757251	7	3.7	7	100	0	52	88	0	0	11	0.52
3758469--3758507	20	2.0	21	90	10	64	51	23	7	17	1.71
3759221--3759250	16	1.9	15	93	6	51	83	13	0	3	0.77
3760812--3761264	183	2.5	181	84	2	536	36	15	12	36	1.84
3761615--3761656	20	2.2	19	91	4	66	38	2	0	59	1.10
3767878--3767909	3	10.7	3	100	0	64	34	0	31	34	1.58
3768927--3768965	2	19.5	2	100	0	78	51	0	0	48	1.00
3768965--3768997	2	16.5	2	100	0	66	51	0	48	0	1.00
3771531--3771599	15	4.6	15	94	0	111	33	7	26	33	1.84
3771529--3771607	30	2.6	30	87	0	131	34	8	26	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3771840--3771979	21	6.3	22	65	22	69	32	1	0	65	1.07
3771827--3771979	27	5.7	27	69	20	81	32	1	1	65	1.09
3771740--3771960	58	3.9	55	75	16	209	34	2	1	61	1.17
3773984--3774031	18	2.7	18	86	0	60	58	18	8	14	1.61
3780164--3780212	22	2.3	21	76	16	55	48	2	0	48	1.12
3780170--3780213	22	2.0	22	86	8	63	50	0	0	50	1.00
3781492--3781554	29	2.2	29	79	0	72	41	11	12	34	1.79
3783506--3783545	20	2.0	20	85	0	53	40	0	2	57	1.12
3800796--3800820	2	12.5	2	100	0	50	48	0	0	52	1.00
3801509--3801552	21	2.0	22	91	4	72	34	0	4	61	1.16
3807591--3807741	78	1.9	78	81	4	180	37	20	16	25	1.93
3809028--3809053	2	13.0	2	100	0	52	0	50	0	50	1.00
3813945--3813986	22	1.9	22	95	0	75	52	11	16	19	1.74
3820699--3821002	153	2.0	151	96	1	563	35	12	17	34	1.88
3836369--3836405	19	1.9	19	88	0	56	81	0	8	10	0.89
3838219--3838266	25	1.9	25	82	0	60	35	14	6	43	1.71
3842442--3842485	2	22.0	2	95	0	79	50	2	0	47	1.13
3850063--3850092	2	15.0	2	100	0	60	0	0	50	50	1.00
3852112--3852166	28	2.0	28	82	7	67	25	5	23	45	1.74
3862138--3862345	75	2.9	74	86	5	266	37	12	16	33	1.86
3864121--3864149	5	6.0	5	96	4	51	62	0	0	37	0.96
3864118--3864152	15	2.5	14	86	13	54	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864122--3864158	15	2.5	15	86	0	56	70	0	0	29	0.88
3876662--3876699	20	1.9	20	94	0	67	36	7	15	39	1.77
3881985--3882063	30	2.6	30	84	7	90	32	12	20	34	1.90
3882077--3882201	39	3.2	39	83	2	144	32	11	21	34	1.89
3884438--3884498	20	3.0	20	92	0	95	40	44	6	8	1.60
3884446--3884554	20	5.4	20	82	4	121	38	36	10	14	1.80
3886797--3887250	234	1.9	234	86	1	642	40	16	17	25	1.90
3896229--3896253	3	8.3	3	100	0	50	0	0	68	32	0.90
3899950--3899979	2	15.0	2	100	0	60	50	0	0	50	1.00
3904373--3904452	27	3.0	27	83	7	108	40	16	16	27	1.89
3908643--3908758	60	1.9	60	84	6	155	32	11	22	33	1.89
3908643--3908728	30	2.9	29	72	6	82	32	11	20	34	1.89
3916364--3916417	26	2.2	24	86	6	72	55	3	38	1	1.28
3924678--3924733	18	3.1	18	75	19	53	73	0	7	19	1.06
3926218--3926261	21	2.0	22	86	4	63	29	0	9	61	1.27
3926909--3926954	12	3.8	12	94	5	76	41	17	41	0	1.49
3932826--3932873	12	4.0	12	91	8	80	41	16	41	0	1.48
3934736--3934799	31	2.1	30	82	11	76	37	18	17	26	1.93
3941313--3941358	2	24.0	2	78	8	51	52	4	0	43	1.21
3953064--3953089	6	4.3	6	100	0	52	15	69	15	0	1.20
3961212--3961490	142	2.0	142	93	2	481	41	10	13	34	1.78
3964324--3964355	16	2.1	16	88	11	50	12	15	0	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3964637--3964661	2	12.5	2	100	0	50	48	0	0	52	1.00
3971345--3971392	24	2.0	24	84	4	62	50	0	10	39	1.37
3973661--3973700	20	2.0	20	100	0	80	30	10	10	50	1.69
3975511--3975569	30	1.9	30	83	10	75	42	15	15	27	1.86
3985882--3986013	35	3.6	35	75	14	106	33	21	15	29	1.94
3986030--3986087	30	1.9	30	83	16	75	22	17	17	43	1.88
3999087--3999245	59	2.7	59	80	3	162	30	22	17	28	1.97
4004561--4004602	21	2.0	21	90	0	66	38	19	14	28	1.90
4004790--4004895	50	2.1	50	96	1	194	32	12	15	40	1.84
4010758--4010821	31	2.1	31	100	0	128	34	9	26	29	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11