genome.fa.s7.2.7.7.80.10.50.1000.10.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

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

This is table  10  of  20  ( 2374 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)
3629533--3629572	13	3.0	13	96	3	71	60	0	0	40	0.97
3629554--3629591	19	2.0	19	85	10	51	71	0	0	28	0.87
3640767--3641024	129	2.0	128	88	3	385	34	14	16	34	1.89
3649301--3649347	2	24.0	2	95	4	87	48	0	0	51	1.00
3652859--3653474	47	13.1	44	82	11	583	16	17	56	9	1.66
3652859--3653474	142	4.4	143	90	5	902	16	17	56	9	1.66
3653582--3653628	21	2.2	21	96	0	85	27	23	27	21	1.99
3654531--3654599	25	2.7	25	80	8	68	78	1	0	20	0.83
3654534--3654599	27	2.4	27	80	9	73	77	1	0	21	0.85
3654552--3654599	20	2.4	20	93	6	80	81	0	0	18	0.70
3655284--3655328	21	2.1	23	84	12	60	26	2	8	62	1.37
3661023--3661089	18	3.7	18	82	9	75	76	1	0	22	0.87
3661022--3661073	24	2.2	24	86	6	70	75	1	0	23	0.91
3661020--3661089	19	3.5	20	75	18	67	77	1	0	21	0.85
3661939--3661974	15	2.3	16	90	4	56	41	0	13	44	1.44
3662758--3662804	21	2.2	21	85	7	60	23	14	21	40	1.90
3662790--3662831	22	2.0	22	85	4	59	28	7	16	47	1.73
3663895--3663962	33	2.1	33	86	10	95	27	1	1	69	1.06
3665330--3665438	57	1.9	57	86	0	155	46	11	5	36	1.62
3666265--3666352	44	2.0	44	84	4	115	40	11	12	35	1.79
3674185--3674241	29	2.0	29	85	0	78	50	15	10	22	1.74
3683317--3683352	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3683879--3684126	51	4.9	51	79	7	240	25	29	14	31	1.95
3683890--3684122	102	2.3	101	81	8	267	26	30	12	30	1.93
3689559--3689603	20	2.3	18	82	14	54	31	2	0	66	1.04
3701696--3701792	43	2.3	43	85	3	124	43	15	15	25	1.86
3701846--3702034	43	4.4	42	76	4	171	38	11	19	30	1.87
3701846--3702034	86	2.2	86	86	0	261	38	11	19	30	1.87
3705083--3705325	42	5.5	42	75	11	227	30	7	27	34	1.84
3705108--3705208	50	2.0	50	94	0	175	28	9	25	35	1.88
3705158--3705319	86	1.9	84	84	5	218	30	7	28	33	1.85
3707372--3707477	36	2.9	37	84	5	144	42	22	7	27	1.80
3717098--3717231	40	3.4	39	70	9	101	56	2	5	34	1.39
3717889--3717959	26	2.6	28	80	14	87	70	0	1	28	0.96
3723570--3723600	14	2.2	14	94	0	53	0	54	0	45	0.99
3724622--3724687	29	2.4	28	75	17	66	45	0	3	51	1.16
3724653--3724713	21	3.1	21	84	9	67	40	3	0	55	1.16
3725970--3726008	19	2.2	18	86	9	53	20	28	0	51	1.48
3726114--3726162	25	2.0	25	95	0	89	42	14	8	34	1.75
3726325--3726484	53	2.9	54	80	4	160	39	15	16	28	1.89
3731325--3731446	64	1.9	64	93	0	208	25	23	9	41	1.83
3731717--3731766	22	2.3	22	82	6	57	24	10	16	50	1.75
3731798--3731875	22	3.5	22	78	1	84	33	14	12	39	1.84
3732116--3732237	60	2.0	60	90	0	190	40	16	9	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3732334--3732376	16	2.6	16	85	10	52	41	9	4	44	1.57
3733224--3733248	2	12.5	2	100	0	50	52	0	0	48	1.00
3746804--3746874	31	2.4	29	78	4	79	40	2	0	56	1.14
3750161--3750196	10	3.7	10	96	3	65	41	0	8	50	1.33
3755301--3755426	66	1.9	66	85	3	173	34	11	30	23	1.90
3761936--3762009	37	2.0	37	100	0	148	37	18	18	24	1.94
3769983--3770015	3	11.0	3	93	0	57	3	0	63	33	1.10
3770443--3770516	22	3.5	22	68	7	62	44	2	0	52	1.15
3770548--3770605	27	2.3	25	80	14	66	43	0	1	55	1.10
3778790--3778931	71	2.0	71	95	0	257	28	16	15	39	1.89
3784668--3784734	29	2.3	29	79	5	73	41	2	0	55	1.15
3785604--3785651	21	2.2	21	77	3	51	54	2	2	41	1.24
3785771--3785830	25	2.7	23	76	16	63	45	3	8	43	1.50
3785933--3786006	30	2.5	30	97	0	139	60	0	5	33	1.19
3797662--3798077	84	5.0	84	72	6	218	32	33	7	26	1.85
3799473--3799556	31	2.8	28	72	22	73	30	8	0	60	1.26
3800152--3800179	2	14.0	2	100	0	56	50	0	0	50	1.00
3800641--3800674	18	1.9	17	88	5	50	55	2	2	38	1.30
3804811--3804869	31	1.9	31	96	0	109	25	13	13	47	1.79
3805630--3805670	22	2.0	22	90	9	68	58	7	0	34	1.26
3806074--3806109	19	1.9	18	88	5	54	72	8	8	11	1.29
3806416--3806440	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3810385--3810420	18	2.0	18	100	0	72	61	11	5	22	1.50
3811934--3811974	17	2.3	18	87	8	57	73	0	0	26	0.84
3814613--3814664	27	1.9	27	88	0	77	15	23	19	42	1.89
3816569--3816607	21	1.9	21	89	5	62	17	7	15	58	1.59
3823179--3823212	11	3.0	11	87	8	50	0	11	2	85	0.71
3836504--3836530	2	13.5	2	100	0	54	48	0	0	51	1.00
3837346--3837376	2	15.5	2	100	0	62	51	0	0	48	1.00
3837861--3837911	20	2.5	20	78	9	50	60	1	3	33	1.26
3843375--3843431	15	3.6	16	75	11	64	66	0	5	28	1.13
3843567--3843635	27	2.4	29	88	7	97	53	0	2	43	1.15
3843679--3843721	21	2.0	22	81	4	52	55	4	0	39	1.20
3867817--3867847	2	15.5	2	100	0	62	51	0	0	48	1.00
3868932--3868973	20	2.0	22	90	9	70	45	4	19	30	1.71
3880121--3880276	81	1.9	82	89	1	242	18	20	19	41	1.90
3881156--3881203	21	2.3	23	82	13	59	10	14	0	75	1.06
3881164--3881215	23	2.3	22	81	15	54	5	21	0	73	1.04
3884584--3884633	17	2.9	17	76	5	55	34	0	0	66	0.92
3884616--3884655	19	2.0	21	85	9	57	35	0	0	65	0.93
3889360--3889388	2	14.5	2	100	0	58	0	48	0	51	1.00
3898926--3898974	16	3.1	17	82	8	52	69	0	0	30	0.89
3898951--3898982	15	2.1	16	88	11	50	65	0	3	31	1.08
3898942--3898974	15	2.3	15	89	5	50	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3898942--3898983	14	2.9	14	83	13	50	61	0	2	35	1.09
3899291--3899469	64	2.9	63	79	7	168	54	1	6	37	1.34
3899384--3899463	17	4.6	17	67	18	58	61	1	3	33	1.22
3901428--3901457	6	5.0	6	100	0	60	16	16	33	33	1.92
3909497--3909557	24	2.7	22	69	11	52	45	1	0	52	1.10
3909497--3909890	45	8.9	44	76	9	281	45	10	2	41	1.53
3909541--3909871	44	7.5	44	74	11	173	44	11	3	41	1.56
3917780--3917809	14	2.1	14	93	0	51	83	13	3	0	0.77
3924639--3925078	219	2.0	221	87	1	632	29	16	14	39	1.88
3926992--3927047	21	2.6	21	91	2	85	25	19	25	30	1.98
3934828--3934866	20	1.9	20	89	5	60	53	2	5	38	1.37
3965876--3965911	12	3.0	12	100	0	72	16	25	25	33	1.96
3970708--3970740	2	16.5	2	100	0	66	51	0	0	48	1.00
3979804--3979833	3	10.0	3	100	0	60	0	0	33	66	0.92
3982096--3982142	24	2.0	24	91	0	76	19	29	8	42	1.80
3984173--3984220	20	2.4	20	86	6	62	37	4	41	16	1.68
3984384--3984582	80	2.5	80	90	3	319	39	13	8	38	1.74
3984889--3984922	18	1.9	18	94	5	61	38	8	29	23	1.85
3996736--3996768	2	16.5	2	100	0	66	51	0	0	48	1.00
4004039--4004072	16	2.1	16	88	0	50	29	2	0	67	1.05
4011942--4011969	2	14.0	2	100	0	56	50	0	0	50	1.00
4013078--4013129	20	2.5	20	81	6	59	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)
4031609--4031720	52	2.1	52	93	1	188	19	25	16	38	1.93
4045240--4045277	2	19.5	2	89	5	60	47	0	52	0	1.00
4070263--4070361	14	6.9	14	66	4	63	31	30	6	32	1.82
4070293--4070367	15	5.1	15	73	9	57	32	33	5	29	1.80
4070264--4070361	43	2.3	43	98	0	187	31	30	6	31	1.82
4070449--4070515	35	1.9	35	93	0	116	4	31	35	28	1.77
4076931--4077087	79	2.0	80	87	3	228	49	14	14	22	1.79
4078946--4078993	2	24.0	2	100	0	96	0	50	0	50	1.00
4081019--4081205	93	2.0	93	100	0	374	45	6	4	43	1.49
4083534--4083566	10	3.4	10	91	4	50	42	0	0	57	0.98

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