genome.fa.s5.2.7.7.80.10.50.1000.10.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

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

This is table  10  of  22  ( 2636 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)
5200084--5200117	2	17.5	2	87	6	52	55	0	0	44	0.99
5201245--5201315	30	2.4	30	86	6	101	35	8	18	38	1.81
5201689--5201729	16	2.6	16	78	17	50	41	0	0	58	0.98
5201702--5201747	21	2.1	22	84	11	60	45	0	2	52	1.13
5215718--5215843	34	3.8	34	70	12	91	29	19	18	32	1.96
5216848--5216877	16	1.9	15	93	6	51	70	0	0	30	0.88
5219310--5219357	24	2.0	24	87	0	69	45	10	22	20	1.81
5220530--5220573	22	2.0	22	90	0	70	40	6	11	40	1.68
5226301--5226343	19	2.1	19	83	12	50	39	0	11	48	1.40
5229132--5229173	21	2.0	21	85	0	57	16	7	23	52	1.68
5235244--5235284	21	2.0	21	85	0	55	0	4	85	9	0.73
5239709--5239761	26	2.0	26	96	0	97	50	26	9	13	1.71
5252576--5252666	43	2.1	43	87	0	128	29	1	42	26	1.62
5252703--5252770	30	2.3	30	78	0	73	22	1	25	51	1.56
5259608--5259637	2	15.0	2	100	0	60	50	0	0	50	1.00
5261293--5261364	21	3.5	20	68	21	58	26	12	29	31	1.93
5261902--5262025	63	1.9	66	90	4	200	33	16	12	38	1.85
5282195--5282225	3	10.3	3	92	0	53	70	0	29	0	0.87
5286573--5286633	31	2.0	31	83	6	79	36	11	16	36	1.85
5288270--5288327	4	15.5	4	81	13	70	50	18	0	31	1.48
5288273--5288329	10	6.3	10	73	22	63	50	17	0	31	1.46
5288270--5288329	14	4.1	14	87	8	93	50	18	0	31	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5288270--5288336	18	3.8	18	86	7	93	49	16	0	34	1.46
5294919--5294960	21	2.0	21	86	9	59	57	4	14	23	1.56
5300291--5300384	31	3.0	31	98	0	179	35	18	12	34	1.88
5312217--5312284	30	2.3	30	84	0	82	11	32	32	23	1.91
5312517--5312612	30	3.2	30	92	1	158	26	14	9	50	1.73
5313938--5314011	38	1.9	38	89	5	114	40	20	16	22	1.91
5314598--5314658	19	3.1	19	73	19	61	52	1	0	45	1.10
5314602--5314658	21	2.8	20	77	15	71	56	1	0	42	1.10
5314756--5314831	27	2.7	28	73	6	73	56	2	0	40	1.13
5314676--5315152	156	3.0	150	74	16	396	55	2	2	39	1.27
5314859--5314907	16	3.3	16	67	21	52	57	0	4	38	1.18
5314859--5314915	28	2.0	28	100	0	114	57	0	3	38	1.16
5314905--5314955	16	3.2	16	81	15	70	50	0	1	47	1.12
5314749--5315149	160	2.5	158	80	13	470	55	2	1	39	1.23
5315024--5315115	41	2.2	41	79	9	98	51	2	3	43	1.30
5315098--5315157	27	2.2	27	82	5	68	56	3	0	40	1.16
5315133--5315195	21	3.0	22	75	9	60	61	1	0	36	1.05
5315144--5315210	16	4.3	16	78	16	70	58	1	0	40	1.07
5315179--5315241	22	2.9	22	79	6	67	53	1	0	44	1.10
5315112--5315317	100	2.1	99	85	8	278	55	2	1	40	1.22
5314957--5315409	251	1.8	253	89	2	716	55	2	1	40	1.22
5315430--5315462	16	2.1	16	88	5	50	12	3	0	84	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5320088--5320219	33	4.2	33	87	11	213	11	36	13	38	1.81
5320114--5320201	27	3.0	27	90	9	122	11	38	13	36	1.81
5324039--5324270	123	1.9	124	82	4	299	30	16	12	40	1.86
5334151--5334192	10	4.2	10	90	0	57	50	7	0	42	1.30
5334155--5334183	2	14.5	2	100	0	58	51	0	0	48	1.00
5339049--5339097	14	3.5	13	78	13	53	22	2	4	71	1.13
5339054--5339092	7	5.6	7	82	11	53	25	0	2	71	0.98
5343202--5343244	6	7.2	6	94	0	59	25	48	25	0	1.51
5343202--5343244	12	3.6	12	90	0	68	25	48	25	0	1.51
5346290--5346334	21	2.1	21	95	0	81	26	11	26	35	1.90
5346480--5346525	18	2.6	17	86	13	58	19	6	4	69	1.28
5346822--5346848	6	4.5	6	100	0	54	14	51	0	33	1.43
5357129--5357215	27	3.2	27	80	6	81	49	2	33	14	1.57
5357996--5358136	70	2.0	69	98	1	273	44	26	16	12	1.83
5363080--5363107	2	14.0	2	100	0	56	0	0	50	50	1.00
5368827--5368901	33	2.3	33	82	8	84	65	1	4	29	1.19
5376524--5376570	14	3.3	14	77	16	60	68	0	0	31	0.90
5376954--5377061	57	1.9	57	88	0	162	24	12	8	55	1.63
5382311--5382349	18	2.2	18	85	0	51	20	30	33	15	1.94
5403295--5403545	124	2.0	125	94	0	441	27	18	19	35	1.95
5403631--5403667	13	2.7	14	83	8	58	48	0	0	51	1.00
5403717--5403754	9	4.3	9	96	3	69	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5404615--5404671	18	3.1	18	75	7	53	36	0	0	63	0.95
5413577--5413609	15	2.2	15	94	0	57	27	15	24	33	1.95
5415626--5415689	14	4.3	15	76	18	62	42	0	0	57	0.98
5415713--5415770	29	2.0	29	96	0	107	39	25	6	27	1.81
5420009--5420043	15	2.2	16	90	5	54	51	0	5	42	1.25
5423788--5423850	23	2.7	23	95	2	108	22	12	26	38	1.90
5440842--5440890	20	2.5	20	96	0	89	26	16	24	32	1.96
5451635--5451825	60	3.2	58	79	7	163	32	29	9	28	1.88
5456804--5456859	24	2.4	24	81	3	69	25	10	16	48	1.78
5461890--5461930	15	2.7	15	100	0	82	14	7	53	24	1.66
5465628--5465655	4	7.0	4	100	0	56	25	25	0	50	1.50
5467807--5467836	14	2.1	14	100	0	60	36	13	30	20	1.90
5470863--5470925	17	3.5	17	80	16	72	30	0	0	69	0.88
5470865--5470906	21	2.0	21	100	0	84	33	0	0	66	0.92
5470865--5470901	12	3.3	12	78	21	53	32	0	0	67	0.91
5470878--5470932	17	3.2	17	86	0	74	27	0	0	72	0.85
5471052--5471091	21	2.0	20	85	5	53	37	5	0	57	1.21
5471446--5471501	24	2.3	24	78	9	60	42	1	0	55	1.10
5471139--5472067	500	1.9	495	83	4	1215	35	8	4	50	1.54
5471006--5472067	250	4.3	249	81	5	1084	35	8	4	50	1.54
5471954--5471992	17	2.3	17	83	12	53	35	0	0	64	0.94
5472152--5472194	22	2.0	21	81	4	50	27	0	4	67	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5495734--5495789	24	2.3	24	81	3	67	32	0	5	62	1.18
5502945--5503063	57	2.1	56	81	4	132	19	25	5	49	1.70
5503328--5503365	18	2.2	17	90	4	58	13	31	0	55	1.38
5506158--5506258	35	2.9	35	87	0	130	44	18	13	22	1.85
5525669--5525711	16	2.7	15	78	7	50	48	0	0	51	1.00
5526410--5526510	35	2.8	36	75	11	100	25	15	4	53	1.62
5534296--5534788	246	2.0	246	95	0	896	34	17	14	33	1.91
5542294--5542352	24	2.5	23	81	8	73	49	15	8	27	1.73
5544290--5544525	35	6.9	34	77	9	214	44	11	6	37	1.66
5544290--5544511	102	2.2	103	82	6	272	43	10	7	38	1.67
5544486--5544525	19	2.2	17	86	8	53	47	7	7	37	1.60
5556396--5556424	13	2.3	13	94	5	51	89	0	6	3	0.57
5556254--5556657	202	2.0	201	84	6	523	55	11	12	20	1.67
5559623--5559652	16	1.9	16	93	6	53	30	0	6	63	1.20
5560245--5560300	25	2.4	25	82	8	64	39	0	0	60	0.97
5560658--5560685	2	14.0	2	100	0	56	50	0	0	50	1.00
5566666--5566783	43	2.7	43	83	7	123	27	13	14	44	1.82
5567467--5567512	6	7.7	6	80	9	58	15	0	4	80	0.86
5567471--5567521	24	2.2	23	85	3	66	15	1	7	74	1.13
5574762--5574883	43	2.8	44	78	9	128	25	12	21	40	1.88
5576341--5576423	29	2.9	29	87	10	125	33	14	15	36	1.88
5584926--5584987	2	31.0	2	87	6	81	45	0	4	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5585572--5585628	3	19.0	3	100	0	114	66	0	0	33	0.92
5585627--5585660	3	11.3	3	100	0	68	32	0	32	35	1.58
5591886--5591948	30	2.1	30	84	3	81	14	17	1	66	1.33
5592049--5592105	19	2.8	20	82	15	64	14	7	3	75	1.14
5592038--5592130	45	2.0	47	89	4	145	16	7	4	72	1.24
5592038--5592127	47	1.9	47	91	6	148	15	7	4	72	1.24
5596010--5596056	18	2.6	18	82	0	58	34	21	19	25	1.96
5621945--5622045	53	1.9	53	88	8	152	33	21	14	29	1.94
5622468--5622546	35	2.3	34	84	2	95	30	1	5	63	1.24
5622991--5623040	24	2.1	24	85	3	66	26	6	6	62	1.42

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