genome.fa.s13.2.7.7.80.10.50.1000.15.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  15  of  18  ( 2072 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)
6097844--6097951	39	2.8	40	80	5	114	36	2	13	47	1.58
6098121--6098161	21	2.0	21	85	0	55	24	17	0	58	1.38
6101504--6101555	21	2.5	22	78	9	63	65	5	1	26	1.26
6101544--6101586	16	2.7	16	86	10	61	67	9	0	23	1.19
6101500--6101586	32	2.5	34	76	14	90	65	8	1	25	1.27
6104304--6104393	39	2.3	39	80	3	110	35	4	18	41	1.71
6104592--6104636	21	2.1	21	84	8	56	22	15	0	62	1.33
6109822--6109854	16	2.1	16	88	11	50	45	6	30	18	1.73
6113762--6113822	32	2.0	29	84	9	77	39	14	1	44	1.55
6120548--6120631	34	2.4	34	78	4	87	35	14	9	40	1.78
6122409--6122508	41	2.5	41	90	4	150	32	10	17	41	1.82
6122409--6122553	41	3.5	40	84	6	148	32	8	16	42	1.79
6126267--6126300	17	2.0	17	88	0	50	50	2	2	44	1.32
6126622--6126726	42	2.6	41	82	11	103	53	2	0	42	1.22
6126637--6126763	42	3.1	41	79	14	120	51	2	0	44	1.19
6126733--6126788	27	2.2	25	87	9	78	51	0	0	48	1.00
6127590--6127627	17	2.2	17	95	0	67	52	7	18	21	1.70
6131588--6131661	23	3.1	24	79	14	66	52	4	1	41	1.28
6132074--6132103	16	1.9	16	93	6	53	70	0	0	30	0.88
6133244--6133292	25	2.0	25	87	0	71	26	32	18	22	1.97
6148928--6149141	106	2.0	106	94	0	374	40	23	10	25	1.86
6152800--6152832	15	2.2	15	89	10	50	39	0	3	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6162308--6162337	13	2.3	13	94	0	51	90	0	10	0	0.47
6164133--6164204	30	2.4	29	86	4	90	62	1	1	34	1.13
6164926--6164998	38	1.9	38	88	0	110	23	35	15	26	1.94
6165424--6165504	42	1.9	42	87	5	119	55	3	13	27	1.55
6166181--6166547	181	2.0	182	83	1	468	21	10	26	41	1.86
6166732--6166773	22	1.9	22	85	0	57	19	7	23	50	1.72
6166370--6166946	202	2.8	203	85	4	745	21	10	24	42	1.84
6170315--6170545	46	5.1	46	74	3	153	32	24	9	33	1.88
6170311--6170541	23	10.1	23	71	4	128	32	25	9	33	1.88
6174184--6174227	23	1.9	23	85	0	61	34	27	11	27	1.91
6178658--6178684	2	13.5	2	100	0	54	48	0	0	51	1.00
6179591--6179645	24	2.2	24	78	12	58	36	0	3	60	1.15
6179605--6179650	24	1.9	24	86	8	67	32	0	6	60	1.22
6186009--6186050	21	1.9	23	85	9	61	35	9	14	40	1.78
6193449--6193599	75	2.0	75	93	2	259	27	22	15	35	1.94
6198940--6199378	232	1.9	232	85	2	605	31	17	17	33	1.93
6202703--6202743	18	2.3	18	83	8	57	12	7	7	73	1.25
6203306--6203340	2	18.0	2	88	5	54	45	0	0	54	0.99
6211344--6211409	30	2.2	30	84	7	89	30	28	4	36	1.77
6211347--6211404	15	3.9	15	78	17	66	29	29	5	36	1.79
6211418--6211454	16	2.3	16	90	0	56	37	16	16	29	1.90
6211593--6211638	15	3.1	15	96	0	83	6	36	32	23	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6212919--6212955	2	18.5	2	88	0	56	48	2	2	45	1.30
6223893--6223948	27	2.1	27	96	0	103	53	3	7	35	1.46
6224153--6224193	15	2.7	15	88	0	64	43	7	14	34	1.73
6224426--6224523	30	3.3	30	81	13	105	29	2	0	68	1.01
6231768--6231860	23	4.1	23	78	1	107	29	10	25	34	1.90
6231768--6231860	46	2.0	45	85	2	123	29	10	25	34	1.90
6231778--6231873	23	4.2	23	79	0	102	26	10	28	35	1.89
6235483--6235564	38	2.1	39	86	2	112	29	21	30	18	1.97
6240316--6240360	23	2.0	23	86	0	63	77	2	6	13	1.05
6241033--6241064	2	16.0	2	100	0	64	50	0	0	50	1.00
6241117--6241169	3	17.7	3	100	0	106	67	32	0	0	0.91
6241192--6241254	28	2.2	28	85	5	81	46	0	17	36	1.49
6249188--6249222	9	3.9	9	88	0	52	34	22	2	40	1.69
6251100--6251181	35	2.4	35	89	6	123	31	29	12	26	1.92
6251971--6251997	14	1.9	14	100	0	54	25	0	7	66	1.17
6253839--6253906	27	2.6	27	88	2	93	26	25	20	27	1.99
6273421--6273460	20	1.9	22	90	10	66	30	50	20	0	1.49
6273414--6273483	22	3.1	22	81	4	77	30	45	21	2	1.66
6273488--6273512	2	12.5	2	100	0	50	52	48	0	0	1.00
6278605--6278660	24	2.3	24	84	6	78	32	0	1	66	1.03
6278607--6278676	29	2.6	25	80	10	70	35	0	1	62	1.04
6279089--6279125	13	2.8	13	91	4	56	21	0	5	72	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6279368--6279411	6	7.3	6	97	0	79	2	31	31	34	1.70
6292194--6292253	21	2.9	21	84	0	75	11	31	23	33	1.91
6295963--6296016	21	2.6	21	84	0	72	38	18	14	27	1.90
6298580--6298619	21	2.0	20	85	14	55	35	0	0	65	0.93
6306930--6306977	18	2.8	16	82	17	60	8	8	2	81	0.96
6306919--6306969	17	2.9	17	85	8	59	7	11	1	78	1.04
6307445--6307486	15	2.6	17	81	11	52	61	0	0	38	0.96
6307462--6307496	11	3.4	11	88	11	56	68	0	0	31	0.90
6307593--6307625	13	2.6	13	85	4	50	72	0	3	24	0.98
6307635--6307696	29	2.2	28	86	10	92	51	0	3	45	1.17
6307647--6307705	29	2.1	29	84	6	77	49	1	3	45	1.28
6307746--6307788	21	2.0	22	81	4	52	58	0	0	41	0.98
6308599--6308681	26	3.2	26	82	0	94	39	9	19	31	1.84
6308685--6308742	26	2.2	26	84	0	71	41	22	12	24	1.87
6308754--6308812	28	2.1	28	87	0	82	40	18	15	25	1.90
6310805--6310848	21	2.0	22	86	4	63	63	0	0	36	0.95
6313243--6313274	15	2.1	15	94	0	55	68	3	0	28	1.04
6313289--6313376	28	3.3	25	69	19	70	64	2	2	30	1.18
6313349--6313436	33	2.6	34	87	5	115	64	1	5	28	1.23
6326835--6327016	91	2.0	91	100	0	364	32	17	10	38	1.85
6334655--6334693	21	1.9	20	84	5	51	35	10	12	41	1.77
6335053--6335109	29	2.0	29	89	0	87	47	19	12	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6339440--6339483	21	2.0	22	82	4	54	20	20	11	47	1.80
6343641--6343745	52	2.1	50	82	10	124	35	20	12	32	1.89
6347369--6347395	14	1.9	14	100	0	54	29	7	25	37	1.83
6349118--6349142	13	1.9	13	100	0	50	44	0	8	48	1.32
6351670--6351789	64	1.9	64	85	0	168	22	7	14	55	1.63
6351670--6351814	64	2.3	64	81	0	164	21	8	14	55	1.65
6352677--6352707	2	15.5	2	100	0	62	51	0	0	48	1.00
6353445--6353475	2	15.5	2	100	0	62	51	48	0	0	1.00
6358677--6358756	29	2.8	29	92	1	126	46	3	2	47	1.34
6364096--6364120	2	12.5	2	100	0	50	52	0	0	48	1.00
6369965--6370042	30	2.7	28	74	16	79	64	1	3	30	1.20
6370033--6370105	33	2.2	33	85	4	94	64	0	6	28	1.19
6370337--6370379	15	2.9	15	89	0	68	37	18	4	39	1.72
6371240--6372044	403	2.0	404	88	1	1211	35	11	12	40	1.79
6372314--6372367	13	4.0	13	75	15	56	29	3	0	66	1.09
6373713--6373742	2	15.0	2	100	0	60	50	50	0	0	1.00
6375312--6375366	21	2.6	21	85	5	67	29	9	32	29	1.88
6376304--6376478	47	3.7	46	78	7	165	48	10	11	29	1.73
6384981--6385022	19	2.2	19	83	8	50	80	0	11	7	0.88
6397040--6397134	36	2.6	36	93	1	154	34	25	11	28	1.91
6397915--6397965	22	2.4	22	90	3	77	54	21	1	21	1.54
6397915--6397982	21	3.2	21	85	2	91	51	19	5	23	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6398076--6398144	21	3.3	20	80	11	77	46	21	7	24	1.77
6398608--6398639	15	2.1	15	94	0	55	59	6	3	31	1.38
6400952--6401067	29	4.0	28	79	4	133	37	12	10	39	1.77
6402813--6402839	2	13.5	2	100	0	54	51	48	0	0	1.00
6412057--6412166	44	2.5	44	77	7	116	45	10	18	25	1.82
6412127--6412186	22	2.8	20	76	11	57	48	13	15	23	1.79
6419403--6419476	36	2.0	37	84	2	96	29	24	14	31	1.95
6429634--6429724	42	2.1	43	84	6	114	39	2	2	56	1.24
6429574--6429739	87	1.9	86	80	8	194	39	3	1	55	1.26
6429643--6429739	22	4.5	22	67	27	64	42	2	2	53	1.24

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