genome.fa.s8.2.7.7.80.10.50.1000.18.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  18  of  19  ( 2280 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)
8193173--8193261	30	3.2	28	75	14	71	31	3	0	65	1.09
8193143--8193318	41	4.3	41	70	15	112	30	2	1	65	1.14
8195630--8195716	27	3.1	27	76	14	77	68	0	0	31	0.89
8195633--8195706	20	3.8	20	74	16	64	68	0	0	31	0.89
8195639--8195779	32	4.4	33	77	10	123	63	0	1	34	1.03
8195639--8195779	63	2.2	65	82	6	162	63	0	1	34	1.03
8195802--8195849	20	2.5	19	83	13	62	45	2	0	52	1.12
8195787--8195849	18	3.5	18	76	20	69	46	1	0	52	1.10
8195838--8195896	23	2.5	23	77	2	64	35	0	1	62	1.05
8195850--8195944	15	6.5	15	72	14	65	38	2	2	56	1.23
8198736--8198779	15	3.1	15	87	9	58	25	45	0	29	1.54
8203818--8203850	2	16.5	2	100	0	66	0	0	48	51	1.00
8213408--8213434	2	13.5	2	100	0	54	51	0	0	48	1.00
8217636--8217701	29	2.3	29	89	2	98	46	7	13	31	1.71
8221075--8221104	2	15.0	2	100	0	60	50	0	0	50	1.00
8221931--8221990	30	2.0	30	83	6	77	43	1	1	53	1.20
8222040--8222079	21	2.0	21	85	5	55	60	2	0	37	1.11
8244460--8244496	18	2.1	18	89	0	56	18	10	21	48	1.78
8244511--8244553	19	2.3	19	80	8	52	27	16	16	39	1.90
8245514--8245547	2	17.0	2	100	0	68	50	0	0	50	1.00
8253543--8253700	71	2.2	71	82	10	178	44	13	15	25	1.83
8253574--8253709	71	1.9	70	89	4	211	43	15	16	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8259547--8259595	5	10.0	5	86	4	73	77	0	0	22	0.77
8259554--8259600	24	2.0	24	100	0	94	76	0	0	23	0.78
8259890--8259946	29	2.0	29	86	10	82	33	1	0	64	1.04
8269250--8269331	34	2.4	34	95	0	146	21	6	9	62	1.48
8281742--8281783	20	2.0	21	82	13	52	54	0	0	45	0.99
8293541--8293749	102	2.0	102	87	3	296	36	19	22	21	1.95
8295109--8295280	68	2.5	68	87	2	247	47	5	12	33	1.66
8295291--8295453	80	2.0	81	89	1	247	46	10	15	28	1.79
8295732--8295781	23	2.2	23	85	7	66	48	0	0	52	1.00
8323461--8323519	5	12.4	5	77	15	63	57	1	0	40	1.09
8323461--8323519	23	2.8	21	82	10	75	57	1	0	40	1.09
8328730--8328764	7	5.0	7	96	0	52	65	34	0	0	0.93
8338431--8338608	54	3.3	53	84	3	223	30	10	12	45	1.77
8339084--8339148	32	2.0	32	93	0	112	32	3	21	43	1.68
8343938--8343966	2	14.5	2	100	0	58	51	0	0	48	1.00
8350255--8350287	15	2.3	15	94	5	59	69	0	0	30	0.88
8351747--8351811	32	2.0	32	93	0	112	29	0	24	46	1.53
8365194--8365235	20	2.0	21	86	4	59	35	28	23	11	1.91
8372919--8372977	29	2.0	29	93	0	100	33	1	32	32	1.68
8373154--8373210	29	2.0	28	96	3	105	29	0	35	35	1.58
8372909--8373377	234	2.0	235	97	0	886	40	4	21	34	1.72
8375194--8375222	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8390706--8390751	19	2.3	21	88	7	69	30	21	26	21	1.99
8391333--8391370	2	19.0	2	88	0	58	0	44	2	52	1.14
8404447--8404477	8	3.9	8	95	0	53	25	16	0	58	1.38
8405466--8405493	2	14.0	2	100	0	56	50	0	0	50	1.00
8407198--8407317	60	2.0	60	82	6	145	11	24	16	47	1.80
8418562--8418688	64	2.0	64	84	10	170	42	15	13	28	1.85
8441699--8441723	13	1.9	13	100	0	50	48	8	12	32	1.69
8441721--8441769	23	2.2	23	78	14	57	59	2	0	38	1.09
8441892--8441950	29	2.1	27	84	9	75	67	0	1	30	1.00
8441869--8441987	41	2.8	40	83	10	130	67	0	1	31	1.01
8441864--8442071	66	3.0	64	69	20	145	69	0	0	29	0.95
8441869--8442102	46	5.2	43	73	16	158	67	0	0	30	1.02
8441929--8442065	26	4.9	28	73	20	90	68	0	0	30	0.95
8441963--8442076	23	4.9	23	75	21	96	71	0	0	28	0.87
8441926--8442167	31	7.4	32	77	9	206	66	0	0	32	1.01
8441880--8442076	87	2.2	94	79	8	203	69	0	1	29	0.96
8441865--8442144	31	8.6	31	76	12	201	67	0	0	31	1.01
8441969--8442143	63	2.8	62	83	7	194	66	1	0	32	0.99
8441990--8442142	23	6.5	22	67	26	68	67	1	0	31	0.99
8442096--8442134	20	2.0	20	84	0	51	64	0	0	35	0.94
8441865--8442144	95	2.9	94	79	11	232	67	0	0	31	1.01
8446529--8446615	36	2.3	38	82	7	108	31	27	14	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8452276--8452333	30	1.9	30	92	0	98	37	6	0	55	1.27
8454428--8454468	16	2.4	18	80	8	50	60	24	4	9	1.47
8457583--8457651	31	2.4	28	81	13	86	44	1	0	53	1.09
8457594--8457651	30	1.9	31	92	3	100	44	1	0	53	1.10
8457594--8457669	30	2.5	29	83	8	80	42	2	2	52	1.29
8471208--8471249	21	2.0	21	86	9	59	59	0	2	38	1.10
8474009--8474049	21	1.9	22	85	14	59	34	0	0	65	0.93
8474055--8474180	53	2.4	52	78	6	130	40	3	1	53	1.29
8474156--8474188	15	2.1	16	88	5	50	42	0	0	57	0.98
8478275--8478320	24	1.9	24	86	8	67	52	2	2	43	1.25
8479763--8479810	24	2.0	24	84	4	62	60	0	0	39	0.97
8494298--8494327	11	2.8	11	95	5	53	26	16	0	56	1.40
8505709--8505733	9	2.8	9	100	0	50	0	28	24	48	1.52
8506007--8506039	4	8.8	4	87	12	52	72	0	0	27	0.85
8506011--8506041	14	2.2	14	100	0	62	70	0	0	29	0.87
8506007--8506045	18	2.2	18	95	0	69	69	0	0	30	0.89
8512207--8512241	17	1.9	17	88	11	52	68	0	0	31	0.90
8513153--8513211	29	2.1	28	84	12	77	57	0	3	38	1.15
8514739--8514770	15	2.2	15	94	5	57	50	0	0	50	1.00
8514747--8514810	18	3.5	19	75	8	62	53	3	0	43	1.16
8516324--8516356	2	16.5	2	93	0	57	45	51	3	0	1.16
8516326--8516368	8	5.4	8	94	0	59	39	51	9	0	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8516326--8516364	12	3.2	12	92	0	60	41	51	7	0	1.31
8516326--8516371	12	3.8	12	91	0	56	39	50	10	0	1.38
8519220--8519275	22	2.5	23	77	11	62	44	1	0	53	1.11
8519359--8519403	17	2.8	16	84	15	58	57	2	0	40	1.11
8527846--8527875	2	15.0	2	100	0	60	50	0	0	50	1.00
8534698--8534741	22	2.0	22	86	8	63	52	0	0	47	1.00
8537148--8537175	3	9.3	3	100	0	56	0	32	0	67	0.91
8545647--8545674	4	7.0	4	100	0	56	50	25	0	25	1.50
8546216--8546248	16	2.0	17	88	5	50	57	0	0	42	0.98
8546534--8546558	4	6.2	4	100	0	50	0	24	0	76	0.80
8548327--8548365	18	2.2	17	86	4	51	41	0	0	58	0.98
8549154--8549198	6	7.7	6	85	14	51	80	0	0	20	0.72
8549153--8549236	5	17.4	5	71	9	59	71	0	2	26	0.98
8549155--8549299	29	5.0	28	68	18	91	70	0	2	27	0.99
8549154--8549223	33	2.1	34	86	5	97	74	0	1	24	0.90
8549172--8549274	42	2.4	43	77	8	111	69	0	2	27	1.02
8549228--8549294	15	4.4	15	73	19	59	68	0	1	29	0.98
8549155--8549304	18	8.7	17	68	24	77	70	0	2	28	0.99
8549434--8549482	23	2.1	23	81	7	55	32	8	0	59	1.27
8554064--8554156	1	93.0	1	69	0	51	1	15	83	0	0.69
8554048--8554238	27	6.9	27	75	15	149	3	16	80	0	0.86
8554052--8554210	61	2.5	67	80	15	185	3	16	79	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8554060--8554238	68	2.6	69	78	15	165	3	16	80	0	0.84
8554188--8554237	7	7.6	7	78	10	52	2	14	84	0	0.72
8554060--8554236	42	4.2	43	72	15	138	3	16	80	0	0.85
8554048--8554237	6	27.4	7	73	17	109	3	16	80	0	0.86
8580371--8580775	202	2.0	202	93	0	686	26	18	18	37	1.93
8603148--8603178	2	15.5	2	100	0	62	0	51	0	48	1.00
8606906--8606998	46	2.0	46	87	0	132	48	8	6	36	1.60
8617197--8617235	20	2.0	20	85	10	53	28	2	0	69	1.02
8629435--8629481	22	2.2	21	88	3	67	55	19	4	21	1.60
8635511--8635550	19	2.1	19	85	0	53	72	5	17	5	1.21

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