genome.fa.s1.2.7.7.80.10.50.1000.25.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  25  of  32  ( 3821 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)
12422148--12422188	15	2.7	16	81	11	59	82	0	0	17	0.66
12422145--12422180	12	3.2	12	92	7	58	83	0	0	16	0.65
12424770--12424815	23	2.0	23	82	0	56	32	15	23	28	1.95
12427006--12427045	21	2.0	21	85	5	55	27	27	25	20	1.99
12439056--12439258	81	2.5	81	90	0	307	39	10	7	42	1.67
12439591--12439651	29	2.1	29	90	0	95	32	21	27	18	1.96
12439622--12439674	23	2.3	23	96	0	97	33	20	28	16	1.95
12439672--12439778	51	2.1	51	87	0	151	42	12	17	28	1.85
12439684--12439810	51	2.5	49	75	10	123	41	13	18	26	1.87
12440059--12440110	27	1.9	27	96	0	95	19	21	13	46	1.84
12448607--12448650	21	2.0	22	86	4	63	61	9	0	29	1.27
12451184--12451244	28	2.2	28	88	5	88	31	9	42	16	1.81
12452448--12452491	20	2.2	20	84	8	54	25	2	2	70	1.10
12462798--12462965	76	2.2	77	88	3	250	30	16	15	37	1.90
12465849--12465879	2	15.5	2	100	0	62	48	0	0	51	1.00
12471864--12471908	20	2.2	21	84	7	58	60	20	2	17	1.47
12475772--12475799	9	3.1	9	100	0	56	32	10	35	21	1.88
12475747--12475817	21	3.6	21	75	12	69	29	14	23	32	1.94
12478552--12478584	17	1.9	17	88	11	50	18	18	0	63	1.31
12481429--12481501	37	2.0	36	83	2	92	34	17	9	38	1.83
12482087--12482117	15	2.1	15	94	5	55	12	6	19	61	1.53
12487545--12487589	23	2.0	21	83	8	54	22	13	6	57	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12499592--12499671	41	2.0	40	87	2	115	16	10	7	66	1.43
12508768--12508798	16	2.0	15	93	6	53	51	22	0	25	1.48
12518393--12518417	9	2.8	9	100	0	50	8	0	8	84	0.79
12519003--12519031	7	4.1	7	100	0	58	41	44	0	13	1.44
12524698--12524849	64	2.4	63	85	2	196	54	15	6	23	1.64
12535867--12535910	21	2.1	21	91	8	72	40	4	31	22	1.74
12543197--12543254	14	3.9	14	71	10	53	46	1	1	50	1.22
12543649--12543718	28	2.5	28	79	6	72	42	5	2	48	1.41
12548685--12548738	28	1.9	28	88	7	83	59	16	1	22	1.47
12553101--12553211	42	2.7	41	77	8	111	47	0	5	46	1.25
12553185--12553242	27	2.1	27	90	6	91	51	0	3	44	1.18
12554821--12554851	15	2.1	15	100	0	62	32	0	6	61	1.21
12560647--12560682	17	2.2	17	90	9	58	33	8	0	58	1.28
12560734--12560771	15	2.5	15	95	0	67	52	0	0	47	1.00
12562207--12562259	25	2.2	25	90	6	83	58	1	1	37	1.20
12563129--12563180	18	2.8	19	72	22	56	55	7	0	36	1.29
12572282--12572339	20	2.8	20	81	2	62	68	3	0	27	1.05
12572298--12572418	27	4.5	26	71	17	95	69	1	2	26	1.10
12572392--12572485	33	2.8	33	80	9	100	63	1	4	30	1.20
12574362--12574406	3	14.7	3	86	4	63	66	0	0	33	0.92
12581395--12581867	238	2.0	238	95	0	858	37	16	10	35	1.84
12585959--12586063	54	1.9	54	100	0	210	31	25	9	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12589043--12589068	2	13.0	2	100	0	52	0	0	50	50	1.00
12589068--12589098	2	15.5	2	100	0	62	48	0	51	0	1.00
12591801--12591873	23	3.2	23	71	7	67	23	5	28	42	1.76
12592767--12592795	13	2.2	13	100	0	58	48	10	13	27	1.75
12594985--12595033	18	2.6	19	83	6	55	42	4	0	53	1.20
12595816--12595841	12	2.2	12	100	0	52	7	23	50	19	1.73
12598132--12598330	69	2.9	68	78	3	220	33	10	23	32	1.89
12598076--12598333	23	11.2	23	70	1	122	32	10	24	32	1.90
12598076--12598333	46	5.6	46	70	4	171	32	10	24	32	1.90
12598384--12598432	23	2.1	23	81	7	55	36	12	18	32	1.88
12604116--12604549	189	2.3	189	83	4	534	39	27	10	22	1.86
12604632--12604673	22	1.9	22	95	0	75	38	26	7	28	1.82
12605478--12605572	22	4.3	22	82	2	111	37	34	11	15	1.84
12605908--12605987	38	2.1	38	83	4	99	31	16	33	18	1.93
12609747--12609780	16	2.1	15	89	10	50	0	11	0	88	0.52
12616072--12616113	22	2.0	22	85	4	59	38	0	23	38	1.55
12616806--12616861	29	1.9	29	82	7	69	69	3	19	7	1.27
12621526--12621557	2	16.0	2	100	0	64	50	0	0	50	1.00
12622667--12622760	45	2.1	45	89	0	143	45	5	3	45	1.42
12622735--12622780	18	2.4	19	85	7	58	47	0	4	47	1.21
12628258--12628289	2	16.0	2	100	0	64	0	50	0	50	1.00
12636309--12636337	5	5.8	5	100	0	58	0	58	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12636771--12636954	92	2.0	92	92	0	305	33	17	20	27	1.96
12641738--12641936	109	1.8	109	87	2	301	23	23	6	47	1.74
12642753--12642793	20	2.0	21	85	4	57	58	4	17	19	1.56
12660729--12660799	30	2.4	30	82	0	88	52	8	7	32	1.59
12662345--12662468	63	2.0	63	80	3	142	25	15	16	42	1.87
12664104--12664159	29	1.9	29	85	0	76	48	16	10	25	1.78
12664115--12664173	31	2.0	29	86	6	82	44	15	11	28	1.82
12665610--12665635	9	2.9	9	100	0	52	46	19	11	23	1.82
12675317--12675364	21	2.3	21	85	0	60	47	0	0	52	1.00
12675328--12675367	21	1.9	21	94	0	71	45	0	0	55	0.99
12675391--12675644	82	3.1	81	83	7	325	40	4	2	52	1.35
12680016--12680054	21	1.9	20	84	5	51	58	7	17	15	1.59
12680023--12680062	19	2.0	21	85	9	57	52	7	20	20	1.70
12692450--12692478	2	14.5	2	100	0	58	0	48	0	51	1.00
12698799--12698831	15	2.3	15	94	5	59	39	0	0	60	0.97
12702688--12702712	5	5.0	5	100	0	50	80	0	20	0	0.72
12704946--12704992	26	1.9	24	83	12	60	42	0	0	57	0.98
12705382--12705731	190	1.8	190	81	0	439	31	18	19	30	1.96
12716064--12716105	21	2.0	21	95	0	75	19	21	14	45	1.85
12716413--12716506	45	2.1	45	95	0	170	40	10	20	28	1.86
12718875--12718912	3	12.7	3	100	0	76	0	34	0	65	0.93
12729764--12729859	33	2.8	34	82	6	113	64	1	3	31	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12729810--12729875	15	4.1	16	71	19	57	63	1	4	30	1.23
12730082--12730131	15	3.3	15	88	0	73	36	28	4	32	1.76
12732350--12732437	46	1.9	46	88	0	131	42	7	40	9	1.66
12732401--12732468	31	2.2	31	89	0	100	41	5	44	8	1.60
12732332--12732526	77	2.5	77	91	0	311	41	7	43	8	1.63
12732474--12732577	31	3.4	31	84	0	136	44	5	44	5	1.52
12732393--12732638	108	2.3	108	83	2	305	43	6	43	7	1.57
12732527--12732624	46	2.1	47	82	3	126	43	5	44	6	1.51
12760466--12760497	2	16.0	2	100	0	64	0	50	0	50	1.00
12762980--12763064	19	4.4	19	70	14	59	40	3	3	52	1.36
12764224--12764263	21	2.0	20	85	5	53	42	7	5	45	1.54
12769566--12769653	26	3.4	26	77	14	83	32	18	9	39	1.82
12769785--12769888	53	1.9	53	82	9	129	31	12	12	43	1.80
12771393--12771435	21	2.0	21	86	8	61	32	0	6	60	1.23
12776706--12776749	21	2.1	21	87	4	63	52	4	15	27	1.63
12790229--12790336	32	3.2	33	78	16	112	66	0	1	30	1.08
12790280--12790349	32	2.4	28	80	15	79	67	1	2	28	1.14
12790245--12790331	12	6.8	12	68	12	57	70	1	1	27	1.02
12791389--12791464	23	3.3	23	88	0	116	18	31	18	31	1.95
12792360--12792452	28	3.0	32	76	15	113	49	5	10	34	1.60
12808378--12808435	29	2.0	29	82	0	71	25	10	15	48	1.77
12809996--12810070	15	4.5	15	72	25	53	14	4	2	78	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12810618--12810693	23	3.3	23	90	0	116	19	30	18	31	1.96
12821762--12821802	2	21.5	2	80	9	50	43	0	2	53	1.13
12821762--12821804	20	2.0	20	91	8	68	41	0	2	55	1.12
12826763--12826836	29	2.5	30	95	4	132	68	0	24	6	1.13
12827849--12827917	35	2.0	35	85	0	93	59	14	2	23	1.49
12828412--12828468	30	1.9	30	82	7	71	45	3	0	50	1.18
12828518--12828566	16	2.8	18	72	12	57	46	0	0	53	1.00
12840865--12840906	15	2.8	15	96	0	75	21	7	35	35	1.81
12842431--12842470	20	2.0	21	90	5	64	32	15	5	47	1.66
12843027--12843090	30	2.1	31	85	8	87	46	21	3	28	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32