genome.fa.s16.2.7.7.80.10.50.1000.13.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  13  of  14  ( 1598 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)
4934871--4935027	61	2.6	62	82	2	174	38	13	17	30	1.88
4934911--4935018	31	3.5	31	78	3	103	37	13	17	30	1.89
4935036--4935139	52	2.0	52	94	0	181	35	14	20	29	1.92
4938786--4938834	2	24.5	2	91	0	80	48	4	0	46	1.20
4945605--4945634	15	2.0	15	100	0	60	33	26	13	26	1.93
4964471--4964508	16	2.3	17	86	4	51	13	7	21	57	1.60
4967426--4967468	18	2.3	19	88	4	61	60	0	4	34	1.17
4977086--4977277	28	6.7	29	79	12	200	36	14	10	39	1.80
4977116--4977277	58	2.9	59	86	7	212	37	13	9	39	1.78
4979580--4979719	73	1.9	73	86	0	199	36	15	22	26	1.93
4979580--4979739	73	2.2	73	83	0	194	35	15	22	26	1.93
4987337--4987474	73	1.9	72	83	2	179	26	22	15	36	1.93
5004358--5004605	116	2.1	117	86	3	340	56	4	1	38	1.28
5004479--5004559	22	3.5	23	76	14	76	56	3	0	39	1.17
5004496--5004558	26	2.6	24	85	11	92	55	1	0	42	1.09
5004390--5004605	117	1.9	116	91	2	353	57	4	0	37	1.24
5004394--5004657	117	2.3	115	83	5	309	56	3	1	37	1.28
5008134--5009028	47	19.3	47	82	3	916	26	18	30	25	1.98
5008134--5009009	139	6.3	141	80	4	886	26	18	30	24	1.98
5008134--5009028	186	4.8	186	80	4	902	26	18	30	25	1.98
5008398--5008574	24	7.5	24	67	17	111	22	19	34	23	1.97
5009771--5009975	31	6.6	31	75	4	162	23	16	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015401--5015520	63	1.9	63	84	0	159	33	12	29	25	1.92
5024320--5024355	18	2.0	18	100	0	72	22	16	22	38	1.93
5031540--5031575	10	3.6	10	88	11	56	38	2	8	50	1.47
5034921--5034951	16	1.9	16	93	0	53	12	3	19	64	1.41
5036306--5036538	80	2.9	81	81	6	271	34	11	21	32	1.89
5040020--5040058	17	2.4	16	87	12	53	10	5	5	79	1.04
5040030--5040104	16	4.2	18	73	20	52	17	5	4	73	1.18
5040063--5040111	19	2.6	19	87	6	64	16	6	4	73	1.19
5040088--5040138	26	2.0	26	84	7	68	19	3	7	68	1.30
5040452--5040531	41	2.0	41	84	0	106	41	20	7	31	1.80
5040467--5040665	107	1.9	106	86	1	281	35	16	9	38	1.80
5040370--5040743	107	3.5	103	76	9	274	37	17	8	35	1.81
5040683--5040782	43	2.4	42	81	5	121	40	22	6	32	1.78
5044615--5044671	29	2.0	29	96	0	105	29	12	22	35	1.91
5072758--5072805	22	2.4	19	83	13	60	77	0	16	6	0.97
5079273--5079306	16	2.1	16	100	0	68	32	17	14	35	1.91
5083673--5083729	25	2.2	25	84	6	69	22	17	33	26	1.96
5083685--5083745	25	2.5	25	81	2	70	26	14	32	26	1.95
5089898--5090010	40	2.8	40	82	7	131	32	26	9	30	1.89
5090758--5090793	17	2.1	17	89	0	54	47	13	16	22	1.82
5096990--5097039	24	2.0	24	88	7	73	30	24	22	24	1.99
5099026--5099155	65	2.0	65	83	6	163	40	10	16	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5102709--5102904	71	2.8	71	79	9	188	26	17	19	35	1.95
5102780--5102936	71	2.2	71	80	10	187	26	22	17	33	1.96
5105325--5105357	15	2.2	15	100	0	66	24	12	21	42	1.86
5106359--5106403	22	2.0	22	100	0	90	35	15	17	31	1.92
5113091--5113131	21	2.1	19	86	9	55	60	9	0	29	1.28
5118854--5118970	35	3.3	35	80	0	144	32	22	12	32	1.92
5122942--5123072	70	1.9	70	84	9	178	39	17	5	37	1.73
5137373--5137415	19	2.3	19	92	4	70	53	0	0	46	1.00
5137383--5137428	19	2.4	19	85	0	56	60	0	0	39	0.97
5141922--5141961	18	2.2	19	86	4	55	50	2	20	27	1.61
5142294--5142638	29	11.9	29	77	7	299	39	9	14	36	1.78
5142332--5142628	115	2.6	116	80	2	319	39	10	13	37	1.78
5148866--5148949	36	2.3	37	78	12	93	35	4	10	48	1.59
5153318--5153379	21	2.9	21	82	2	79	24	16	25	33	1.95
5157016--5157296	29	9.6	29	79	6	289	35	11	14	37	1.83
5157026--5157296	57	4.6	57	80	5	283	35	11	15	37	1.84
5157016--5157227	86	2.5	87	84	2	275	37	9	14	38	1.80
5159723--5159822	36	2.8	36	84	3	112	32	20	19	29	1.96
5166067--5166110	21	2.0	22	86	4	63	29	0	9	61	1.27
5168985--5169012	4	7.0	4	100	0	56	75	0	0	25	0.81
5181651--5181690	10	4.0	10	83	0	53	57	0	40	2	1.12
5182627--5182689	33	2.0	31	84	6	81	33	22	9	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5183771--5183807	2	18.5	2	94	0	65	48	0	2	48	1.15
5192910--5192947	19	2.0	19	94	0	67	60	2	36	0	1.11
5198078--5198355	28	9.8	28	82	6	335	38	11	13	36	1.81
5213422--5213487	7	8.9	8	73	14	61	0	37	0	62	0.96
5213448--5213487	15	2.6	16	88	7	57	0	37	0	62	0.95
5213424--5213483	23	2.7	22	84	5	77	0	36	0	63	0.95
5234169--5234224	25	2.2	25	87	0	76	26	14	30	28	1.95
5238659--5238704	20	2.2	21	88	11	69	71	0	21	6	1.08
5238810--5238842	14	2.5	13	90	9	50	63	0	30	6	1.18
5246311--5246487	29	6.2	29	74	5	155	38	10	12	37	1.79
5247165--5247344	29	6.3	29	79	5	186	38	11	12	37	1.79
5261909--5262091	92	2.0	92	91	0	294	36	15	16	31	1.90
5263041--5263143	37	2.8	37	78	1	107	30	25	13	31	1.94
5263146--5263235	35	2.5	37	82	8	105	15	16	25	42	1.88
5270298--5270339	15	2.6	17	88	7	61	19	2	7	71	1.20
5270761--5270807	19	2.5	19	82	0	67	38	14	0	46	1.45
5271566--5271828	68	3.9	68	76	3	199	38	10	17	33	1.84
5299241--5299295	22	2.5	22	76	8	58	36	16	3	43	1.65
5299517--5299619	34	3.0	34	78	5	118	31	33	8	27	1.87
5302836--5302864	7	4.1	7	100	0	58	0	13	58	27	1.36
5316884--5317026	41	3.5	41	82	0	160	38	17	20	23	1.93
5318746--5318921	23	7.9	21	68	16	68	34	11	17	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5318836--5318925	23	4.0	23	75	1	74	38	8	14	37	1.77
5319621--5319661	21	2.0	21	85	0	55	24	7	39	29	1.82
5322759--5323142	31	12.4	31	73	4	263	26	17	29	26	1.98
5322716--5322922	62	3.3	61	74	6	175	27	16	29	26	1.97
5322798--5323046	93	2.7	93	87	0	336	27	19	28	24	1.99
5322716--5323098	124	3.1	123	82	1	354	27	17	28	26	1.98
5322867--5323142	124	2.2	124	87	0	390	26	18	28	26	1.98
5323011--5323204	93	2.1	92	78	2	199	26	15	27	29	1.96
5322867--5323208	124	2.8	123	82	3	310	27	17	28	26	1.98
5323249--5323308	23	2.6	23	86	5	77	26	28	30	15	1.96
5327037--5327302	31	8.6	31	87	0	352	36	19	15	28	1.92
5327037--5327302	93	2.9	93	87	0	388	36	19	15	28	1.92
5327959--5328276	47	6.8	47	81	2	291	23	31	16	27	1.97
5327971--5328276	141	2.2	139	80	2	362	24	31	16	28	1.96
5328318--5328361	23	1.9	23	85	0	61	25	36	9	29	1.86
5330703--5330732	16	1.9	16	93	6	53	30	0	6	63	1.20
5331423--5331472	23	2.2	23	81	0	55	44	22	8	26	1.80
5331430--5331475	23	2.0	23	91	0	74	36	26	10	26	1.89
5340797--5340824	3	9.3	3	100	0	56	35	0	0	64	0.94
5342375--5342420	2	23.0	2	90	0	74	45	2	2	50	1.26
5342423--5342449	2	13.5	2	100	0	54	0	0	51	48	1.00
5342772--5342806	15	2.4	15	95	4	63	77	0	8	14	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5362775--5362909	67	2.0	67	81	5	157	29	13	23	33	1.93
5377339--5377373	16	2.1	17	89	5	54	42	22	17	17	1.88
5382368--5382405	14	2.7	14	87	0	58	50	18	7	23	1.73
5389891--5389920	8	3.9	8	95	4	53	66	6	0	26	1.16
5389883--5389922	7	5.4	7	88	5	53	70	5	0	25	1.08
5389883--5389922	15	2.7	14	82	14	53	70	5	0	25	1.08
5392592--5392748	49	3.2	49	78	5	174	28	12	24	35	1.91
5393379--5393414	5	7.2	5	93	0	63	41	0	16	41	1.48
5402925--5402972	25	1.9	25	86	0	69	25	31	18	25	1.98
5429593--5429624	3	11.0	3	93	6	57	65	0	0	34	0.93

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