genome.fa.s3.2.7.7.80.10.50.1000.28.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  28  of  29  ( 3437 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)
12623413--12623443	15	2.0	16	93	6	55	77	12	9	0	0.99
12636730--12636760	14	2.2	14	94	0	53	0	16	0	83	0.64
12661087--12661112	2	13.0	2	100	0	52	0	50	0	50	1.00
12670649--12670675	2	13.5	2	100	0	54	48	0	51	0	1.00
12686988--12687041	24	2.2	25	78	15	60	53	0	1	44	1.11
12701896--12703132	434	2.9	431	85	4	1569	36	11	18	33	1.87
12710594--12710656	32	2.0	32	96	0	117	17	9	12	60	1.58
12721883--12721940	22	2.6	22	77	0	62	48	13	5	32	1.65
12723037--12723098	28	2.2	28	82	2	81	43	22	11	22	1.85
12723420--12723518	27	3.7	27	82	2	119	37	22	18	22	1.94
12723416--12723518	54	1.9	54	86	4	145	38	21	18	21	1.93
12724376--12724646	143	1.9	144	84	0	364	25	20	20	33	1.97
12736032--12736068	2	18.5	2	94	0	65	48	2	0	48	1.15
12743684--12743784	52	2.0	51	88	2	148	25	28	16	28	1.97
12745707--12745753	22	2.1	22	96	0	85	34	34	19	12	1.89
12749867--12749903	19	1.9	19	88	0	56	59	2	35	2	1.26
12759793--12759827	12	2.8	12	86	4	52	62	8	0	28	1.24
12770739--12770804	26	2.6	27	79	13	77	39	1	0	59	1.07
12770801--12770844	18	2.3	19	84	7	54	52	0	0	47	1.00
12770891--12770926	18	1.9	19	88	5	56	50	5	0	44	1.25
12771011--12771051	20	2.0	21	90	4	66	65	0	0	34	0.93
12772741--12772773	8	4.1	8	85	14	50	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12772903--12772930	11	2.5	11	100	0	56	53	0	0	46	1.00
12773010--12773044	16	2.2	16	90	5	54	40	0	0	60	0.97
12783444--12783486	14	3.2	13	80	9	50	51	2	0	46	1.13
12783962--12784000	16	2.5	15	84	12	51	61	0	0	38	0.96
12784273--12784313	21	2.1	19	90	9	64	63	0	2	34	1.08
12788299--12788340	20	2.1	20	86	8	59	16	2	2	78	0.96
12814587--12814891	98	3.1	97	81	4	337	37	8	6	47	1.58
12815466--12815491	3	8.7	3	100	0	52	69	0	0	30	0.89
12816164--12816192	15	1.9	15	100	0	58	72	0	0	27	0.85
12846009--12846074	22	3.2	22	81	12	61	40	0	3	56	1.15
12846815--12846880	30	2.3	28	81	5	78	46	0	0	53	1.00
12847096--12847173	29	2.6	29	78	15	79	50	0	5	44	1.24
12847201--12847243	22	1.9	22	95	4	77	58	2	0	39	1.11
12857387--12857416	3	10.0	3	100	0	60	33	0	0	66	0.92
12863732--12863761	2	15.5	2	93	6	53	46	0	0	53	1.00
12874431--12874514	40	2.1	40	97	0	159	23	20	14	41	1.89
12876706--12876739	2	17.0	2	93	0	59	47	2	0	50	1.16
12902103--12902135	14	2.3	15	89	5	50	39	3	0	57	1.14
12916133--12916161	8	3.8	8	95	4	51	93	0	6	0	0.36
12916134--12916163	14	2.1	14	93	6	51	90	0	10	0	0.47
12917435--12917475	20	2.0	20	100	0	82	46	14	14	24	1.82
12928320--12928448	67	1.9	67	87	1	188	48	2	4	44	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12928311--12928461	67	2.2	66	77	13	164	51	1	3	42	1.31
12939402--12939451	2	25.5	2	91	4	84	48	0	2	50	1.12
12945817--12945889	36	2.0	36	94	0	128	26	17	16	39	1.91
12952575--12952607	3	11.0	3	93	0	57	0	30	0	69	0.88
12959710--12959760	20	2.5	21	77	6	59	54	0	0	45	0.99
12965789--12965840	12	4.2	12	78	7	50	0	5	13	80	0.88
12967980--12968014	3	11.3	3	93	6	61	34	2	31	31	1.73
12968985--12969185	78	2.6	77	89	1	303	36	13	18	30	1.90
12975199--12975227	13	2.2	13	100	0	58	20	41	20	17	1.90
12975625--12975654	2	15.0	2	92	0	51	46	0	3	50	1.18
12982293--12982317	13	1.9	13	100	0	50	84	0	0	16	0.63
12982452--12982529	30	2.7	28	76	9	77	42	2	1	53	1.22
12990974--12990998	2	12.5	2	100	0	50	48	0	0	52	1.00
12991086--12991119	14	2.4	14	90	0	50	29	5	0	64	1.17
12992072--12992103	15	2.2	14	94	5	55	46	9	0	43	1.35
13006328--13006360	10	3.4	10	87	4	50	78	0	18	3	0.87
13008354--13008381	2	14.0	2	100	0	56	50	0	50	0	1.00
13020232--13020259	12	2.3	12	100	0	56	46	7	32	14	1.71
13038784--13038828	23	2.0	23	86	4	65	53	0	2	44	1.13
13045364--13045416	25	2.1	25	96	0	97	18	9	28	43	1.81
13056865--13056908	18	2.4	18	92	0	70	0	50	2	47	1.13
13056862--13056908	9	5.2	9	81	0	58	0	48	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13066085--13066110	11	2.4	11	100	0	52	0	19	0	80	0.71
13069633--13069694	31	2.0	31	83	3	79	56	1	0	41	1.09
13079796--13079840	1	45.0	1	100	0	90	100	0	0	0	0.00
13086124--13086178	23	2.6	22	78	15	55	50	1	0	47	1.11
13129588--13129643	27	2.1	27	83	12	71	69	7	1	21	1.22
13132400--13132447	2	24.5	2	91	4	80	52	0	0	47	1.00
13133194--13133226	15	2.3	14	94	5	57	0	27	0	72	0.85
13141280--13141322	18	2.4	18	81	14	61	0	6	37	55	1.27
13141439--13141475	3	12.3	3	91	0	56	37	2	32	27	1.71
13144636--13144675	20	2.1	19	86	9	55	32	0	2	65	1.06
13144650--13144711	30	2.0	32	84	12	85	46	0	0	53	1.00
13170058--13170088	2	15.5	2	100	0	62	0	0	51	48	1.00
13170088--13170114	2	13.5	2	100	0	54	48	0	51	0	1.00
13174698--13174782	42	2.0	42	93	0	143	16	16	22	44	1.86
13179465--13179518	23	2.3	23	83	0	63	35	18	9	37	1.83
13179556--13179635	22	3.6	22	74	12	74	53	15	2	28	1.54
13179735--13179848	51	2.2	50	83	9	133	42	11	8	37	1.72
13180935--13181022	25	3.4	25	80	9	88	53	4	6	35	1.48
13180994--13181106	32	3.8	29	80	6	104	50	8	1	38	1.44
13181004--13181106	29	3.5	29	81	7	111	52	8	0	37	1.39
13181094--13181165	25	2.8	27	77	10	78	44	2	11	41	1.54
13186197--13186277	41	2.0	41	87	4	119	53	1	3	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13186265--13186305	22	2.0	20	90	9	64	56	0	2	41	1.13
13186299--13186395	33	3.3	29	77	16	101	59	2	1	37	1.16
13186314--13186385	33	2.2	33	92	5	119	65	2	1	30	1.15
13186263--13186394	33	4.8	26	72	18	81	59	1	1	37	1.16
13186374--13186448	21	3.6	21	71	20	75	58	0	2	38	1.12
13194836--13194860	12	2.1	12	100	0	50	32	40	0	28	1.57
13209862--13209898	2	18.5	2	100	0	74	51	0	0	48	1.00
13210742--13210771	15	2.0	15	100	0	60	26	20	20	33	1.97
13210743--13210777	15	2.3	15	90	0	52	31	17	20	31	1.95
13214732--13214760	14	2.1	14	100	0	58	58	0	0	41	0.98
13218461--13218491	12	2.6	12	89	0	53	0	67	22	9	1.19
13221327--13221362	18	2.0	18	88	0	54	50	5	2	41	1.40
13227194--13227259	31	2.2	31	91	2	107	36	3	3	57	1.29
13238978--13239038	22	2.7	23	76	5	61	55	1	0	42	1.09
13238982--13239033	23	2.5	20	74	17	52	57	0	0	42	0.98
13249671--13249720	14	3.3	15	76	23	52	40	0	4	56	1.18
13250086--13250148	31	2.1	30	84	3	81	61	0	1	36	1.05
13250097--13250149	27	1.9	28	85	11	74	66	0	0	33	0.92
13251124--13251182	30	2.0	30	90	3	93	52	0	3	44	1.17
13251142--13251221	28	2.8	27	81	12	81	56	1	6	36	1.33
13256221--13256277	30	2.0	29	86	6	80	36	3	24	35	1.73
13256229--13256286	30	1.9	30	92	0	98	37	1	24	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13256314--13256429	58	2.0	60	84	3	155	30	9	17	43	1.80
13258125--13258172	17	2.8	17	78	9	53	47	0	2	50	1.12
13266671--13266695	2	12.5	2	100	0	50	0	48	0	52	1.00
13279110--13279139	2	15.0	2	92	0	51	50	3	0	46	1.18
13280886--13280914	2	14.5	2	100	0	58	0	48	0	51	1.00
13281896--13281929	3	11.3	3	93	0	59	35	61	0	2	1.11
13282516--13282545	2	15.0	2	100	0	60	50	0	0	50	1.00
13291181--13291225	19	2.2	20	88	7	65	51	8	6	33	1.59
13295139--13295428	151	1.9	153	86	4	415	41	10	15	32	1.82
13295449--13295819	164	2.3	163	81	5	419	40	15	15	29	1.87

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