genome.fa.s3.2.7.7.80.10.50.1000.26.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  26  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)
11356154--11356367	117	1.8	117	81	4	270	24	23	24	27	2.00
11362403--11362437	17	1.9	17	88	11	52	57	0	0	42	0.99
11362403--11362439	18	2.0	19	89	5	58	56	0	0	43	0.99
11373278--11373346	27	2.6	27	78	0	84	28	15	31	23	1.95
11373289--11373353	27	2.4	27	84	0	85	27	15	33	23	1.95
11387218--11387263	2	23.0	2	95	0	83	52	0	47	0	1.00
11388900--11388959	11	5.5	11	77	20	56	66	1	30	1	1.11
11391482--11391507	2	13.0	2	100	0	52	50	0	0	50	1.00
11397470--11397525	22	2.6	21	73	21	53	39	3	3	53	1.36
11410322--11410360	20	2.0	20	94	0	69	12	17	2	66	1.35
11417972--11418039	32	2.2	29	85	12	84	51	0	1	47	1.09
11438779--11438811	3	11.0	3	100	0	66	33	0	0	66	0.92
11449542--11449566	2	12.5	2	100	0	50	52	0	0	48	1.00
11469337--11469363	8	3.4	8	100	0	54	22	0	0	77	0.76
11480162--11480202	21	2.0	20	85	4	55	73	19	7	0	1.07
11493844--11493877	17	1.9	18	88	5	52	50	14	8	26	1.72
11495887--11495915	2	14.5	2	100	0	58	51	0	0	48	1.00
11499875--11499901	12	2.2	12	100	0	54	18	25	44	11	1.83
11499841--11499927	18	4.8	18	73	8	52	27	19	35	17	1.94
11508842--11508875	6	5.5	6	89	6	50	11	5	67	14	1.39
11508842--11508875	13	2.8	12	86	8	50	11	5	67	14	1.39
11514371--11514395	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11520770--11520802	18	1.9	17	88	11	50	42	9	6	42	1.61
11540184--11540257	12	6.4	12	71	23	52	75	10	13	0	1.04
11557124--11557342	27	7.8	27	68	14	95	41	1	2	54	1.25
11557278--11557357	26	3.0	26	82	8	83	42	1	1	55	1.16
11557320--11557368	26	2.0	25	84	8	64	44	2	0	53	1.12
11557274--11557386	43	2.7	42	84	5	138	45	0	0	53	1.12
11557097--11557677	153	3.9	152	84	7	758	40	1	2	55	1.22
11557104--11557677	297	1.9	291	88	5	852	40	1	2	55	1.22
11557411--11557469	27	2.1	28	87	3	84	42	0	1	55	1.09
11557435--11557517	22	4.0	20	67	19	53	46	2	1	49	1.22
11557578--11557721	42	3.5	40	77	12	130	43	3	0	52	1.23
11566883--11566964	15	5.4	15	92	1	110	36	9	21	31	1.86
11566891--11566964	30	2.5	30	90	0	130	35	9	24	31	1.87
11567180--11567596	26	15.7	26	66	25	121	34	1	0	64	1.06
11567257--11567295	14	3.1	14	75	24	50	43	5	0	51	1.24
11567265--11567345	33	2.6	31	79	9	101	38	1	0	60	1.05
11567110--11567554	110	4.0	112	87	10	675	35	2	0	62	1.10
11567296--11567588	8	33.9	9	62	29	65	33	1	0	64	1.07
11567446--11567596	70	2.2	70	85	4	198	31	1	0	66	1.00
11567113--11567569	223	2.0	221	89	8	703	35	2	0	62	1.09
11567439--11567595	31	4.9	31	74	13	104	32	1	0	66	1.00
11567524--11567594	21	3.5	20	74	16	67	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11567486--11567641	31	4.1	39	75	18	141	30	1	0	67	1.06
11567446--11567666	70	3.2	68	77	12	168	31	2	0	66	1.08
11567640--11567705	34	2.0	33	85	14	91	33	1	0	65	1.02
11583362--11583386	2	12.5	2	100	0	50	52	0	48	0	1.00
11591230--11591262	17	2.0	17	94	5	59	54	0	0	45	0.99
11608081--11608341	33	7.7	32	71	17	156	31	3	1	63	1.18
11608072--11608214	73	2.0	72	79	10	157	31	4	1	62	1.22
11608295--11608580	16	16.8	16	65	21	68	30	2	0	66	1.11
11608287--11608376	24	3.8	24	75	14	82	34	1	0	64	1.01
11608407--11608492	33	2.6	34	83	10	106	31	1	0	67	0.98
11608443--11608581	5	27.4	5	66	16	63	28	1	0	69	1.03
11608415--11608487	26	2.7	27	82	12	80	31	1	0	67	1.00
11608415--11608488	13	5.4	15	70	23	56	31	1	0	67	0.99
11609130--11609171	15	2.7	16	82	10	52	71	0	0	28	0.86
11609113--11609169	15	4.1	13	74	14	51	64	0	0	35	0.93
11609113--11609167	21	2.5	22	75	13	60	63	0	0	36	0.95
11609113--11609174	22	2.9	22	70	4	54	64	0	0	35	0.94
11618143--11618176	3	11.3	3	93	0	59	32	2	0	64	1.08
11621730--11621789	19	3.4	17	77	11	57	41	0	1	56	1.09
11621741--11621799	19	3.2	19	79	15	61	44	0	0	55	0.99
11621761--11621794	17	1.9	18	94	5	61	38	0	0	61	0.96
11621797--11621905	28	3.9	27	71	17	73	51	1	0	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11627504--11627532	15	1.9	15	100	0	58	27	34	20	17	1.95
11630789--11630832	20	2.2	20	95	0	79	34	11	27	27	1.91
11632923--11632954	10	3.2	10	95	0	55	34	21	18	25	1.96
11645321--11645358	19	2.0	19	94	0	67	28	26	7	36	1.84
11661528--11661584	17	3.1	19	82	14	75	50	0	0	49	1.00
11661528--11661606	34	2.3	35	84	4	97	54	0	0	45	0.99
11661551--11661604	17	3.2	17	73	23	51	57	0	0	42	0.98
11662109--11662280	86	2.0	86	100	0	344	33	20	18	26	1.96
11663031--11663079	24	2.0	25	84	8	64	55	2	2	40	1.23
11663127--11663169	22	1.9	23	85	4	61	48	0	9	41	1.35
11663250--11663317	10	7.2	10	67	12	54	69	0	0	30	0.89
11663250--11663317	28	2.4	28	100	0	136	69	0	0	30	0.89
11663250--11663317	18	3.7	18	74	4	64	69	0	0	30	0.89
11663283--11663326	18	2.3	18	84	7	52	63	2	0	34	1.07
11668034--11668077	18	2.5	19	85	14	67	25	0	0	75	0.81
11668020--11668078	14	4.2	14	75	16	52	23	0	0	76	0.79
11668037--11668089	23	2.2	24	80	3	63	26	3	0	69	1.05
11668156--11668230	20	3.8	18	71	23	53	26	4	4	65	1.28
11671708--11671733	7	3.7	7	100	0	52	88	0	11	0	0.52
11678775--11678820	24	1.9	24	86	8	67	52	32	6	8	1.58
11728012--11728056	18	2.3	20	85	7	58	53	4	4	37	1.41
11734744--11734796	26	2.0	26	96	0	97	37	3	16	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11736150--11736176	14	1.9	14	100	0	54	37	11	14	37	1.82
11738130--11738181	27	1.9	27	88	0	77	25	21	30	23	1.99
11740126--11740182	29	2.0	29	82	6	71	57	0	12	29	1.35
11745649--11745698	17	2.9	17	80	19	59	60	0	0	40	0.97
11748477--11748650	83	2.1	85	93	2	298	32	16	17	33	1.92
11752669--11752694	2	13.0	2	100	0	52	0	50	0	50	1.00
11767919--11767949	2	15.5	2	100	0	62	0	0	48	51	1.00
11774985--11775023	19	2.1	19	90	0	60	53	7	7	30	1.57
11775146--11775189	22	1.9	24	90	9	74	43	0	0	56	0.99
11775144--11775193	22	2.3	20	81	18	64	42	0	0	58	0.98
11792733--11792783	24	2.1	25	85	7	70	35	1	0	62	1.06
11792938--11792995	30	1.9	30	82	6	73	56	0	1	41	1.09
11802038--11802080	22	1.9	23	85	4	61	13	27	2	55	1.51
11817102--11817130	3	9.7	3	100	0	58	65	0	0	34	0.93
11817601--11817634	2	17.0	2	87	0	50	50	5	0	44	1.26
11820178--11820207	2	15.5	2	93	6	53	46	0	0	53	1.00
11822211--11822246	18	2.0	18	94	0	63	25	5	38	30	1.78
11823825--11823851	14	1.9	14	100	0	54	55	0	0	44	0.99
11827391--11827418	2	14.0	2	100	0	56	50	0	0	50	1.00
11831345--11831418	27	2.7	27	81	8	87	37	0	1	60	1.05
11831378--11831437	29	2.1	29	84	6	77	46	0	0	53	1.00
11831548--11831597	26	2.0	26	88	4	75	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11831560--11831612	20	2.5	21	78	12	54	66	1	0	32	1.03
11848723--11848760	2	19.0	2	100	0	76	50	0	50	0	1.00
11870443--11870476	16	2.0	18	88	11	54	26	0	0	73	0.83
11871321--11871357	15	2.2	18	86	13	53	37	0	0	62	0.96
11892322--11892456	66	2.0	66	100	0	270	25	17	17	40	1.91
11907647--11907672	2	13.0	2	100	0	52	50	0	0	50	1.00
11927014--11927053	5	8.0	5	91	8	64	57	0	0	42	0.98
11933003--11933045	2	21.5	2	100	0	86	48	0	0	51	1.00
11941410--11941461	21	2.5	22	81	9	63	57	3	0	38	1.17
11943426--11943523	5	19.2	5	68	19	51	69	1	1	28	1.02

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