genome.fa.s6.2.7.7.80.10.50.1000.11.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  11  of  22  ( 2632 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)
4379759--4379796	2	20.0	2	89	10	62	52	0	0	47	1.00
4379759--4379796	13	3.0	13	96	3	69	52	0	0	47	1.00
4388430--4388463	3	11.3	3	100	0	68	67	0	32	0	0.91
4388837--4388862	5	5.2	5	100	0	52	80	0	19	0	0.71
4411059--4411115	27	2.1	27	100	0	114	29	7	14	49	1.69
4411327--4411368	20	2.0	21	86	13	61	42	2	2	52	1.27
4412517--4412812	164	1.8	164	81	0	376	28	16	12	42	1.84
4413192--4413239	5	9.8	5	80	13	55	0	16	0	83	0.65
4413177--4413237	25	2.6	23	80	10	68	3	13	0	83	0.76
4413187--4413232	14	3.1	14	87	9	65	2	10	0	86	0.64
4413177--4413233	9	6.0	9	78	13	53	3	12	0	84	0.75
4413192--4413239	14	3.3	14	85	5	60	0	16	0	83	0.65
4413431--4413484	19	2.8	20	81	15	62	77	1	18	1	0.95
4413436--4413477	20	2.0	20	86	4	57	78	0	19	2	0.86
4414509--4414547	18	2.2	18	85	0	51	46	17	5	30	1.70
4415075--4415156	21	3.9	21	73	19	64	58	7	2	31	1.38
4415970--4416016	10	4.7	10	76	7	51	53	4	0	42	1.20
4416371--4416432	32	1.9	32	83	0	79	61	3	0	35	1.12
4417545--4417587	19	2.2	19	83	8	50	60	4	6	27	1.43
4420209--4420233	6	4.2	6	100	0	50	84	0	16	0	0.63
4442568--4442979	90	4.6	89	76	5	263	35	17	24	23	1.95
4442594--4442979	180	2.1	180	80	3	420	34	17	23	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4451041--4451107	30	2.2	29	84	10	82	59	0	1	38	1.06
4451100--4451146	10	4.7	10	76	7	51	42	0	4	53	1.20
4451957--4452005	21	2.3	21	82	10	64	30	2	10	57	1.43
4453057--4453120	31	2.1	31	96	0	119	43	17	17	21	1.87
4459266--4459968	357	2.0	357	84	5	929	21	21	16	40	1.91
4468159--4468271	57	2.0	57	94	0	199	38	25	10	24	1.88
4469163--4469206	22	2.0	23	86	4	63	45	0	0	54	0.99
4469180--4469231	17	3.1	17	80	2	61	34	3	1	59	1.27
4470794--4470870	35	2.2	34	84	6	93	59	10	0	29	1.30
4472207--4472241	16	2.2	16	89	0	52	51	0	0	48	1.00
4497195--4497246	24	2.2	24	85	0	68	26	9	3	59	1.46
4517320--4517465	24	6.1	24	69	6	89	22	20	19	37	1.94
4517299--4517446	48	3.1	46	75	11	136	22	20	19	37	1.95
4517693--4517727	18	1.9	18	88	0	52	74	5	5	14	1.19
4518367--4518430	24	2.7	24	80	7	67	14	14	26	45	1.82
4527189--4527350	48	3.4	48	72	4	139	17	20	23	38	1.93
4527281--4527355	24	3.1	24	73	7	71	17	22	24	36	1.95
4527365--4527424	24	2.5	25	89	5	88	20	13	26	40	1.89
4527365--4527433	24	2.9	24	82	0	75	18	14	26	40	1.89
4528466--4528548	24	3.5	24	75	6	69	14	22	25	37	1.92
4529360--4529387	2	14.0	2	100	0	56	50	0	0	50	1.00
4531223--4531266	21	2.1	21	91	0	70	43	20	18	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534996--4535048	26	2.0	26	100	0	106	50	18	3	26	1.64
4535933--4536011	24	3.3	24	71	5	70	12	15	25	46	1.80
4535933--4536156	48	4.7	48	73	9	154	17	15	25	41	1.88
4536077--4536155	24	3.3	24	77	7	79	18	15	24	41	1.89
4538043--4538080	2	19.0	2	100	0	76	50	0	0	50	1.00
4553913--4554000	24	3.7	24	78	0	104	13	20	27	38	1.90
4553926--4554112	48	3.9	47	77	6	155	17	17	27	37	1.93
4555127--4555212	24	3.6	25	68	14	65	20	18	20	39	1.93
4555495--4555529	18	1.9	18	88	0	52	74	5	5	14	1.19
4560117--4560207	24	3.8	24	82	2	85	16	18	21	42	1.89
4560141--4561073	135	6.9	135	86	4	1179	19	17	27	36	1.94
4560682--4560747	24	2.8	24	85	0	78	9	21	25	43	1.81
4560820--4560881	24	2.6	23	84	5	79	16	17	24	41	1.89
4560958--4561017	24	2.5	25	83	8	79	11	18	31	38	1.87
4562985--4563095	24	4.6	24	75	0	87	11	16	26	45	1.81
4595101--4595126	2	13.0	2	100	0	52	0	50	0	50	1.00
4599145--4599174	2	15.0	2	100	0	60	50	50	0	0	1.00
4613527--4613560	16	2.1	16	88	0	50	58	0	0	41	0.98
4633431--4633460	2	15.0	2	100	0	60	0	50	0	50	1.00
4646186--4646310	62	2.0	62	92	3	207	56	15	11	17	1.68
4649539--4649582	18	2.3	18	80	7	52	63	4	29	2	1.26
4651679--4651703	10	2.5	10	100	0	50	80	0	12	8	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4658763--4658806	4	11.0	4	85	0	61	27	0	25	47	1.52
4658763--4658811	12	4.1	12	81	0	53	28	0	26	44	1.54
4662169--4662196	2	14.0	2	100	0	56	50	0	0	50	1.00
4663586--4663639	28	2.0	27	92	3	90	44	12	3	38	1.61
4665280--4665318	17	2.3	17	100	0	78	38	7	17	35	1.79
4677615--4677698	37	2.3	37	89	0	123	34	26	9	29	1.88
4689384--4689442	18	3.3	18	85	2	75	47	10	6	35	1.64
4690984--4691016	15	2.2	15	89	10	50	57	6	0	36	1.23
4703326--4703350	11	2.3	11	100	0	50	24	56	0	20	1.43
4707974--4708017	20	2.2	20	91	0	70	31	9	15	43	1.79
4714404--4714458	13	4.0	14	78	19	62	25	0	0	74	0.82
4714416--4714479	28	2.3	28	83	5	76	26	3	1	68	1.13
4723955--4724012	29	2.0	29	93	0	98	48	10	31	10	1.71
4730488--4730520	17	2.0	17	94	5	59	69	6	0	24	1.10
4731564--4731597	16	2.1	16	88	0	50	52	5	0	41	1.25
4732416--4732459	18	2.4	18	85	11	54	47	0	6	45	1.29
4732546--4732582	17	2.4	16	86	13	51	37	0	2	59	1.12
4732454--4732853	210	1.9	210	82	8	499	40	8	4	46	1.54
4747564--4747607	23	1.9	23	85	0	61	18	9	43	29	1.80
4759078--4759147	35	2.0	35	94	0	122	58	18	0	22	1.39
4761500--4761539	6	6.7	6	100	0	80	52	0	15	32	1.43
4765475--4765550	21	3.6	21	71	7	55	23	1	30	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4765566--4765625	21	2.9	21	82	0	84	25	0	25	50	1.50
4775788--4775821	4	8.5	4	100	0	68	50	23	0	26	1.50
4777838--4777955	59	2.0	60	90	5	186	29	16	11	42	1.83
4788026--4788050	2	12.5	2	100	0	50	48	0	0	52	1.00
4797110--4797144	13	2.5	14	90	9	54	45	0	0	54	0.99
4797189--4797222	17	1.9	17	88	5	50	35	0	0	64	0.94
4797189--4797230	18	2.3	18	84	8	50	38	0	0	61	0.96
4797299--4797340	22	2.0	22	85	4	59	33	0	0	66	0.92
4797464--4797497	16	2.2	16	89	5	52	38	0	0	61	0.96
4804218--4804282	33	2.0	33	96	0	121	38	18	15	27	1.91
4806328--4806692	181	2.0	182	99	0	723	33	12	17	36	1.87
4809338--4809377	19	2.2	19	86	4	55	60	5	5	30	1.40
4823410--4823440	2	15.5	2	100	0	62	51	0	0	48	1.00
4823440--4823473	2	17.5	2	93	6	61	52	0	47	0	1.00
4831365--4831396	16	1.9	17	93	6	57	62	0	0	37	0.95
4831648--4831685	17	2.2	17	95	0	67	55	7	10	26	1.61
4836250--4836279	15	1.9	16	93	6	53	63	6	0	30	1.20
4836535--4836588	9	5.9	9	89	8	65	70	0	1	27	0.98
4836535--4836588	18	2.9	18	86	8	74	70	0	1	27	0.98
4836535--4836575	9	4.6	9	96	0	73	78	0	0	21	0.76
4838294--4838337	21	2.1	21	95	0	79	50	15	18	15	1.79
4845948--4845998	20	2.6	19	77	20	52	82	11	5	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4845949--4845997	25	1.9	25	91	4	80	83	10	6	0	0.80
4845951--4845998	13	3.7	13	80	8	62	83	10	6	0	0.81
4845949--4845998	26	1.9	26	88	8	75	84	10	6	0	0.79
4848063--4848102	3	13.7	3	89	5	64	27	0	0	72	0.85
4849832--4849898	35	1.9	34	88	8	100	29	0	10	59	1.31
4858811--4858835	13	1.9	13	100	0	50	24	4	0	72	1.02
4866835--4866865	16	2.0	16	93	6	55	0	29	0	70	0.87
4868128--4868307	102	1.8	100	85	9	262	38	8	2	50	1.46
4871954--4872105	28	5.6	27	75	6	128	34	9	15	40	1.79
4871923--4872041	55	2.2	55	83	3	150	34	10	15	38	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22