genome.fa.s1.2.7.7.80.10.50.1000.15.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  15  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)
8130388--8130450	20	3.2	20	100	0	126	23	11	25	39	1.88
8133279--8133313	18	2.0	18	88	5	54	65	8	0	25	1.21
8134372--8134397	2	13.0	2	100	0	52	50	0	0	50	1.00
8140233--8140269	15	2.4	16	86	4	58	29	0	0	70	0.88
8148952--8149154	104	2.0	104	90	0	325	37	18	15	28	1.91
8162219--8162264	21	2.2	22	84	7	60	41	0	2	56	1.11
8165165--8165251	42	2.1	40	85	8	113	25	20	10	43	1.83
8165701--8165732	2	16.0	2	100	0	64	0	50	0	50	1.00
8167010--8167059	14	3.6	14	71	15	50	62	2	0	36	1.07
8167003--8167054	13	4.2	12	79	13	52	57	1	0	40	1.10
8166984--8167058	26	2.9	26	76	9	82	58	1	0	40	1.06
8178087--8178190	22	4.7	22	69	13	72	50	1	0	48	1.12
8192066--8192105	16	2.3	19	75	25	59	32	10	5	52	1.56
8192071--8192110	16	2.6	16	96	4	73	27	15	5	52	1.63
8203830--8203898	20	3.6	19	77	9	70	69	1	0	28	0.97
8203838--8203912	14	5.7	13	73	17	66	72	1	0	26	0.93
8203838--8203912	32	2.3	33	77	9	82	72	1	0	26	0.93
8203938--8204082	33	4.4	32	70	14	109	64	1	0	33	1.07
8203933--8204081	66	2.2	70	83	7	191	64	1	0	33	1.07
8203945--8204081	16	9.9	15	64	31	65	64	1	0	33	1.08
8203987--8204074	27	3.1	27	75	10	86	64	0	0	35	0.94
8203993--8204079	13	6.3	13	71	15	59	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8203994--8204082	30	3.1	29	72	16	85	66	0	0	33	0.92
8210808--8210839	15	2.1	15	94	5	55	25	0	0	75	0.81
8216663--8216692	13	2.2	14	94	5	53	0	16	0	83	0.65
8223478--8223511	17	2.0	18	88	11	54	79	11	5	2	1.02
8227219--8227272	28	1.9	28	88	7	83	29	1	5	62	1.28
8228033--8228136	30	3.5	29	79	11	113	53	5	4	35	1.46
8228033--8228136	29	3.5	28	79	16	104	53	5	4	35	1.46
8228133--8228172	21	2.0	19	90	9	62	42	0	0	57	0.98
8228140--8228182	21	2.0	21	86	9	59	41	0	2	55	1.12
8228253--8228280	3	9.3	3	100	0	56	64	0	0	35	0.94
8230836--8230882	15	2.9	16	78	12	51	46	4	2	46	1.34
8237428--8237633	102	2.0	101	89	5	319	28	22	25	22	1.99
8258303--8258333	4	7.8	4	92	0	53	74	0	25	0	0.82
8273084--8273647	280	2.0	281	97	1	1078	35	17	13	34	1.88
8280389--8280429	2	20.5	2	100	0	82	48	0	0	51	1.00
8282038--8282066	4	7.2	4	100	0	58	48	0	24	27	1.51
8294873--8294933	4	15.8	4	84	6	54	50	26	0	22	1.49
8294870--8294909	18	2.2	18	100	0	80	50	15	0	35	1.44
8294871--8294907	14	2.6	14	91	0	56	51	16	0	32	1.45
8297960--8298028	23	3.0	23	83	12	79	52	0	0	47	1.00
8316680--8316726	2	23.5	2	95	0	58	42	0	8	48	1.33
8323181--8323206	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8325866--8325929	29	2.2	29	97	0	119	42	7	6	43	1.58
8344226--8344271	23	2.0	23	82	0	56	60	0	2	36	1.09
8345470--8345559	44	2.0	44	100	0	180	50	8	2	38	1.46
8345484--8345555	24	3.2	24	64	28	66	48	9	2	38	1.51
8350497--8350526	13	2.3	13	94	0	51	56	0	0	43	0.99
8350563--8350679	57	2.1	57	80	9	132	56	0	1	41	1.15
8352055--8352131	35	2.2	35	88	6	120	51	11	23	12	1.73
8354807--8357392	895	2.9	890	86	5	3441	30	15	19	33	1.94
8356740--8356765	2	13.0	2	100	0	52	50	0	0	50	1.00
8378138--8378181	19	2.3	19	84	0	52	56	0	25	18	1.41
8397047--8397097	19	2.6	19	81	3	57	49	1	0	49	1.12
8405195--8405234	2	20.0	2	100	0	80	50	0	0	50	1.00
8408225--8408259	2	17.5	2	100	0	70	48	0	51	0	1.00
8411053--8411082	2	15.0	2	100	0	60	50	0	0	50	1.00
8413514--8413544	16	2.0	15	93	6	53	45	12	0	41	1.42
8416680--8416792	57	2.0	57	96	0	208	44	11	14	30	1.80
8417816--8417842	8	3.4	8	100	0	54	37	51	11	0	1.37
8417809--8417842	16	2.1	16	88	0	50	41	47	8	2	1.50
8421572--8421618	20	2.2	22	88	7	71	31	0	0	68	0.90
8424396--8424421	2	13.0	2	100	0	52	50	0	0	50	1.00
8424808--8424839	8	4.2	8	84	15	50	40	0	0	59	0.97
8424808--8424835	14	2.0	14	100	0	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8428337--8428436	51	2.0	51	93	0	173	18	24	19	39	1.92
8429194--8429243	22	2.3	24	80	19	65	30	0	0	70	0.88
8429205--8429242	12	3.4	11	85	14	51	26	0	0	73	0.83
8429196--8429243	10	4.5	10	82	17	53	29	0	0	70	0.87
8429346--8429386	21	2.0	21	85	0	55	58	0	0	41	0.98
8435823--8435848	2	13.0	2	100	0	52	50	0	0	50	1.00
8437534--8437559	2	13.0	2	100	0	52	50	0	0	50	1.00
8437609--8437635	6	4.5	6	100	0	54	33	0	66	0	0.92
8451658--8451801	46	3.1	46	86	0	207	31	9	33	26	1.87
8452362--8452397	18	2.0	18	88	0	54	2	38	0	58	1.13
8482615--8482660	12	3.8	12	91	0	74	47	10	34	6	1.64
8482615--8482659	6	7.5	6	84	0	63	48	11	35	4	1.59
8485697--8485752	26	2.2	26	81	9	62	30	8	12	48	1.72
8496687--8496719	4	8.2	4	93	0	57	75	3	21	0	0.93
8506674--8506724	20	2.6	19	87	6	66	50	0	0	49	1.00
8508068--8508132	2	33.0	2	87	3	96	46	1	3	49	1.27
8542555--8542862	78	4.0	78	79	3	300	25	25	15	34	1.95
8544722--8544788	34	2.0	34	84	0	89	8	31	19	40	1.82
8549090--8549116	2	13.5	2	100	0	54	51	0	0	48	1.00
8569544--8569579	3	12.0	3	100	0	72	33	33	0	33	1.58
8581777--8581820	5	8.6	5	87	5	61	4	13	0	81	0.83
8584071--8584109	20	1.9	21	84	5	53	15	5	7	71	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8592296--8592330	5	6.6	5	96	3	52	5	20	20	54	1.64
8599152--8599185	16	2.1	16	89	10	52	76	0	23	0	0.79
8599936--8600086	81	1.9	81	97	0	284	33	19	13	33	1.91
8602078--8602207	68	1.9	68	96	0	242	23	8	26	41	1.83
8617173--8617241	30	2.3	30	82	2	86	39	10	10	40	1.73
8617324--8617435	45	2.5	45	78	7	131	27	14	18	39	1.90
8617506--8617539	14	2.4	14	100	0	68	61	0	0	38	0.96
8630045--8630086	22	1.9	22	85	9	59	35	4	2	57	1.33
8631753--8631815	22	2.9	22	83	9	76	52	0	0	47	1.00
8636473--8636503	4	7.8	4	100	0	62	51	22	25	0	1.48
8637678--8637719	5	8.6	5	78	5	50	80	2	16	0	0.81
8637678--8637719	14	2.9	15	85	3	50	80	2	16	0	0.81
8638823--8638849	2	13.5	2	100	0	54	48	0	0	51	1.00
8641991--8642036	23	1.9	25	86	8	69	52	0	0	47	1.00
8642026--8642065	14	2.9	14	88	3	64	65	0	0	35	0.93
8642005--8642067	8	8.0	8	75	16	60	60	0	0	39	0.97
8642007--8642096	33	2.7	36	81	13	95	64	1	1	33	1.08
8642074--8642184	5	22.2	5	67	16	52	70	0	0	28	0.94
8642038--8642184	47	3.1	48	79	11	137	68	0	1	29	1.02
8642080--8642216	42	3.3	42	74	11	138	69	0	1	29	0.97
8642082--8642157	34	2.3	34	84	13	97	71	0	0	28	0.87
8642097--8642208	33	3.3	33	79	11	93	66	0	1	31	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8642027--8642216	84	2.3	81	81	10	208	67	0	1	30	1.04
8642124--8642219	34	2.6	39	71	22	105	66	0	2	31	1.03
8642026--8642234	37	5.6	37	67	22	116	66	0	1	31	1.07
8642451--8642494	15	2.9	15	82	3	52	34	22	9	34	1.86
8655819--8655877	15	3.8	15	72	16	57	71	0	1	27	0.96
8655821--8655884	5	12.4	5	75	18	51	71	0	1	26	0.94
8655810--8655895	20	4.4	20	77	12	65	69	0	1	29	0.96
8655807--8655999	40	4.6	41	70	18	112	66	1	2	30	1.09
8655925--8656010	33	2.6	34	87	5	113	69	0	1	29	0.96
8655928--8656095	87	1.9	88	80	12	195	64	0	1	32	1.08

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