genome.fa.s14.2.7.7.80.10.50.1000.7.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

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

This is table  7  of  12  ( 1406 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)
4318031--4318100	33	2.1	33	83	0	86	42	11	1	44	1.49
4321168--4321242	29	2.6	29	100	0	150	32	25	8	34	1.85
4333451--4333510	30	1.9	32	90	6	97	56	1	3	38	1.26
4335293--4335317	4	6.2	4	100	0	50	28	0	0	72	0.86
4335667--4335780	5	22.4	5	69	16	56	68	0	1	28	1.05
4335661--4335803	33	4.7	31	73	21	117	67	0	1	30	1.05
4335726--4335803	26	2.9	25	76	18	52	66	0	1	32	1.00
4335664--4335851	50	3.6	52	72	22	148	68	0	2	29	1.05
4335709--4335846	55	2.5	56	76	18	137	69	0	2	28	1.00
4335758--4335916	68	2.4	68	82	8	177	64	0	3	30	1.15
4335758--4335847	24	4.0	24	69	21	77	70	0	2	27	1.00
4336398--4336422	6	4.2	6	100	0	50	68	0	32	0	0.90
4341057--4341096	15	2.7	16	85	11	50	67	0	2	30	1.04
4355621--4355667	2	24.5	2	82	8	62	48	2	0	48	1.13
4355621--4355667	23	2.0	23	91	0	76	48	2	0	48	1.13
4355930--4356430	214	2.3	215	81	8	565	41	6	4	47	1.49
4360531--4360557	2	13.5	2	100	0	54	0	48	0	51	1.00
4364478--4364517	15	2.7	16	85	14	59	67	0	2	30	1.04
4364478--4364517	14	2.7	15	88	11	57	67	0	2	30	1.04
4365449--4365479	2	15.5	2	93	0	53	54	0	45	0	0.99
4370760--4370793	13	2.5	13	90	4	50	76	11	0	11	1.02
4372266--4372310	2	22.5	2	90	0	72	44	0	55	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372837--4372862	2	13.0	2	100	0	52	50	0	50	0	1.00
4377998--4378219	60	3.7	60	76	7	184	27	13	28	30	1.94
4378512--4378570	27	2.1	28	93	3	102	28	18	25	27	1.98
4379010--4379050	20	2.0	20	100	0	82	39	0	29	31	1.57
4395677--4395742	32	2.1	32	94	0	114	46	12	9	31	1.72
4409680--4409716	18	2.0	19	89	5	58	56	0	0	43	0.99
4410790--4410824	13	2.7	13	81	0	52	48	0	2	48	1.16
4418414--4418447	17	2.0	17	100	0	68	41	23	11	23	1.87
4422873--4422967	49	1.9	49	84	0	127	43	14	12	29	1.83
4437542--4437586	20	2.2	21	88	4	65	48	2	2	46	1.26
4457141--4457179	20	1.9	20	84	5	51	0	28	0	71	0.86
4457503--4457554	26	2.0	26	92	0	86	50	1	5	42	1.37
4458831--4458855	2	12.5	2	100	0	50	52	0	0	48	1.00
4459548--4459576	6	4.8	6	100	0	58	34	17	13	34	1.89
4460356--4460388	2	16.5	2	93	0	57	48	0	0	51	1.00
4471443--4471569	66	1.9	66	82	6	159	47	14	10	27	1.77
4472542--4472571	13	2.2	14	94	5	53	53	3	0	43	1.17
4472539--4472575	14	2.5	15	83	16	51	54	2	0	43	1.14
4492086--4492119	16	2.1	16	88	5	50	38	2	52	5	1.41
4492692--4492732	16	2.6	15	85	11	55	36	0	58	4	1.20
4492690--4492731	17	2.5	17	84	11	59	35	0	59	4	1.19
4495615--4495729	56	2.1	56	83	3	142	43	4	20	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4495745--4495785	22	1.9	22	90	5	66	53	2	17	26	1.56
4500981--4501027	24	2.0	24	95	0	85	21	4	10	63	1.43
4501989--4502134	51	2.9	51	87	0	211	33	17	21	27	1.96
4502934--4502977	20	2.2	20	95	0	79	50	6	4	38	1.50
4503962--4504015	27	2.0	27	89	7	83	40	9	0	50	1.35
4513507--4513537	2	15.5	2	100	0	62	48	0	51	0	1.00
4514930--4514986	29	2.0	29	92	0	96	22	5	28	43	1.75
4521630--4521666	18	2.1	18	100	0	74	32	40	10	16	1.83
4559103--4559145	19	2.3	19	88	4	61	65	2	9	23	1.34
4560923--4560947	3	8.3	3	100	0	50	0	36	0	64	0.94
4573778--4573918	69	2.0	70	91	1	230	30	22	19	27	1.98
4575048--4575097	25	2.0	24	85	11	66	0	18	0	82	0.68
4575048--4575094	6	7.5	6	81	13	51	0	19	0	80	0.70
4575045--4575087	14	3.0	14	86	13	61	0	18	0	81	0.69
4589147--4589279	66	2.0	65	94	1	230	44	10	18	26	1.82
4597639--4597671	3	11.0	3	100	0	66	33	0	0	66	0.92
4603152--4603361	105	2.0	105	96	0	384	42	8	16	32	1.78
4606589--4606631	22	2.0	22	86	4	61	39	0	6	53	1.28
4617253--4617299	18	2.7	18	83	3	51	46	2	2	48	1.25
4620525--4620589	32	2.0	32	100	0	130	47	6	9	36	1.60
4627370--4627417	19	2.6	19	78	15	55	45	2	2	50	1.25
4628340--4628396	20	2.9	20	77	12	64	52	12	3	31	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4628781--4628826	23	2.0	23	91	0	74	23	17	13	45	1.83
4637015--4637054	7	5.7	7	100	0	80	30	42	0	27	1.56
4641110--4641148	21	1.9	21	89	5	62	53	15	7	23	1.67
4646342--4647432	339	3.3	328	81	9	1210	41	7	6	45	1.57
4647050--4647082	15	2.1	17	88	11	52	51	9	0	39	1.34
4661709--4661743	14	2.6	13	86	8	52	62	2	0	34	1.10
4668300--4668364	26	2.7	23	73	17	60	49	0	3	47	1.17
4679470--4679537	28	2.4	28	87	4	93	5	41	0	52	1.25
4680327--4680359	15	2.2	15	94	0	57	42	9	0	48	1.35
4683737--4683780	21	2.1	21	87	4	63	52	4	2	40	1.34
4683721--4683780	21	2.8	20	78	16	59	48	3	1	46	1.28
4684484--4684517	16	2.1	16	88	0	50	29	58	5	5	1.45
4688205--4688247	22	2.0	22	81	9	52	51	0	0	48	1.00
4694989--4695045	29	2.0	28	82	6	69	38	5	8	47	1.57
4703135--4703246	57	1.9	57	82	5	136	35	8	16	40	1.78
4713205--4713250	22	2.1	22	91	0	74	28	26	0	45	1.54
4716635--4716747	52	2.2	51	84	12	160	49	3	10	36	1.55
4740572--4740626	16	3.6	15	76	11	58	49	1	0	49	1.11
4740528--4740621	37	2.5	38	86	3	129	55	1	0	43	1.06
4741330--4741365	13	2.6	14	91	4	56	38	0	0	61	0.96
4759293--4759353	18	3.3	18	76	15	63	50	0	0	49	1.00
4763902--4763945	19	2.3	19	84	0	61	34	6	2	56	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4764001--4764065	26	2.7	24	78	19	64	27	3	1	67	1.14
4764187--4764216	16	1.9	16	93	6	53	36	0	0	63	0.95
4767678--4767707	15	2.0	15	100	0	60	20	40	0	40	1.52
4768329--4768390	30	2.1	30	100	0	124	38	3	19	38	1.68
4772006--4772044	20	2.0	19	85	5	51	48	0	0	51	1.00
4772042--4772076	14	2.4	15	85	4	54	22	0	5	71	1.07
4772857--4772886	2	15.0	2	100	0	60	50	0	0	50	1.00
4782019--4782059	15	2.7	15	84	0	55	36	4	21	36	1.75
4782260--4782335	20	3.8	20	78	16	86	26	1	0	72	0.93
4782208--4782352	33	4.3	34	76	11	138	31	2	0	66	1.03
4782261--4782336	40	1.9	40	86	5	109	26	1	0	72	0.93
4782266--4782356	24	4.0	23	72	20	73	29	1	0	69	0.96
4782386--4782448	5	12.4	5	75	21	60	25	1	0	73	0.93
4782381--4782448	20	3.6	20	79	16	74	25	1	0	73	0.92
4782381--4782454	31	2.4	30	80	8	85	27	1	0	71	0.94
4811167--4811197	2	15.5	2	100	0	62	51	0	0	48	1.00
4818753--4818784	2	16.0	2	100	0	64	50	0	0	50	1.00
4824399--4824446	25	2.0	24	84	8	62	52	4	12	31	1.58
4836054--4836087	11	3.0	11	87	8	50	64	0	0	35	0.94
4846944--4846970	2	13.5	2	100	0	54	51	0	48	0	1.00
4857005--4857067	32	2.0	32	93	0	108	26	17	7	47	1.75
4857018--4857067	16	3.1	16	68	21	50	26	18	6	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4860093--4860121	14	2.1	14	100	0	58	72	0	6	20	1.07
4860654--4860694	15	2.6	17	81	18	61	41	0	0	58	0.98
4863608--4863635	2	14.0	2	100	0	56	50	0	0	50	1.00
4869097--4869132	2	19.5	2	83	16	51	50	0	0	50	1.00
4869097--4869132	17	2.2	16	90	5	54	50	0	0	50	1.00
4876572--4876612	9	4.2	10	81	12	50	31	0	0	68	0.90
4876575--4876655	30	2.8	28	74	10	81	37	0	0	62	0.95
4876564--4876641	30	2.7	29	79	2	84	38	0	1	60	1.05
4876687--4876727	18	2.4	17	87	4	55	46	9	0	43	1.36
4876796--4876851	17	3.2	18	77	10	53	51	0	0	48	1.00

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