genome.fa.s11.2.7.7.80.10.50.1000.9.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_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8132550

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1638 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)
4424148--4424239	30	3.0	30	76	4	85	40	0	0	59	0.97
4424200--4424318	13	8.7	13	68	22	59	31	2	1	63	1.17
4424270--4424340	27	2.6	27	84	0	88	32	0	0	67	0.91
4424284--4424415	16	8.2	15	68	22	65	29	1	0	68	0.98
4424362--4424397	8	4.5	8	86	13	56	22	0	0	77	0.76
4424348--4424406	24	2.5	24	83	2	84	32	0	0	67	0.91
4436399--4436489	45	2.0	45	91	4	148	47	20	21	9	1.79
4439992--4440443	227	2.0	217	94	0	618	38	17	18	21	1.90
4459204--4459291	43	2.0	43	100	0	176	25	17	22	35	1.95
4462500--4462553	16	3.4	16	70	27	51	44	12	1	40	1.54
4466378--4466423	21	2.1	22	84	4	58	54	10	2	32	1.47
4492872--4492948	26	3.1	24	76	14	66	40	0	0	59	0.97
4492898--4492957	26	2.2	28	85	8	79	43	1	1	53	1.20
4502263--4502295	6	5.5	6	100	0	66	33	0	30	36	1.58
4511327--4511383	5	10.6	5	92	7	78	17	0	0	82	0.67
4511327--4511383	11	5.3	11	93	6	91	17	0	0	82	0.67
4513561--4513611	25	2.0	25	100	0	102	27	17	11	43	1.84
4526767--4526820	22	2.3	23	81	6	65	50	0	1	48	1.11
4527304--4527359	30	1.9	28	89	7	85	57	0	0	42	0.99
4528391--4528421	16	1.9	16	100	0	62	41	0	0	58	0.98
4530243--4530295	23	2.3	23	83	6	63	58	1	7	32	1.37
4531433--4531549	27	4.3	27	76	10	112	45	5	5	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4531432--4531584	55	2.8	54	78	3	153	44	7	5	42	1.56
4534463--4534511	2	26.0	2	82	12	59	53	0	44	2	1.12
4534463--4534517	11	5.1	11	85	10	53	52	1	41	3	1.29
4534982--4535021	12	3.3	12	82	0	53	42	10	42	5	1.60
4534969--4535036	24	2.8	24	75	4	66	45	8	41	4	1.55
4542527--4542563	12	3.2	12	88	11	60	59	0	0	40	0.97
4542530--4542558	10	2.9	10	100	0	58	58	0	0	41	0.98
4556169--4556203	2	17.5	2	93	0	61	0	48	0	51	1.00
4559346--4559379	2	17.0	2	93	0	59	50	0	2	47	1.16
4566411--4566479	32	2.3	30	78	14	79	34	11	14	39	1.82
4566539--4566583	24	1.9	23	90	4	72	33	11	13	42	1.79
4566559--4566707	45	3.3	45	78	5	167	30	16	16	36	1.90
4566747--4566786	21	1.9	21	94	0	71	37	30	10	22	1.87
4566663--4566873	104	2.0	104	88	0	314	30	16	18	34	1.93
4566833--4566983	45	3.4	44	81	1	158	35	19	11	33	1.88
4566842--4567037	90	2.2	90	83	5	236	35	18	14	31	1.92
4566880--4567037	45	3.5	45	75	8	151	34	17	15	32	1.91
4585632--4585670	14	2.8	14	88	0	60	2	15	0	82	0.79
4585624--4585680	15	4.0	15	72	19	50	3	15	1	78	0.96
4585733--4585769	2	19.0	2	88	5	58	51	0	0	48	1.00
4593881--4594010	55	2.3	56	82	11	160	42	11	8	37	1.72
4596577--4596663	42	2.1	42	100	0	174	22	6	34	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597485--4597675	63	3.1	61	80	3	220	19	13	13	53	1.71
4601186--4601224	15	2.6	15	83	0	51	46	7	2	43	1.46
4602088--4602166	35	2.3	34	82	8	97	26	0	13	59	1.35
4603356--4603399	15	3.0	14	87	9	61	29	0	2	68	1.02
4609857--4609895	13	2.9	13	81	7	51	48	2	0	48	1.15
4614757--4614814	30	2.0	29	86	6	82	44	8	13	32	1.75
4629435--4629460	13	2.0	13	100	0	52	0	15	0	84	0.62
4637758--4637807	26	1.9	26	83	0	64	4	16	4	76	1.10
4640959--4641001	22	2.0	22	90	0	68	30	16	18	34	1.93
4641058--4641137	22	3.6	22	76	6	99	45	13	8	32	1.75
4641164--4641220	22	2.6	23	80	8	64	50	24	1	22	1.58
4662853--4662919	15	4.4	15	86	1	89	37	10	20	31	1.87
4663142--4663209	22	3.5	20	79	16	72	30	0	0	69	0.89
4663145--4663211	19	3.4	19	78	15	66	31	0	0	68	0.90
4663066--4663607	109	5.0	112	90	9	799	33	2	0	63	1.11
4663071--4663647	14	42.2	14	65	27	164	33	2	0	63	1.11
4663066--4663607	216	2.5	217	89	8	838	33	2	0	63	1.11
4663678--4663723	22	2.0	23	84	12	60	26	2	0	71	0.97
4663697--4663746	24	2.0	25	84	3	66	32	2	0	66	1.03
4663698--4663744	18	2.6	20	75	21	50	31	2	0	65	1.04
4663686--4663747	29	2.2	28	82	8	72	32	1	0	66	1.02
4690823--4690884	17	3.4	17	68	23	54	38	4	6	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4690821--4690884	21	3.2	21	61	17	55	39	4	6	50	1.49
4690813--4690890	38	2.1	38	100	0	156	39	5	7	47	1.54
4693337--4693378	16	2.6	16	78	14	50	40	23	21	14	1.90
4693690--4693844	80	2.0	78	83	5	195	42	4	13	39	1.65
4694339--4694365	6	4.5	6	100	0	54	0	62	0	37	0.95
4702346--4702531	84	2.2	85	88	4	272	30	9	13	46	1.75
4712557--4712628	35	2.1	35	100	0	144	33	13	11	41	1.80
4719108--4719166	30	1.9	31	86	10	86	50	3	5	40	1.41
4732500--4732601	35	2.9	35	98	0	195	4	29	35	30	1.79
4737778--4737878	35	2.9	34	92	4	159	6	29	32	30	1.84
4780001--4780025	2	12.5	2	100	0	50	52	0	0	48	1.00
4784506--4784547	2	21.0	2	95	0	75	47	0	2	50	1.14
4795459--4795485	5	5.4	5	100	0	54	0	22	37	40	1.54
4800939--4800965	6	4.5	6	100	0	54	33	33	14	18	1.92
4807732--4807768	7	5.3	7	96	0	65	0	56	2	40	1.13
4817570--4817594	2	12.5	2	100	0	50	48	0	0	52	1.00
4822044--4822120	7	11.0	7	97	0	127	28	24	28	18	1.98
4822572--4822644	35	2.1	35	86	0	101	20	15	5	58	1.56
4827625--4827687	27	2.3	26	84	10	74	55	22	9	12	1.65
4839390--4839493	53	1.9	54	88	1	156	35	7	11	45	1.69
4839390--4839501	54	2.1	53	84	1	143	34	8	10	46	1.68
4839390--4839517	53	2.4	53	81	2	150	35	8	10	45	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4839418--4839570	77	2.0	78	81	3	184	35	8	9	46	1.68
4849338--4849393	18	3.1	18	94	0	103	28	23	25	23	1.99
4850627--4850685	31	1.9	31	89	6	93	20	25	5	49	1.69
4851419--4851455	18	2.1	18	89	0	56	56	0	35	8	1.29
4856004--4856032	14	2.0	15	93	6	51	48	0	0	51	1.00
4858864--4858896	17	1.9	17	100	0	66	12	12	6	69	1.35
4868632--4868834	101	2.0	101	93	0	343	35	18	16	30	1.93
4875246--4875274	2	14.5	2	100	0	58	48	0	0	51	1.00
4876203--4876236	16	2.1	16	88	0	50	35	5	17	41	1.74
4888806--4888839	3	11.3	3	100	0	68	67	0	0	32	0.91
4893477--4893515	2	19.5	2	100	0	78	48	0	0	51	1.00
4894527--4894558	2	16.0	2	100	0	64	50	0	0	50	1.00
4894659--4894697	2	19.5	2	83	0	51	41	0	7	51	1.31
4897156--4897210	29	1.9	28	92	0	83	41	12	3	41	1.60
4898027--4898077	23	2.2	23	80	13	61	49	3	7	39	1.51
4898359--4898430	32	2.3	31	75	2	72	29	15	26	29	1.96
4901864--4901908	23	2.0	22	82	4	54	51	6	24	17	1.70
4905354--4905407	27	2.0	27	96	3	101	7	37	0	55	1.28
4906764--4906792	14	2.0	15	93	6	51	68	0	0	31	0.89
4909688--4909757	18	3.7	18	69	22	54	28	27	8	35	1.86
4916759--4916817	29	2.1	29	83	3	75	50	0	6	42	1.28
4918204--4918233	2	15.0	2	100	0	60	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)
4919563--4919621	30	2.0	30	83	6	75	54	0	0	45	0.99
4924052--4924147	48	2.0	48	97	0	183	22	29	17	30	1.97
4926329--4926379	21	2.5	21	84	6	61	49	0	0	50	1.00
4926714--4926752	18	2.1	19	85	4	53	58	0	0	41	0.98
4933831--4933855	3	8.3	3	100	0	50	68	0	0	32	0.90
4943618--4943990	125	3.0	125	97	1	696	38	9	7	43	1.66
4955738--4955771	7	4.9	7	100	0	68	88	0	0	11	0.52
4995996--4996043	24	1.9	26	87	8	73	16	12	54	16	1.72
5002062--5002101	21	1.9	21	89	0	62	62	5	7	25	1.42
5002063--5002108	21	2.2	21	84	0	56	69	4	6	19	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14