genome.fa.s3.2.7.7.80.10.50.1000.12.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  12  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)
4263460--4263499	18	2.3	18	86	4	55	55	2	0	42	1.13
4263471--4263511	18	2.3	18	91	0	64	56	2	2	39	1.26
4263748--4263774	14	1.9	14	100	0	54	22	3	7	66	1.33
4263933--4263969	16	2.3	16	90	0	56	43	0	0	56	0.99
4263938--4263976	19	2.1	19	90	4	62	51	0	0	48	1.00
4265423--4265447	2	12.5	2	100	0	50	48	0	0	52	1.00
4270318--4270346	2	14.5	2	100	0	58	51	0	0	48	1.00
4272510--4272538	14	2.1	14	100	0	58	51	6	0	41	1.28
4272740--4272793	18	2.8	19	86	5	74	44	1	1	51	1.22
4284607--4284646	19	2.1	19	86	9	55	52	0	2	45	1.14
4284609--4284664	27	2.0	28	83	10	71	57	0	1	41	1.09
4288475--4288631	68	2.3	67	82	6	183	27	15	26	30	1.96
4288475--4288662	68	2.8	66	77	10	159	27	15	24	32	1.96
4293802--4293857	23	2.4	23	80	13	62	26	3	7	62	1.38
4300964--4301120	61	2.6	62	83	4	203	37	13	10	38	1.80
4311843--4311872	10	3.0	10	100	0	60	50	10	20	20	1.76
4315560--4315614	28	2.0	28	88	0	83	21	1	18	58	1.49
4322078--4322108	16	1.9	16	93	0	53	61	9	0	29	1.28
4336153--4336184	13	2.5	13	94	0	55	18	6	28	46	1.73
4338753--4338802	20	2.7	19	84	12	68	52	0	2	46	1.12
4343169--4343214	18	2.6	18	89	0	74	15	17	8	58	1.61
4361206--4361256	22	2.3	22	83	12	61	33	1	1	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4371346--4371477	60	2.2	60	89	2	205	44	9	8	37	1.66
4371356--4371450	30	3.2	30	71	11	95	46	5	8	40	1.57
4372113--4372149	15	2.3	17	86	9	51	21	0	16	62	1.33
4372348--4372666	57	5.6	57	78	3	295	40	14	13	31	1.85
4372645--4372684	18	2.2	18	100	0	80	45	10	12	32	1.75
4373597--4373628	14	2.3	14	94	0	55	31	21	3	43	1.68
4374276--4374366	38	2.4	38	81	7	96	28	8	26	36	1.86
4375747--4375795	24	2.0	25	84	11	66	42	4	18	34	1.69
4382140--4382239	50	2.0	50	96	0	182	40	18	12	30	1.86
4388314--4388399	44	2.0	44	90	0	136	38	10	15	36	1.81
4390673--4390772	34	2.9	34	95	1	173	57	17	2	24	1.50
4394555--4394631	35	2.2	36	83	6	104	28	22	15	33	1.94
4397056--4397098	20	2.3	19	84	8	52	53	25	9	11	1.67
4401507--4401548	20	2.1	20	100	0	84	33	9	28	28	1.88
4403620--4403697	21	3.8	21	69	5	61	32	15	15	37	1.89
4406538--4406596	30	2.0	30	89	0	91	27	11	23	37	1.90
4406878--4406905	2	14.0	2	100	0	56	50	0	0	50	1.00
4415221--4415257	15	2.5	15	100	0	74	40	27	10	21	1.86
4421030--4421079	25	2.0	25	96	0	91	42	4	14	40	1.64
4421035--4421085	25	2.1	24	85	7	68	49	5	13	31	1.66
4424546--4424587	19	2.2	19	86	0	57	38	11	11	38	1.79
4429933--4430240	80	3.9	80	77	5	311	34	23	8	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4429962--4430257	159	1.9	160	85	5	411	34	23	8	33	1.86
4434725--4434774	25	2.0	25	92	0	82	64	4	12	20	1.43
4438403--4439083	340	2.0	343	81	8	818	41	6	6	45	1.54
4443986--4444252	114	2.3	115	80	6	283	20	32	14	32	1.93
4443937--4444365	160	2.7	158	78	5	396	21	31	13	32	1.93
4443910--4444552	23	27.8	23	72	9	364	22	31	13	33	1.92
4450211--4450474	47	5.6	46	75	6	192	38	17	13	30	1.89
4450210--4450497	48	6.1	49	74	11	208	39	16	13	29	1.87
4451170--4451377	108	1.9	108	91	0	335	19	21	11	47	1.81
4455978--4456012	14	2.6	13	90	4	52	54	5	0	40	1.24
4457056--4457113	27	2.2	26	79	14	64	60	10	1	27	1.39
4457052--4457088	16	2.3	17	81	13	51	62	10	0	27	1.28
4460043--4460069	14	1.9	14	100	0	54	59	11	0	29	1.32
4463889--4463926	18	2.1	18	95	0	67	18	36	10	34	1.85
4464622--4464804	44	3.9	48	82	11	161	28	13	12	45	1.79
4464671--4464803	44	3.0	46	89	4	184	29	13	9	47	1.75
4465710--4465792	35	2.3	35	85	6	105	56	2	0	40	1.12
4468442--4468501	28	2.1	29	84	3	77	55	0	0	45	0.99
4477047--4477072	8	3.2	8	100	0	52	61	11	0	26	1.30
4486043--4486200	79	2.0	79	86	0	217	16	13	33	36	1.88
4486222--4486249	2	14.0	2	100	0	56	50	0	0	50	1.00
4493119--4493148	15	2.0	15	93	0	51	20	16	0	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4493359--4493403	16	2.6	18	82	13	58	46	4	0	48	1.22
4493938--4493985	17	2.9	17	85	11	57	50	6	0	43	1.27
4493940--4493985	15	2.9	16	84	15	60	50	4	0	45	1.21
4494463--4495107	342	1.9	341	85	3	886	46	7	5	41	1.55
4501606--4502215	220	2.8	212	86	7	807	43	20	13	22	1.86
4506009--4506334	163	2.0	162	89	3	503	36	18	11	34	1.87
4509320--4509392	21	3.4	21	65	10	58	32	13	10	42	1.79
4509307--4509389	43	1.9	43	95	0	148	30	18	14	37	1.90
4511543--4511591	23	2.1	23	85	11	64	75	2	12	10	1.13
4514420--4514461	18	2.4	18	84	11	52	38	11	23	26	1.90
4514544--4514724	54	3.4	52	76	7	161	37	13	22	26	1.91
4517555--4517598	21	2.0	22	91	4	72	31	0	6	61	1.22
4519817--4519969	28	5.3	29	75	12	136	40	7	10	41	1.67
4519806--4519968	59	2.8	57	81	7	179	41	7	10	41	1.67
4519817--4519979	87	1.9	88	83	5	213	42	7	10	39	1.67
4520120--4520152	17	1.9	17	88	11	50	39	3	15	42	1.62
4526860--4527046	36	4.9	39	70	19	144	41	19	14	24	1.89
4526860--4527081	76	2.9	76	87	2	304	40	20	13	24	1.89
4526868--4527075	35	5.6	35	72	15	159	40	21	14	23	1.90
4527844--4527928	34	2.5	34	92	1	145	29	17	9	43	1.80
4528799--4528865	25	2.7	25	88	0	89	37	16	17	28	1.92
4528842--4529004	54	3.0	54	78	5	168	38	13	22	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4529344--4529382	2	19.5	2	94	0	69	46	0	2	51	1.14
4536501--4536590	45	2.0	45	97	0	171	38	13	16	31	1.87
4539733--4539777	14	3.2	14	87	12	74	35	0	13	51	1.41
4543935--4544013	34	2.5	30	81	8	86	54	2	2	40	1.27
4544095--4544236	75	1.9	75	91	0	230	45	7	4	42	1.54
4547346--4547372	3	9.0	3	100	0	54	66	0	0	33	0.92
4547799--4547825	2	13.5	2	100	0	54	48	0	51	0	1.00
4547920--4547947	2	14.0	2	100	0	56	50	0	0	50	1.00
4554759--4554798	20	2.0	20	85	5	53	52	15	7	25	1.68
4561246--4561270	2	12.5	2	100	0	50	52	0	0	48	1.00
4586721--4586767	20	2.3	20	77	0	58	46	10	8	34	1.69
4589600--4589717	28	4.2	28	78	4	112	33	15	22	28	1.94
4589628--4589734	56	1.9	56	84	3	144	30	14	24	30	1.94
4589643--4589732	28	3.2	27	76	9	83	28	15	24	31	1.96
4597358--4597482	61	2.0	61	96	0	232	35	26	10	28	1.89
4604025--4604120	36	2.7	36	81	3	122	38	13	23	23	1.91
4611432--4611464	7	4.7	7	89	10	50	39	0	0	60	0.97
4614716--4614755	2	20.0	2	89	0	62	0	45	0	55	0.99
4616427--4616520	29	3.2	29	80	5	107	37	13	26	22	1.92
4616430--4616526	31	3.2	31	83	2	117	37	14	25	22	1.92
4616444--4616536	31	3.1	31	84	3	100	36	12	26	23	1.91
4616499--4616588	46	2.0	46	84	4	119	37	16	21	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4616610--4616716	54	2.0	54	86	0	151	37	15	19	27	1.92
4635785--4635840	19	2.9	19	100	0	112	32	14	10	42	1.80
4640913--4641172	139	1.9	139	87	1	387	39	15	9	35	1.80
4655883--4655919	15	2.4	16	90	4	58	75	0	24	0	0.80
4657468--4657523	25	2.1	27	74	16	62	28	14	28	28	1.95
4657474--4657528	25	2.2	25	86	0	74	32	14	25	27	1.95
4661198--4661276	32	2.5	32	76	0	86	27	32	16	22	1.96
4673952--4673980	12	2.5	12	94	5	51	0	10	0	89	0.48
4681002--4681026	13	1.9	13	100	0	50	32	8	28	32	1.86
4682428--4682514	21	4.1	21	83	1	93	24	6	17	51	1.69

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