genome.fa.s1.2.7.7.80.10.50.1000.13.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  13  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)
7162804--7162845	16	2.6	17	89	10	63	47	0	0	52	1.00
7181171--7181218	21	2.3	21	92	0	78	58	10	20	10	1.60
7189317--7189350	15	2.3	15	89	0	50	2	26	38	32	1.71
7196709--7196780	29	2.5	29	81	4	74	37	0	0	62	0.95
7196737--7196786	21	2.4	21	80	6	57	34	0	0	66	0.92
7197212--7197258	17	2.7	17	86	3	67	51	0	0	48	1.00
7198544--7198598	26	2.2	25	83	3	65	45	14	10	29	1.79
7198853--7198897	23	2.0	23	95	0	81	46	13	11	28	1.77
7198969--7199025	28	2.0	28	96	0	105	28	33	15	22	1.95
7199308--7199395	28	3.2	28	64	15	76	42	9	40	7	1.66
7199304--7199459	53	2.9	53	90	0	249	39	8	42	9	1.68
7200445--7200489	23	1.9	24	86	4	65	42	13	13	31	1.82
7200388--7200585	110	1.8	109	81	5	247	32	13	15	38	1.86
7200388--7200617	110	2.1	109	79	4	239	31	13	16	39	1.86
7203471--7203496	2	13.0	2	100	0	52	0	50	0	50	1.00
7209358--7209382	2	12.5	2	100	0	50	48	0	0	52	1.00
7211234--7211278	21	2.1	21	84	15	58	42	0	6	51	1.28
7224135--7224167	10	3.3	10	95	0	57	57	0	0	42	0.98
7224134--7224163	2	15.0	2	92	0	51	53	0	0	46	1.00
7226889--7226927	2	19.5	2	100	0	78	48	0	0	51	1.00
7233914--7233994	42	1.9	42	97	0	153	22	20	11	45	1.82
7240321--7240548	54	4.2	55	71	9	164	19	35	21	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7240375--7240558	54	3.4	54	74	10	169	19	34	22	23	1.96
7247248--7247299	25	2.1	25	96	3	97	36	0	9	53	1.34
7265818--7265853	2	18.0	2	100	0	72	50	0	0	50	1.00
7268419--7268465	23	2.0	23	83	8	58	57	6	8	27	1.53
7269319--7269398	21	3.7	21	67	9	61	27	18	23	30	1.98
7269295--7269411	45	2.6	45	80	0	135	33	17	19	29	1.95
7269459--7269588	26	5.0	25	75	12	102	41	15	15	27	1.87
7269438--7269558	53	2.2	54	89	2	181	43	16	12	27	1.84
7269438--7269629	24	6.9	28	70	18	100	41	14	13	30	1.84
7269825--7269865	17	2.5	17	96	4	75	63	0	7	29	1.21
7270336--7270479	27	5.3	27	85	5	182	38	9	9	43	1.68
7270336--7270479	55	2.6	54	85	3	198	38	9	9	43	1.68
7270338--7270500	82	2.0	82	82	1	200	41	9	9	39	1.71
7281282--7281307	6	4.3	6	100	0	52	34	34	15	15	1.89
7292475--7292508	17	2.0	17	88	0	50	23	2	5	67	1.26
7313634--7313671	14	2.8	14	88	4	51	60	0	2	36	1.11
7314086--7314117	17	1.9	16	93	6	55	59	6	6	28	1.46
7315204--7315237	15	2.4	14	90	5	50	52	0	0	47	1.00
7315452--7315476	9	2.8	9	100	0	50	32	12	0	56	1.36
7321599--7321634	19	1.9	18	88	5	54	44	0	11	44	1.39
7324537--7324566	12	2.4	13	94	5	53	40	13	6	40	1.71
7325841--7326066	112	2.0	112	85	1	301	39	7	18	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7331219--7331250	11	2.8	11	95	4	55	34	0	0	65	0.93
7332817--7332857	18	2.2	20	91	8	68	24	0	0	75	0.80
7334672--7334712	17	2.5	17	88	11	59	29	0	0	70	0.87
7334673--7334728	23	2.4	23	81	3	58	28	5	0	66	1.14
7337184--7337213	15	2.0	15	100	0	60	26	6	13	53	1.64
7345942--7345967	3	8.7	3	100	0	52	34	0	30	34	1.58
7359935--7359994	25	2.5	24	84	12	72	65	0	1	33	1.03
7359952--7360025	30	2.6	27	75	10	76	60	1	2	35	1.19
7388278--7388302	5	5.0	5	100	0	50	80	0	20	0	0.72
7412970--7413056	38	2.3	38	75	0	93	50	6	24	18	1.71
7413459--7413515	27	2.2	26	87	6	80	47	0	3	49	1.18
7413486--7413583	41	2.4	41	84	1	124	45	0	2	52	1.12
7413548--7413644	17	5.5	17	72	15	65	45	0	2	52	1.12
7415417--7415475	31	1.9	31	85	0	82	33	8	5	52	1.54
7419397--7419421	3	8.3	3	100	0	50	32	0	0	68	0.90
7426218--7426251	14	2.5	14	90	4	52	38	0	2	58	1.13
7426257--7426290	17	1.9	18	88	5	52	52	0	2	44	1.16
7427078--7427188	48	2.3	48	83	4	136	45	6	6	41	1.55
7427110--7427188	24	3.3	23	74	13	70	43	6	7	43	1.58
7427078--7427209	48	2.8	48	79	3	133	46	5	5	42	1.49
7428784--7428864	39	2.1	39	100	0	162	27	25	27	19	1.99
7436524--7436593	33	2.1	33	91	0	113	37	25	14	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7440092--7440128	2	18.5	2	94	0	65	48	2	0	48	1.15
7441575--7441605	2	15.5	2	100	0	62	48	0	0	51	1.00
7444429--7444482	26	2.1	25	83	10	65	38	1	7	51	1.41
7444953--7444991	20	2.0	20	84	0	51	20	5	2	71	1.17
7445576--7445626	17	2.9	17	72	13	50	50	0	1	47	1.12
7446924--7446953	3	10.0	3	92	0	51	33	3	0	63	1.11
7452108--7452143	15	2.4	15	90	0	54	33	11	33	22	1.89
7452442--7452474	6	5.5	6	92	0	57	18	66	15	0	1.25
7453974--7454003	2	15.0	2	100	0	60	50	0	0	50	1.00
7462615--7462675	30	2.0	30	100	0	122	44	9	6	39	1.64
7464915--7464941	3	9.0	3	100	0	54	66	0	0	33	0.92
7473160--7473186	2	13.5	2	100	0	54	51	0	0	48	1.00
7489190--7489228	2	20.0	2	86	5	53	51	2	0	46	1.14
7501045--7501074	2	15.0	2	92	0	51	50	3	0	46	1.18
7501949--7501981	2	17.0	2	87	6	50	48	3	0	48	1.17
7521179--7521309	65	2.0	65	93	0	226	28	14	13	43	1.83
7526354--7526395	19	2.1	20	86	8	59	54	0	0	45	0.99
7534817--7534855	16	2.4	18	80	20	50	56	10	0	33	1.33
7545386--7545424	16	2.4	18	80	20	50	33	0	10	56	1.33
7550868--7550906	19	2.1	19	85	0	51	48	5	15	30	1.66
7566397--7566445	15	3.3	15	82	0	62	46	8	12	32	1.71
7566975--7567018	21	2.1	21	83	8	54	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7566952--7567034	27	3.0	27	79	8	94	60	0	1	38	1.05
7567165--7567222	28	2.0	29	86	6	82	43	1	0	55	1.10
7605390--7605441	27	2.0	26	88	11	79	48	0	1	50	1.12
7605387--7605454	27	2.8	24	81	16	77	51	0	1	47	1.09
7605412--7605463	23	2.4	22	78	12	63	48	0	0	51	1.00
7605447--7605541	29	3.3	28	71	20	79	37	2	0	60	1.09
7605450--7605591	26	5.4	26	70	15	96	37	2	0	59	1.17
7605477--7605525	17	2.9	17	75	22	50	32	2	0	65	1.04
7605453--7605537	32	2.6	31	79	20	95	35	2	0	62	1.08
7605458--7605774	123	2.6	123	80	14	366	37	2	2	57	1.26
7605660--7605745	24	3.5	24	78	12	104	39	1	4	54	1.29
7605656--7606280	156	4.0	154	81	7	694	40	2	3	53	1.32
7606245--7606315	7	10.4	7	70	17	51	47	0	1	50	1.09
7606228--7606317	27	3.3	27	95	3	153	46	0	1	52	1.07
7606279--7606336	22	2.8	20	80	12	64	46	0	1	51	1.11
7606557--7606593	17	2.2	17	90	4	58	45	2	5	45	1.40
7609982--7610018	15	2.4	16	82	13	51	62	2	0	35	1.10
7611989--7612029	21	2.0	21	85	0	55	29	21	26	21	1.99
7623876--7623913	2	19.0	2	100	0	76	50	0	0	50	1.00
7628814--7628917	54	1.9	55	90	5	167	54	11	6	26	1.61
7644609--7644736	59	2.2	60	87	5	188	28	16	11	42	1.83
7645293--7645358	29	2.2	30	84	7	82	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7645302--7645358	20	3.0	18	80	10	60	43	0	0	56	0.99
7645302--7645360	19	3.1	19	75	20	59	44	0	0	55	0.99
7645343--7645379	12	2.7	15	76	24	53	43	0	0	56	0.99
7645885--7645929	19	2.4	20	75	14	51	44	0	0	55	0.99
7646176--7646221	2	23.0	2	95	0	83	0	47	2	50	1.13
7655206--7655264	31	1.9	31	86	6	84	50	0	0	49	1.00
7655554--7655873	160	2.0	160	85	1	435	31	19	15	32	1.93
7656149--7656208	30	2.0	30	90	0	93	16	15	21	46	1.83
7658711--7658741	11	2.7	12	90	10	55	77	0	0	22	0.77
7658716--7658749	11	3.2	10	91	8	50	70	0	0	29	0.87

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