genome.fa.s8.2.7.7.80.10.50.1000.16.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  16  of  19  ( 2280 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)
6972290--6972331	22	1.9	22	90	9	68	66	7	11	14	1.43
6973705--6973889	91	2.0	91	92	0	307	44	8	10	36	1.70
6974154--6974192	16	2.3	18	86	8	55	58	17	10	12	1.61
6974321--6974367	19	2.5	19	86	6	60	76	17	6	0	0.98
6974324--6974381	26	2.2	27	78	9	66	74	17	8	0	1.06
6975258--6975291	3	11.3	3	100	0	68	67	0	0	32	0.91
6976531--6976562	12	2.5	13	90	10	57	78	0	0	21	0.76
6980789--6980836	19	2.6	18	77	6	51	66	0	2	31	1.03
6980789--6980853	29	2.3	27	82	7	85	61	1	3	33	1.21
6986799--6986839	2	20.5	2	90	9	66	46	0	2	51	1.14
6987328--6987522	79	2.5	77	80	5	214	47	11	9	31	1.72
6987439--6987496	27	2.1	28	83	3	73	50	10	13	25	1.74
6987467--6987522	24	2.3	25	81	3	78	50	10	8	30	1.68
6987499--6987585	30	2.9	30	81	5	104	45	5	9	39	1.60
6989414--6989446	17	1.9	17	88	11	50	78	3	9	9	1.05
7000146--7000170	2	12.5	2	100	0	50	52	0	0	48	1.00
7001028--7001056	2	14.5	2	100	0	58	48	0	0	51	1.00
7018696--7018736	21	2.0	21	85	9	57	12	36	0	51	1.40
7019967--7020083	48	2.4	48	85	8	148	20	9	18	51	1.74
7026508--7026611	53	2.0	53	88	3	156	21	39	20	19	1.93
7064072--7064133	30	2.1	30	100	0	124	56	17	9	16	1.66
7067962--7067986	6	4.2	6	100	0	50	32	36	16	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7090419--7090447	7	4.1	7	100	0	58	55	0	13	31	1.39
7097247--7097294	24	2.0	25	84	12	64	64	0	2	33	1.05
7103424--7103559	71	1.9	70	86	3	191	30	19	14	34	1.92
7122622--7122665	20	2.1	22	83	8	56	22	0	9	68	1.18
7125443--7125502	18	3.3	18	71	15	52	11	43	20	25	1.85
7125443--7125511	36	1.9	36	85	5	95	14	43	18	23	1.87
7125453--7125518	18	3.7	18	85	0	78	15	43	18	22	1.87
7125453--7125518	9	7.3	9	73	0	51	15	43	18	22	1.87
7128886--7128938	24	2.2	24	78	18	58	56	1	3	37	1.28
7132464--7132518	16	3.4	16	73	9	58	30	14	16	38	1.89
7132464--7132556	32	2.9	32	81	0	114	26	10	21	40	1.86
7132617--7132685	30	2.3	30	85	5	95	15	15	21	46	1.84
7133903--7133957	25	2.1	26	86	10	76	32	9	0	58	1.30
7153386--7153529	72	2.0	71	83	4	182	50	6	13	29	1.65
7156191--7156223	10	3.3	10	100	0	66	57	0	0	42	0.98
7161290--7161400	46	2.4	46	100	0	222	47	12	18	21	1.81
7166296--7166338	21	2.0	23	86	9	63	6	16	6	69	1.32
7181381--7181509	33	3.9	32	80	8	134	27	32	13	27	1.93
7183119--7183153	18	1.9	18	88	11	54	48	0	2	48	1.16
7185223--7185397	88	2.0	86	86	2	242	39	5	9	45	1.60
7185540--7185636	30	3.2	29	75	10	97	35	7	7	50	1.58
7185587--7185645	30	2.0	30	82	0	73	35	10	5	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7196550--7196604	28	2.0	28	96	0	101	30	18	9	41	1.81
7204859--7204922	20	3.2	20	72	12	60	37	1	3	57	1.24
7231372--7231568	40	4.7	40	67	20	116	65	0	1	32	1.01
7231389--7231563	27	6.3	26	74	17	124	68	0	1	30	1.00
7231429--7231510	24	3.3	23	75	12	58	65	0	3	30	1.09
7231492--7231567	7	10.4	7	72	18	57	68	0	0	31	0.90
7231389--7231568	15	13.0	14	69	15	90	67	0	1	31	1.01
7231375--7231568	32	5.7	35	68	22	121	66	0	1	31	1.01
7231779--7231824	15	3.1	15	93	0	74	41	2	0	56	1.11
7231767--7231824	15	3.9	14	86	6	71	39	1	0	58	1.08
7240053--7240107	23	2.4	23	75	6	58	34	0	1	63	1.05
7240073--7240111	15	2.6	15	84	11	53	28	0	0	71	0.86
7240251--7240305	27	1.9	28	82	17	69	47	0	5	47	1.25
7256324--7256351	6	4.7	6	100	0	56	0	0	32	67	0.91
7258169--7258205	19	1.9	19	89	10	58	54	2	0	43	1.14
7258164--7258211	19	2.5	19	80	12	55	54	2	2	41	1.24
7268477--7268520	21	2.1	21	87	8	63	63	0	2	34	1.07
7268480--7268527	21	2.3	21	78	10	62	62	0	4	33	1.14
7275672--7275704	17	1.9	17	93	0	57	51	0	3	45	1.16
7280754--7280814	21	2.9	21	80	9	79	49	3	1	45	1.28
7287334--7287373	21	1.9	21	100	0	80	42	0	2	55	1.13
7306280--7306307	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7310416--7310460	24	1.9	23	86	13	65	2	22	13	62	1.42
7317455--7317490	16	2.2	16	90	0	54	52	25	11	11	1.69
7325447--7325479	2	16.5	2	100	0	66	48	0	51	0	1.00
7329598--7329634	16	2.3	16	90	9	58	35	0	0	64	0.94
7342932--7342996	28	2.5	27	80	11	82	58	0	3	38	1.14
7342937--7342975	20	2.0	20	85	10	53	61	0	5	33	1.18
7374245--7374307	15	4.1	15	78	12	56	49	0	0	50	1.00
7374461--7374625	64	2.6	63	87	1	233	41	5	7	45	1.55
7375664--7375734	37	1.9	37	94	0	124	38	25	15	21	1.92
7376140--7376177	20	1.9	20	88	0	58	68	0	0	31	0.90
7376155--7376218	34	1.9	33	87	9	94	62	9	0	28	1.26
7376158--7376230	34	2.1	34	80	9	78	61	12	0	26	1.31
7376442--7376478	15	2.4	16	82	13	51	51	2	2	43	1.30
7390298--7390326	2	14.5	2	100	0	58	0	0	48	51	1.00
7395512--7395549	2	19.0	2	100	0	76	50	0	0	50	1.00
7401682--7401732	22	2.3	23	83	13	70	31	7	11	49	1.68
7412225--7412270	23	2.0	24	91	4	76	17	17	36	28	1.92
7413712--7413850	48	2.9	48	91	0	224	21	36	8	33	1.84
7417739--7417793	26	2.1	26	82	0	65	65	7	0	27	1.19
7418041--7418091	26	2.0	26	92	0	84	50	3	17	27	1.63
7420299--7420329	2	15.5	2	100	0	62	51	0	48	0	1.00
7437654--7437706	27	2.0	27	88	0	79	47	7	24	20	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7439741--7439780	17	2.5	16	84	11	55	57	0	5	37	1.21
7439691--7439780	40	2.2	41	78	9	96	56	0	4	38	1.19
7458294--7458525	27	8.6	27	73	6	121	39	3	9	46	1.56
7458345--7458498	55	2.8	55	80	2	139	40	3	9	46	1.53
7496338--7496469	67	2.0	66	85	5	176	28	15	10	44	1.80
7497494--7497540	24	2.0	24	91	0	76	48	8	6	36	1.59
7502633--7502692	29	2.1	27	84	6	75	48	3	41	6	1.46
7502643--7502674	10	3.1	10	95	4	55	50	3	37	9	1.51
7512776--7512817	22	2.0	22	90	4	68	57	0	0	42	0.99
7518831--7518885	21	2.7	21	75	8	60	41	1	5	50	1.36
7519779--7519871	41	2.2	40	81	5	105	34	3	7	54	1.45
7519751--7519879	42	3.1	40	75	8	116	33	3	6	55	1.45
7519952--7520024	25	2.8	26	79	12	87	63	1	0	35	1.04
7519952--7520035	27	3.2	27	74	19	79	63	1	0	35	1.03
7519953--7520031	26	3.0	27	78	12	85	63	1	0	35	1.03
7519956--7520037	25	3.2	26	75	16	73	62	1	0	36	1.03
7520041--7520076	18	1.9	19	88	5	56	55	0	0	44	0.99
7520107--7520155	19	2.6	19	81	9	57	36	2	0	61	1.08
7520107--7520155	18	2.8	18	79	11	57	36	2	0	61	1.08
7520952--7520978	3	9.0	3	100	0	54	0	33	0	66	0.92
7541060--7541142	43	1.9	43	92	0	139	25	13	15	45	1.82
7544688--7544714	2	13.5	2	100	0	54	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7546549--7546719	84	2.0	84	98	0	333	23	13	30	32	1.93
7546725--7546762	20	2.0	20	89	5	60	18	10	15	55	1.68
7554736--7554774	20	2.0	20	89	0	60	76	10	2	10	1.10
7554774--7555032	135	1.9	135	94	0	455	43	11	10	33	1.76
7556883--7556929	24	1.9	25	87	12	71	38	2	4	55	1.31
7600959--7601003	12	3.8	12	81	0	54	22	33	6	37	1.80
7633786--7633815	2	15.0	2	100	0	60	50	0	50	0	1.00
7637570--7637841	134	2.0	134	92	0	445	46	15	22	14	1.83
7641892--7641926	18	2.0	17	94	5	61	37	0	0	62	0.95
7641892--7641945	17	3.2	16	81	7	54	37	1	0	61	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19