genome.fa.s12.2.7.7.80.10.50.1000.11.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  11  of  18  ( 2130 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)
4563447--4563485	16	2.6	15	88	8	53	51	2	12	33	1.54
4570405--4570436	15	2.1	15	94	0	55	68	0	0	31	0.90
4570404--4570535	48	2.7	49	80	10	146	66	1	2	29	1.13
4570509--4570589	14	6.1	14	74	16	57	70	0	0	29	0.88
4570539--4570586	6	7.5	6	77	13	51	75	0	0	25	0.81
4570400--4570582	83	2.2	81	77	18	200	67	1	1	29	1.07
4570506--4570586	33	2.4	32	86	10	101	72	0	0	27	0.84
4570509--4570581	9	8.7	9	72	22	52	71	0	0	28	0.87
4570807--4570835	15	1.9	15	100	0	58	41	27	0	31	1.56
4585768--4585793	11	2.4	11	100	0	52	53	0	0	46	1.00
4598931--4599222	116	2.4	119	81	10	340	58	3	7	30	1.41
4600138--4600238	51	2.0	51	92	3	168	38	10	4	45	1.61
4604159--4604251	32	2.9	32	84	7	91	22	24	5	47	1.72
4606660--4606875	80	2.7	79	85	5	283	31	23	12	33	1.91
4607871--4607929	20	2.9	21	75	7	68	38	13	10	37	1.79
4611884--4611934	24	2.1	25	88	3	77	31	9	15	43	1.80
4611884--4611951	26	2.8	24	86	4	82	32	10	16	41	1.82
4613623--4615204	792	2.0	791	92	1	2629	34	11	11	42	1.78
4620515--4620666	69	2.2	67	85	2	205	21	16	22	39	1.92
4620609--4620664	28	2.0	28	89	0	85	16	16	26	41	1.88
4620706--4620916	52	4.1	52	85	7	263	18	12	20	48	1.80
4623530--4623586	26	2.1	27	84	9	73	38	3	15	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4623573--4623636	29	2.2	29	85	0	83	45	6	9	39	1.62
4630640--4630681	21	2.1	20	83	16	52	59	7	0	33	1.25
4639295--4639328	16	2.1	16	88	0	50	29	0	5	64	1.17
4652596--4652628	17	2.0	17	94	5	59	33	0	0	66	0.92
4663073--4663098	2	13.0	2	100	0	52	50	0	0	50	1.00
4666316--4666704	130	3.0	130	87	3	532	26	15	16	41	1.89
4676840--4676939	45	2.2	45	87	5	148	23	3	39	35	1.70
4681118--4681196	21	3.6	21	75	11	70	24	15	25	35	1.94
4687355--4687423	29	2.4	29	97	0	129	40	18	11	28	1.86
4687497--4687601	27	3.9	27	83	2	120	39	12	11	37	1.79
4687493--4687602	55	2.0	54	87	1	157	39	11	11	37	1.79
4687510--4687609	27	3.7	27	85	2	128	42	13	9	36	1.75
4721140--4721164	4	6.2	4	100	0	50	76	0	24	0	0.80
4723880--4723910	6	5.2	6	100	0	62	0	64	0	35	0.94
4724027--4724054	6	4.7	6	100	0	56	14	17	32	35	1.90
4729001--4729041	21	1.9	22	85	5	57	36	9	7	46	1.65
4729702--4729739	13	2.8	14	84	4	51	60	0	18	21	1.36
4734286--4734311	1	26.0	1	100	0	52	0	0	100	0	0.00
4735503--4735535	17	1.9	17	88	11	50	6	6	15	72	1.24
4740614--4740652	21	1.9	20	94	5	69	56	15	0	28	1.40
4744372--4744404	17	1.9	17	88	11	50	27	12	0	60	1.32
4750886--4750929	21	2.0	22	82	4	54	22	0	11	65	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4754621--4754686	28	2.4	28	84	0	87	36	21	22	19	1.95
4754749--4754866	55	2.2	53	81	3	128	38	17	10	33	1.84
4754777--4755057	27	10.4	26	74	8	188	40	16	9	33	1.81
4754706--4755057	82	4.3	80	75	5	278	41	15	9	34	1.79
4755827--4755897	29	2.4	29	85	4	97	26	16	21	35	1.95
4757625--4758261	319	2.0	320	83	3	818	38	11	18	31	1.86
4769148--4769211	14	4.4	14	73	7	56	43	6	9	40	1.62
4769120--4769170	26	2.0	25	85	14	70	47	9	5	37	1.61
4769128--4769203	30	2.5	30	86	0	98	46	9	6	38	1.62
4771119--4771225	52	2.0	53	94	1	189	26	5	13	55	1.60
4771279--4771397	52	2.3	52	95	4	213	30	6	10	52	1.60
4771662--4771754	38	2.4	38	87	0	132	40	18	13	26	1.88
4772096--4772332	80	3.0	80	97	0	447	32	13	16	37	1.89
4775129--4775155	3	9.0	3	100	0	54	0	33	0	66	0.92
4795512--4795551	12	3.5	12	83	10	57	67	0	32	0	0.91
4804353--4804481	66	2.0	66	90	0	204	31	13	13	41	1.84
4805469--4805510	13	2.9	15	82	13	61	19	7	21	52	1.69
4810095--4810125	11	2.7	11	95	5	53	32	6	25	35	1.82
4811490--4811522	17	1.9	17	88	11	50	42	15	3	39	1.62
4811664--4811769	31	3.5	29	72	13	90	36	8	10	44	1.69
4811674--4811803	59	2.2	59	80	5	147	40	9	10	40	1.71
4814370--4814398	15	1.9	15	100	0	58	79	0	6	13	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4819155--4819186	16	2.0	16	93	0	55	15	6	15	62	1.51
4819638--4819683	19	2.4	19	85	0	56	23	15	6	54	1.64
4824671--4824866	98	2.0	98	94	2	349	39	13	14	32	1.85
4829231--4829269	18	2.2	18	95	0	69	43	15	10	30	1.80
4832935--4833014	39	2.1	39	90	4	126	10	18	15	56	1.66
4840527--4840626	49	2.0	49	83	7	123	35	8	14	43	1.74
4841615--4841732	57	2.1	57	100	0	236	23	23	12	39	1.89
4841848--4841909	21	3.1	21	65	21	60	30	8	24	37	1.84
4841849--4841951	39	2.6	39	85	1	134	26	8	28	36	1.86
4847220--4847267	3	16.0	3	100	0	96	33	0	0	66	0.92
4853171--4853304	28	4.8	27	81	5	133	28	14	26	31	1.95
4864531--4864653	65	1.9	65	89	0	192	26	17	25	30	1.97
4864534--4864696	65	2.5	65	83	0	182	28	17	23	29	1.97
4872449--4872550	36	2.8	35	71	12	89	31	24	11	32	1.91
4874811--4874865	27	2.0	27	89	0	83	41	7	1	49	1.41
4878436--4878509	26	2.7	27	76	21	82	45	1	1	51	1.18
4878630--4878677	24	2.0	24	87	0	69	41	2	16	39	1.60
4889672--4889841	61	2.8	61	81	3	218	29	17	31	21	1.96
4889672--4889853	60	3.0	61	82	3	224	29	18	30	22	1.97
4902954--4903067	42	2.7	42	81	9	117	37	27	6	28	1.81
4902976--4903072	21	4.6	21	86	1	113	37	29	5	27	1.79
4903288--4903461	42	4.2	42	79	8	176	28	10	20	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4903317--4903486	42	4.1	41	77	8	148	28	9	18	43	1.81
4906890--4906920	16	1.9	16	93	0	53	6	9	9	74	1.23
4907466--4907506	18	2.3	18	88	12	66	80	4	2	12	0.97
4908346--4908370	13	1.9	13	100	0	50	20	16	8	56	1.65
4908874--4908929	20	2.6	23	77	13	64	50	12	3	33	1.58
4909081--4909125	21	2.4	17	82	17	54	48	2	0	48	1.13
4909081--4909125	18	2.3	21	85	14	62	48	2	0	48	1.13
4912111--4912208	38	2.6	38	83	0	133	31	11	21	35	1.89
4936759--4936807	21	2.3	21	100	0	98	38	12	26	22	1.89
4936772--4936817	21	2.2	21	88	0	65	43	17	19	19	1.88
4946093--4946132	17	2.4	17	84	12	55	75	0	0	25	0.81
4949945--4949972	13	2.2	13	100	0	56	21	0	0	78	0.75
4950125--4950240	39	3.0	39	80	2	117	41	14	16	27	1.87
4950206--4950297	41	2.2	42	82	3	105	45	13	9	31	1.75
4961161--4961195	7	4.9	7	89	3	52	14	2	0	82	0.77
4977239--4977263	3	8.3	3	100	0	50	32	0	0	68	0.90
4985092--4985125	2	17.5	2	93	6	61	50	0	0	50	1.00
4984793--4985439	346	1.8	353	83	9	834	44	8	7	40	1.61
4985546--4985609	28	2.3	28	78	5	76	45	1	4	48	1.32
4985115--4985812	345	2.1	329	84	7	893	44	7	7	40	1.60
4985791--4985835	2	23.0	2	95	4	83	48	0	0	51	1.00
4985823--4985890	15	4.4	15	68	25	52	47	0	5	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988984--4989013	15	2.1	15	93	6	53	36	0	3	60	1.14
4991408--4991489	36	2.3	35	82	2	92	19	19	19	41	1.91
5001782--5001829	23	2.1	23	96	0	87	29	8	2	60	1.37
5006901--5007025	61	2.0	61	96	0	232	39	16	18	26	1.91
5010691--5010737	22	2.1	23	84	11	62	48	17	6	27	1.71
5013808--5013872	29	2.4	27	85	12	80	46	3	1	49	1.27
5013938--5013991	27	2.0	27	92	0	90	46	1	1	50	1.23
5013961--5014052	42	2.2	42	80	5	107	40	2	2	55	1.24
5013822--5014105	155	1.8	152	89	3	444	39	2	2	55	1.26
5013787--5014161	152	2.6	142	71	17	319	39	2	2	55	1.27

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