genome.fa.s9.2.7.7.80.10.50.1000.16.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  16  of  20  ( 2302 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)
6197053--6197213	86	1.9	86	92	0	268	42	4	8	44	1.55
6197182--6197346	82	2.0	82	95	0	294	52	2	13	32	1.53
6210247--6210620	124	3.0	124	83	2	491	29	27	14	27	1.95
6227358--6227397	20	2.0	21	85	5	55	37	15	17	30	1.90
6233799--6233847	21	2.5	20	83	6	55	48	2	48	0	1.12
6237427--6237601	87	2.0	87	96	0	323	26	30	18	24	1.98
6256766--6256934	84	2.0	84	96	0	311	38	14	15	31	1.88
6261240--6261267	2	14.0	2	100	0	56	0	50	0	50	1.00
6270168--6270222	29	1.9	28	85	10	76	38	1	0	60	1.08
6270825--6270854	10	3.0	10	95	0	51	90	0	6	3	0.56
6286252--6286301	27	1.9	26	84	8	66	46	2	14	38	1.56
6292412--6292439	2	14.0	2	100	0	56	50	0	0	50	1.00
6297948--6297990	22	1.9	23	90	4	70	60	2	11	25	1.43
6297947--6297998	22	2.3	22	80	9	61	63	1	9	25	1.35
6302485--6302517	2	16.5	2	100	0	66	48	0	0	51	1.00
6310637--6310711	28	2.6	29	82	4	98	37	1	0	61	1.05
6310640--6310711	30	2.5	28	81	4	90	38	1	0	59	1.06
6315691--6315797	54	2.0	53	94	1	187	34	17	12	35	1.87
6325013--6325045	15	2.1	16	88	5	50	6	3	12	78	1.04
6328116--6328266	56	2.7	56	83	2	169	37	6	15	41	1.73
6330655--6330708	26	2.1	26	82	6	65	42	0	3	53	1.18
6334664--6334694	3	10.3	3	100	0	62	64	0	35	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6338335--6338926	158	3.8	158	77	7	539	33	13	12	40	1.83
6338792--6339061	135	2.0	134	80	4	301	35	11	11	42	1.77
6338929--6339469	158	3.4	157	77	3	422	33	12	11	42	1.80
6338329--6339500	609	1.9	606	78	5	1263	33	13	12	40	1.82
6347404--6347663	91	2.8	91	76	11	239	31	25	10	33	1.90
6351333--6351357	2	12.5	2	100	0	50	0	52	0	48	1.00
6354146--6354185	20	1.9	22	85	10	57	42	0	10	47	1.37
6359387--6359429	20	2.2	20	100	0	86	34	20	13	30	1.92
6365871--6365913	22	2.0	22	81	9	52	34	9	2	53	1.46
6376765--6376807	23	1.9	23	85	4	61	53	2	39	4	1.34
6382836--6382864	2	15.0	2	92	7	51	51	0	0	48	1.00
6391889--6391947	30	2.0	30	100	0	118	27	15	20	37	1.92
6395020--6395050	3	10.3	3	100	0	62	32	0	0	67	0.91
6396913--6396968	24	2.3	25	75	9	62	10	42	1	44	1.49
6397253--6397299	22	2.1	22	84	7	60	2	27	6	63	1.30
6397789--6397816	2	14.0	2	100	0	56	50	0	0	50	1.00
6398762--6398802	19	2.2	19	86	8	57	34	2	2	60	1.23
6398754--6398808	20	2.5	22	69	22	53	32	5	1	60	1.30
6400658--6400683	2	13.0	2	100	0	52	50	0	0	50	1.00
6400996--6401020	2	12.5	2	100	0	50	52	0	0	48	1.00
6402137--6402168	10	3.2	10	95	0	55	50	6	43	0	1.27
6402370--6402395	3	8.7	3	100	0	52	34	0	34	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6416776--6416837	31	2.0	31	100	0	124	35	16	22	25	1.94
6416785--6416847	31	2.2	28	86	11	83	41	12	23	22	1.88
6422493--6422554	31	2.0	32	84	9	83	41	4	1	51	1.33
6422492--6422561	31	2.3	30	81	13	81	42	4	1	51	1.30
6460282--6460359	40	2.0	40	86	0	111	23	12	16	47	1.81
6462796--6462823	8	3.5	8	100	0	56	50	10	0	39	1.37
6468287--6468325	15	2.6	15	84	11	53	58	0	0	41	0.98
6502930--6503109	84	2.2	83	87	1	252	38	8	23	29	1.84
6504670--6504845	39	4.5	39	73	12	155	43	17	7	32	1.76
6504670--6504845	77	2.2	78	79	11	191	43	17	7	32	1.76
6506574--6506749	83	2.1	85	88	3	257	18	26	25	29	1.98
6510739--6510796	29	2.0	29	89	0	89	25	22	22	29	1.99
6512219--6512293	32	2.3	32	81	0	87	32	22	6	38	1.80
6512937--6512967	14	2.2	14	94	0	53	22	12	16	48	1.80
6517371--6517399	11	2.5	12	88	11	51	20	31	0	48	1.50
6522542--6522606	32	2.1	32	91	2	105	27	20	27	24	1.99
6529807--6529964	84	1.9	83	90	1	253	39	8	20	32	1.82
6530784--6530837	26	2.1	26	96	0	99	38	5	20	35	1.76
6531620--6531805	39	4.8	38	74	1	120	42	16	5	34	1.73
6535360--6535387	3	9.3	3	100	0	56	0	32	0	67	0.91
6542865--6542913	20	2.5	20	100	0	98	36	18	14	30	1.90
6552299--6552362	27	2.4	27	97	0	119	20	28	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6562504--6562540	2	18.5	2	88	0	56	51	5	0	43	1.24
6577623--6577727	52	2.0	52	96	0	192	43	3	13	39	1.62
6593277--6593310	18	1.9	17	94	5	59	41	11	5	41	1.66
6593431--6593500	30	2.3	30	85	4	88	50	10	10	30	1.69
6594628--6594692	29	2.2	29	94	0	112	30	12	13	43	1.81
6603081--6603115	17	2.1	17	94	0	61	28	8	11	51	1.67
6603080--6603124	17	2.4	18	82	14	56	24	13	11	51	1.73
6614403--6614432	15	2.0	15	93	0	51	53	3	6	36	1.44
6640440--6640468	2	14.5	2	100	0	58	48	0	0	51	1.00
6646851--6646879	3	9.7	3	100	0	58	31	0	0	68	0.89
6647743--6647779	18	2.1	18	100	0	74	51	0	10	37	1.37
6657119--6657267	22	6.8	22	85	4	167	23	9	20	46	1.80
6657350--6657399	21	2.4	21	82	0	64	46	22	10	22	1.81
6658435--6658469	18	1.9	18	88	0	52	28	34	28	8	1.87
6671362--6671400	11	3.1	13	82	17	55	38	10	0	51	1.36
6671353--6671455	44	2.3	44	84	1	134	38	9	6	44	1.64
6680871--6680910	20	2.0	20	90	0	62	22	12	22	42	1.87
6683662--6683690	5	5.8	5	100	0	58	20	0	17	62	1.33
6683654--6683690	15	2.5	15	90	0	56	18	5	16	59	1.55
6690803--6690832	11	2.7	11	94	0	51	13	3	0	83	0.77
6699699--6699737	18	2.2	18	85	0	51	89	2	5	2	0.63
6701070--6701151	39	2.1	39	95	0	146	39	14	18	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6712817--6712872	28	2.0	28	83	13	71	55	7	1	35	1.38
6714380--6714433	25	2.2	25	96	0	99	25	14	12	46	1.81
6722190--6722223	1	34.0	1	100	0	68	0	0	100	0	0.00
6731112--6731154	22	2.0	22	100	0	86	46	18	23	11	1.82
6733760--6733793	6	5.7	6	89	0	50	2	11	52	32	1.53
6738594--6738631	16	2.3	17	86	4	51	28	2	15	52	1.56
6739384--6739427	2	22.0	2	90	0	70	45	0	4	50	1.22
6740078--6740108	15	2.1	15	93	0	53	83	0	16	0	0.64
6740633--6740710	41	1.9	41	94	0	138	32	15	6	46	1.71
6740638--6740704	22	3.2	22	62	20	52	32	13	7	46	1.71
6745627--6745663	2	18.5	2	94	0	65	48	0	2	48	1.15
6752997--6753039	21	2.1	21	86	4	61	51	0	0	48	1.00
6791226--6791292	29	2.3	30	85	12	86	29	1	2	65	1.16
6805663--6805688	2	13.0	2	100	0	52	50	0	0	50	1.00
6819803--6819847	10	4.4	10	80	2	54	42	0	0	57	0.98
6819810--6819848	20	2.0	19	95	5	69	43	0	0	56	0.99
6826925--6826959	2	18.0	2	94	5	63	48	0	0	51	1.00
6829028--6829063	2	18.5	2	94	5	65	52	0	0	47	1.00
6831727--6831772	24	1.9	24	91	8	76	45	6	28	19	1.75
6834587--6834671	44	1.9	44	83	4	109	31	22	29	16	1.96
6836443--6836471	13	2.1	14	93	6	51	13	0	0	86	0.58
6841196--6841257	1	62.0	1	86	0	79	1	91	1	4	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6841196--6841257	23	2.6	23	92	5	97	1	91	1	4	0.52
6841196--6841257	24	2.6	24	89	5	99	1	91	1	4	0.52
6846240--6846496	129	2.0	129	100	0	514	26	10	16	46	1.79
6853536--6853565	3	10.0	3	100	0	60	0	33	33	33	1.58
6855398--6855443	4	11.5	4	90	0	74	47	2	2	47	1.26
6855398--6855443	6	7.7	6	95	0	74	47	2	2	47	1.26
6862505--6862534	15	2.0	15	93	0	51	33	56	0	10	1.32
6864021--6864070	21	2.4	20	83	9	64	48	2	2	48	1.24
6869622--6869664	22	1.9	22	85	4	59	37	0	0	62	0.95
6878450--6878527	36	2.3	33	82	6	93	17	47	15	19	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20