genome.fa.s14.2.7.7.80.10.50.1000.9.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1406 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)
5320616--5320654	15	2.6	14	80	11	51	43	28	2	25	1.68
5329376--5329400	7	3.6	7	100	0	50	12	0	0	88	0.53
5330780--5330850	32	2.2	32	79	0	79	38	1	2	57	1.22
5336263--5336287	2	12.5	2	100	0	50	52	0	0	48	1.00
5336365--5336442	39	2.0	40	82	7	97	43	2	10	43	1.52
5347473--5347532	30	2.0	30	100	0	120	30	23	20	26	1.98
5349126--5349151	2	13.0	2	100	0	52	0	50	0	50	1.00
5350622--5350665	15	3.1	14	78	15	54	38	6	20	34	1.79
5350814--5350869	17	3.5	16	77	20	55	39	3	0	57	1.16
5350805--5351232	29	15.4	28	67	20	143	34	2	0	61	1.15
5350811--5351142	108	3.0	110	89	8	500	35	2	0	62	1.12
5350940--5351075	26	5.1	26	72	15	82	36	2	0	59	1.18
5351104--5351187	21	4.2	20	68	23	59	29	2	0	67	1.03
5350863--5351139	9	31.2	9	62	27	60	35	1	0	62	1.11
5350973--5351177	72	2.9	70	72	16	172	33	2	0	62	1.15
5351046--5351182	35	3.9	34	71	16	100	33	2	0	62	1.15
5351109--5351271	81	2.0	85	79	9	185	30	2	0	66	1.09
5351196--5351275	30	2.6	31	74	7	83	35	1	0	63	1.02
5352202--5352271	34	2.1	34	91	0	113	17	48	10	24	1.77
5358750--5358812	33	1.9	33	83	0	81	39	12	4	42	1.64
5358878--5358935	30	1.9	30	92	0	98	51	5	6	36	1.51
5359149--5359175	14	1.9	14	100	0	54	22	3	7	66	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5367886--5367926	2	20.5	2	100	0	82	51	0	48	0	1.00
5372874--5372899	13	2.0	13	100	0	52	61	23	7	7	1.49
5379408--5379469	28	2.1	30	88	5	92	59	0	0	40	0.97
5380044--5380104	29	2.1	29	100	0	122	34	13	3	49	1.58
5380641--5380710	29	2.4	30	81	11	83	57	1	1	40	1.17
5389907--5389936	9	3.3	9	100	0	60	43	0	0	56	0.99
5392029--5392062	10	3.3	10	88	8	50	44	2	0	52	1.16
5398658--5398708	22	2.3	22	93	0	84	35	1	5	56	1.35
5398615--5398708	22	3.5	26	72	20	70	35	5	6	53	1.49
5400091--5400248	55	2.9	55	83	0	208	41	5	8	44	1.57
5400130--5400211	28	3.0	28	78	1	94	42	2	7	47	1.44
5400213--5400269	28	2.0	28	82	0	69	42	8	10	38	1.71
5402383--5402412	2	15.0	2	100	0	60	50	0	0	50	1.00
5411456--5411502	22	2.2	20	85	7	58	38	0	0	61	0.96
5416229--5416263	2	17.5	2	93	0	61	48	0	0	51	1.00
5421212--5421255	11	3.9	11	80	14	54	25	0	0	75	0.81
5421204--5421256	22	2.4	22	81	12	63	24	1	0	73	0.93
5421203--5421255	17	3.1	17	78	13	56	26	1	0	71	0.96
5422687--5422738	22	2.4	21	75	9	50	40	1	0	57	1.10
5424189--5424216	2	14.0	2	100	0	56	50	0	50	0	1.00
5426321--5426348	2	14.0	2	100	0	56	50	0	0	50	1.00
5442510--5442543	2	17.0	2	100	0	68	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5454833--5454884	23	2.3	22	80	9	59	48	0	0	51	1.00
5455899--5455929	2	16.0	2	93	6	55	51	0	0	48	1.00
5458175--5458352	92	1.9	92	90	0	284	35	9	25	29	1.88
5470675--5470717	9	4.8	9	85	0	50	0	18	34	46	1.50
5471438--5471671	86	2.8	85	86	3	310	39	16	13	30	1.86
5474922--5474946	10	2.5	10	100	0	50	84	0	0	16	0.63
5476313--5476378	33	2.0	33	100	0	132	36	12	18	33	1.88
5495663--5495724	23	2.7	22	80	11	72	6	19	6	67	1.35
5521480--5521535	28	2.0	27	86	3	76	44	1	3	50	1.29
5524657--5524683	3	9.0	3	100	0	54	33	0	0	66	0.92
5524719--5524842	62	2.0	62	98	0	239	32	16	20	29	1.95
5528672--5528707	2	18.0	2	94	0	63	47	0	0	52	1.00
5539640--5539681	6	6.8	6	79	15	50	4	16	0	78	0.91
5547079--5547106	2	14.0	2	100	0	56	50	0	0	50	1.00
5547106--5547139	2	17.0	2	100	0	68	50	0	50	0	1.00
5553276--5553315	2	21.0	2	90	10	66	50	0	0	50	1.00
5564523--5564560	13	2.9	13	88	7	51	71	0	28	0	0.87
5571316--5571391	39	1.9	39	97	0	143	15	21	14	48	1.80
5576603--5577072	251	1.9	246	81	8	576	52	3	8	36	1.48
5597196--5597250	16	3.4	16	78	7	58	58	0	0	41	0.98
5597183--5597289	45	2.4	48	80	12	111	59	1	0	38	1.08
5598049--5598079	16	1.9	16	93	0	53	41	3	0	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5598451--5598475	10	2.5	10	100	0	50	92	0	8	0	0.40
5609846--5609893	23	2.1	23	96	0	87	22	14	16	45	1.84
5610458--5610487	2	15.0	2	92	0	51	0	46	0	53	1.00
5611922--5611954	3	11.0	3	100	0	66	0	33	0	66	0.92
5647533--5647645	58	1.9	58	85	3	156	36	20	20	23	1.95
5648913--5648950	2	19.0	2	94	0	67	52	0	0	47	1.00
5668261--5668302	18	2.3	18	84	11	59	30	9	2	57	1.44
5669549--5669609	23	2.6	24	76	10	63	54	0	1	44	1.10
5674495--5674621	64	2.0	64	83	6	159	33	16	18	31	1.94
5677451--5677562	47	2.4	47	83	0	134	27	22	14	35	1.93
5683794--5683840	22	2.0	23	84	8	60	31	0	8	59	1.27
5695568--5695597	5	5.8	5	92	7	51	80	0	20	0	0.72
5695568--5695597	16	1.9	16	93	6	53	80	0	20	0	0.72
5710249--5710869	225	2.8	215	93	0	846	27	10	23	35	1.87
5714513--5714560	21	2.3	21	88	0	78	54	12	4	29	1.56
5719329--5719372	20	2.2	20	84	11	56	59	0	2	38	1.10
5721086--5721220	67	2.0	67	90	5	211	33	14	9	42	1.79
5721224--5721251	2	14.0	2	100	0	56	50	0	0	50	1.00
5722073--5722132	28	2.1	28	84	0	75	63	10	3	23	1.40
5726058--5726126	15	4.6	15	90	0	93	36	7	21	34	1.81
5726345--5726418	23	3.1	23	72	14	69	32	2	1	63	1.17
5726361--5726427	23	3.0	22	74	12	55	32	1	2	62	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5726288--5726486	57	3.5	56	73	17	187	33	5	2	59	1.30
5726458--5726541	32	2.6	32	86	5	107	29	1	0	69	0.97
5726488--5726592	14	7.6	14	68	15	58	28	1	0	68	1.06
5726466--5726542	17	4.7	17	69	13	54	28	1	0	70	0.96
5726276--5726505	113	2.0	114	93	1	392	32	4	2	60	1.29
5726556--5726630	25	3.0	25	75	9	64	29	1	1	68	1.06
5733275--5733363	43	2.1	43	95	0	160	37	21	8	32	1.85
5739379--5739435	12	4.8	12	80	0	51	5	42	0	52	1.24
5742096--5742120	2	12.5	2	100	0	50	48	0	0	52	1.00
5743216--5743255	15	2.7	15	92	7	64	27	20	22	30	1.98
5744246--5744291	16	2.9	16	73	0	56	63	0	2	34	1.07
5756690--5756800	55	2.0	55	92	0	186	31	9	18	41	1.81
5760151--5760180	3	10.0	3	100	0	60	33	0	0	66	0.92
5760578--5760628	25	2.0	25	100	0	102	39	15	3	41	1.66
5769532--5769599	22	3.1	22	66	8	57	48	0	7	44	1.30
5769579--5769677	22	4.4	22	63	15	58	37	3	7	52	1.44
5783083--5783133	24	2.0	25	81	7	59	47	1	0	50	1.12
5784542--5784596	22	2.5	22	82	11	76	29	5	16	49	1.68
5784665--5784736	22	3.3	21	80	7	81	58	9	1	30	1.39
5784610--5784759	44	3.4	44	77	2	149	48	15	5	30	1.67
5785069--5785104	18	1.9	19	88	5	56	41	2	0	55	1.14
5788428--5788488	15	3.9	15	74	18	52	47	3	1	47	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5790361--5790510	76	2.0	76	93	0	255	34	16	18	30	1.93
5791976--5792066	45	2.0	45	82	4	112	42	17	23	16	1.88
5792407--5792436	12	2.5	12	94	0	51	46	0	0	53	1.00
5798822--5798846	5	5.0	5	100	0	50	20	40	20	20	1.92
5801965--5801991	2	13.5	2	100	0	54	48	0	0	51	1.00
5803524--5803586	4	16.0	4	75	9	58	28	0	3	68	1.05
5812152--5812181	2	15.5	2	93	6	53	50	0	0	50	1.00
5835831--5835871	20	2.0	20	90	4	64	60	2	0	36	1.10
5836883--5837159	144	1.9	143	87	3	405	35	15	14	35	1.87
5841141--5841202	10	6.0	10	73	14	54	1	35	1	61	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12