genome.fa.s31.2.7.7.80.10.50.1000.1.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_018397284.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_115.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1289616

Tables:   1   2   3   

This is table  1  of  3  ( 347 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)
45083--45122	19	2.1	19	85	0	53	27	0	0	72	0.85
60948--61052	38	2.8	37	77	9	122	33	13	15	38	1.86
61490--61530	14	3.1	14	76	20	52	68	0	12	19	1.21
68900--68999	38	2.6	38	78	7	114	34	14	15	37	1.87
69427--69464	9	4.3	9	80	6	51	78	0	2	18	0.86
72943--72998	6	9.8	6	88	3	64	78	3	1	16	0.97
74147--74189	21	2.2	19	87	8	59	69	0	25	4	1.07
74784--74821	17	2.2	18	85	4	51	21	2	2	73	1.07
75077--75237	73	2.2	73	80	9	177	37	19	10	32	1.86
75224--75328	38	2.8	37	76	13	108	35	15	15	34	1.89
75337--75402	34	1.9	34	81	0	78	27	22	15	34	1.94
80666--80690	9	2.8	9	100	0	50	60	40	0	0	0.97
81641--81682	16	2.6	17	85	7	61	76	0	23	0	0.79
84579--84613	4	8.5	4	87	6	52	68	0	31	0	0.90
84567--84608	16	2.6	17	88	7	61	73	0	26	0	0.83
85056--85093	9	4.3	9	83	3	51	18	2	0	78	0.86
93254--93284	15	2.1	15	100	0	62	51	0	0	48	1.00
93597--93627	15	2.1	15	93	0	53	48	3	0	48	1.17
101284--101314	15	2.1	15	93	0	53	41	0	9	48	1.36
103644--103673	11	2.6	12	89	10	53	46	0	6	46	1.29
106969--106993	13	1.9	13	100	0	50	32	8	4	56	1.47
107549--107576	6	4.7	6	100	0	56	0	17	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
125964--126016	17	3.1	18	75	8	56	47	16	7	28	1.74
129385--129430	18	2.6	18	79	3	58	50	10	8	30	1.68
134541--135116	251	2.3	249	84	3	719	48	6	9	35	1.62
135127--135169	21	2.0	21	82	8	52	58	11	9	20	1.61
134664--135563	447	2.0	449	84	5	1169	47	7	10	34	1.67
135114--136156	250	4.2	250	78	4	1081	48	6	9	34	1.60
135114--136157	499	2.1	499	81	4	1237	48	6	9	34	1.60
137397--138167	259	3.0	259	97	0	1409	34	13	14	37	1.85
153615--153690	35	2.1	36	87	2	109	19	14	18	47	1.83
158792--159016	43	5.3	43	76	5	197	32	16	12	39	1.85
158793--159016	85	2.6	85	83	6	240	32	16	12	39	1.85
158890--159057	86	2.0	86	82	7	207	32	17	11	39	1.85
159565--159606	22	2.0	22	95	4	77	54	2	23	19	1.55
159594--159635	22	2.0	22	90	4	68	64	2	21	11	1.38
170109--170148	20	2.0	20	100	0	80	50	5	10	35	1.58
170072--170226	76	2.0	76	100	0	310	37	10	9	43	1.71
170185--170224	20	2.0	20	100	0	80	50	5	10	35	1.58
172953--172991	19	2.1	19	85	9	53	43	2	7	46	1.46
177409--177463	24	2.3	24	84	9	69	43	12	5	38	1.66
182087--182117	15	2.1	15	93	0	53	70	6	0	22	1.09
184075--184131	30	1.9	30	92	0	96	33	5	10	50	1.59
185550--185606	23	2.5	23	75	11	62	31	14	29	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
185629--185675	23	2.0	23	87	0	67	29	17	27	25	1.97
186346--186509	31	5.3	31	90	0	238	30	16	18	34	1.93
190057--190428	96	3.9	96	78	5	360	26	29	13	31	1.93
190356--190458	31	3.2	31	72	8	98	23	33	12	30	1.92
190011--190439	96	4.5	96	75	6	356	26	30	13	29	1.94
191205--191257	24	2.2	24	86	0	70	32	28	13	26	1.93
193963--194008	21	2.2	21	84	0	56	23	21	2	52	1.58
199209--199261	23	2.2	23	83	10	61	30	20	3	45	1.69
199224--199277	23	2.3	23	87	0	72	33	18	5	42	1.73
199262--199387	44	2.8	44	85	1	162	39	12	12	34	1.82
199265--199432	22	7.6	22	77	7	135	39	15	12	32	1.85
199265--199432	66	2.5	66	80	5	198	39	15	12	32	1.85
200151--200236	14	6.4	13	69	20	52	74	1	17	6	1.10
200907--200994	27	3.3	27	77	13	83	39	14	12	32	1.84
201697--201777	27	3.0	27	98	0	153	25	24	7	41	1.81
211251--211370	61	1.9	61	82	12	147	43	24	6	25	1.78
212942--213047	53	2.0	53	88	3	160	35	10	12	41	1.77
213537--213566	15	2.0	15	93	0	51	26	3	36	33	1.73
213898--214010	37	3.1	36	88	5	156	27	26	24	21	1.99
222515--222594	39	2.1	39	81	9	92	41	10	7	41	1.67
222576--222626	22	2.5	20	84	9	66	29	1	1	66	1.13
222808--223271	247	1.9	246	82	8	586	33	8	5	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222860--223320	247	1.8	251	83	5	612	34	9	4	51	1.56
223079--223616	296	1.8	293	83	7	714	33	9	5	50	1.60
223940--223981	18	2.3	18	91	0	66	42	0	0	57	0.99
225025--225064	21	2.0	19	85	9	53	12	0	17	70	1.18
225402--225459	29	2.0	29	93	0	98	25	8	29	36	1.86
236759--236792	5	6.4	5	96	3	50	23	0	0	76	0.79
240944--240974	6	5.2	6	92	0	53	0	19	12	67	1.22
240944--240977	12	2.8	12	90	0	59	0	20	11	67	1.21
250332--250465	59	2.3	59	100	0	268	59	23	9	7	1.54
251050--251199	78	1.9	77	81	6	178	35	20	11	33	1.88
254471--254508	18	2.2	18	90	4	60	52	0	0	47	1.00
262676--262713	18	2.2	18	90	9	62	0	13	7	78	0.94
268983--269022	2	20.0	2	89	0	53	2	45	0	52	1.14
268981--269019	20	2.0	20	94	0	69	2	41	0	56	1.13
277780--278138	120	3.0	120	89	0	538	25	18	20	35	1.95
281138--281201	33	1.9	33	81	12	78	17	18	10	53	1.72
284106--284135	15	1.9	16	93	6	53	33	13	6	46	1.69
285651--285715	34	1.9	34	83	0	85	30	15	21	32	1.94
290301--290895	233	2.5	231	82	4	721	40	10	16	32	1.82
296772--296841	35	2.0	35	91	5	115	42	11	2	42	1.55
297436--297485	26	2.0	25	84	11	66	62	4	0	34	1.14
299339--299366	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302827--302862	18	2.0	18	89	10	56	58	0	5	36	1.22
339068--339112	12	3.6	13	82	14	51	6	11	4	77	1.09
349203--349232	3	10.0	3	92	0	51	33	3	0	63	1.11
362541--362586	12	3.7	13	75	18	53	36	0	0	63	0.95
369289--369319	2	15.5	2	100	0	62	51	0	0	48	1.00
370849--371011	82	2.0	82	91	2	265	31	15	10	42	1.80
385571--385667	2	49.5	2	88	11	148	1	49	1	48	1.14
385571--385667	27	3.6	27	94	5	162	1	49	1	48	1.14
387402--387428	2	13.5	2	100	0	54	48	0	0	51	1.00
398167--398195	12	2.3	13	94	5	51	86	0	0	13	0.58
398166--398209	19	2.3	19	84	0	61	79	0	9	11	0.93
398751--398798	18	2.9	17	79	11	55	47	0	35	16	1.47
402781--402814	18	2.0	16	88	11	50	8	5	29	55	1.54
404543--404609	20	3.1	22	68	20	68	50	8	14	25	1.72
404524--404609	43	2.0	43	97	0	163	48	10	13	26	1.75
404525--404594	20	3.3	20	69	18	61	50	11	12	25	1.74
415288--415314	2	13.5	2	100	0	54	48	0	0	51	1.00
419580--419739	85	1.9	85	82	2	205	26	5	22	45	1.73
423670--423714	20	2.4	17	82	17	54	77	4	15	2	1.02
427386--427516	51	2.5	53	72	14	119	28	22	12	35	1.92
431964--432022	27	2.1	28	84	9	75	61	5	5	28	1.39
441465--442405	324	2.9	322	88	2	1375	34	14	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442117--442683	286	2.0	279	87	3	823	33	14	18	33	1.91
453306--453365	30	2.0	30	90	6	95	28	8	18	45	1.78
466719--466785	26	2.6	26	77	13	75	22	10	5	61	1.50
472308--472351	22	2.0	22	82	8	54	43	9	13	34	1.76
481498--482621	187	5.9	186	80	5	781	30	12	13	41	1.82
481754--482462	377	1.9	364	85	3	886	29	12	14	41	1.83
482284--482803	200	2.6	203	82	3	611	31	13	12	42	1.82
483170--483503	180	1.9	173	83	5	352	28	11	14	41	1.81
502804--502850	24	2.0	24	91	0	76	31	12	25	29	1.93
503211--503246	18	2.0	18	94	0	63	63	0	0	36	0.94

Tables:   1   2   3