genome.fa.s16.2.7.7.80.10.50.1000.1.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  1  of  14  ( 1598 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)
359--726	138	2.7	138	81	5	422	26	15	28	29	1.96
566--801	107	2.2	106	83	1	292	28	15	26	29	1.96
764--839	31	2.5	31	84	6	100	28	10	32	27	1.90
668--938	138	2.0	137	85	0	362	26	15	28	30	1.96
476--983	244	2.1	244	82	4	623	26	17	27	28	1.98
764--862	31	3.2	30	82	4	90	25	11	34	29	1.90
5031--5136	31	3.4	31	80	5	124	38	16	13	32	1.87
5975--6029	23	2.4	23	87	0	83	27	34	9	29	1.87
5885--6076	93	2.1	94	85	3	253	26	31	10	31	1.91
6077--6122	23	2.0	23	86	0	65	26	39	8	26	1.85
6324--6570	23	10.8	23	69	7	92	25	31	10	32	1.89
9119--9527	205	2.0	210	89	2	639	33	12	7	46	1.71
12077--12145	35	2.0	35	88	0	102	30	24	17	27	1.97
18079--18142	30	2.1	31	88	2	94	34	4	9	51	1.55
56775--56840	4	16.5	4	93	0	114	28	0	21	50	1.49
56773--56840	24	2.8	24	100	0	136	29	0	20	50	1.49
59327--59352	3	8.7	3	100	0	52	69	0	0	30	0.89
60480--60521	18	2.3	19	80	12	52	2	47	2	47	1.28
69203--69258	29	1.9	29	85	7	78	33	3	0	62	1.12
72276--72300	2	12.5	2	100	0	50	48	0	0	52	1.00
76654--76680	3	9.0	3	100	0	54	33	33	0	33	1.58
76679--76754	3	25.7	3	97	2	145	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76729--76941	68	3.0	68	86	6	293	46	10	6	36	1.64
80012--80039	2	14.0	2	100	0	56	50	0	0	50	1.00
82039--82071	2	16.5	2	93	0	57	48	0	3	48	1.17
105111--105156	21	2.2	21	88	0	65	43	2	17	36	1.61
108055--108089	2	18.0	2	94	5	63	51	0	0	48	1.00
110156--110189	5	6.8	5	87	12	52	17	0	0	82	0.67
117951--118016	25	2.7	24	81	6	71	6	39	0	54	1.25
122287--122311	2	12.5	2	100	0	50	52	0	0	48	1.00
139479--139510	2	16.0	2	93	0	55	53	0	0	46	1.00
144546--144594	7	7.3	7	77	15	50	83	0	4	12	0.77
144548--144583	12	2.9	12	95	4	63	83	0	2	13	0.76
144546--144594	20	2.5	19	86	6	62	83	0	4	12	0.77
159211--159248	20	1.9	19	85	15	51	34	7	0	57	1.28
160038--160063	3	8.7	3	100	0	52	69	0	0	30	0.89
166206--166244	14	2.7	15	88	8	62	38	7	0	53	1.30
168172--168212	19	2.0	20	86	9	57	80	0	14	4	0.87
177818--177850	16	2.0	17	88	5	50	33	3	0	63	1.10
180649--180674	2	13.0	2	100	0	52	50	0	0	50	1.00
183823--183872	21	2.3	22	86	3	66	24	18	2	56	1.52
184103--184132	15	2.0	15	93	0	51	46	0	36	16	1.47
184649--184684	16	2.2	16	95	0	63	36	0	13	50	1.43
185151--185180	12	2.4	13	94	5	53	80	0	3	16	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
193356--193387	2	16.0	2	93	0	55	50	3	0	46	1.17
195909--195938	1	30.0	1	93	0	51	0	96	0	3	0.21
214238--214299	31	2.0	31	81	9	74	33	3	4	58	1.36
216591--216632	7	6.0	7	78	10	50	69	0	0	30	0.89
216591--216625	11	3.2	11	83	0	52	68	0	0	31	0.90
219315--219369	28	2.0	28	85	3	76	29	3	5	61	1.35
219315--219370	27	2.1	27	83	6	69	30	3	5	60	1.36
221568--221617	5	9.8	5	91	4	82	80	2	18	0	0.82
222205--222247	18	2.3	19	84	4	61	39	0	58	2	1.11
228429--228461	17	1.9	17	93	0	57	36	18	3	42	1.66
231948--231986	17	2.4	16	86	4	51	74	0	0	25	0.82
233877--233901	2	12.5	2	100	0	50	48	0	0	52	1.00
239821--239850	14	2.1	14	93	0	51	30	3	13	53	1.56
240248--240287	13	3.1	13	82	13	55	40	7	2	50	1.44
240250--240312	16	3.8	16	75	6	54	39	4	3	52	1.38
242891--242925	19	1.9	19	88	11	56	68	11	5	14	1.37
243935--243995	20	2.9	21	80	11	72	50	9	0	39	1.35
244025--244065	21	2.0	21	90	9	68	48	4	4	41	1.46
252603--252632	12	2.5	12	94	0	51	0	13	0	86	0.57
254552--254584	16	2.1	16	94	0	57	27	9	6	57	1.53
258064--258101	17	2.2	18	85	4	51	65	2	31	0	1.06
271974--272028	21	2.6	21	72	16	60	32	3	1	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273953--273980	3	9.3	3	100	0	56	32	0	0	67	0.91
274132--274161	16	1.9	16	93	6	53	30	3	6	60	1.39
279121--279522	208	1.9	211	83	5	530	32	11	11	44	1.77
279552--279608	28	2.0	28	83	6	71	29	7	12	50	1.66
279826--279875	19	2.6	19	84	9	57	26	0	4	70	1.05
279805--279886	20	4.1	20	72	10	69	26	0	4	68	1.10
280939--281007	30	2.3	29	72	16	68	33	0	10	56	1.33
281427--281459	17	1.9	17	93	0	57	69	0	9	21	1.15
282205--282268	32	2.0	32	100	0	128	37	15	9	37	1.80
282916--282969	28	1.9	29	85	7	76	29	3	3	62	1.29
283181--283219	18	2.4	17	87	12	55	46	0	0	53	1.00
284628--284655	3	9.3	3	100	0	56	67	0	32	0	0.91
307942--308162	111	2.0	112	87	0	318	41	13	10	34	1.78
308261--308294	17	1.9	18	88	5	52	47	2	0	50	1.16
310340--310400	21	3.0	21	92	4	99	47	3	0	49	1.18
321440--321478	3	13.0	3	94	0	69	35	0	33	30	1.58
326498--326523	4	6.5	4	100	0	52	26	0	26	46	1.53
328671--328698	2	14.0	2	100	0	56	50	0	0	50	1.00
331699--331737	20	2.0	21	85	10	55	51	15	7	25	1.70
349440--349501	27	2.3	27	100	0	124	25	20	6	46	1.74
353339--353378	2	19.5	2	89	5	62	50	0	2	47	1.14
373592--373624	17	2.0	17	88	5	50	36	6	0	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380107--380136	15	2.0	15	93	0	51	36	6	10	46	1.64
380079--380209	69	1.9	69	100	0	262	42	3	10	42	1.57
380176--380205	15	2.0	15	93	0	51	36	6	10	46	1.64
387335--387365	2	15.5	2	100	0	62	48	0	0	51	1.00
387464--387527	30	2.2	30	85	2	85	42	12	9	35	1.75
387442--387596	29	5.4	29	73	18	107	40	10	9	40	1.71
387491--387647	83	1.9	83	82	2	199	36	9	10	43	1.71
387560--387725	53	3.1	53	92	1	269	38	9	8	43	1.68
387559--387724	54	3.1	53	93	2	278	37	9	8	43	1.68
387548--387700	29	5.6	29	66	21	96	39	9	7	42	1.67
387548--387699	26	5.6	26	65	27	68	40	9	7	42	1.67
387559--387758	107	1.9	109	86	2	287	37	10	9	43	1.71
387559--387789	107	2.1	108	83	4	275	36	10	10	42	1.74
387764--387863	26	3.8	25	69	18	69	32	11	11	46	1.74
387734--387921	79	2.4	80	84	2	227	32	11	13	42	1.80
387829--387884	26	2.2	26	81	9	62	26	17	12	42	1.85
391825--391852	2	14.0	2	100	0	56	50	0	0	50	1.00
393646--393677	15	2.1	15	94	0	55	31	0	0	68	0.90
397562--397600	20	2.0	20	90	5	62	74	5	12	7	1.20
399549--399581	13	2.4	14	85	10	50	54	6	0	39	1.25
399696--399740	3	15.0	3	95	0	81	31	0	2	66	1.04
406566--406600	17	2.1	17	88	0	52	22	5	5	65	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422582--422640	28	2.1	28	81	12	68	23	10	20	45	1.81
423195--423253	30	2.0	30	82	0	73	52	13	22	11	1.72
429486--429513	5	5.6	5	100	0	56	0	57	0	42	0.99
430282--430307	12	2.2	12	100	0	52	23	7	0	69	1.14
431177--431202	3	8.7	3	100	0	52	30	0	0	69	0.89
432996--433047	21	2.5	21	96	0	95	21	32	0	46	1.52
434613--434647	16	2.2	16	100	0	70	57	11	8	22	1.61
437312--437348	10	3.6	10	96	3	65	2	8	0	89	0.58
437312--437349	11	3.5	11	89	7	60	2	7	0	89	0.57
437672--437768	50	1.9	50	95	0	176	34	22	14	28	1.94

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