genome.fa.s20.2.7.7.80.10.50.1000.1.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 994 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)
8779--8804	2	13.0	2	100	0	52	50	0	50	0	1.00
12157--12198	16	2.7	15	89	7	66	30	7	28	33	1.84
12400--12535	21	6.4	21	66	17	66	34	2	0	62	1.10
12376--12642	53	5.1	52	72	13	228	35	2	0	61	1.15
12362--12667	107	2.9	107	87	11	438	34	2	0	62	1.12
12427--12702	35	7.7	34	67	23	124	34	2	0	63	1.10
12520--12587	24	2.9	23	75	16	68	33	0	0	66	0.92
12634--12726	38	2.4	40	80	8	113	29	2	1	67	1.09
12638--12721	43	1.9	44	81	11	102	28	2	1	67	1.10
12575--12749	67	2.6	68	76	12	154	32	2	1	64	1.14
22468--22540	38	1.9	38	85	0	101	35	0	2	61	1.10
23274--23320	23	2.2	22	85	11	62	12	12	10	63	1.52
23783--23828	24	1.9	24	82	8	58	26	15	17	41	1.88
23890--24060	76	2.4	73	82	6	197	33	15	13	37	1.87
23912--24096	76	2.4	76	81	3	221	32	14	12	39	1.84
24043--24128	45	1.9	45	85	0	118	37	13	10	38	1.80
39892--39955	29	2.2	29	86	2	85	51	21	0	26	1.48
47368--47405	15	2.5	15	87	8	51	73	2	0	23	0.95
50482--50519	2	19.0	2	100	0	76	50	0	0	50	1.00
51907--51940	18	1.9	18	88	5	52	58	17	0	23	1.38
53936--53968	17	2.0	17	94	5	59	57	0	6	36	1.23
57271--57331	32	1.9	32	90	3	97	31	21	6	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57862--58065	65	3.1	64	80	4	239	30	18	18	33	1.94
66783--66830	19	2.5	19	93	0	78	22	33	8	35	1.84
67480--67550	33	2.2	33	87	5	99	28	33	11	26	1.91
70266--70300	3	12.0	3	93	6	63	68	0	0	31	0.90
70299--70329	3	10.3	3	100	0	62	35	0	0	64	0.94
91273--91360	43	2.0	44	97	2	169	45	18	13	22	1.84
96969--97001	15	2.2	15	94	0	57	48	0	15	36	1.45
98213--98254	14	2.9	14	86	10	50	80	0	11	7	0.88
98210--98252	19	2.2	19	83	4	50	83	0	9	6	0.80
100547--100750	108	1.9	108	88	2	311	46	4	12	36	1.64
102974--103039	34	1.9	34	87	6	98	48	15	9	27	1.74
103642--103667	8	3.2	8	100	0	52	34	15	26	23	1.94
108851--108880	6	5.0	6	100	0	60	50	16	0	33	1.46
108970--108999	8	3.8	8	100	0	60	66	0	0	33	0.92
109848--109967	15	7.5	15	69	20	50	27	3	6	62	1.36
109923--109959	12	2.8	14	80	16	51	29	0	0	70	0.88
109934--109959	12	2.2	12	100	0	52	30	0	0	69	0.89
113108--113214	48	2.2	48	93	0	178	23	13	24	39	1.90
113113--113192	26	3.2	26	74	13	96	23	13	25	37	1.92
113140--113237	22	4.3	22	81	10	124	22	13	23	40	1.89
113978--114345	203	1.8	203	86	1	540	22	11	24	41	1.86
118014--118064	19	2.6	19	82	14	68	43	1	3	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118014--118074	20	3.1	20	79	13	72	44	1	3	50	1.28
119700--119744	23	2.0	23	90	0	72	40	28	11	20	1.86
119713--119772	23	2.6	23	84	5	68	36	26	11	25	1.90
119912--119976	23	2.8	23	69	0	58	33	23	10	32	1.89
120098--120146	23	2.1	23	88	0	71	40	22	8	28	1.82
120167--120211	23	2.0	23	86	0	63	33	20	11	35	1.88
120525--120582	26	2.1	28	90	6	93	51	5	17	25	1.65
120536--120592	26	2.2	25	81	12	62	57	7	14	21	1.60
122950--122984	19	1.9	18	88	11	54	74	5	0	20	1.02
130273--130344	36	1.9	38	81	10	87	61	0	2	36	1.11
142011--142062	27	1.9	27	88	0	77	32	7	15	44	1.75
150367--150516	77	1.9	77	86	0	210	41	6	8	44	1.60
156191--156232	18	2.3	19	83	4	50	57	2	0	40	1.12
156214--156517	153	2.0	154	80	7	350	46	7	8	37	1.63
168341--168382	15	2.8	15	85	0	57	47	0	0	52	1.00
169735--169761	2	13.5	2	100	0	54	51	0	0	48	1.00
187382--187593	89	2.4	88	89	3	311	44	4	14	36	1.66
187551--187760	114	1.8	116	91	2	352	41	11	10	36	1.76
192648--192990	171	2.0	172	98	0	661	33	17	16	33	1.92
195259--195315	26	2.1	27	87	3	80	7	54	8	29	1.58
195907--195987	33	2.5	32	82	9	92	45	14	8	30	1.75
200358--200484	63	2.0	64	89	1	193	15	31	17	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208139--208174	2	18.5	2	94	5	65	47	0	0	52	1.00
210538--210568	2	15.5	2	100	0	62	51	0	0	48	1.00
219235--219278	14	3.1	14	81	15	54	47	0	0	52	1.00
219222--219264	20	2.0	22	82	8	54	44	0	2	53	1.13
219237--219314	30	2.5	29	84	14	93	47	0	0	52	1.00
221209--221257	24	2.0	24	96	0	89	42	18	12	26	1.85
222748--222777	11	2.7	11	89	0	51	50	33	0	16	1.46
224063--224137	30	2.5	30	82	4	98	48	1	16	34	1.54
224316--224350	18	2.1	18	89	10	56	45	11	5	37	1.64
228829--228862	12	2.8	12	100	0	68	20	17	26	35	1.95
233651--233687	11	3.5	11	79	20	51	64	8	5	21	1.40
234354--234404	24	2.1	24	82	7	59	21	1	3	72	1.11
244894--244963	20	3.5	19	76	16	70	45	4	0	50	1.21
244894--244945	18	2.8	18	85	11	61	46	5	0	48	1.26
266333--266367	4	8.8	4	100	0	70	51	22	0	25	1.48
282277--282339	29	2.1	30	88	8	94	38	6	1	53	1.36
285318--285342	11	2.3	11	100	0	50	36	0	0	64	0.94
290869--290899	14	2.1	15	94	5	55	67	0	0	32	0.91
290958--291022	29	2.2	29	88	2	94	69	1	3	26	1.12
291344--291400	23	2.5	22	81	10	62	54	0	1	43	1.10
291418--291470	21	2.5	20	79	8	61	54	0	3	41	1.18
291545--291718	86	2.1	87	86	7	243	46	6	4	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294873--294930	31	2.0	29	86	10	82	10	58	12	18	1.61
295535--295568	16	2.2	16	94	5	61	52	0	14	32	1.42
299132--299183	26	2.0	27	81	11	63	34	1	0	63	1.06
302720--303024	151	2.0	151	94	2	533	40	16	18	25	1.91
306017--306047	15	2.1	15	93	0	53	32	0	0	67	0.91
310763--310807	20	2.2	21	88	7	67	17	0	13	68	1.20
311436--311488	22	2.4	22	75	18	56	45	0	1	52	1.11
311467--311539	14	5.7	13	68	28	50	43	1	2	52	1.24
311480--311581	20	5.4	21	67	25	77	41	0	2	54	1.22
311461--311581	35	3.4	35	89	6	174	42	0	2	54	1.19
316322--316355	15	2.3	15	90	5	52	55	8	5	29	1.54
320301--320359	30	2.0	29	83	9	75	40	6	11	40	1.68
322231--322622	152	2.6	149	81	9	419	56	9	9	25	1.61
322685--322750	26	2.8	21	77	20	69	63	10	1	24	1.35
322678--322742	26	2.6	26	90	4	98	64	12	0	23	1.27
322543--322830	161	1.8	158	86	3	416	60	7	6	25	1.49
324914--324951	16	2.4	16	90	0	58	73	7	2	15	1.17
324965--325018	18	3.1	18	78	5	58	68	1	0	29	1.00
326873--326898	3	8.7	3	100	0	52	30	0	0	69	0.89
331374--331475	27	3.8	26	80	6	105	36	8	14	40	1.77
331373--331489	27	4.3	28	80	3	89	36	7	15	40	1.76
331373--331601	82	2.8	81	80	3	269	38	7	13	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331428--331586	55	2.9	54	72	5	149	38	5	13	42	1.67
331550--331607	28	2.1	28	87	6	82	43	8	6	41	1.62
333496--333525	11	2.9	10	90	9	51	3	20	0	76	0.92
333732--333773	18	2.3	19	83	4	50	42	0	0	57	0.99
337576--337620	22	2.0	24	86	8	67	0	53	11	35	1.37
345576--345758	92	2.0	92	92	2	305	35	20	15	27	1.94
346249--346312	27	2.3	27	81	7	76	31	3	10	54	1.51
356285--356347	14	4.4	14	72	21	51	36	4	0	58	1.19
356339--356422	33	2.5	33	84	0	105	25	5	3	65	1.31
361472--361500	2	14.5	2	100	0	58	0	48	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9