genome.fa.s23.2.7.7.80.10.50.1000.1.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_018397276.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_106.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2845708

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 653 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)
6735--6771	6	6.0	6	87	6	56	81	0	5	13	0.86
23388--23422	17	2.1	17	94	0	61	17	31	2	48	1.61
28266--28293	13	2.2	13	100	0	56	14	0	0	85	0.59
28439--28554	51	2.3	49	85	7	146	17	18	5	59	1.55
28504--28618	60	1.9	61	91	3	189	15	20	6	56	1.62
49041--49623	165	3.5	162	78	10	562	42	10	12	34	1.78
61969--62016	15	3.1	15	79	8	60	75	2	2	20	1.02
62039--62076	15	2.5	15	87	12	51	31	5	36	26	1.79
89703--89742	20	2.0	20	90	5	62	82	0	10	7	0.84
89895--89919	7	3.6	7	100	0	50	16	0	0	84	0.63
89895--89928	14	2.4	14	90	0	50	20	0	0	79	0.73
114872--115004	67	2.0	67	100	0	266	28	9	27	34	1.87
119553--119682	35	3.7	35	85	7	174	34	8	13	43	1.75
119560--119696	70	1.9	71	83	4	179	37	8	13	40	1.75
121134--121166	17	1.9	17	100	0	66	36	21	18	24	1.95
121398--121465	30	2.2	31	81	5	84	22	35	14	27	1.93
121260--121729	137	3.4	138	77	11	428	28	28	15	28	1.96
121527--121602	31	2.5	30	76	16	75	25	30	17	27	1.97
125237--125308	30	2.4	30	83	4	74	52	26	8	12	1.67
128923--128966	21	2.1	21	86	0	61	29	27	18	25	1.98
128979--129034	21	2.7	21	77	0	58	28	25	19	26	1.99
129001--129050	21	2.4	21	79	0	55	28	30	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129235--129283	21	2.3	21	89	0	80	24	28	2	44	1.65
130742--130790	21	2.3	21	82	6	64	24	24	2	48	1.61
132088--132136	21	2.3	21	82	0	62	24	26	2	46	1.63
142502--142690	97	1.9	98	85	1	263	35	14	16	33	1.89
142672--142872	83	2.4	83	82	2	233	40	15	9	28	1.79
142825--142884	29	2.1	29	87	6	88	36	13	10	40	1.78
147468--147675	45	4.4	45	77	10	193	36	14	17	31	1.90
147490--147627	53	2.8	49	80	12	158	36	14	15	34	1.88
147490--147689	98	2.1	97	88	0	292	35	14	17	33	1.89
150569--150644	20	3.8	20	73	3	71	35	17	17	30	1.92
150547--150645	41	2.4	41	87	0	135	35	18	14	32	1.90
150548--150665	41	2.9	41	82	2	130	35	17	15	31	1.91
158649--158773	63	2.0	63	82	0	151	34	8	3	53	1.48
164761--164883	55	2.3	55	81	4	151	54	3	7	34	1.44
172041--172290	133	1.9	133	82	3	315	31	29	5	34	1.80
178047--178087	21	2.0	21	95	0	73	24	17	24	34	1.96
178527--178590	21	3.0	21	81	0	74	34	17	21	26	1.95
180340--180377	15	2.4	16	87	12	53	26	39	5	28	1.78
180319--180387	8	9.0	8	73	10	56	26	37	2	33	1.71
180413--180455	16	2.7	16	86	10	61	20	0	2	76	0.89
189707--189825	1	119.0	1	88	0	175	0	5	0	94	0.36
189704--189843	47	2.8	50	88	9	198	1	7	0	90	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195348--195387	17	2.3	19	79	16	50	50	0	5	45	1.23
201954--201984	16	1.9	16	93	0	53	19	3	9	67	1.33
205708--205733	12	2.2	12	100	0	52	42	26	0	30	1.56
220034--220064	16	1.9	16	93	0	53	45	6	3	45	1.45
237409--237459	17	3.1	17	86	8	61	27	13	19	39	1.90
237772--237845	36	2.1	36	97	0	139	35	21	6	36	1.80
242180--242227	15	3.1	15	73	8	51	72	0	2	25	0.95
242545--242582	10	3.8	10	89	10	60	26	0	0	73	0.83
242545--242582	19	2.0	20	94	5	69	26	0	0	73	0.83
243413--243588	94	1.9	94	91	2	291	31	14	19	34	1.92
244108--244193	21	4.0	21	83	1	100	25	17	16	40	1.90
249848--249884	4	9.2	4	93	0	65	24	2	24	48	1.64
259681--259727	24	2.0	24	87	8	69	29	8	0	61	1.25
261519--261629	48	2.3	48	84	3	143	33	20	13	32	1.92
261614--261694	40	2.0	40	88	4	119	27	19	14	38	1.91
261519--261660	48	3.0	46	80	6	140	30	20	14	34	1.92
265836--265876	15	2.7	16	81	11	50	24	34	34	7	1.83
272403--272500	45	2.2	44	83	5	124	36	18	13	31	1.89
275872--275925	18	2.8	20	75	11	58	38	14	16	29	1.89
279031--279082	21	2.5	21	83	0	68	34	13	19	32	1.90
285813--285951	67	2.1	67	91	0	224	23	8	19	48	1.76
290278--290326	21	2.4	20	80	19	57	0	28	4	67	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291254--291283	15	1.9	16	93	6	53	36	20	10	33	1.86
291803--291987	73	2.5	73	85	0	235	24	22	16	36	1.94
300617--300660	20	2.3	19	92	7	72	45	2	0	52	1.13
308128--308218	44	2.0	46	81	12	109	36	13	15	35	1.86
313087--313266	29	6.3	28	78	10	193	39	11	12	36	1.80
339353--339476	35	3.5	37	76	10	109	1	33	2	62	1.17
345276--345316	20	2.0	20	85	0	55	60	4	4	29	1.38
349465--350251	164	4.8	163	73	13	453	33	14	12	39	1.84
350585--351077	164	3.0	164	77	7	369	35	11	11	41	1.78
351392--351432	21	2.1	19	86	9	55	29	0	9	60	1.28
353850--353897	19	2.6	19	93	3	80	54	0	2	43	1.12
359657--359744	24	3.8	24	83	10	103	28	18	26	27	1.98
359679--359763	21	3.9	21	80	10	91	28	16	28	27	1.97
360825--360901	31	2.5	31	76	4	75	27	15	32	24	1.95
360964--361039	31	2.5	31	93	0	125	23	21	26	28	1.99
361003--361337	138	2.4	137	80	4	386	25	16	29	28	1.96
362994--363143	81	1.9	81	84	2	203	25	32	18	24	1.97
365416--365584	31	5.5	31	81	9	184	36	15	14	32	1.89
365416--365585	93	1.8	93	85	0	241	36	15	15	32	1.89
366399--366447	23	2.1	23	84	0	62	30	32	10	26	1.89
366226--366631	184	2.2	184	83	0	490	25	31	13	29	1.94
366585--366644	23	2.6	23	81	0	66	26	30	11	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368432--368487	22	2.6	21	81	13	60	42	3	3	50	1.37
377196--377232	18	2.1	18	89	0	56	64	2	32	0	1.07
377207--377259	14	3.8	14	76	18	56	64	0	33	1	1.05
377196--377259	21	3.2	20	74	10	51	65	1	31	1	1.11
378651--378710	25	2.4	25	88	0	93	26	16	30	26	1.97
388772--388948	29	6.1	29	78	5	187	36	14	11	37	1.83
406841--406883	19	2.3	18	88	11	61	53	0	4	41	1.21
413135--413179	23	2.0	22	91	4	72	42	0	0	57	0.98
457763--457799	16	2.3	16	90	9	58	64	10	5	18	1.43
460212--460283	35	2.1	35	83	0	90	31	11	25	31	1.90
462277--462343	35	1.9	35	93	0	116	40	14	11	32	1.83
468066--468752	341	2.0	342	96	2	1285	27	16	17	37	1.92
473289--473361	27	2.6	28	78	2	85	27	27	19	26	1.99
482326--482530	80	2.6	80	86	1	268	30	10	25	33	1.89
495310--495355	19	2.4	19	85	0	56	60	0	0	39	0.97
497519--497572	25	2.2	24	83	3	63	33	14	27	24	1.94
497533--497579	24	1.9	25	82	4	60	25	21	31	21	1.98
502335--502620	80	3.6	80	84	0	349	29	10	25	34	1.90
513682--513731	24	2.0	25	81	11	59	34	16	18	32	1.92
522116--522281	77	2.1	78	83	4	210	40	6	13	40	1.69
536123--536238	58	2.0	57	86	1	160	38	18	8	34	1.81
545498--553796	171	48.7	169	76	7	5753	39	12	13	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545498--553796	342	24.3	341	78	4	6606	39	12	13	34	1.83
545498--553796	513	16.2	510	77	5	6365	39	12	13	34	1.83
557926--559230	171	7.6	169	76	5	1073	38	11	14	35	1.82
559440--559881	171	2.6	169	81	5	478	40	11	14	33	1.82
560051--561213	171	6.8	170	78	5	979	40	11	13	34	1.81
560051--572769	342	36.8	341	72	11	5349	38	12	14	34	1.83
561427--561876	171	2.6	171	79	4	471	39	11	13	35	1.81
561682--562103	209	2.0	211	80	6	482	37	13	15	33	1.87
561909--567579	171	33.1	170	72	8	2715	38	12	14	35	1.83
563077--563488	212	1.9	212	83	1	522	35	14	14	35	1.87

Tables:   1   2   3   4   5   6