genome.fa.s6.2.7.7.80.10.50.1000.1.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  1  of  22  ( 2632 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)
5458--5491	14	2.4	14	90	0	50	0	35	5	58	1.22
6342--6678	167	2.0	167	90	1	523	23	15	16	45	1.85
13976--14129	80	1.9	80	87	0	227	33	18	13	33	1.90
24857--24899	21	2.0	22	86	9	61	79	2	4	13	1.00
29762--29951	102	1.9	102	82	7	242	27	22	9	40	1.85
29737--29983	102	2.4	100	76	8	239	27	21	11	40	1.87
32017--32143	15	8.4	15	68	5	67	32	12	14	40	1.84
32027--32137	46	2.4	45	82	2	132	34	12	13	39	1.83
32348--32404	18	3.2	18	71	14	64	56	10	10	22	1.64
36296--36326	3	10.3	3	92	0	53	32	0	3	64	1.09
39281--39326	21	2.2	21	96	0	83	17	6	34	41	1.75
40742--40804	29	2.2	29	100	0	126	31	23	15	28	1.96
43969--44004	17	2.1	17	94	0	63	86	0	0	13	0.58
43967--44014	14	3.5	14	80	11	55	85	0	0	14	0.60
49039--49106	21	3.1	22	78	21	81	33	1	0	64	1.02
50398--50437	20	2.0	20	85	0	53	35	35	0	30	1.58
53921--53958	16	2.3	17	86	4	51	84	0	10	5	0.77
55205--55260	21	2.6	22	82	5	69	30	26	8	33	1.87
55205--55267	22	2.9	22	76	9	67	30	23	12	33	1.92
55329--55368	21	1.9	21	89	0	62	30	30	12	27	1.93
55227--55469	101	2.4	101	87	2	335	30	18	15	35	1.92
55443--55485	22	2.0	21	90	4	68	27	27	13	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55329--55561	123	1.9	122	88	0	349	32	18	15	34	1.92
55786--55843	20	2.9	19	82	12	64	70	0	0	29	0.87
57698--58088	189	2.1	189	85	2	534	30	17	21	30	1.96
57700--58163	189	2.5	189	81	4	438	29	18	21	30	1.97
78268--78688	227	1.8	226	85	5	587	49	6	10	33	1.63
78472--79215	241	3.0	245	79	9	850	50	7	10	31	1.64
78472--79263	250	3.2	247	78	8	844	50	7	10	31	1.64
79951--80018	35	1.9	35	93	0	118	27	13	35	23	1.92
80495--80535	21	2.0	21	90	0	64	34	7	17	41	1.77
91998--92049	14	3.6	14	74	23	54	15	3	0	80	0.85
118774--118803	2	15.0	2	100	0	60	50	0	0	50	1.00
119359--119383	11	2.3	11	100	0	50	0	8	0	92	0.40
121793--121818	3	8.7	3	100	0	52	65	34	0	0	0.93
124132--124167	18	2.0	18	88	0	54	38	0	0	61	0.96
128992--129026	17	2.0	18	94	5	63	51	25	11	11	1.71
130588--130635	24	2.0	24	88	8	71	29	8	16	45	1.76
138497--138683	93	2.0	94	97	1	358	30	14	20	34	1.92
141093--141121	2	14.5	2	100	0	58	51	0	0	48	1.00
159416--159466	26	2.0	26	92	0	84	21	15	9	52	1.71
163226--163321	35	2.7	35	83	1	111	40	3	9	46	1.52
163162--163309	71	2.1	68	82	6	172	35	4	12	47	1.61
168611--168651	17	2.6	16	79	20	50	36	2	24	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170473--170497	2	12.5	2	100	0	50	52	0	48	0	1.00
173286--173315	15	2.0	15	93	0	51	30	0	16	53	1.44
199629--199751	45	2.6	47	79	11	121	38	4	13	44	1.62
204247--204450	47	4.2	48	84	12	276	14	23	57	4	1.57
206735--206905	92	1.9	91	81	8	213	23	9	28	38	1.86
216282--216321	19	2.1	19	90	0	62	50	0	45	5	1.23
226382--226413	2	16.0	2	100	0	64	50	0	0	50	1.00
231943--232010	26	2.6	26	81	9	75	63	4	16	16	1.47
233844--234048	42	4.9	42	75	3	189	40	20	9	30	1.84
234975--235108	52	2.5	53	79	4	164	38	13	17	30	1.89
236251--236405	64	2.4	64	81	3	168	31	14	21	32	1.93
258204--258253	22	2.3	22	85	0	64	30	0	18	52	1.46
258653--258714	30	2.1	30	81	6	72	37	11	4	46	1.61
279829--279858	10	3.0	10	90	0	51	26	0	3	70	1.03
287768--287803	18	1.9	19	88	5	56	80	0	0	19	0.71
295683--295744	27	2.3	27	81	10	74	38	1	3	56	1.25
295910--295985	29	2.6	29	75	4	73	59	2	0	38	1.12
300580--300613	16	2.1	16	94	0	59	35	14	11	38	1.83
306543--306574	16	1.9	17	93	6	57	34	0	9	56	1.32
309334--309493	76	2.1	76	84	0	203	39	14	15	31	1.87
326234--326313	33	2.5	31	77	15	101	63	1	1	33	1.10
326331--326411	41	2.0	40	87	2	117	64	1	4	29	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326607--326649	15	2.9	15	96	0	77	39	23	0	37	1.55
328635--328739	54	1.9	54	81	9	124	30	13	20	36	1.91
338767--338828	26	2.2	28	80	8	74	35	9	8	46	1.66
342149--342238	41	2.2	41	79	0	99	24	16	12	46	1.81
342353--342583	71	3.3	70	82	4	207	26	19	9	43	1.83
342387--342583	71	2.8	70	85	2	259	27	21	8	42	1.82
345783--346412	241	2.6	240	82	3	755	36	19	13	31	1.90
346421--346459	15	2.6	15	100	0	78	46	0	17	35	1.49
349494--349524	13	2.4	13	94	0	53	48	9	3	38	1.52
360037--360068	17	1.9	17	93	6	57	34	0	0	65	0.93
360213--360303	41	2.3	40	78	9	100	39	12	4	43	1.62
362496--362635	66	2.1	66	91	0	226	25	10	22	40	1.86
379183--379219	2	18.5	2	94	0	65	45	0	2	51	1.15
379290--379342	26	2.0	26	85	7	72	47	0	5	47	1.26
388096--388137	6	6.8	6	79	15	50	80	2	16	0	0.81
389792--389822	3	10.3	3	92	0	53	64	0	32	3	1.09
390899--390928	15	1.9	16	93	6	53	60	0	40	0	0.97
391036--391066	5	6.2	5	96	0	53	0	0	64	35	0.94
393009--393062	26	2.0	29	82	10	69	48	1	3	46	1.30
396346--396379	3	11.3	3	100	0	68	67	0	0	32	0.91
398495--398531	2	18.5	2	88	0	56	51	43	0	5	1.24
403526--403571	20	2.3	20	92	0	74	28	10	15	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403824--403910	21	4.1	22	76	8	83	48	18	6	26	1.73
403997--404052	21	2.6	21	80	2	58	51	16	3	28	1.60
419140--419164	2	12.5	2	100	0	50	52	48	0	0	1.00
422150--422179	2	15.0	2	100	0	60	50	0	0	50	1.00
424116--424157	20	2.0	20	82	13	50	33	9	7	50	1.62
425239--425272	17	2.0	17	100	0	68	52	17	11	17	1.73
426465--426514	26	2.0	24	88	7	73	80	2	18	0	0.82
426466--426514	24	2.0	25	84	11	66	79	2	18	0	0.83
440264--440309	24	1.9	24	86	8	67	67	0	32	0	0.91
440264--440334	21	3.2	21	82	11	72	63	0	35	1	1.03
445944--445982	21	2.0	20	85	14	55	38	2	0	58	1.12
450129--450155	3	9.0	3	100	0	54	66	0	0	33	0.92
454671--454745	34	2.2	34	83	4	89	36	32	9	22	1.86
454768--454869	29	3.5	29	85	2	125	29	23	11	35	1.90
457735--457821	41	2.1	41	100	0	174	42	12	11	33	1.79
462885--462948	32	2.0	32	100	0	128	37	21	9	31	1.85
490730--490791	26	2.6	24	71	19	58	30	1	1	66	1.11
490834--490908	38	2.1	35	82	7	87	28	2	1	68	1.12
494173--494251	39	2.0	39	97	0	149	44	11	22	21	1.84
498861--498894	17	1.9	18	94	5	61	17	44	8	29	1.79
511475--511719	124	2.0	124	84	3	323	24	23	9	42	1.84
511777--511811	14	2.5	14	90	0	52	22	0	14	62	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523495--523541	20	2.2	20	85	7	58	21	19	0	59	1.38
530435--530485	11	4.5	12	78	9	54	84	1	3	9	0.83
530434--530485	17	3.1	15	84	13	59	82	1	3	11	0.88
530697--530738	16	2.5	16	92	7	66	45	0	0	54	0.99
532448--532477	2	15.0	2	100	0	60	50	0	0	50	1.00
533308--533352	19	2.4	19	84	0	54	46	4	6	42	1.50
544404--544443	16	2.5	15	84	11	53	70	0	30	0	0.88
551881--551952	37	1.9	38	86	8	103	44	8	19	27	1.79
564755--566452	62	27.7	61	78	7	703	30	17	16	35	1.92
564755--566454	123	13.8	124	83	4	1758	30	17	16	35	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22