genome.fa.s15.2.7.7.80.10.50.1000.1.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

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

This is table  1  of  13  ( 1452 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)
1479--1510	2	16.0	2	100	0	64	50	0	0	50	1.00
5343--5367	4	6.2	4	100	0	50	0	24	52	24	1.48
10853--10886	7	4.9	7	92	0	59	70	26	0	2	1.01
42333--42365	2	16.5	2	93	0	57	51	0	0	48	1.00
42668--42710	2	21.5	2	100	0	86	48	0	0	51	1.00
45215--45244	15	2.0	15	93	0	51	40	10	0	50	1.36
47208--47265	19	3.1	19	100	0	116	41	0	15	43	1.47
47723--47782	28	2.1	28	100	0	120	26	11	13	48	1.76
56973--57013	18	2.3	18	86	0	55	29	2	0	68	1.03
56966--57017	28	1.9	26	84	7	68	30	3	0	65	1.10
57244--57274	16	2.0	16	93	6	55	29	0	6	64	1.18
68712--68744	2	16.5	2	100	0	66	48	0	0	51	1.00
69536--69574	20	2.0	20	100	0	78	33	15	25	25	1.95
69619--69827	48	4.3	48	95	1	364	33	18	25	22	1.96
69619--69827	97	2.2	96	94	0	364	33	18	25	22	1.96
70017--70407	58	7.1	57	76	11	381	36	15	20	27	1.93
69874--70736	411	2.1	406	92	5	1440	36	15	21	26	1.93
70202--70423	52	4.4	49	77	12	207	35	15	22	26	1.94
70017--70989	157	6.2	156	72	16	610	36	15	21	26	1.94
70394--70456	33	1.9	33	100	0	126	36	20	23	19	1.95
70427--70875	58	8.1	58	83	9	489	36	15	22	26	1.93
70075--70768	353	2.0	356	86	7	1000	36	15	21	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70427--70887	215	2.1	216	92	3	766	36	15	21	26	1.94
70474--70982	99	4.8	103	78	12	428	36	16	22	25	1.94
70427--70977	269	2.0	267	88	5	815	36	15	22	25	1.94
71613--71656	22	2.0	23	86	13	65	52	0	4	43	1.22
71963--72004	15	2.8	15	81	0	57	35	7	23	33	1.82
71961--72012	15	3.5	15	78	0	50	34	9	25	30	1.88
72234--72316	34	2.5	34	84	2	105	31	4	0	63	1.15
72234--72322	33	2.6	33	84	7	99	30	4	0	65	1.13
72304--72369	35	1.9	32	82	17	80	33	3	0	63	1.10
72350--72424	33	2.3	34	84	15	104	25	0	0	74	0.82
72349--72424	38	1.9	39	84	5	100	26	0	0	73	0.83
72313--72425	55	2.1	54	81	12	128	29	1	0	69	0.99
80054--80117	20	3.3	19	77	10	58	34	9	10	45	1.72
80193--80231	15	2.6	14	84	8	51	48	0	0	51	1.00
80208--80256	26	2.0	24	84	15	64	40	0	0	59	0.98
80218--80259	21	2.0	21	85	0	57	40	0	0	59	0.97
108595--108621	2	13.5	2	100	0	54	51	0	48	0	1.00
115593--115623	2	15.5	2	93	0	53	48	0	0	51	1.00
132038--132081	21	2.0	22	82	4	54	27	0	9	63	1.24
188033--188059	12	2.2	12	100	0	54	59	14	25	0	1.36
211133--211157	2	12.5	2	100	0	50	48	0	0	52	1.00
257788--257915	46	2.8	46	95	0	220	37	15	23	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
257891--258107	119	1.8	118	81	3	265	45	8	27	18	1.78
260349--261461	252	4.4	252	81	5	1169	33	12	6	47	1.66
262864--262906	18	2.3	18	81	14	52	27	37	16	18	1.92
272887--272925	18	2.1	19	85	4	53	58	10	30	0	1.31
291098--291123	12	2.2	12	100	0	52	57	23	19	0	1.40
297471--297897	215	2.0	216	84	0	559	40	7	4	47	1.51
301343--301510	83	2.0	83	97	0	318	44	10	20	24	1.83
316309--316691	191	2.0	191	94	0	667	27	14	24	32	1.94
317936--318077	74	1.9	74	84	5	189	45	7	7	40	1.58
332283--332439	77	2.0	77	93	2	271	22	17	12	47	1.81
352637--352675	2	19.5	2	94	0	69	51	2	0	46	1.14
371594--371633	14	2.8	15	82	17	50	12	7	0	80	0.91
378713--378739	2	13.5	2	100	0	54	51	0	0	48	1.00
386929--386978	24	2.1	24	92	0	82	40	20	10	30	1.85
403225--403250	2	13.0	2	100	0	52	50	0	0	50	1.00
407684--407737	22	2.4	23	81	9	76	38	3	0	57	1.17
423534--423585	27	1.9	27	92	0	86	19	42	19	19	1.90
431799--431832	2	17.0	2	88	11	52	50	0	2	47	1.16
432932--432974	19	2.3	18	80	7	50	18	0	58	23	1.40
433753--433780	2	14.0	2	100	0	56	50	0	0	50	1.00
438785--438818	17	2.0	17	88	0	50	50	5	8	35	1.58
460194--460245	26	2.0	26	100	0	104	38	3	15	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466096--466144	22	2.2	22	100	0	98	44	4	4	46	1.41
466098--466154	22	2.8	19	80	14	69	47	3	5	43	1.43
466159--466183	3	8.3	3	100	0	50	36	0	0	64	0.94
466320--466407	31	2.9	30	74	14	83	35	4	1	59	1.25
466386--466419	14	2.2	16	90	10	54	41	0	2	55	1.15
466365--466808	80	5.6	80	84	3	463	42	4	4	48	1.43
466391--466795	161	2.6	156	83	5	494	42	4	4	48	1.43
466697--466927	119	1.9	119	82	6	290	41	5	4	48	1.45
466801--467112	80	3.9	77	86	4	390	45	3	3	47	1.38
466601--466998	199	2.0	200	85	4	536	42	4	4	48	1.43
466801--467112	160	2.0	160	87	2	448	45	3	3	47	1.38
467040--467082	21	2.0	21	86	0	59	41	2	2	53	1.26
467063--467160	48	2.0	48	94	3	171	50	4	4	41	1.40
466846--467144	80	3.7	80	84	6	268	45	3	4	46	1.38
474910--474964	26	2.1	26	83	16	69	43	0	1	54	1.10
479832--479878	20	2.3	20	88	0	67	21	48	17	12	1.79
480195--480282	16	5.6	16	73	13	67	62	0	1	36	1.03
480195--480284	15	5.7	16	69	20	64	61	0	1	37	1.04
513170--513384	114	1.9	110	83	5	279	34	8	15	41	1.78
516363--516614	125	2.0	126	89	2	382	32	10	24	32	1.89
519628--519676	18	2.7	18	96	0	89	51	10	0	38	1.36
525622--525657	12	2.8	13	87	12	56	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525623--525659	18	2.1	18	90	10	58	81	0	0	18	0.70
525622--525659	13	3.0	12	92	7	58	81	0	0	18	0.69
557169--557212	21	2.2	20	84	12	54	52	0	0	47	1.00
558395--558429	2	17.5	2	93	0	61	48	2	0	48	1.16
558495--558524	2	15.0	2	100	0	60	50	0	0	50	1.00
562617--562686	35	2.0	35	100	0	140	45	22	11	20	1.82
572139--572300	80	2.0	80	93	0	279	29	18	9	43	1.81
606571--606618	15	3.3	14	76	5	51	22	2	2	72	1.05
612844--612889	18	2.5	19	86	10	60	30	4	0	65	1.12
612846--612891	20	2.3	21	75	21	53	28	4	0	67	1.10
613951--613979	15	1.9	15	100	0	58	68	0	0	31	0.89
625940--626095	77	2.0	77	92	0	258	39	19	18	23	1.93
646447--646476	12	2.5	12	94	0	51	53	0	46	0	1.00
646634--646683	27	1.9	25	84	15	66	60	4	8	28	1.43
650410--650449	3	14.0	3	84	10	57	2	0	62	35	1.09
665944--665978	18	2.0	18	88	5	54	34	14	17	34	1.90
679211--679265	28	2.0	28	85	7	76	25	10	9	54	1.64
679466--679612	77	1.9	78	84	8	199	25	6	4	62	1.40
679544--679753	16	12.9	15	67	21	88	26	4	5	63	1.36
679544--679703	33	4.8	33	74	12	132	27	4	4	63	1.32
679544--679706	66	2.5	64	84	5	191	26	4	4	63	1.33
679644--679755	51	2.2	49	81	6	127	25	5	8	61	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679844--679927	43	2.0	43	82	0	105	45	11	7	35	1.69
695224--695253	15	1.9	16	93	6	53	16	26	13	43	1.85
699535--699568	13	2.5	13	95	4	59	35	0	0	64	0.94
702880--703119	119	2.0	119	98	0	462	36	20	18	24	1.95
713286--713314	2	14.5	2	100	0	58	51	0	0	48	1.00
713742--713792	21	2.4	21	83	3	66	37	11	31	19	1.88
715030--715060	3	10.3	3	100	0	62	67	0	32	0	0.91
731405--731483	31	2.7	29	77	12	90	41	0	1	56	1.07
743073--743103	6	5.2	6	100	0	62	16	16	32	35	1.91
749772--749852	15	5.1	16	75	20	73	32	0	0	67	0.91

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