genome.fa.s30.2.7.7.80.10.50.1000.1.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_018397283.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_31.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1333793

Tables:   1   2   3   

This is table  1  of  3  ( 270 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)
22410--22450	21	1.9	22	85	14	59	48	0	29	21	1.50
25895--26369	249	1.9	249	91	2	776	41	9	9	40	1.70
41936--41964	3	9.7	3	100	0	58	65	0	0	34	0.93
43676--43733	21	2.8	21	94	0	98	27	32	24	15	1.95
43791--43829	3	12.7	3	83	5	51	0	30	2	66	1.05
45023--45278	108	2.4	108	86	5	365	19	32	12	35	1.89
45198--45306	30	3.6	30	90	4	150	15	37	11	34	1.84
45090--45359	138	2.0	138	81	5	323	18	35	12	33	1.89
50705--50756	19	2.8	18	73	5	50	0	42	0	57	0.98
72466--72640	97	1.8	96	96	1	323	25	3	7	64	1.36
72929--73117	79	2.4	78	91	1	299	22	7	6	62	1.46
84801--84839	18	2.2	18	100	0	78	35	15	17	30	1.91
86472--87932	603	2.4	588	83	5	1729	28	20	20	30	1.97
89293--89318	2	13.0	2	100	0	52	50	0	0	50	1.00
95398--95442	16	3.0	15	81	18	58	57	0	0	42	0.98
95399--95435	14	2.7	14	88	12	51	59	0	0	40	0.97
107304--107464	79	2.0	79	98	0	313	40	18	11	29	1.85
107446--107518	36	2.0	36	100	0	146	39	24	5	30	1.78
110249--110392	71	2.0	71	98	0	279	36	22	11	29	1.90
117833--117894	29	2.1	29	93	0	106	40	20	14	24	1.90
132136--132164	2	14.5	2	100	0	58	51	0	0	48	1.00
135974--136154	88	2.1	88	100	0	362	20	17	29	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141410--141477	32	2.2	29	73	14	73	33	8	16	41	1.79
141537--141684	66	2.3	66	85	3	201	35	14	15	34	1.89
141700--141737	15	2.5	15	100	0	76	31	10	23	34	1.89
148625--148668	3	14.7	3	100	0	88	65	0	0	34	0.93
181702--181754	3	17.7	3	100	0	106	66	0	0	33	0.92
189996--190035	10	3.9	10	90	9	55	25	0	0	75	0.81
203533--203563	10	3.1	10	95	0	53	45	0	48	6	1.28
211127--211157	2	15.5	2	93	0	53	48	3	0	48	1.17
213463--213495	2	16.5	2	100	0	66	48	0	51	0	1.00
213698--213730	2	16.5	2	87	12	50	51	0	3	45	1.16
222416--222466	26	2.0	26	88	0	75	62	9	0	27	1.26
230239--230265	3	9.0	3	100	0	54	33	0	0	66	0.92
239267--239417	82	1.8	82	84	8	209	33	14	13	38	1.85
244445--244586	42	3.4	42	82	3	144	38	35	13	11	1.82
247645--247675	2	15.5	2	93	0	53	0	45	0	54	0.99
260993--261058	34	1.9	34	90	0	105	39	27	9	24	1.85
269974--270143	61	2.8	62	89	3	274	30	13	18	37	1.90
278043--278076	17	2.0	17	94	0	59	61	0	0	38	0.96
278013--278070	5	11.6	5	74	20	50	58	1	0	39	1.08
278020--278075	8	7.0	8	80	13	62	60	1	0	37	1.07
286318--286367	25	2.0	25	100	0	100	40	24	20	16	1.91
294173--294212	2	20.0	2	94	0	71	0	52	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299221--299271	26	2.0	24	85	7	66	31	11	13	43	1.80
300940--301157	113	1.9	116	83	2	289	36	7	10	45	1.67
301194--301225	16	2.0	16	93	0	55	25	6	28	40	1.79
305649--305697	25	2.0	25	84	8	64	46	2	2	48	1.25
305981--306020	3	13.3	3	94	0	71	32	2	0	65	1.06
306835--306868	15	2.2	16	89	5	52	47	0	0	52	1.00
312065--312113	23	2.2	23	85	10	66	53	2	0	44	1.12
315355--315405	26	2.0	26	100	0	102	31	7	17	43	1.78
315658--316208	157	3.5	153	77	6	527	37	11	6	44	1.67
315658--316208	158	3.5	155	76	6	497	37	11	6	44	1.67
316513--316678	63	2.6	64	81	3	192	33	14	15	36	1.88
318998--319319	151	2.1	152	81	4	373	34	15	14	35	1.88
319771--319826	21	2.8	20	79	20	71	41	0	14	44	1.45
319763--320094	90	3.7	90	78	3	326	36	6	11	45	1.67
321630--321659	5	6.0	5	100	0	60	0	40	0	60	0.97
329716--329883	80	2.1	80	88	4	250	43	22	8	25	1.82
331204--331282	28	2.8	29	75	9	74	43	7	2	46	1.45
333673--333747	34	2.2	34	92	0	123	12	41	9	37	1.74
334798--334839	20	2.0	21	86	4	59	52	0	7	40	1.29
334943--334989	23	2.0	24	88	12	71	48	2	2	46	1.25
338741--338794	18	3.1	18	81	7	58	50	0	0	50	1.00
338907--338994	44	2.0	43	80	10	99	52	1	1	45	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341166--341211	23	1.9	25	86	8	69	50	6	0	43	1.28
341553--341721	40	4.2	40	87	6	234	10	29	13	46	1.77
341553--341721	81	2.1	80	85	5	234	10	29	13	46	1.77
346272--346362	29	3.1	29	80	10	98	42	1	0	56	1.06
362296--362338	7	6.0	7	86	5	50	74	0	20	4	1.00
362291--362334	14	3.0	14	83	6	52	75	0	20	4	0.98
362296--362344	21	2.3	21	82	0	62	71	0	24	4	1.03
369250--369297	2	24.0	2	100	0	96	50	0	50	0	1.00
372723--372947	119	1.9	119	88	3	346	50	9	8	31	1.65
374943--374999	29	2.0	28	86	3	78	42	1	0	56	1.10
376565--377167	300	2.0	301	96	0	1100	31	20	19	29	1.97
377735--377879	76	1.9	76	88	0	218	40	17	11	31	1.85
382551--382575	12	2.1	12	100	0	50	16	0	0	84	0.63
383086--383123	13	2.9	13	84	7	51	57	0	0	42	0.98
383117--383149	17	1.9	17	93	0	57	42	6	3	48	1.43
383769--383805	16	2.4	16	82	17	51	54	0	0	45	1.00
402075--402102	2	14.0	2	100	0	56	50	0	0	50	1.00
414893--414931	2	19.5	2	100	0	78	0	48	0	51	1.00
424515--424579	29	2.2	30	83	2	78	26	6	3	64	1.32
429579--429661	29	3.0	26	79	19	89	38	1	0	60	1.05
429606--429654	19	2.5	20	87	6	66	38	0	0	61	0.96
429728--429771	18	2.4	19	77	11	56	52	0	6	40	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429761--429822	30	2.1	29	82	8	72	56	0	0	43	0.99
429791--429831	18	2.2	18	86	8	55	63	0	0	36	0.95
429788--429837	25	2.0	25	84	7	66	64	0	0	36	0.94
443746--443781	2	18.5	2	94	5	65	50	0	0	50	1.00
446789--446823	16	2.2	16	94	0	61	60	8	0	31	1.27
455247--455279	9	3.9	9	88	11	52	27	0	0	72	0.85
455247--455279	16	2.1	16	94	0	57	27	0	0	72	0.85
456627--456656	3	10.0	3	92	0	51	33	3	33	30	1.74
459505--459543	20	1.9	21	85	15	55	2	7	5	84	0.84
463074--463116	19	2.3	18	84	11	52	27	6	0	65	1.18
473792--473820	12	2.4	12	100	0	58	0	37	17	44	1.49
489046--489080	9	4.0	9	88	7	54	14	0	0	85	0.59
489046--489080	17	2.1	17	94	0	61	14	0	0	85	0.59
490525--490560	17	2.1	18	90	10	58	61	0	0	38	0.96
493371--493421	2	26.0	2	80	4	59	43	3	3	49	1.39
495637--495677	22	1.9	22	95	5	75	39	0	2	58	1.11
510672--510704	10	3.0	11	87	12	50	45	0	0	54	0.99
510950--510997	2	24.0	2	86	0	69	47	4	2	45	1.33
513328--513361	1	34.0	1	100	0	68	0	100	0	0	0.00
517567--517693	63	2.0	63	100	0	254	35	18	12	33	1.89
518371--518415	20	2.2	21	84	4	56	22	6	4	66	1.33
531313--531350	6	6.3	6	96	0	67	0	15	55	28	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532400--532433	2	17.0	2	100	0	68	50	0	0	50	1.00
538433--538458	2	13.0	2	100	0	52	50	0	0	50	1.00
548608--548642	18	1.9	18	100	0	70	0	54	5	40	1.24
548662--548708	6	7.8	6	82	0	58	2	31	19	46	1.61
549940--550031	38	2.4	39	85	5	123	47	17	4	30	1.67
552767--552804	18	2.2	18	90	4	60	34	15	13	36	1.87
554535--554590	20	2.8	19	81	10	58	42	8	1	46	1.45
554545--554589	20	2.3	20	88	3	65	42	8	2	46	1.47
577820--577851	15	2.2	14	94	5	55	43	0	0	56	0.99
598146--598457	167	1.9	168	85	5	434	33	22	16	26	1.96

Tables:   1   2   3