genome.fa.s5.2.7.7.80.10.50.1000.11.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

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  11  of  22  ( 2636 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)
5623074--5623165	46	2.0	46	91	4	150	28	39	7	25	1.83
5631866--5632238	169	2.2	167	88	4	538	31	16	13	38	1.87
5637764--5637847	18	5.0	17	77	21	72	28	4	2	64	1.26
5639179--5639225	18	2.9	16	87	9	60	36	2	2	59	1.21
5648317--5648359	22	2.0	22	81	9	52	41	13	4	39	1.66
5656836--5656870	2	18.5	2	88	11	56	0	51	0	48	1.00
5657955--5658024	2	35.0	2	79	0	59	37	0	8	54	1.31
5657947--5658054	10	11.4	10	76	9	84	34	0	12	51	1.47
5657978--5658052	6	12.8	6	73	5	55	30	0	17	52	1.45
5657968--5658048	22	3.8	22	80	6	94	30	0	16	53	1.43
5657947--5658054	18	5.8	18	72	6	81	34	0	12	51	1.47
5658854--5658879	2	13.0	2	100	0	52	50	0	0	50	1.00
5671162--5671203	2	21.0	2	100	0	84	50	0	0	50	1.00
5672759--5672783	11	2.3	11	100	0	50	48	8	20	24	1.76
5674475--5674499	7	3.6	7	100	0	50	88	0	0	12	0.53
5690953--5691011	28	2.1	28	93	0	100	22	0	11	66	1.24
5691402--5691452	14	3.7	14	72	12	52	3	31	0	64	1.11
5698047--5698607	284	2.0	277	85	5	752	24	17	18	40	1.91
5710357--5710433	28	2.7	29	85	4	102	59	0	1	38	1.06
5728395--5728440	3	15.3	3	100	0	92	32	0	0	67	0.91
5741122--5741184	21	3.0	21	86	9	76	25	12	20	41	1.88
5745255--5745317	30	2.1	30	93	0	108	44	22	14	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5746459--5746489	16	1.9	16	93	0	53	54	0	45	0	0.99
5747518--5747573	23	2.4	23	84	0	67	33	0	1	64	1.04
5750034--5750094	25	2.6	25	82	12	67	52	1	0	45	1.10
5756043--5756529	247	2.0	245	89	3	746	37	19	16	27	1.93
5760504--5760555	19	2.7	19	75	13	52	50	0	0	50	1.00
5774128--5774184	27	2.1	28	83	3	71	40	7	1	50	1.40
5778153--5778198	23	2.0	23	86	4	65	80	4	13	2	0.95
5785681--5785755	28	2.8	26	76	9	78	30	1	0	68	0.98
5786842--5786867	2	13.0	2	100	0	52	50	0	0	50	1.00
5794990--5795053	26	2.5	26	92	0	101	53	7	7	31	1.58
5803590--5803618	5	5.8	5	100	0	58	0	20	37	41	1.53
5813084--5813111	2	14.0	2	100	0	56	50	0	0	50	1.00
5815692--5815729	14	2.5	15	83	8	51	76	0	23	0	0.79
5820284--5820318	17	2.1	17	89	10	54	40	0	0	60	0.97
5829420--5829455	17	2.0	19	89	10	58	19	11	13	55	1.68
5834497--5834535	21	2.0	18	85	14	51	43	10	35	10	1.73
5835937--5835982	22	2.1	22	91	0	74	47	32	4	15	1.65
5835990--5836032	22	2.0	22	95	0	77	44	32	16	6	1.74
5835997--5836180	45	4.3	44	78	14	215	42	28	19	9	1.82
5836024--5836140	35	3.1	35	75	21	126	46	27	16	10	1.79
5836059--5836183	23	5.5	23	69	11	105	44	27	18	9	1.80
5859690--5859735	20	2.3	20	82	10	60	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5873334--5873378	15	2.9	16	81	15	58	26	0	0	73	0.84
5873329--5873376	21	2.3	21	80	13	55	22	0	2	75	0.91
5882349--5882426	30	2.6	30	93	0	129	15	15	55	14	1.70
5882364--5882449	30	3.1	27	82	9	100	12	15	58	13	1.64
5882430--5882491	30	2.1	29	82	8	72	4	22	54	17	1.61
5886286--5886310	2	12.5	2	100	0	50	48	0	0	52	1.00
5886414--5886442	2	14.5	2	100	0	58	51	0	0	48	1.00
5891898--5891952	29	2.0	29	85	7	78	41	7	7	43	1.60
5891990--5892086	21	4.5	21	82	12	106	36	17	14	31	1.90
5891977--5892069	45	2.1	45	89	0	141	37	16	11	34	1.85
5892077--5892138	24	2.6	24	75	10	72	30	14	14	40	1.86
5897468--5897512	2	22.0	2	86	8	56	46	0	4	48	1.22
5897926--5897987	30	2.1	30	84	6	81	48	4	11	35	1.60
5898812--5898839	2	14.0	2	100	0	56	50	0	0	50	1.00
5905727--5905801	33	2.4	33	82	12	95	72	2	1	24	1.06
5905753--5905852	24	4.1	24	71	8	69	67	1	3	29	1.12
5906133--5906187	15	3.7	15	87	0	56	38	25	3	32	1.73
5907056--5907173	45	2.6	47	80	8	127	38	16	11	33	1.84
5907148--5907194	21	2.2	21	84	0	58	44	21	10	23	1.83
5907094--5907230	66	2.1	66	83	0	166	39	17	11	31	1.86
5907169--5907408	45	5.3	45	78	1	203	33	17	15	33	1.91
5907167--5907408	90	2.7	90	79	3	263	33	17	15	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5907559--5907604	23	2.0	23	82	0	56	10	28	8	52	1.66
5908016--5908101	45	1.9	45	87	0	127	37	16	10	36	1.83
5908024--5908139	45	2.6	45	83	2	126	40	18	9	31	1.82
5908061--5908196	66	2.1	66	84	0	173	39	17	11	30	1.86
5908114--5908160	21	2.2	21	84	0	58	46	19	10	23	1.80
5908250--5908299	24	2.1	24	84	0	64	28	6	22	44	1.76
5909072--5909146	30	2.5	30	80	8	89	56	0	0	44	0.99
5909072--5909136	32	2.1	31	85	8	87	53	0	0	46	1.00
5909072--5909146	29	2.4	30	79	16	82	56	0	0	44	0.99
5908724--5909189	189	2.5	191	84	6	644	46	5	5	41	1.52
5913553--5913619	35	1.9	35	93	0	116	49	16	16	17	1.80
5916612--5916659	25	1.9	25	82	0	60	45	4	10	39	1.58
5916625--5916713	25	3.6	25	76	0	79	40	6	17	34	1.77
5916678--5917073	198	2.0	199	92	2	654	28	9	17	45	1.79
5920488--5920576	25	3.6	24	77	6	70	43	11	15	29	1.81
5921763--5921806	10	4.4	10	85	0	52	47	11	0	40	1.39
5926363--5926393	14	2.2	14	94	0	53	16	6	12	64	1.47
5933801--5933848	18	2.5	18	83	12	60	52	0	0	47	1.00
5933801--5933847	19	2.6	18	80	12	51	53	0	0	46	1.00
5933814--5933849	18	1.9	19	94	5	65	47	0	0	52	1.00
5936230--5936271	12	3.5	12	93	0	66	38	2	11	47	1.53
5946856--5946894	20	1.9	21	94	5	71	10	10	30	48	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5956119--5956194	38	2.0	38	86	0	107	34	2	22	40	1.68
5956942--5957013	28	2.6	28	76	8	83	58	2	18	20	1.51
5962960--5963003	10	4.4	10	82	5	54	45	9	4	40	1.56
5963448--5963499	23	2.3	23	80	12	63	42	0	0	57	0.98
5964259--5964291	14	2.4	14	94	0	57	18	0	3	78	0.87
5965202--5965253	26	2.1	24	85	7	68	71	7	0	21	1.11
5979105--5979129	6	4.2	6	100	0	50	48	0	36	16	1.46
5979241--5979321	41	2.0	41	100	0	162	28	22	24	24	1.99
5987229--5987263	17	1.9	18	88	11	54	48	2	0	48	1.16
5988396--5988437	20	2.2	20	83	8	52	38	7	0	54	1.28
5989000--5989038	21	1.9	21	89	5	62	46	0	2	51	1.14
5990281--5990440	79	2.0	79	93	0	275	36	15	16	31	1.90
5993971--5994019	22	2.2	21	80	16	55	69	2	2	26	1.10
5994201--5994253	27	2.0	27	88	7	81	73	1	20	3	1.08
5994468--5994493	12	2.2	12	100	0	52	15	30	7	46	1.74
6007094--6007136	21	2.0	21	100	0	86	32	9	37	20	1.85
6014042--6014356	154	2.0	155	89	2	481	28	19	16	36	1.93
6039884--6039908	2	12.5	2	100	0	50	0	52	0	48	1.00
6039908--6039936	2	14.5	2	100	0	58	48	51	0	0	1.00
6053477--6053509	17	2.0	17	94	5	59	6	12	0	81	0.85
6054130--6054212	39	2.1	40	86	6	116	39	10	15	33	1.82
6062662--6062759	37	2.7	37	80	4	110	17	14	56	12	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6076667--6076723	20	2.6	22	75	13	64	49	0	3	47	1.18
6080839--6080870	2	16.0	2	100	0	64	50	0	0	50	1.00
6088561--6088591	2	15.5	2	93	0	53	54	0	45	0	0.99
6097245--6097274	16	1.9	15	93	6	51	60	0	0	40	0.97
6104826--6104853	3	9.3	3	100	0	56	0	67	0	32	0.91
6110090--6110114	10	2.5	10	100	0	50	0	12	0	88	0.53
6110924--6110954	5	6.2	5	100	0	62	19	0	0	80	0.71
6113745--6113784	20	2.0	20	85	5	53	47	2	5	45	1.38
6113757--6113792	18	1.9	19	88	5	56	44	2	2	50	1.31
6123795--6123826	2	16.0	2	93	0	55	50	3	0	46	1.17

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