genome.fa.s3.2.7.7.80.10.50.1000.14.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  14  of  29  ( 3437 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)
5071118--5071156	12	3.5	12	80	20	57	33	15	15	35	1.89
5071120--5071163	21	2.1	21	100	0	88	34	13	13	38	1.84
5071276--5071364	23	3.9	22	79	4	79	32	17	15	33	1.92
5071224--5071349	46	2.7	45	80	2	117	29	21	15	33	1.95
5071346--5071403	23	2.5	23	77	0	62	39	25	3	31	1.73
5071914--5072036	53	2.3	53	78	1	140	45	10	8	35	1.68
5071915--5072025	26	4.2	26	67	2	69	45	9	8	36	1.67
5071967--5072049	26	3.1	27	72	5	71	48	10	6	34	1.63
5072050--5072331	115	2.4	116	78	9	258	42	9	15	32	1.80
5072635--5072664	14	2.1	15	93	6	53	33	16	16	33	1.92
5074763--5074832	15	4.8	15	67	13	56	38	4	2	54	1.35
5082521--5082558	19	1.9	20	89	10	60	65	10	0	23	1.23
5085964--5086093	65	2.0	65	98	0	251	24	20	23	31	1.98
5096058--5096158	47	2.1	48	85	3	132	24	8	23	42	1.83
5097692--5097734	21	2.0	21	95	0	77	23	18	6	51	1.70
5101159--5101248	39	2.3	39	83	11	105	64	13	17	4	1.44
5101196--5101261	6	10.3	6	76	11	51	72	6	18	3	1.18
5101991--5102021	2	15.5	2	100	0	62	51	0	0	48	1.00
5107101--5107132	17	1.9	16	93	6	55	59	0	3	37	1.13
5107455--5107505	26	2.0	26	96	0	93	58	0	0	41	0.98
5115637--5115684	17	2.8	17	87	0	69	43	10	8	37	1.69
5122296--5122325	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5127570--5127596	3	9.0	3	100	0	54	33	0	0	66	0.92
5128585--5128639	10	5.7	10	77	16	62	30	0	0	69	0.89
5128602--5128643	19	2.3	19	91	4	68	30	0	0	69	0.89
5128726--5128769	15	2.9	16	83	10	56	25	0	2	72	0.96
5128899--5128932	16	2.2	16	89	5	52	38	0	0	61	0.96
5129145--5129192	14	3.4	13	78	16	51	37	2	2	58	1.22
5137651--5137691	15	2.7	15	96	0	73	31	7	26	34	1.84
5137848--5138237	28	14.3	25	68	22	139	34	2	0	63	1.11
5137909--5138086	21	8.5	21	68	23	83	33	1	0	64	1.04
5138009--5138196	21	8.5	22	69	21	94	32	1	0	65	1.04
5138040--5138220	15	11.5	15	66	22	79	34	1	0	63	1.08
5137837--5138301	108	4.2	110	89	9	684	33	2	0	63	1.12
5138166--5138217	19	2.7	20	80	14	56	40	1	0	57	1.10
5138277--5138394	29	4.2	27	69	21	82	31	1	0	66	1.08
5138181--5138331	47	3.2	46	76	13	112	30	3	1	64	1.21
5138337--5138381	23	2.0	23	86	8	65	26	2	0	71	0.98
5138326--5138406	24	3.4	24	77	13	71	35	1	0	62	1.03
5138291--5138405	53	2.1	55	81	10	139	33	1	0	64	1.10
5138344--5138406	29	2.2	29	82	5	74	33	1	0	65	1.03
5139393--5139510	40	2.9	39	78	13	121	34	24	9	31	1.87
5139407--5139510	42	2.5	41	82	3	120	34	25	8	31	1.86
5144319--5144344	10	2.6	10	100	0	52	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5156460--5156565	28	3.8	28	79	2	115	33	20	12	33	1.90
5156460--5156565	56	1.9	56	86	0	149	33	20	12	33	1.90
5156532--5156604	36	2.0	37	91	2	121	30	20	15	34	1.93
5160835--5160898	33	2.0	33	90	3	103	28	3	3	65	1.23
5162084--5162169	33	2.6	33	79	5	93	29	5	0	65	1.16
5164601--5164634	9	3.7	9	88	7	50	38	0	2	58	1.13
5166021--5166105	17	4.8	17	77	17	66	62	0	1	36	1.03
5166038--5166093	10	5.8	10	75	14	55	60	0	0	39	0.97
5166070--5166116	24	1.9	24	87	12	69	55	0	2	42	1.12
5166087--5166144	31	1.9	30	83	16	75	55	1	5	37	1.33
5172769--5172837	27	2.6	25	82	8	84	49	4	1	44	1.31
5172888--5172921	18	1.9	18	88	5	52	44	0	0	55	0.99
5174231--5174302	36	2.0	36	88	0	108	38	13	5	41	1.68
5178234--5178512	115	2.4	115	84	3	355	45	3	7	44	1.48
5178581--5178613	17	2.1	17	88	11	52	54	0	3	42	1.15
5182003--5182058	20	2.8	20	83	0	76	42	17	7	32	1.77
5199317--5199423	31	3.5	31	83	2	135	31	12	21	34	1.90
5202892--5202938	22	2.1	23	84	4	60	51	14	6	27	1.67
5214229--5214331	51	2.0	51	100	0	206	21	21	9	47	1.79
5214982--5215033	24	2.1	25	96	3	97	50	7	0	42	1.31
5215722--5215755	2	17.0	2	100	0	68	50	0	0	50	1.00
5215755--5215790	2	18.0	2	100	0	72	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5216566--5216721	5	30.4	5	66	16	52	69	1	2	26	1.09
5216614--5216697	30	3.1	28	76	15	79	66	0	3	29	1.08
5216610--5216713	50	2.1	50	80	7	113	69	0	2	27	1.03
5216670--5216757	33	2.6	33	85	3	104	67	0	4	28	1.11
5218813--5218847	16	2.2	16	100	0	70	25	5	40	28	1.78
5220791--5220823	15	2.1	16	88	5	50	69	0	6	24	1.10
5224894--5224924	16	2.0	16	93	6	55	16	25	0	58	1.38
5225636--5225682	20	2.4	20	85	3	60	12	10	10	65	1.46
5227101--5227185	20	4.4	19	78	14	61	69	0	1	29	0.96
5227110--5227404	15	19.1	15	67	19	76	63	1	2	32	1.14
5227109--5227231	26	5.0	23	68	25	65	67	1	2	28	1.13
5227217--5227438	9	26.2	9	63	26	53	63	0	1	34	1.09
5227245--5227338	20	4.4	21	69	19	77	61	1	3	34	1.19
5227214--5227575	33	11.2	33	69	19	135	62	0	2	33	1.14
5227264--5227376	36	3.3	36	72	16	132	59	0	2	38	1.12
5227223--5227389	65	2.5	65	93	3	273	60	0	2	36	1.14
5227307--5227375	25	2.8	24	74	24	70	59	0	2	37	1.12
5227371--5227437	6	11.0	6	73	20	50	68	0	0	31	0.90
5227367--5227438	22	2.9	26	74	23	66	66	0	0	33	0.92
5227106--5227549	17	27.2	16	65	21	97	63	1	2	32	1.14
5227397--5227565	49	3.2	48	69	22	140	63	1	2	32	1.14
5227416--5227615	58	3.4	60	74	18	204	62	1	3	33	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5227302--5227619	112	2.8	113	93	4	552	62	0	2	34	1.15
5227479--5227549	23	3.0	23	75	22	74	69	0	0	30	0.89
5227769--5227822	15	3.6	15	92	0	81	33	25	7	33	1.84
5236076--5236100	2	12.5	2	100	0	50	48	0	0	52	1.00
5248943--5248984	16	2.6	16	84	0	57	28	7	11	52	1.64
5258609--5258726	45	2.7	43	72	15	96	36	10	17	35	1.84
5258707--5258812	53	2.0	54	81	9	128	42	10	9	37	1.72
5258761--5258822	29	2.2	29	85	5	83	41	12	4	40	1.65
5271154--5271183	12	2.5	12	94	0	51	53	0	3	43	1.17
5274772--5274862	39	2.4	39	92	1	148	15	15	12	57	1.66
5278422--5278644	112	2.0	112	99	0	437	39	16	20	24	1.92
5278948--5279026	35	2.3	35	86	6	108	59	17	0	22	1.37
5279797--5279855	28	2.1	27	81	9	66	59	5	1	33	1.29
5279964--5281292	460	2.9	459	97	2	2526	48	8	9	34	1.65
5283444--5283505	31	2.0	30	93	3	106	45	12	4	37	1.64
5286517--5286548	3	10.7	3	100	0	64	68	0	0	31	0.90
5292110--5292148	20	2.0	20	84	0	51	58	2	0	38	1.12
5294020--5294076	23	2.4	23	85	5	69	52	0	1	45	1.11
5294032--5294072	22	2.0	20	85	9	55	58	0	0	41	0.98
5294062--5294103	20	2.2	20	87	8	61	45	0	2	52	1.13
5294171--5294217	15	3.1	15	90	0	58	36	4	25	34	1.76
5294354--5294576	112	2.0	110	96	1	410	32	4	1	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5294540--5294625	6	13.7	6	72	9	57	27	1	0	70	0.94
5294423--5294618	30	6.7	30	69	15	108	31	2	1	65	1.13
5294354--5294615	112	2.3	112	90	5	406	32	3	1	63	1.18
5294518--5294625	37	3.0	37	78	11	127	30	1	0	66	1.08
5294569--5294715	30	5.1	28	72	23	85	27	2	1	69	1.08
5294606--5294678	28	2.9	24	77	20	85	27	2	0	69	1.02
5294518--5294653	71	1.9	71	82	14	174	30	2	0	65	1.13
5294686--5294730	20	2.2	21	84	4	56	31	0	2	66	1.04
5297268--5297304	15	2.6	15	87	8	51	51	0	0	48	1.00
5306073--5306100	2	14.0	2	100	0	56	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29