genome.fa.s13.2.7.7.80.10.50.1000.12.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  12  of  18  ( 2072 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)
4919319--4919380	26	2.4	25	78	8	61	30	1	3	64	1.19
4925089--4925141	26	2.0	26	88	0	79	47	22	9	20	1.79
4931034--4931132	37	2.8	33	78	15	110	44	11	7	37	1.67
4931831--4931933	51	2.0	51	94	0	179	31	13	14	40	1.85
4932622--4932688	25	2.6	26	81	6	75	25	2	19	52	1.60
4933009--4933107	37	2.7	37	85	6	130	20	13	24	42	1.87
4936134--4936179	23	2.1	22	88	11	69	43	8	17	30	1.79
4936217--4936270	18	3.1	18	79	10	67	46	5	0	48	1.25
4946091--4946133	21	2.1	20	82	4	50	51	2	0	46	1.13
4948147--4948182	19	1.9	18	88	5	54	13	5	5	75	1.17
4959636--4959661	8	3.2	8	100	0	52	38	38	11	11	1.78
4969954--4969980	6	4.5	6	100	0	54	85	0	0	14	0.61
4972134--4972185	26	1.9	28	81	14	65	40	0	3	55	1.18
4976555--4976594	2	20.0	2	94	0	71	52	0	0	47	1.00
4977378--4977402	2	12.5	2	100	0	50	52	48	0	0	1.00
4980046--4980072	2	13.5	2	100	0	54	51	0	0	48	1.00
4981763--4981792	2	15.0	2	92	0	51	50	3	0	46	1.18
4982991--4983020	2	15.0	2	100	0	60	50	0	50	0	1.00
4987835--4987867	17	2.0	17	88	5	50	45	0	0	54	0.99
4996566--4996658	12	7.3	12	68	14	53	25	2	1	70	1.04
4996563--4996652	33	2.8	32	80	6	101	27	2	1	68	1.08
4996535--4996661	39	3.3	39	77	8	118	29	2	0	66	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997877--4997928	23	2.3	23	86	3	70	42	30	5	21	1.76
5003233--5003303	16	4.8	16	75	15	71	42	0	2	54	1.14
5003229--5003314	8	9.9	8	71	20	57	41	0	2	55	1.12
5003229--5003299	28	2.5	28	97	0	133	42	0	2	54	1.14
5004999--5005110	60	1.9	59	85	5	154	31	7	7	54	1.55
5006721--5006758	19	2.0	20	89	5	60	60	0	2	36	1.11
5006771--5006825	14	3.9	15	79	11	62	63	0	0	36	0.95
5007477--5007507	6	5.2	6	100	0	62	0	16	32	51	1.44
5018287--5018316	3	10.0	3	92	0	51	63	3	33	0	1.11
5023200--5023245	24	1.9	24	81	0	56	21	47	13	17	1.81
5035239--5035326	34	2.6	34	87	0	113	40	6	11	40	1.68
5037263--5038782	251	6.2	249	77	8	1303	50	5	9	34	1.59
5038865--5038927	17	3.5	17	72	16	54	65	0	3	31	1.09
5039372--5039472	45	2.2	45	83	0	121	31	15	16	35	1.91
5039436--5039491	24	2.3	24	81	0	67	44	16	7	32	1.74
5039529--5039683	29	5.6	29	78	7	144	41	10	10	37	1.75
5039460--5039616	81	1.9	85	80	7	189	42	11	12	33	1.79
5043365--5043410	24	1.9	24	90	0	74	30	10	17	41	1.84
5043517--5043613	45	2.2	45	84	3	124	31	17	16	34	1.92
5059644--5059724	41	2.0	41	80	4	92	46	13	0	39	1.43
5062873--5062949	35	2.2	35	78	0	82	24	14	14	46	1.81
5062893--5062961	35	2.0	35	85	0	93	24	10	17	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5063551--5063575	2	12.5	2	100	0	50	48	0	0	52	1.00
5069213--5069248	2	18.0	2	100	0	72	50	0	0	50	1.00
5076483--5076532	26	1.9	26	100	0	100	40	32	20	8	1.81
5076558--5076619	20	2.9	21	88	11	90	58	4	17	19	1.57
5076779--5076816	19	2.0	19	94	0	67	31	13	10	44	1.77
5076876--5076910	2	17.5	2	100	0	70	48	0	0	51	1.00
5084555--5084593	2	19.5	2	100	0	78	51	0	0	48	1.00
5085084--5085229	64	2.3	64	86	2	195	28	18	12	41	1.86
5110373--5110412	21	2.0	20	90	5	62	70	0	0	30	0.88
5115660--5115702	14	3.1	13	81	15	50	76	0	23	0	0.78
5116230--5116263	17	2.0	17	94	0	59	41	8	11	38	1.73
5120907--5120958	24	2.1	25	86	10	72	76	3	17	1	1.02
5121106--5121171	34	1.9	34	82	11	82	18	9	43	28	1.80
5130073--5130144	38	1.9	36	83	5	90	33	16	12	37	1.86
5130349--5130397	24	2.0	24	88	0	71	55	8	26	10	1.61
5140732--5140778	18	2.6	18	100	0	94	4	17	46	31	1.67
5152834--5152903	27	2.5	28	81	2	88	35	4	18	41	1.70
5152834--5152916	28	3.0	28	82	1	96	33	6	19	40	1.76
5152999--5153066	27	2.5	27	80	0	82	35	7	16	41	1.76
5163149--5163181	17	1.9	17	88	11	50	42	9	3	45	1.51
5163333--5163487	29	5.4	28	80	9	170	43	9	7	40	1.64
5170177--5170207	15	2.1	15	93	0	53	41	41	9	6	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5170496--5170645	33	4.5	33	75	3	122	28	20	33	18	1.95
5179356--5179449	30	3.1	30	98	0	179	15	9	45	28	1.78
5182008--5182324	158	2.0	158	86	2	440	37	8	10	43	1.70
5184312--5184368	26	2.2	25	78	9	62	43	7	0	49	1.29
5184622--5184670	15	3.1	15	80	11	53	53	2	2	42	1.24
5184619--5184668	17	2.9	17	77	11	57	54	2	2	42	1.23
5202409--5202437	14	2.0	15	93	6	51	31	0	0	68	0.89
5203772--5203828	27	2.1	27	100	0	114	21	26	17	35	1.95
5203780--5203834	27	2.0	27	85	0	74	27	25	12	34	1.92
5211774--5211814	15	2.4	18	80	11	52	43	0	4	51	1.23
5217438--5217475	18	2.2	18	85	4	51	34	21	26	18	1.96
5218386--5218417	12	2.7	12	100	0	64	34	6	53	6	1.51
5230364--5230405	21	2.1	20	86	8	59	57	11	0	30	1.35
5232110--5232150	21	2.0	21	85	0	55	46	0	7	46	1.30
5231716--5232834	343	3.3	340	82	7	1245	45	7	6	41	1.58
5232742--5232777	15	2.4	16	86	13	51	41	0	0	58	0.98
5231716--5232829	342	3.3	335	81	8	1271	45	7	6	40	1.58
5232796--5232851	21	2.6	21	78	13	60	50	0	5	44	1.25
5241329--5241371	21	2.0	21	90	0	68	34	0	16	48	1.46
5244669--5244748	39	2.0	40	85	2	108	36	20	22	21	1.95
5245642--5245678	12	2.9	14	88	11	53	16	16	16	51	1.77
5247744--5247886	43	3.3	43	81	5	171	40	14	16	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5247689--5247886	88	2.3	86	80	6	218	39	15	16	28	1.88
5247683--5247886	43	4.7	43	78	6	167	40	14	16	28	1.88
5253829--5253901	31	2.4	31	85	0	101	6	42	6	43	1.58
5253800--5253949	77	1.9	78	87	4	223	8	42	7	42	1.62
5254846--5254903	27	2.2	26	87	3	80	44	0	3	51	1.18
5254708--5254925	114	1.9	116	88	3	334	38	1	4	55	1.28
5254724--5254962	114	2.1	115	80	9	265	39	1	5	53	1.33
5255017--5255130	42	2.7	41	81	8	115	43	1	3	50	1.29
5255176--5255247	22	3.7	20	74	18	62	43	2	4	50	1.36
5254832--5255441	316	1.9	313	84	6	804	38	2	4	53	1.36
5255156--5255504	150	2.3	146	80	7	371	39	3	5	51	1.43
5257570--5257612	22	2.0	22	82	13	54	53	6	25	13	1.65
5272925--5272962	2	19.5	2	89	5	60	47	0	52	0	1.00
5273398--5273506	57	1.9	57	86	0	155	42	1	10	45	1.48
5280160--5280190	16	1.9	16	93	0	53	16	6	12	64	1.47
5282348--5282378	16	1.9	16	93	0	53	58	0	0	41	0.98
5283652--5283688	3	12.3	3	100	0	74	32	0	0	67	0.91
5284396--5284481	40	2.2	40	83	8	104	59	2	5	32	1.34
5286114--5286141	3	9.3	3	100	0	56	32	0	0	67	0.91
5286398--5286440	18	2.4	18	88	11	70	18	6	4	69	1.29
5295641--5295670	9	3.2	9	90	9	51	40	23	3	33	1.71
5295639--5295668	10	3.1	10	90	9	53	40	20	6	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5305578--5305682	27	3.9	27	80	5	106	46	1	10	40	1.49
5308817--5308936	62	1.9	62	86	0	168	39	15	9	36	1.79
5315329--5315358	15	2.0	15	93	0	51	10	20	20	50	1.76
5324180--5324261	40	2.0	40	97	0	155	40	15	19	24	1.91
5324376--5324407	15	2.1	15	94	0	55	68	0	0	31	0.90
5324394--5324567	26	6.6	25	72	19	90	66	1	2	29	1.13
5324375--5324468	25	3.9	25	78	11	90	65	1	1	31	1.06
5324483--5324567	33	2.5	33	84	5	100	69	0	2	28	1.01
5324503--5324682	57	3.2	57	70	11	179	64	1	3	31	1.17
5324599--5324666	24	2.9	24	68	18	61	66	0	1	32	1.01

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