genome.fa.s2.2.7.7.80.10.50.1000.9.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   30   31   

This is table  9  of  31  ( 3649 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)
4684364--4684618	21	11.4	21	67	22	67	34	2	0	61	1.15
4684382--4684456	6	12.0	6	75	10	53	29	0	0	70	0.87
4684377--4684450	23	3.1	23	81	18	89	32	0	0	67	0.91
4684308--4684648	113	3.0	113	93	1	587	34	2	0	62	1.14
4684504--4684576	15	5.2	15	74	23	54	38	0	0	61	0.96
4684491--4684557	6	11.0	6	72	25	52	34	0	0	65	0.93
4684385--4684571	70	2.8	64	70	23	154	34	2	0	63	1.11
4684606--4684689	18	4.4	19	71	20	59	28	2	0	69	1.01
4684603--4684687	32	2.6	33	79	9	93	29	2	0	68	1.02
4684738--4684790	26	2.0	27	85	3	72	33	1	0	64	1.05
4686847--4686883	2	18.5	2	94	0	65	45	2	0	51	1.15
4687523--4687548	7	3.7	7	100	0	52	15	0	0	84	0.62
4698803--4698840	3	12.7	3	100	0	76	68	0	31	0	0.90
4715803--4715834	2	16.0	2	93	0	55	0	46	0	53	1.00
4722096--4722131	18	2.1	17	89	5	54	44	0	55	0	0.99
4725233--4725259	2	13.5	2	100	0	54	0	0	48	51	1.00
4733480--4733508	2	14.5	2	100	0	58	51	0	0	48	1.00
4743611--4743659	16	2.9	17	78	6	64	61	2	4	32	1.26
4743820--4743854	15	2.5	14	86	13	54	65	5	0	28	1.15
4743820--4743858	14	2.7	15	92	7	64	66	5	0	28	1.12
4748013--4748061	18	2.6	19	81	12	57	59	0	0	40	0.98
4749023--4749058	3	11.7	3	88	5	54	27	0	2	69	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4749023--4749065	19	2.3	19	84	8	52	27	0	4	67	1.10
4751079--4751114	18	2.0	18	100	0	72	22	5	22	50	1.70
4763292--4763343	26	2.1	25	86	10	72	46	0	0	53	1.00
4763907--4764105	108	1.8	109	89	5	314	42	2	16	39	1.60
4765535--4765568	15	2.2	16	90	10	54	17	5	0	76	0.98
4767917--4767950	16	2.1	16	88	0	50	50	0	0	50	1.00
4772620--4772649	2	15.0	2	100	0	60	50	0	50	0	1.00
4790155--4790216	2	31.0	2	100	0	124	50	0	50	0	1.00
4791644--4791686	22	2.0	22	90	0	68	51	11	6	30	1.65
4792818--4792867	22	2.2	23	82	10	59	60	4	2	34	1.27
4821557--4821861	159	1.9	157	86	1	430	38	20	10	30	1.87
4822250--4822298	24	2.0	24	100	0	98	28	12	8	51	1.68
4822457--4822503	16	2.8	16	78	9	58	46	2	0	51	1.13
4822476--4822530	22	2.4	22	80	14	58	50	1	0	47	1.11
4829931--4829966	16	2.2	16	90	0	54	27	19	16	36	1.93
4851186--4851245	24	2.5	23	84	7	75	30	0	1	68	0.99
4853503--4853527	3	8.3	3	100	0	50	32	0	0	68	0.90
4856338--4856367	15	2.0	15	93	0	51	16	0	0	83	0.65
4871936--4872011	23	3.3	23	98	0	143	30	26	19	23	1.98
4875253--4875282	12	2.5	12	94	0	51	26	3	0	70	1.03
4884764--4884798	18	2.0	17	88	5	52	45	11	5	37	1.64
4889255--4889287	16	2.1	16	100	0	66	30	51	18	0	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889251--4889301	20	2.5	20	87	0	75	33	49	15	1	1.56
4889255--4889312	12	4.8	12	78	0	53	36	48	13	1	1.53
4902045--4902086	15	2.7	15	81	3	57	69	0	7	23	1.13
4912605--4912660	20	2.8	20	97	2	103	50	10	0	39	1.37
4917996--4918027	16	2.0	16	100	0	64	43	12	18	25	1.85
4939078--4939110	12	2.8	12	90	4	50	69	0	0	30	0.88
4949238--4949320	41	2.0	41	92	0	139	39	19	13	27	1.89
4952722--4952761	21	2.0	21	90	5	64	52	5	2	40	1.37
4962610--4962673	32	2.0	32	96	0	119	15	17	21	45	1.85
4963555--4965258	226	7.6	226	82	2	1881	34	12	19	33	1.89
4963190--4965263	450	4.7	447	80	6	2049	34	12	19	33	1.89
4965115--4965438	175	1.9	175	86	0	468	36	12	17	33	1.87
4964891--4965656	401	1.9	400	84	4	1015	35	12	17	34	1.87
4965286--4966062	226	3.4	225	81	4	866	34	11	18	35	1.87
4971940--4972349	215	1.9	215	94	2	725	26	18	13	41	1.87
4981140--4981169	2	15.0	2	100	0	60	50	50	0	0	1.00
4983886--4983935	24	2.1	24	88	0	73	24	12	8	56	1.62
4987791--4987941	76	2.0	76	93	2	259	37	19	17	25	1.93
4989252--4989324	37	2.0	37	100	0	146	24	30	26	19	1.98
5001452--5001523	36	2.0	36	100	0	144	63	2	13	19	1.41
5001555--5001584	12	2.5	12	94	0	51	16	20	0	63	1.31
5002459--5002530	28	2.6	27	82	8	92	55	8	6	29	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5003344--5003377	16	2.1	16	88	0	50	47	5	8	38	1.59
5003545--5003591	24	1.9	25	83	12	62	42	4	4	48	1.42
5004832--5004862	16	2.0	16	93	6	55	74	0	6	19	1.03
5005033--5005066	14	2.5	14	95	4	61	26	0	0	73	0.83
5005335--5005396	20	3.2	20	80	11	58	41	0	3	54	1.16
5005069--5005367	154	1.9	155	83	4	386	42	3	2	52	1.29
5005411--5005469	28	2.1	28	84	6	75	40	1	1	55	1.20
5005373--5005707	185	1.8	185	86	2	458	40	1	3	54	1.27
5005838--5005877	15	2.7	15	88	7	55	50	0	2	47	1.14
5016379--5016445	29	2.3	29	87	7	91	26	16	10	46	1.79
5022956--5023003	25	2.0	25	91	4	80	64	10	6	18	1.45
5023117--5023573	215	2.1	215	84	7	572	44	5	8	40	1.59
5024685--5024726	17	2.5	17	82	14	52	78	2	9	9	1.05
5026329--5026400	28	2.7	27	85	8	94	47	4	6	41	1.50
5026381--5026424	20	2.1	21	84	12	56	52	11	6	29	1.63
5028728--5028760	17	1.9	17	88	11	50	48	0	0	51	1.00
5028888--5028929	17	2.5	17	82	17	52	50	2	0	47	1.14
5035501--5035684	40	4.6	40	78	2	127	33	20	20	25	1.97
5038038--5038081	21	2.2	20	83	4	52	59	15	4	20	1.54
5047738--5047786	24	2.0	24	88	7	73	67	0	4	28	1.09
5049501--5049541	15	2.7	15	92	3	64	29	0	21	48	1.50
5051194--5051470	141	2.0	142	89	2	432	32	13	12	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5052984--5053017	15	2.3	15	94	0	59	11	44	0	44	1.40
5053073--5053122	15	3.3	15	88	0	73	22	40	2	36	1.65
5053070--5053122	3	17.7	3	80	0	61	22	39	1	35	1.65
5053059--5053125	6	11.2	6	85	0	71	19	43	1	35	1.60
5055355--5055414	22	2.7	22	78	2	66	51	3	13	31	1.57
5062333--5062369	2	18.5	2	94	0	65	51	2	0	45	1.15
5076940--5076973	17	2.0	17	88	0	50	32	23	0	44	1.54
5079765--5079805	21	1.9	22	85	5	57	73	0	0	26	0.84
5079207--5080652	249	5.8	246	76	11	1006	52	5	8	34	1.54
5080013--5080042	15	1.9	16	93	6	53	80	0	0	20	0.72
5080071--5080114	20	2.2	20	87	0	61	54	6	11	27	1.61
5080086--5080124	20	1.9	20	84	5	51	58	7	7	25	1.52
5079850--5080332	265	1.8	269	85	5	685	52	4	8	34	1.53
5079684--5080615	515	1.8	511	82	5	1218	52	5	8	33	1.55
5080749--5081723	248	3.9	249	81	8	1056	53	4	8	33	1.52
5080753--5081671	495	1.8	501	83	6	1233	52	4	8	33	1.53
5081674--5081723	20	2.5	20	78	15	57	60	2	6	32	1.32
5082234--5082286	24	2.3	23	78	15	56	43	3	0	52	1.19
5082242--5082289	24	2.0	24	87	0	69	47	2	0	50	1.12
5093497--5093539	2	21.5	2	100	0	86	48	0	0	51	1.00
5096433--5096476	15	2.9	15	86	0	61	31	25	6	36	1.82
5110826--5110875	16	3.1	16	72	16	57	66	8	4	22	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5110826--5110876	17	3.1	17	67	16	52	66	7	3	21	1.34
5112230--5112262	14	2.2	16	89	10	52	39	0	0	60	0.97
5112245--5112321	32	2.6	30	73	17	81	33	3	1	61	1.23
5114513--5114570	3	19.0	3	86	10	82	3	32	0	63	1.11
5118367--5118397	3	10.3	3	92	0	53	70	0	29	0	0.87
5121117--5121151	12	3.0	12	87	4	54	5	25	57	11	1.56
5122258--5122288	16	1.9	16	93	0	53	77	3	12	6	1.08
5132245--5132271	2	13.5	2	100	0	54	0	51	0	48	1.00
5135310--5135342	2	16.5	2	100	0	66	48	0	0	51	1.00
5143843--5143895	18	2.9	18	77	2	61	47	1	0	50	1.12

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   30   31