genome.fa.s5.2.7.7.80.10.50.1000.8.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  8  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)
4033007--4033290	124	2.3	125	78	4	277	31	12	10	45	1.76
4033230--4033311	27	2.9	27	81	5	92	31	8	13	46	1.73
4033230--4033313	29	2.9	29	82	7	109	30	8	13	47	1.72
4051494--4051520	3	9.0	3	100	0	54	33	33	0	33	1.58
4051799--4051829	2	15.5	2	100	0	62	51	0	48	0	1.00
4057890--4057915	2	13.0	2	100	0	52	50	0	0	50	1.00
4069256--4069290	2	17.5	2	100	0	70	48	0	51	0	1.00
4073453--4073477	12	2.1	12	100	0	50	8	24	8	60	1.52
4074276--4074332	1	57.0	1	100	0	114	0	0	100	0	0.00
4080270--4080297	2	14.0	2	100	0	56	50	0	0	50	1.00
4080466--4080504	17	2.4	16	82	4	51	51	0	2	46	1.14
4085716--4085771	29	1.9	29	82	7	69	41	0	5	53	1.24
4085776--4085827	16	2.9	18	72	16	54	46	0	3	50	1.20
4089381--4089426	22	2.1	22	88	8	67	60	0	2	36	1.09
4089791--4089843	18	2.9	18	72	10	63	45	16	7	30	1.75
4111944--4111981	15	2.5	15	84	16	51	44	0	0	55	0.99
4111944--4111980	16	2.4	16	86	13	51	45	0	0	54	1.00
4112042--4112916	341	2.5	348	80	9	978	45	6	6	40	1.57
4113131--4113169	19	2.1	19	85	9	53	41	0	2	56	1.13
4113165--4113195	15	2.0	16	93	6	55	35	0	0	64	0.94
4134449--4134474	2	13.0	2	100	0	52	50	0	0	50	1.00
4135624--4135666	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164298--4164381	28	3.0	28	98	0	159	48	17	17	15	1.81
4170921--4170991	29	2.4	30	83	6	83	39	21	12	26	1.89
4174266--4174307	6	7.0	6	88	0	57	0	7	50	42	1.30
4174266--4174307	4	10.5	4	89	0	57	0	7	50	42	1.30
4174266--4174304	10	3.9	10	89	0	60	0	7	51	41	1.31
4196377--4196511	61	2.2	60	84	6	166	34	7	14	44	1.73
4196632--4196689	22	2.7	21	86	5	80	24	0	22	53	1.46
4196731--4196809	23	3.5	23	79	5	81	25	10	26	37	1.87
4196731--4196792	22	2.7	23	82	7	65	25	9	25	38	1.86
4211502--4211563	27	2.2	29	75	21	69	43	6	1	48	1.38
4211819--4211884	33	2.0	33	91	5	107	63	0	1	34	1.04
4222305--4222331	2	13.5	2	100	0	54	51	0	0	48	1.00
4222443--4222518	26	3.0	25	71	5	71	42	10	3	43	1.57
4244592--4244631	21	1.9	21	85	10	55	50	12	0	37	1.41
4262399--4262427	2	14.5	2	100	0	58	51	0	0	48	1.00
4267437--4267485	24	2.1	22	88	7	71	28	40	2	28	1.68
4267437--4267498	17	3.5	17	77	14	63	29	41	1	27	1.65
4267444--4267497	24	2.3	24	83	3	74	29	42	1	25	1.66
4282875--4282906	16	1.9	17	93	6	57	68	3	3	25	1.18
4298691--4298715	2	12.5	2	100	0	50	48	0	0	52	1.00
4311175--4311251	16	5.3	15	72	19	65	46	0	1	51	1.09
4311175--4311254	15	5.4	16	68	22	59	47	0	1	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4311438--4311475	17	2.3	17	86	4	51	42	0	0	57	0.98
4312058--4312126	21	3.4	19	73	21	68	59	0	2	37	1.12
4312028--4312130	42	2.4	43	87	4	156	55	0	2	41	1.15
4312244--4312300	27	2.2	26	90	6	89	50	5	0	43	1.24
4312267--4312389	41	2.9	40	78	17	115	56	2	0	40	1.18
4342714--4342811	28	3.4	29	80	5	110	40	0	2	57	1.10
4343078--4343123	23	2.1	23	84	11	62	58	4	2	34	1.30
4343522--4343563	19	2.2	20	86	4	59	19	0	7	73	1.05
4343529--4343568	20	2.0	20	90	9	64	15	2	5	77	1.04
4348843--4348896	23	2.3	24	75	15	60	22	5	0	72	1.05
4371216--4371246	15	2.1	15	93	0	53	3	19	3	74	1.10
4374585--4374690	31	3.5	30	77	6	90	46	4	10	38	1.59
4375557--4375601	2	24.0	2	82	13	60	48	0	0	51	1.00
4375886--4375924	19	2.1	19	85	4	53	56	0	0	43	0.99
4375872--4375919	24	2.0	22	88	11	69	56	0	0	43	0.99
4375875--4375934	19	3.1	19	79	13	52	53	0	0	46	1.00
4400803--4400845	17	2.5	18	82	17	56	37	0	0	62	0.95
4404753--4404796	20	2.1	21	84	12	56	25	6	20	47	1.74
4404836--4404886	21	2.5	21	83	3	68	29	1	19	49	1.60
4410830--4410865	2	18.0	2	100	0	72	0	50	0	50	1.00
4410865--4410892	2	14.0	2	100	0	56	50	0	0	50	1.00
4413009--4413042	9	3.9	9	92	3	52	44	0	14	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4415067--4415109	19	2.3	18	84	4	59	74	2	4	18	1.10
4415689--4415729	15	2.6	17	78	21	54	43	0	0	56	0.99
4416646--4416684	15	2.5	15	84	15	53	58	2	5	33	1.33
4418673--4418844	83	2.1	82	76	3	175	46	6	10	36	1.64
4418932--4418997	27	2.4	27	80	9	80	50	4	12	33	1.60
4419022--4419165	70	2.1	70	86	5	202	44	6	12	36	1.68
4419728--4419760	2	16.5	2	100	0	66	51	0	0	48	1.00
4431034--4431069	18	1.9	19	94	5	65	27	0	0	72	0.85
4443742--4443824	42	2.0	42	85	0	112	40	14	28	15	1.87
4450724--4450758	17	2.1	16	89	5	52	62	8	2	25	1.38
4451879--4451934	25	2.2	25	83	0	67	35	8	3	51	1.51
4462598--4462635	13	3.2	12	82	10	51	78	0	7	13	0.94
4466688--4466717	2	15.0	2	92	0	51	50	0	3	46	1.18
4468469--4468502	2	17.0	2	100	0	68	50	0	0	50	1.00
4472541--4472578	5	7.6	5	87	0	58	5	18	39	36	1.73
4474714--4474744	4	7.8	4	100	0	62	77	22	0	0	0.77
4481172--4481279	54	2.0	54	98	1	209	25	23	24	27	2.00
4488216--4488407	62	3.1	62	81	5	185	32	5	3	58	1.36
4504898--4504937	21	1.9	21	100	0	80	40	15	25	20	1.90
4505411--4505460	26	1.9	26	91	0	82	28	8	24	40	1.83
4507219--4507261	13	3.0	14	80	13	52	9	9	6	74	1.22
4513011--4513076	7	9.0	8	71	18	54	50	0	1	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4513011--4513076	15	4.5	15	75	7	73	50	0	1	48	1.10
4513017--4513087	36	2.0	36	86	8	101	53	0	1	45	1.09
4516492--4516526	5	7.0	5	96	0	61	82	0	17	0	0.66
4521719--4521746	2	14.0	2	100	0	56	0	50	0	50	1.00
4529003--4529099	31	3.1	31	83	5	97	69	1	0	29	0.96
4529046--4529094	6	7.7	6	78	13	53	75	0	0	24	0.80
4529042--4529113	20	3.6	20	72	12	58	68	1	1	29	1.07
4529011--4529117	33	2.9	36	75	20	107	65	0	0	32	1.05
4529016--4529100	33	2.6	32	87	5	109	68	1	0	30	0.97
4529962--4530052	31	3.0	29	69	15	69	29	6	2	61	1.33
4533458--4533678	74	3.0	73	88	3	327	33	20	24	22	1.97
4539826--4539864	16	2.4	16	95	0	69	30	5	35	28	1.79
4540380--4540588	107	1.9	107	83	6	271	36	13	4	44	1.64
4542989--4543026	20	1.9	20	94	0	67	47	7	10	34	1.67
4542994--4543101	40	3.0	35	72	20	98	45	7	16	30	1.75
4543006--4543134	40	3.4	39	73	14	126	41	7	18	32	1.79
4542994--4543132	73	1.9	72	89	1	215	42	7	17	31	1.78
4543356--4543407	15	3.6	14	81	2	50	46	1	5	46	1.38
4547540--4547606	33	2.0	33	82	5	82	55	1	1	41	1.18
4548145--4548180	18	2.0	18	89	10	56	83	2	13	0	0.76
4561325--4561351	10	2.7	10	100	0	54	48	7	0	44	1.31
4572994--4573019	13	2.0	13	100	0	52	53	0	7	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4577074--4577120	18	2.7	18	78	15	53	53	0	0	46	1.00
4577331--4577396	28	2.4	28	85	10	82	60	4	3	31	1.32
4577343--4577404	29	2.1	29	82	5	72	61	3	3	32	1.28
4586102--4586146	2	22.5	2	95	0	81	51	0	0	48	1.00
4586808--4586837	11	2.7	11	94	0	51	43	26	0	30	1.55
4597191--4597248	3	19.3	3	76	0	53	39	53	0	6	1.28
4597215--4597254	21	1.9	21	89	0	62	45	45	0	10	1.37
4615783--4616343	280	2.0	280	97	2	1056	34	18	10	35	1.86
4617110--4617228	55	2.2	55	81	14	135	47	0	3	48	1.24
4618214--4618251	19	2.0	19	90	10	60	39	2	0	57	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