genome.fa.s7.2.7.7.80.10.50.1000.11.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

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

This is table  11  of  20  ( 2374 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)
4083866--4084423	210	2.6	218	86	4	769	41	8	4	45	1.53
4083866--4084497	210	3.0	210	83	3	764	42	8	3	44	1.52
4085193--4085267	31	2.5	31	85	10	93	48	4	8	40	1.51
4085803--4085879	28	2.7	28	95	2	136	53	0	3	42	1.19
4085818--4085905	17	5.5	17	73	18	91	52	0	2	45	1.13
4088539--4088577	19	2.1	19	90	0	60	41	10	0	48	1.37
4090040--4090080	22	1.9	21	85	5	55	39	4	0	56	1.21
4091950--4092144	99	2.0	99	96	0	363	34	9	15	40	1.80
4097253--4097318	30	2.2	30	91	0	105	37	0	0	62	0.96
4102747--4102810	25	2.5	24	80	9	74	71	1	10	15	1.20
4103022--4103048	2	13.5	2	100	0	54	51	0	0	48	1.00
4104281--4104312	3	10.7	3	100	0	64	31	0	0	68	0.90
4107855--4107892	6	6.3	6	93	0	67	15	21	31	31	1.94
4125389--4125422	14	2.3	15	90	5	52	20	5	0	73	1.04
4126242--4126267	2	13.0	2	100	0	52	50	0	0	50	1.00
4127105--4127157	14	3.7	14	82	2	61	73	0	0	26	0.83
4127105--4127167	7	9.4	7	73	16	53	73	0	0	26	0.84
4127102--4127179	33	2.3	35	80	8	99	70	0	1	28	0.95
4127118--4127245	56	2.3	55	77	7	127	63	1	3	32	1.19
4127495--4127528	15	2.3	15	89	0	50	41	26	5	26	1.78
4128121--4128177	22	2.6	21	78	13	62	75	5	12	7	1.17
4128325--4128359	15	2.2	16	95	5	63	68	0	28	2	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4134651--4134686	3	12.0	3	87	0	54	61	0	38	0	0.96
4139956--4139985	5	6.0	5	100	0	60	60	0	0	40	0.97
4154536--4154566	2	15.0	2	93	6	53	48	0	3	48	1.17
4159586--4159622	2	19.0	2	94	5	67	48	0	0	51	1.00
4161184--4161211	2	14.0	2	100	0	56	50	0	0	50	1.00
4162720--4162763	18	2.3	19	80	11	54	27	11	4	56	1.53
4163788--4163816	2	14.5	2	100	0	58	51	0	0	48	1.00
4164252--4164284	2	16.5	2	100	0	66	48	0	0	51	1.00
4173447--4173505	26	2.4	25	78	13	68	59	3	0	37	1.14
4174212--4174269	20	3.0	20	80	5	57	41	0	1	56	1.09
4179907--4180061	74	2.1	72	78	5	170	43	3	5	47	1.44
4180110--4180156	20	2.2	22	92	7	80	48	0	0	51	1.00
4181108--4181171	28	2.4	28	82	12	80	23	0	4	71	1.04
4186146--4186178	16	2.1	16	88	5	50	51	3	3	42	1.32
4186707--4186747	14	2.9	14	81	0	55	73	0	26	0	0.84
4187510--4187539	2	15.0	2	100	0	60	50	0	0	50	1.00
4192554--4192672	59	2.0	60	86	1	168	45	10	15	28	1.79
4195051--4195132	40	2.0	40	90	0	128	34	18	10	36	1.86
4213953--4213982	15	2.0	15	93	0	51	40	3	6	50	1.45
4228810--4228880	33	2.2	33	85	7	92	35	1	1	61	1.13
4228816--4228876	18	3.6	18	69	24	51	36	1	1	60	1.16
4230581--4230622	17	2.4	18	84	11	61	2	11	0	85	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4231039--4231073	17	2.0	18	88	5	54	57	0	0	42	0.99
4269885--4270510	208	3.0	207	84	5	857	47	4	7	40	1.52
4298892--4298960	29	2.3	29	80	7	86	42	0	0	57	0.98
4300288--4300333	18	2.6	19	83	13	62	76	2	0	21	0.90
4303352--4303396	22	2.1	21	88	12	65	80	0	15	4	0.87
4310655--4310729	36	2.1	36	97	0	141	29	24	13	33	1.93
4320663--4320710	8	6.0	8	95	0	60	50	8	0	41	1.33
4320675--4320710	2	18.0	2	94	0	63	50	2	0	47	1.15
4320667--4320710	12	3.7	12	93	0	61	50	6	0	43	1.29
4334149--4334234	44	2.0	44	88	4	129	31	13	16	38	1.88
4339398--4339453	25	2.2	25	96	0	103	55	23	5	16	1.61
4348735--4348762	3	9.3	3	100	0	56	32	0	0	67	0.91
4359856--4359935	18	4.5	18	82	1	90	48	0	40	11	1.39
4359856--4359914	6	9.8	6	94	0	91	49	0	37	13	1.43
4364214--4364277	27	2.4	27	84	5	67	31	0	1	67	1.00
4364231--4364278	11	3.9	11	76	23	51	25	0	2	72	0.95
4368359--4368389	2	15.5	2	100	0	62	51	0	48	0	1.00
4369163--4369201	5	8.0	5	85	2	53	79	2	15	2	0.95
4369629--4369664	19	1.9	18	88	5	54	47	0	0	52	1.00
4395914--4395942	13	2.1	14	93	6	51	55	0	0	44	0.99
4396073--4396137	21	3.1	21	78	12	71	60	1	0	38	1.07
4399163--4399455	143	2.1	143	96	0	534	38	16	15	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4402855--4402904	18	2.5	20	75	21	50	56	2	0	42	1.11
4403096--4403151	28	2.0	29	86	10	80	57	3	3	35	1.34
4403354--4403388	16	2.2	16	90	5	54	60	0	0	40	0.97
4409258--4409284	6	4.5	6	100	0	54	14	37	0	48	1.45
4421256--4421309	26	2.3	23	77	20	58	55	0	0	44	0.99
4421276--4421354	28	2.8	27	77	7	77	58	0	3	37	1.16
4422216--4422324	56	1.9	56	83	5	139	33	11	4	49	1.60
4424662--4424690	7	4.3	7	95	4	51	10	0	13	75	1.04
4443290--4443326	19	1.9	19	88	0	56	83	0	2	13	0.74
4443847--4443875	14	2.1	14	100	0	58	20	0	6	72	1.07
4446189--4446226	15	2.5	15	100	0	76	36	13	21	28	1.91
4446430--4446489	31	1.9	31	89	0	93	28	3	1	66	1.17
4446427--4446497	16	4.5	15	77	7	52	30	2	1	64	1.16
4446459--4446510	21	2.5	22	81	6	63	30	1	0	67	1.02
4446443--4446505	16	3.9	16	79	8	67	30	1	0	68	0.99
4446443--4446523	24	3.5	24	77	14	82	30	1	0	67	0.98
4446443--4446546	46	2.2	46	81	10	111	32	3	0	63	1.12
4446540--4446615	21	3.8	19	76	10	71	28	2	1	67	1.12
4446475--4446598	14	8.7	14	69	15	67	30	4	0	64	1.17
4446375--4446613	112	2.2	112	90	4	378	31	4	1	63	1.21
4449956--4450163	101	2.0	104	85	3	287	31	14	17	36	1.90
4456233--4456273	21	2.0	21	85	0	55	39	0	17	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4457603--4457631	2	14.5	2	100	0	58	51	0	0	48	1.00
4473262--4473348	43	2.0	43	82	4	104	56	17	6	19	1.63
4473348--4473459	41	2.8	41	90	4	174	43	19	10	25	1.83
4474095--4474144	10	4.9	10	77	20	50	2	34	0	64	1.05
4474098--4474144	21	2.2	21	92	0	76	2	34	0	63	1.06
4474743--4474785	22	2.0	21	86	4	59	55	0	0	44	0.99
4474959--4474992	16	2.1	16	88	5	50	50	0	0	50	1.00
4474991--4475058	30	2.3	30	89	5	102	57	1	4	36	1.28
4475890--4475948	26	2.3	25	80	11	66	52	5	0	42	1.23
4476191--4476230	21	1.9	21	84	0	53	35	12	17	35	1.88
4477190--4477231	13	3.3	13	83	6	59	64	9	4	21	1.42
4477192--4477224	12	2.6	13	85	9	50	66	9	6	18	1.40
4478660--4478690	3	10.0	3	93	6	53	64	0	0	35	0.94
4491493--4491560	28	2.6	25	76	19	66	63	4	1	30	1.23
4491505--4491559	28	2.0	28	92	0	92	61	3	1	32	1.24
4494013--4494039	12	2.2	12	100	0	54	44	0	7	48	1.31
4507557--4507599	21	2.0	22	90	4	70	60	6	0	32	1.23
4509437--4509513	33	2.3	33	91	4	120	36	12	18	32	1.89
4528217--4528249	17	2.0	16	94	5	57	36	0	3	60	1.12
4540824--4540852	2	14.5	2	100	0	58	51	0	48	0	1.00
4546301--4546734	210	2.1	200	80	10	500	46	3	7	41	1.50
4546987--4547020	16	2.1	16	88	0	50	38	2	5	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4550998--4551062	13	5.2	13	75	10	64	66	0	3	30	1.07
4551058--4551108	20	2.5	20	75	9	50	56	3	3	35	1.36
4566840--4566891	18	2.9	18	75	11	52	0	26	21	51	1.47
4566840--4566913	27	2.7	27	82	0	76	1	25	22	50	1.58
4566885--4566936	21	2.5	22	81	9	63	7	19	26	46	1.77
4567670--4567728	15	3.9	15	86	0	64	42	8	18	30	1.80
4567948--4568013	21	3.1	22	80	20	79	33	0	0	66	0.92
4567941--4568125	33	5.5	33	72	18	116	31	2	0	64	1.11
4567948--4568003	22	2.5	24	83	13	75	30	0	0	69	0.89
4567900--4568122	100	2.2	100	88	5	319	32	3	0	62	1.18

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