genome.fa.s9.2.7.7.80.10.50.1000.11.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

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  ( 2302 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)
3876853--3876900	22	2.2	22	84	0	60	29	6	12	52	1.63
3876863--3876921	22	2.7	22	86	5	75	30	3	13	52	1.57
3876991--3877037	22	2.1	23	92	4	78	38	34	2	25	1.68
3883035--3883061	3	9.0	3	100	0	54	33	0	0	66	0.92
3883468--3883502	2	17.5	2	93	0	61	54	0	45	0	0.99
3884508--3884715	88	2.3	89	80	7	222	56	6	12	24	1.61
3884484--3884749	91	3.0	87	77	6	264	53	7	13	25	1.65
3887191--3887237	17	2.8	17	87	6	60	48	0	0	51	1.00
3901841--3901871	12	2.5	13	94	5	55	74	0	0	25	0.82
3907734--3907778	24	1.9	23	90	4	72	40	2	22	35	1.66
3910293--3910328	18	2.0	18	94	0	63	36	27	13	22	1.92
3917707--3917742	12	3.0	12	100	0	72	41	0	0	58	0.98
3919668--3919827	82	2.0	82	94	0	284	41	18	10	30	1.83
3920381--3920785	170	2.4	170	79	2	402	34	9	15	40	1.80
3921259--3921376	61	1.9	61	85	10	161	34	5	14	45	1.67
3921700--3921752	21	2.5	21	75	3	52	52	16	3	26	1.61
3928787--3928846	29	2.1	29	96	0	111	33	25	18	23	1.97
3935567--3935593	3	9.0	3	100	0	54	33	0	33	33	1.58
3942316--3942396	20	4.1	20	98	0	153	35	13	9	40	1.78
3942542--3942582	21	2.0	21	95	0	73	34	21	21	21	1.97
3942591--3943116	133	4.0	133	89	2	761	37	14	23	23	1.92
3950576--3950749	90	1.9	92	88	4	264	28	14	10	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3950917--3951051	69	2.0	68	86	1	189	31	15	15	37	1.89
3952763--3952802	19	2.2	19	86	4	55	62	5	0	32	1.17
3969054--3969082	13	2.2	13	100	0	58	48	10	13	27	1.75
3989398--3989439	17	2.5	17	85	14	61	9	11	0	78	0.96
3991687--3991719	2	16.5	2	93	0	57	54	0	0	45	0.99
3991683--3991719	12	3.1	12	96	0	65	56	0	0	43	0.99
3995407--3995439	2	16.5	2	100	0	66	48	0	0	51	1.00
4003114--4003199	36	2.4	36	81	9	97	3	29	4	62	1.31
4017731--4017781	26	1.9	27	84	11	70	37	0	5	56	1.23
4019164--4019233	28	2.5	28	81	2	70	70	4	20	5	1.26
4020232--4020317	37	2.3	36	82	5	100	43	9	9	38	1.69
4020248--4020330	37	2.2	37	80	4	96	38	10	9	40	1.73
4020384--4020458	35	2.1	35	90	0	114	56	8	22	13	1.63
4021742--4021767	2	13.0	2	100	0	52	50	0	0	50	1.00
4021773--4021832	26	2.4	25	83	8	68	25	10	20	45	1.81
4022087--4022200	41	2.8	41	89	0	165	30	7	20	41	1.81
4028477--4028502	12	2.2	12	100	0	52	76	0	0	23	0.78
4028477--4028510	12	2.9	11	91	8	50	70	0	0	29	0.87
4038810--4038864	20	2.8	20	75	2	58	49	0	1	49	1.11
4038932--4038958	2	13.5	2	100	0	54	48	0	0	51	1.00
4050237--4050319	41	2.0	41	95	0	148	28	10	10	49	1.72
4062050--4062101	27	1.9	27	92	0	86	32	23	11	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4062129--4062154	13	2.0	13	100	0	52	30	23	0	46	1.53
4062123--4062200	41	1.9	41	97	0	147	37	24	2	35	1.69
4062170--4062195	13	2.0	13	100	0	52	30	23	0	46	1.53
4068227--4068279	25	2.1	25	85	3	70	30	7	33	28	1.85
4068238--4068288	25	2.0	25	92	0	84	31	5	29	33	1.81
4098306--4098364	31	2.0	29	86	6	82	45	0	0	54	0.99
4103746--4103845	48	2.1	48	90	3	157	28	22	7	43	1.79
4109323--4109363	18	2.3	18	87	8	57	0	24	0	75	0.80
4109283--4109363	30	2.8	29	76	18	73	2	22	1	74	1.01
4110334--4110691	193	1.9	192	83	2	477	40	12	15	31	1.84
4110967--4111030	29	2.2	29	78	15	71	46	3	7	42	1.48
4138554--4138585	15	2.2	15	94	5	57	75	0	0	25	0.81
4150322--4150347	2	13.0	2	100	0	52	50	0	0	50	1.00
4164188--4164220	16	2.0	17	88	5	50	45	3	6	45	1.43
4183735--4183832	32	3.3	29	81	7	74	35	8	15	40	1.77
4183747--4183820	29	2.4	31	82	6	80	32	8	14	44	1.75
4183899--4184039	66	2.1	66	85	2	185	34	20	15	29	1.94
4183965--4184063	45	2.2	45	83	0	126	30	20	18	31	1.96
4197960--4197996	17	2.1	18	90	5	58	43	0	18	37	1.51
4201569--4201677	29	3.8	29	77	0	92	49	9	25	15	1.74
4201558--4201689	58	2.3	58	78	2	140	47	8	25	18	1.76
4201921--4202007	35	2.5	34	75	7	93	25	9	17	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4224648--4224677	2	15.0	2	100	0	60	50	0	0	50	1.00
4225166--4225194	11	2.7	11	94	5	51	55	0	0	44	0.99
4244424--4244493	36	1.9	36	88	0	104	40	7	18	34	1.78
4270665--4270697	2	17.0	2	93	6	59	48	0	0	51	1.00
4278076--4278110	2	17.5	2	90	0	52	45	0	2	51	1.16
4278255--4278329	37	2.0	37	89	0	114	26	13	33	26	1.93
4291421--4291484	11	5.8	11	74	5	58	29	0	0	70	0.88
4291402--4291583	53	3.1	62	66	26	162	34	1	0	63	1.04
4291426--4291494	21	3.3	21	80	15	81	30	0	0	69	0.89
4291421--4291950	20	26.6	20	65	22	112	32	1	0	64	1.08
4291452--4291703	109	2.5	101	78	17	240	33	1	0	64	1.08
4291350--4291800	111	4.0	113	88	8	692	33	2	0	63	1.09
4291639--4291707	5	12.5	6	75	14	51	31	0	0	68	0.90
4291678--4291725	22	2.1	23	81	11	55	37	0	0	62	0.95
4291757--4291805	6	7.7	6	78	13	53	24	0	0	75	0.80
4291339--4291813	61	8.4	60	73	15	295	34	2	0	63	1.10
4291735--4291842	33	2.9	37	76	16	116	31	0	0	67	0.97
4291355--4291834	14	34.2	14	64	22	129	33	2	0	64	1.07
4291770--4291927	83	1.9	87	83	12	213	30	1	1	66	1.10
4291790--4291898	28	4.1	24	69	23	69	27	1	1	68	1.10
4291898--4291941	14	3.1	14	83	3	52	31	2	0	65	1.05
4291812--4291939	53	2.4	55	83	12	142	29	2	1	66	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4291426--4291963	29	18.3	28	66	19	110	33	1	0	64	1.08
4296193--4296232	21	1.9	21	84	0	53	60	0	0	40	0.97
4296479--4296610	70	1.9	70	87	3	194	33	15	5	45	1.69
4305692--4305730	19	2.1	19	85	4	53	20	5	2	71	1.17
4305692--4305758	26	3.0	21	73	22	57	26	2	1	68	1.12
4313366--4313408	11	4.1	11	82	11	54	23	0	0	76	0.78
4313377--4313409	14	2.3	15	89	5	50	24	0	0	75	0.80
4316852--4316887	2	18.0	2	100	0	72	50	0	0	50	1.00
4317466--4317499	17	1.9	17	88	5	50	44	8	0	47	1.34
4336493--4336560	18	3.8	18	81	14	61	22	1	1	75	0.97
4344614--4344655	2	21.0	2	95	0	75	47	0	2	50	1.14
4351474--4351510	16	2.3	16	90	0	56	10	16	5	67	1.38
4367447--4367479	4	8.2	4	100	0	66	51	24	0	24	1.48
4371438--4371633	39	4.9	37	72	18	108	65	0	2	31	1.10
4371566--4371861	33	9.1	33	68	17	147	64	1	2	32	1.15
4371682--4371745	6	10.7	6	76	17	53	68	0	0	31	0.90
4371645--4371833	59	3.2	63	68	27	189	62	1	2	33	1.14
4371590--4372149	112	5.0	112	90	5	872	63	1	2	32	1.15
4371602--4372094	27	17.9	26	68	23	144	63	1	2	33	1.14
4371590--4372149	225	2.5	222	92	5	938	63	1	2	32	1.15
4371668--4372073	23	18.5	21	68	21	155	64	0	2	32	1.13
4371901--4372096	21	8.7	24	69	21	90	63	0	2	33	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372042--4372081	20	2.0	20	85	0	53	67	0	0	32	0.91
4372080--4372112	11	2.7	13	86	13	52	54	0	9	36	1.32
4371663--4372137	27	17.1	27	66	17	167	63	1	2	33	1.15
4372294--4372338	15	3.0	15	83	0	63	28	28	11	31	1.91
4372847--4373154	27	11.2	28	71	7	96	40	12	8	38	1.73
4372892--4373248	27	13.1	27	72	7	195	40	13	10	36	1.79
4372878--4373233	55	6.6	54	75	5	252	39	13	9	37	1.77
4372864--4373189	82	4.0	81	76	4	251	40	12	9	37	1.76
4373962--4373994	2	16.5	2	93	0	57	45	0	3	51	1.16
4381885--4381954	35	2.0	35	97	0	131	55	8	18	17	1.66

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