genome.fa.s8.2.7.7.80.10.50.1000.12.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  12  of  19  ( 2280 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)
4768638--4768703	30	2.2	30	86	0	87	43	1	0	54	1.09
4768651--4768700	22	2.1	22	85	14	64	42	2	0	56	1.11
4768647--4768711	30	2.2	30	82	0	76	41	4	0	53	1.21
4774114--4774153	21	1.9	21	100	0	80	60	5	0	35	1.19
4778659--4778817	84	1.9	84	89	0	246	40	9	22	27	1.85
4798939--4799025	45	1.9	45	83	0	111	29	22	20	26	1.99
4808715--4808739	13	1.9	13	100	0	50	84	0	0	16	0.63
4812359--4812418	14	4.1	14	72	16	50	70	0	0	30	0.88
4818352--4818377	2	13.0	2	100	0	52	50	0	0	50	1.00
4821514--4821580	4	16.8	4	87	0	62	49	10	1	38	1.46
4821516--4821580	14	4.6	14	82	0	76	49	10	1	38	1.47
4821526--4821574	18	2.7	18	90	0	80	51	14	0	34	1.43
4821523--4821580	22	2.5	23	91	5	91	50	12	0	37	1.40
4821536--4821576	10	4.3	10	81	12	59	51	14	0	34	1.43
4827301--4827357	1	57.0	1	92	0	96	0	1	96	1	0.25
4827401--4827440	1	40.0	1	94	0	71	2	0	97	0	0.17
4836088--4836161	22	3.4	22	77	7	80	22	5	22	48	1.71
4836173--4836251	23	3.5	23	87	1	115	34	30	13	21	1.92
4836241--4836322	21	3.9	21	73	7	76	45	18	12	24	1.83
4836241--4836346	22	4.9	22	72	9	83	45	19	11	23	1.83
4841325--4841393	36	1.9	36	87	0	102	27	5	8	57	1.51
4851309--4851743	181	2.4	180	85	4	590	40	21	9	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4852324--4852374	23	2.2	23	96	0	93	49	11	29	9	1.72
4852708--4852816	53	2.1	53	92	0	182	25	21	7	45	1.77
4870179--4870261	32	2.7	31	76	10	82	61	1	1	36	1.12
4872509--4872552	17	2.4	18	81	11	54	40	13	11	34	1.81
4877736--4877781	17	2.7	17	96	0	83	43	8	8	39	1.66
4891643--4891669	2	13.5	2	100	0	54	0	0	48	51	1.00
4891784--4891974	96	2.0	96	89	0	292	32	15	15	36	1.89
4895250--4895313	32	2.0	32	81	9	76	4	12	4	78	1.07
4917707--4917757	26	2.0	26	92	0	84	13	9	21	54	1.67
4918766--4918805	20	2.0	20	100	0	80	30	5	0	65	1.14
4931094--4931140	21	2.2	21	96	0	85	19	14	31	34	1.92
4933265--4933300	2	18.0	2	88	0	54	50	5	0	44	1.25
4938774--4938845	33	2.2	31	79	13	74	25	5	6	62	1.42
4938899--4938942	2	22.0	2	95	0	79	47	0	2	50	1.13
4945920--4945949	3	10.3	3	92	7	53	70	0	0	30	0.88
4951740--4951864	62	2.0	62	100	0	250	31	11	28	28	1.91
4967653--4967685	6	5.5	6	92	0	57	0	21	63	15	1.30
4968768--4968794	2	13.5	2	100	0	54	48	0	51	0	1.00
4970501--4970542	18	2.5	17	85	14	52	30	11	16	40	1.85
4985326--4985375	20	2.4	21	86	3	66	0	82	18	0	0.68
4985322--4985375	21	2.5	21	85	11	74	0	79	20	0	0.73
4985327--4985375	24	2.1	22	88	7	71	0	83	16	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4985368--4985397	13	2.3	13	94	0	51	6	66	16	10	1.41
4985519--4985553	2	17.5	2	100	0	70	51	0	48	0	1.00
4987274--4987308	18	1.9	18	88	0	52	57	17	8	17	1.64
5003162--5003191	2	15.0	2	92	0	51	46	0	3	50	1.18
5023123--5023147	9	2.8	9	100	0	50	88	0	12	0	0.53
5023956--5023993	15	2.5	15	87	8	51	21	5	26	47	1.71
5027472--5027511	19	2.0	20	95	4	73	15	47	5	32	1.66
5030968--5030993	2	13.0	2	100	0	52	0	50	0	50	1.00
5033177--5033230	29	1.9	28	85	7	74	50	1	3	44	1.30
5035890--5035920	15	2.1	15	93	0	53	45	25	16	12	1.83
5041565--5041618	22	2.5	21	74	11	56	61	0	0	38	0.96
5047178--5047243	10	6.7	10	75	15	66	45	1	1	51	1.19
5047178--5047290	10	10.6	11	66	19	62	46	0	0	51	1.13
5047176--5047236	18	3.3	18	81	6	77	47	1	1	49	1.21
5047200--5047291	30	3.2	28	73	18	82	46	1	1	51	1.15
5047232--5047353	23	5.3	23	73	13	115	49	2	0	47	1.20
5047227--5047357	46	2.8	47	78	11	144	46	2	0	50	1.19
5047232--5047421	23	8.5	22	67	16	88	45	3	1	49	1.29
5047994--5048032	16	2.4	16	80	12	53	74	0	0	25	0.82
5049640--5049696	24	2.4	24	82	5	62	29	19	22	28	1.98
5068884--5068925	16	2.6	16	85	7	50	42	0	2	54	1.13
5069165--5069211	16	2.7	18	83	9	62	42	2	4	51	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5077085--5077129	13	3.5	13	87	6	65	46	0	0	53	1.00
5077085--5077125	21	2.0	21	85	9	57	46	0	0	53	1.00
5106150--5106205	29	1.9	30	85	7	80	57	7	3	32	1.43
5107689--5107716	2	14.0	2	100	0	56	50	0	0	50	1.00
5108684--5108714	2	15.5	2	93	0	53	48	0	0	51	1.00
5116665--5116692	2	14.0	2	100	0	56	50	0	0	50	1.00
5121049--5121073	12	2.1	12	100	0	50	28	32	8	32	1.86
5130602--5130636	18	1.9	18	88	0	52	17	20	31	31	1.95
5130906--5130940	15	2.3	15	90	0	52	57	0	0	42	0.99
5131687--5131736	22	2.3	20	80	10	55	52	0	0	48	1.00
5138052--5138117	33	2.0	33	90	0	105	19	16	13	50	1.78
5139014--5139125	58	1.9	58	92	3	190	22	25	8	42	1.82
5153963--5153994	16	2.0	16	100	0	64	37	0	0	62	0.95
5153967--5154047	21	3.7	22	72	22	71	34	0	1	64	1.02
5153986--5154035	16	3.5	14	78	21	59	32	0	0	68	0.90
5154564--5154618	5	10.8	5	82	2	65	72	1	20	5	1.13
5169774--5169811	1	38.0	1	89	0	58	0	0	94	5	0.30
5174523--5174555	16	2.0	17	88	5	50	27	33	0	39	1.57
5180700--5180805	54	2.0	54	90	0	167	33	16	15	34	1.90
5186536--5186574	7	5.6	7	93	0	69	41	12	43	2	1.56
5191392--5191417	2	13.0	2	100	0	52	50	0	0	50	1.00
5192369--5192413	22	1.9	22	82	13	54	42	4	8	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5192394--5192462	33	2.1	33	83	5	86	47	4	7	40	1.51
5200495--5200527	17	1.9	17	93	0	57	24	0	33	42	1.55
5203435--5203480	14	3.0	15	75	25	51	36	0	0	63	0.95
5203406--5203480	31	2.5	30	84	6	89	38	1	1	58	1.15
5203447--5203501	12	4.4	12	80	13	58	38	1	0	60	1.08
5203880--5203912	13	2.5	13	90	9	50	0	21	0	78	0.75
5204258--5204313	27	2.1	27	86	6	78	25	32	12	30	1.92
5204285--5204591	170	1.8	170	84	1	418	33	24	13	28	1.93
5205925--5205992	29	2.4	29	80	7	68	26	7	0	66	1.18
5205946--5205997	16	3.4	16	76	15	65	25	1	0	73	0.94
5208794--5208835	4	10.5	4	89	0	66	28	2	21	47	1.63
5213405--5213439	17	2.1	16	89	5	52	17	5	11	65	1.43
5218696--5218746	24	2.1	24	85	0	66	58	21	5	13	1.56
5220425--5220682	136	1.9	136	85	0	354	40	13	14	31	1.85
5231170--5231221	27	2.0	26	85	10	72	46	3	0	50	1.20
5231304--5231367	26	2.6	25	86	11	89	45	0	3	51	1.17
5231350--5231504	26	5.9	26	72	17	115	39	1	1	56	1.21
5231353--5231525	22	9.3	19	65	27	72	39	1	1	56	1.20
5231338--5231499	48	3.2	48	73	19	155	40	1	2	55	1.24
5231429--5231653	42	5.3	42	73	13	165	40	1	3	54	1.24
5231577--5231654	20	3.8	20	71	14	70	42	1	3	52	1.27
5231158--5231717	129	4.4	129	78	12	605	39	1	2	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5231730--5231766	18	2.1	18	94	0	65	54	0	8	37	1.30
5231829--5231887	27	2.1	28	87	3	84	40	0	3	55	1.16
5231826--5231929	22	4.2	25	78	13	99	40	0	1	57	1.10
5236029--5236079	17	3.0	17	72	11	50	50	0	3	45	1.20
5236029--5236122	31	3.0	30	87	12	127	57	0	3	39	1.15
5247987--5248494	254	2.0	254	98	0	989	23	17	21	37	1.94
5261062--5261103	12	3.6	12	83	6	50	52	7	7	33	1.56
5263690--5263719	2	15.0	2	100	0	60	50	0	0	50	1.00
5271898--5271940	2	21.5	2	90	9	70	48	2	0	48	1.14
5277992--5278040	15	3.4	14	80	11	55	51	0	0	48	1.00

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