genome.fa.s4.2.7.7.80.10.50.1000.12.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  12  of  26  ( 3073 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)
4356499--4356535	16	2.4	15	86	8	56	18	2	2	75	1.04
4359194--4359241	23	2.0	24	92	4	80	35	18	8	37	1.81
4364416--4364453	2	19.5	2	94	5	69	47	0	0	52	1.00
4366652--4366727	29	2.6	29	72	8	73	50	6	11	31	1.65
4368018--4368045	9	3.1	9	100	0	56	21	0	0	78	0.75
4368112--4368155	9	4.9	9	79	20	56	34	0	0	65	0.93
4368306--4368339	16	2.2	16	89	5	52	38	0	0	61	0.96
4373637--4373675	20	2.0	20	89	0	60	17	28	5	48	1.68
4375868--4375964	45	2.2	45	81	10	110	12	36	20	30	1.90
4378566--4378619	28	1.9	28	84	0	72	27	1	7	62	1.32
4388121--4388147	2	13.5	2	100	0	54	48	0	51	0	1.00
4392342--4392382	14	2.9	14	88	3	55	65	7	0	26	1.18
4392453--4392490	15	2.5	15	83	8	51	63	7	10	18	1.50
4393974--4394025	23	2.2	24	82	3	61	23	5	7	63	1.43
4394047--4394172	46	3.0	42	84	11	175	29	35	7	26	1.85
4396137--4396171	8	4.2	8	88	3	52	0	17	0	82	0.66
4396136--4396186	22	2.3	22	86	6	68	0	25	0	74	0.82
4396196--4396245	15	3.3	15	71	17	50	0	34	0	66	0.92
4405773--4405797	12	2.1	12	100	0	50	40	8	52	0	1.31
4407723--4407767	20	2.3	19	85	14	56	64	2	33	0	1.06
4410138--4410164	2	13.5	2	100	0	54	48	0	0	51	1.00
4411653--4411682	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4412501--4412539	20	2.0	20	94	0	69	38	28	7	25	1.83
4415837--4415866	13	2.3	13	94	0	51	70	10	0	20	1.16
4416896--4416939	19	2.5	17	80	16	54	59	0	2	38	1.10
4417504--4417556	2	26.5	2	96	0	97	47	0	1	50	1.12
4418452--4418500	2	25.5	2	91	8	84	46	0	0	53	1.00
4428268--4428308	16	2.5	17	92	4	66	68	7	2	21	1.26
4432527--4432565	12	3.2	12	85	0	51	25	25	0	48	1.51
4433803--4433843	21	2.0	21	90	0	64	39	12	14	34	1.84
4434850--4434883	17	2.1	16	88	5	50	58	5	0	35	1.22
4449211--4449286	37	2.1	37	94	0	134	27	9	18	44	1.80
4456898--4456957	32	1.9	31	86	3	84	50	6	13	30	1.67
4462219--4462338	33	3.6	33	83	7	170	61	0	5	31	1.25
4462182--4462359	69	2.6	70	90	7	276	63	1	4	30	1.21
4462257--4462400	32	4.5	31	68	19	75	61	1	4	31	1.25
4462552--4462620	15	4.6	15	87	0	93	34	26	7	31	1.84
4463503--4463543	2	21.0	2	95	5	75	51	0	0	48	1.00
4463642--4463734	37	2.4	39	82	7	102	63	0	11	24	1.28
4472007--4472038	15	2.1	16	94	5	57	15	6	6	71	1.26
4472348--4472404	24	2.3	24	82	8	71	77	3	8	10	1.11
4472751--4472850	50	2.0	50	88	3	148	29	23	14	34	1.93
4472803--4473045	31	7.8	31	74	10	149	33	18	12	35	1.88
4472817--4473065	62	4.0	62	73	10	204	34	19	11	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4480893--4480932	3	13.3	3	100	0	80	67	0	0	32	0.91
4490460--4490549	36	2.5	36	83	0	117	45	14	7	32	1.73
4494176--4494202	13	2.1	13	100	0	54	51	0	0	48	1.00
4494175--4494238	20	3.2	20	73	10	58	42	0	1	56	1.09
4494213--4494477	144	1.9	144	84	7	353	31	6	3	58	1.41
4499154--4499214	32	1.9	32	89	0	95	24	26	11	37	1.89
4506556--4506656	34	3.0	34	77	12	118	35	18	13	31	1.90
4511268--4511340	21	3.5	21	77	3	76	38	8	13	39	1.75
4514217--4514373	78	2.0	77	93	1	269	49	14	7	29	1.69
4517627--4517703	23	3.3	23	88	0	109	32	12	20	33	1.91
4517745--4517799	21	2.6	21	75	13	58	49	20	7	23	1.74
4518542--4518598	29	2.0	29	89	0	87	52	1	3	42	1.28
4522226--4522396	75	2.3	76	85	7	242	36	7	17	38	1.78
4532340--4532382	17	2.5	17	88	0	59	39	32	9	18	1.83
4545932--4545971	16	2.5	15	80	11	53	75	7	5	12	1.18
4547959--4547985	3	9.0	3	100	0	54	33	0	0	66	0.92
4550069--4550106	15	2.5	15	95	0	67	36	7	28	26	1.84
4555448--4555503	22	2.6	22	88	2	87	26	3	14	55	1.55
4558915--4559025	57	2.0	56	96	1	204	36	15	16	32	1.90
4559374--4559414	22	1.9	21	85	5	55	56	17	0	26	1.41
4562509--4562627	28	4.0	28	68	25	82	54	7	2	35	1.42
4562551--4562586	16	2.2	17	85	14	58	58	5	2	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4564087--4564150	30	2.1	30	82	5	76	20	10	20	48	1.79
4572706--4572747	21	2.0	21	86	9	59	64	0	0	35	0.94
4576980--4577023	21	2.0	22	86	4	63	63	6	0	29	1.20
4578018--4578233	99	2.2	96	84	6	263	51	11	32	4	1.57
4578017--4578242	98	2.3	100	83	6	289	51	11	33	3	1.56
4587712--4587767	29	1.9	30	89	7	89	32	1	3	62	1.23
4596367--4596436	27	2.6	27	76	0	77	32	20	18	28	1.96
4596434--4596498	28	2.4	28	84	2	78	30	18	18	32	1.95
4596702--4596735	3	11.3	3	93	0	59	67	2	0	29	1.05
4615736--4615795	31	2.0	30	93	3	102	35	5	3	56	1.37
4615910--4615952	21	2.0	21	81	0	50	44	6	9	39	1.64
4616051--4616126	29	2.6	28	77	8	71	51	1	10	36	1.45
4628033--4628067	3	11.7	3	87	0	52	60	0	5	34	1.21
4635163--4635190	2	14.0	2	100	0	56	0	50	0	50	1.00
4638109--4638194	30	2.7	32	78	14	88	23	43	3	30	1.70
4638182--4639211	48	21.3	48	76	3	594	23	46	3	26	1.68
4638182--4639149	96	10.1	96	78	1	713	22	46	3	26	1.69
4638147--4639152	144	6.9	144	80	2	917	23	46	3	26	1.69
4639024--4639203	102	1.8	96	86	7	261	22	48	3	25	1.65
4640490--4640528	16	2.5	15	83	8	51	28	5	17	48	1.68
4640498--4640527	15	1.9	16	93	6	53	26	3	16	53	1.59
4640842--4640884	2	21.5	2	95	0	77	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4640842--4640892	14	3.6	14	94	0	75	43	0	5	50	1.26
4645259--4645286	2	14.0	2	100	0	56	50	0	0	50	1.00
4660398--4660426	3	9.7	3	100	0	58	31	0	0	68	0.89
4677294--4677334	2	20.5	2	100	0	82	0	0	48	51	1.00
4678022--4678063	2	21.0	2	100	0	84	50	0	0	50	1.00
4678139--4678172	17	2.0	17	100	0	68	47	11	11	29	1.76
4680680--4680761	30	2.7	31	81	5	96	26	43	6	23	1.77
4680743--4681100	47	7.6	47	73	7	260	24	45	5	24	1.73
4680755--4681100	94	3.7	94	82	3	356	24	45	5	24	1.73
4681064--4681130	29	2.3	30	92	2	109	23	50	4	20	1.66
4681099--4681507	48	8.6	48	72	12	254	24	46	4	24	1.72
4681093--4681418	96	3.4	95	72	8	284	24	46	4	23	1.71
4680968--4681223	125	2.1	124	90	3	415	23	48	5	23	1.71
4681094--4681462	194	1.9	185	85	10	496	25	46	4	24	1.71
4681479--4681534	27	2.1	27	93	0	94	23	42	7	26	1.79
4681500--4681634	48	2.8	48	79	2	155	25	42	5	26	1.75
4681386--4681617	123	1.9	117	82	8	288	24	42	5	28	1.76
4682480--4682519	21	2.0	21	90	9	66	50	0	0	50	1.00
4687372--4687401	3	10.0	3	100	0	60	33	0	0	66	0.92
4688012--4688069	15	3.7	15	75	24	57	44	1	0	53	1.10
4688037--4688077	21	2.1	19	86	9	55	51	2	0	46	1.14
4689262--4689392	66	2.0	66	87	3	192	27	45	3	22	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4689407--4689467	30	2.0	30	87	0	86	24	45	6	22	1.76
4689473--4689622	60	2.5	60	84	6	178	28	48	4	20	1.67
4698638--4698716	30	2.6	30	80	4	79	27	44	2	25	1.67
4698718--4699082	48	7.5	48	77	7	274	25	49	4	20	1.66
4698829--4699004	24	7.3	23	67	19	83	25	49	4	20	1.68
4698709--4699082	96	3.9	96	80	2	329	25	50	4	20	1.66
4698919--4699001	27	3.3	26	72	19	86	27	46	3	21	1.68
4698727--4699077	144	2.4	145	82	4	411	25	50	4	20	1.66
4702729--4702882	48	3.2	48	75	1	157	24	2	48	25	1.64
4704732--4704777	22	2.1	22	100	0	92	43	17	13	26	1.85

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