genome.fa.s5.2.7.7.80.10.50.1000.9.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  9  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)
4618418--4618442	13	1.9	13	100	0	50	32	0	0	68	0.90
4619691--4619731	15	2.7	16	77	11	50	46	0	0	53	1.00
4649862--4649906	22	2.0	22	82	0	54	35	4	0	60	1.17
4650467--4650512	20	2.2	22	84	7	60	32	2	6	58	1.36
4653116--4653141	6	4.3	6	100	0	52	34	0	15	50	1.45
4656683--4656781	50	2.0	50	100	0	198	36	25	14	24	1.93
4685510--4685563	21	2.6	21	81	0	72	31	9	14	44	1.77
4685651--4685724	26	2.8	27	84	10	82	47	9	4	39	1.55
4702168--4702198	2	15.5	2	93	0	53	48	3	0	48	1.17
4702612--4702885	139	2.0	139	95	0	494	32	18	23	24	1.97
4706358--4706398	14	3.2	13	86	10	57	78	0	4	17	0.93
4706365--4706406	14	2.9	14	92	3	66	80	0	2	16	0.81
4706363--4706407	7	6.3	7	80	14	56	82	0	2	15	0.77
4706554--4706626	17	3.9	17	73	18	65	47	2	5	43	1.40
4710082--4710142	32	1.9	32	83	6	79	31	0	3	65	1.09
4710117--4710257	27	5.1	27	69	9	104	38	0	4	56	1.24
4710359--4710396	19	2.0	20	89	5	60	47	0	0	52	1.00
4710402--4710461	26	2.3	25	86	8	84	41	1	3	53	1.27
4710452--4710499	25	2.0	24	84	15	64	39	2	2	56	1.23
4735120--4735150	15	2.0	16	93	6	55	38	16	6	38	1.74
4746064--4746098	17	2.0	18	88	5	54	25	5	8	60	1.49
4753240--4753296	18	3.2	18	100	0	114	21	17	10	50	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4753431--4753592	81	2.0	81	100	0	324	38	7	19	34	1.80
4767085--4767118	13	2.7	13	90	4	52	0	91	0	8	0.43
4778751--4778811	29	2.1	29	87	3	86	36	0	1	62	1.05
4779133--4779200	30	2.2	29	87	7	91	30	2	2	63	1.24
4781410--4781450	12	3.4	12	93	6	66	31	0	41	26	1.56
4781410--4781459	24	2.0	25	85	11	68	30	0	42	28	1.56
4797529--4797656	35	3.7	35	79	7	125	45	17	15	21	1.85
4813077--4813102	1	26.0	1	100	0	52	0	0	100	0	0.00
4815290--4815344	27	2.0	28	82	7	67	41	0	1	56	1.10
4840824--4840848	13	1.9	13	100	0	50	40	0	36	24	1.55
4851655--4851680	2	13.0	2	100	0	52	50	0	50	0	1.00
4855673--4855704	14	2.3	14	94	0	55	43	18	12	25	1.85
4875702--4875750	22	2.2	22	85	0	62	26	10	14	48	1.75
4884116--4884193	32	2.4	32	85	8	97	28	7	12	51	1.67
4884143--4884209	32	2.1	33	85	2	91	32	7	10	49	1.65
4885248--4885294	20	2.2	22	77	7	53	36	0	4	59	1.17
4892627--4892683	27	2.2	26	87	6	80	42	1	1	54	1.21
4892593--4893252	224	3.0	224	91	4	996	40	2	3	52	1.35
4892851--4892907	27	2.2	26	87	6	80	43	1	1	52	1.21
4893072--4893154	22	3.5	22	68	15	58	39	3	2	54	1.31
4893075--4893131	27	2.2	26	78	6	62	42	3	1	52	1.28
4893683--4893707	12	2.1	12	100	0	50	0	40	8	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4899574--4899604	14	2.2	14	94	0	53	51	6	0	41	1.27
4929668--4929698	2	16.0	2	93	6	55	0	48	0	51	1.00
4931985--4932079	47	2.0	47	91	0	154	31	9	25	33	1.88
4939263--4939294	15	2.1	15	94	0	55	68	0	0	31	0.90
4939372--4939631	14	18.2	14	63	20	58	63	0	3	32	1.16
4939369--4939454	33	2.6	33	87	3	111	69	0	1	29	0.96
4939364--4939471	33	2.9	38	74	16	109	66	0	1	30	1.08
4939486--4939551	15	4.5	15	70	21	50	65	0	1	33	1.02
4939372--4939636	113	2.3	114	91	5	437	63	0	3	32	1.16
4939488--4939564	17	4.9	15	69	17	50	67	0	1	31	0.99
4939458--4939645	60	3.2	60	69	20	182	58	0	4	36	1.23
4946091--4946130	21	2.0	20	85	5	53	47	2	2	47	1.29
4946351--4946412	29	2.1	29	90	0	97	56	1	6	35	1.35
4946545--4946609	26	2.4	29	80	10	75	36	4	0	58	1.19
4947381--4947451	21	3.3	20	77	11	70	21	5	1	71	1.14
4974335--4974390	27	2.1	28	90	6	89	71	0	3	25	1.02
4974331--4974429	26	3.7	24	73	20	81	64	0	6	29	1.17
4974336--4974468	50	2.8	46	73	18	112	66	0	5	28	1.13
4974418--4974504	33	2.6	33	83	7	95	65	2	4	27	1.24
4974488--4974521	16	2.2	16	89	5	52	55	5	8	29	1.54
4988280--4988314	15	2.3	15	100	0	70	20	62	11	5	1.48
4988350--4988396	21	2.2	21	84	0	67	10	42	23	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5003069--5003096	2	14.0	2	100	0	56	50	0	0	50	1.00
5029828--5029859	6	5.3	6	100	0	64	15	34	0	50	1.45
5029821--5029859	18	2.2	18	90	0	60	17	35	0	46	1.49
5032670--5032706	2	18.5	2	100	0	74	51	0	0	48	1.00
5051013--5051099	33	2.6	34	82	10	99	68	1	3	26	1.12
5051007--5051094	39	2.3	39	84	4	106	71	0	3	25	1.01
5052829--5052914	43	2.0	43	86	0	118	31	10	4	53	1.55
5055083--5055169	22	4.0	22	77	8	88	27	8	17	47	1.75
5055303--5055349	22	2.1	22	84	0	58	44	19	10	25	1.82
5055373--5055431	22	2.7	22	81	0	64	52	13	5	28	1.61
5055781--5055810	11	2.9	10	90	9	51	60	0	0	40	0.97
5087053--5087112	28	2.1	28	90	6	95	25	21	8	45	1.80
5086996--5087335	172	2.0	171	87	4	497	22	17	13	46	1.83
5087805--5087848	18	2.4	19	77	11	56	15	38	11	34	1.84
5096909--5096960	2	25.5	2	88	3	77	44	0	5	50	1.26
5105288--5105317	10	3.0	10	95	0	51	0	0	43	56	0.99
5119287--5119931	325	2.0	314	90	3	995	40	7	11	40	1.70
5120359--5120399	21	1.9	22	85	14	59	58	2	2	36	1.24
5121948--5121979	14	2.3	14	94	0	55	46	0	0	53	1.00
5123426--5123456	2	15.5	2	100	0	62	51	0	0	48	1.00
5124124--5124281	69	2.3	69	89	0	244	46	18	22	12	1.82
5124237--5124415	81	2.2	82	89	5	274	47	21	21	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5127037--5127076	15	2.5	17	88	8	57	52	2	10	35	1.48
5128096--5128158	26	2.2	30	78	21	98	60	6	9	23	1.51
5128103--5128158	26	2.2	26	100	0	112	58	7	8	25	1.53
5128479--5128533	27	2.1	25	83	6	65	74	1	10	12	1.15
5130038--5130195	69	2.3	69	90	2	237	43	20	24	12	1.85
5130151--5130329	81	2.2	82	86	5	247	45	21	22	10	1.81
5135658--5135709	23	2.2	22	83	12	68	59	0	3	36	1.16
5136848--5136991	57	2.5	57	76	10	150	48	20	21	9	1.78
5139252--5139311	23	2.6	23	78	17	70	45	5	10	40	1.60
5144051--5144516	57	8.2	56	82	12	376	42	13	24	19	1.88
5144051--5144390	63	5.7	63	77	17	268	43	13	26	16	1.85
5144051--5144516	114	4.1	115	79	15	451	42	13	24	19	1.88
5144244--5144276	3	11.0	3	93	0	57	63	0	36	0	0.95
5144321--5144638	51	6.2	51	83	9	364	43	14	20	21	1.87
5144261--5144588	153	2.1	157	85	4	441	42	14	21	21	1.88
5144368--5144676	102	3.0	99	73	18	276	42	15	19	21	1.89
5156015--5156107	33	2.8	33	83	4	109	50	3	7	38	1.47
5156049--5156097	18	2.9	17	72	21	50	55	2	4	38	1.31
5156527--5156572	19	2.3	20	92	3	76	8	17	28	45	1.78
5156514--5156572	19	3.1	19	85	9	75	11	16	25	45	1.82
5156825--5156898	30	2.4	31	81	4	96	12	56	13	17	1.66
5158038--5158097	4	15.0	4	86	13	88	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5166095--5166150	9	6.3	9	74	12	53	82	0	5	12	0.83
5166107--5166150	12	3.8	12	84	6	63	84	0	4	11	0.77
5166097--5166150	23	2.4	21	84	9	63	83	0	5	11	0.80
5167073--5167120	15	3.2	15	77	8	53	45	0	0	54	0.99
5169704--5169748	21	2.1	21	83	0	54	48	6	0	44	1.29
5169725--5169852	53	2.4	53	82	10	179	43	8	6	41	1.60
5171546--5171606	21	2.9	21	76	9	52	49	1	0	49	1.10
5178630--5178659	15	1.9	16	93	6	53	63	6	0	30	1.20
5178778--5178835	25	2.3	25	83	13	75	72	1	1	24	1.03
5198313--5198341	2	14.5	2	100	0	58	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22