genome.fa.s13.2.7.7.80.10.50.1000.9.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  9  of  18  ( 2072 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)
3594587--3594662	29	2.6	28	76	15	75	61	1	1	35	1.12
3603626--3603827	6	29.0	7	67	21	81	31	0	0	67	1.01
3603697--3603787	20	4.6	19	74	14	60	28	0	0	71	0.86
3603638--3603737	7	12.1	9	67	25	53	30	2	1	67	1.09
3603674--3603837	62	2.7	62	74	17	153	29	0	0	69	0.93
3603687--3603782	33	2.8	34	85	7	115	29	0	1	69	0.95
3603699--3603837	42	3.0	47	72	19	123	28	0	0	71	0.87
3603728--3603837	49	2.4	46	81	14	131	30	0	0	70	0.88
3603701--3603836	56	2.5	55	81	11	145	29	0	0	70	0.87
3603604--3603837	90	2.6	89	76	10	235	31	0	0	67	1.00
3603766--3603858	48	1.9	48	87	10	136	29	1	2	67	1.09
3608096--3608172	29	2.6	29	78	10	84	59	5	1	33	1.28
3614947--3615012	33	2.0	33	85	8	89	53	4	16	25	1.62
3630007--3630247	121	2.0	123	88	3	362	18	19	21	39	1.93
3634318--3634353	18	2.0	18	88	0	54	55	2	5	36	1.38
3642319--3642375	28	2.0	28	86	0	78	43	10	24	21	1.83
3647241--3647302	31	2.1	29	84	6	79	33	16	6	43	1.73
3657430--3657480	26	2.0	26	84	3	68	33	0	1	64	1.05
3657579--3657658	33	2.4	33	82	0	88	40	7	3	48	1.49
3657776--3657872	30	3.3	30	75	5	99	46	4	11	38	1.59
3662248--3662293	14	3.3	14	78	0	56	32	0	0	67	0.91
3665476--3665510	16	2.2	16	94	0	61	45	14	2	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3681229--3681287	30	2.0	30	96	0	109	25	22	18	33	1.96
3697980--3698119	54	2.8	50	81	11	160	26	5	33	35	1.78
3698013--3698118	54	2.0	54	90	0	167	27	5	35	31	1.80
3718346--3718407	21	3.0	21	100	0	124	24	9	33	32	1.88
3733540--3733587	13	3.2	16	72	25	50	41	0	0	58	0.98
3733529--3733636	29	3.7	28	75	14	94	33	0	0	66	0.92
3733533--3733636	28	3.6	28	71	20	72	33	0	0	66	0.92
3733533--3733618	28	3.0	29	73	10	79	33	0	0	66	0.92
3733602--3733636	11	3.4	11	84	15	56	31	0	0	68	0.90
3733523--3733637	33	3.4	33	75	11	117	32	0	0	67	0.91
3733593--3733637	20	2.3	19	88	7	72	28	0	0	71	0.87
3733720--3733794	36	2.1	37	87	7	109	57	4	1	37	1.26
3737489--3737629	74	1.9	74	86	1	203	44	5	5	43	1.51
3748797--3748843	14	3.4	14	87	0	58	48	38	0	12	1.41
3748803--3748845	18	2.4	18	92	0	68	48	37	0	13	1.43
3751717--3751757	21	2.0	21	85	0	55	56	19	0	24	1.42
3755498--3755531	13	2.6	13	80	0	50	44	2	26	26	1.69
3756418--3756539	42	2.9	42	76	0	127	23	19	14	41	1.89
3758757--3758813	29	2.0	29	82	0	69	22	7	19	50	1.71
3768151--3768297	75	2.0	75	91	2	242	34	6	25	34	1.81
3783357--3783472	39	3.1	36	77	15	121	66	0	2	31	1.05
3783364--3783450	34	2.6	33	85	7	113	67	0	2	29	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3784206--3784244	19	2.1	19	95	0	69	48	5	7	38	1.54
3785725--3785765	21	1.9	22	85	5	57	36	4	0	58	1.20
3820077--3820102	2	13.0	2	100	0	52	50	0	0	50	1.00
3828374--3828467	43	2.2	43	98	0	179	27	30	7	34	1.84
3839727--3839765	18	2.2	18	85	0	51	28	12	15	43	1.83
3843565--3843589	3	8.3	3	100	0	50	64	0	0	36	0.94
3844161--3844212	21	2.5	21	93	0	86	11	0	23	65	1.25
3851135--3851169	3	12.0	3	87	6	54	34	0	0	65	0.93
3851134--3851162	14	2.1	14	100	0	58	27	0	0	72	0.85
3851566--3851626	21	2.8	23	82	9	74	65	0	0	34	0.93
3851522--3851616	33	2.9	34	83	10	108	66	1	0	32	0.99
3851563--3851626	19	3.1	21	77	22	73	65	0	0	34	0.93
3851557--3851665	49	2.2	48	81	9	123	64	0	0	34	1.00
3851624--3851683	19	3.0	21	76	18	74	55	3	0	41	1.16
3855078--3855839	385	2.0	387	94	1	1343	38	16	24	20	1.93
3865879--3865959	40	2.0	40	100	0	162	17	12	19	50	1.77
3872161--3872196	15	2.3	16	90	4	56	36	5	2	55	1.38
3881636--3881672	17	2.4	16	86	13	51	37	0	2	59	1.12
3881532--3882143	204	3.0	205	81	6	709	41	6	5	46	1.53
3881950--3882010	21	2.8	21	74	13	61	44	1	3	50	1.28
3888376--3888436	26	2.3	26	91	0	95	24	14	31	29	1.95
3888425--3888482	23	2.5	23	88	5	82	25	15	25	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3888538--3888612	23	3.3	23	66	7	62	25	13	24	37	1.91
3891181--3891238	22	2.6	22	81	13	73	46	32	5	15	1.68
3902457--3902482	2	13.0	2	100	0	52	50	0	0	50	1.00
3903097--3903153	28	2.1	28	83	9	73	77	5	8	8	1.13
3904040--3904089	25	2.0	25	84	4	64	0	24	8	68	1.16
3904049--3904103	24	2.3	24	80	17	62	0	20	7	72	1.07
3904088--3904133	21	2.2	20	85	11	58	0	19	6	73	1.04
3904065--3904132	33	2.1	32	91	2	109	0	20	7	72	1.09
3918700--3918733	15	2.3	15	89	0	50	47	0	0	52	1.00
3928351--3928476	62	2.0	62	95	3	227	30	14	8	46	1.74
3928814--3928871	29	2.0	29	86	6	82	32	12	17	37	1.86
3931116--3931166	18	2.8	18	90	0	75	21	13	25	39	1.90
3931134--3931211	39	2.0	40	84	2	104	16	16	29	37	1.91
3934315--3934372	29	2.0	29	86	6	82	36	15	12	36	1.85
3934995--3935130	69	2.0	69	86	5	195	43	15	10	30	1.80
3938804--3938852	24	2.1	24	84	3	64	30	16	4	48	1.64
3939759--3939804	21	2.3	19	85	7	56	39	2	2	56	1.24
3940023--3940053	2	15.5	2	93	0	53	48	3	0	48	1.17
3949014--3949044	2	15.5	2	93	0	53	51	3	0	45	1.17
3954285--3954311	2	13.5	2	100	0	54	48	0	0	51	1.00
3962738--3962778	19	2.0	21	90	9	68	36	4	7	51	1.51
3962815--3962874	20	3.0	20	97	0	111	43	0	10	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3962880--3962970	20	4.3	20	71	22	53	45	2	5	47	1.38
3962926--3963014	18	5.2	18	72	17	66	44	4	5	44	1.47
3974004--3974045	15	2.6	16	77	7	50	45	0	0	54	0.99
3974072--3974120	21	2.3	22	79	10	57	44	4	2	48	1.33
3974127--3974159	15	2.1	17	88	11	52	54	6	0	39	1.25
3974402--3974460	17	3.5	17	75	11	50	49	6	1	42	1.39
3974387--3974472	32	2.6	34	71	15	81	46	6	1	45	1.37
3981095--3981227	41	3.4	41	80	5	123	39	16	12	31	1.85
3984957--3985086	63	2.1	62	83	9	158	54	14	13	16	1.71
3988834--3988889	28	2.0	28	85	0	76	33	16	7	42	1.75
3989765--3989829	23	2.8	23	83	0	85	32	12	29	26	1.92
3989804--3989867	30	2.1	30	85	2	83	35	14	26	23	1.93
4002668--4002711	3	14.7	3	95	0	79	31	0	2	65	1.05
4013839--4013890	27	1.9	27	84	0	68	53	15	17	13	1.72
4026391--4026614	27	8.3	27	74	12	103	38	7	10	43	1.67
4026422--4026692	27	9.9	28	77	5	157	36	5	11	45	1.65
4026525--4026692	55	3.1	55	77	7	164	36	3	11	47	1.58
4026422--4026692	82	3.3	81	74	6	240	36	5	11	45	1.65
4026643--4026700	28	2.1	28	93	0	98	41	3	12	43	1.59
4033040--4033094	27	2.0	27	89	0	83	25	16	21	36	1.94
4034034--4034058	2	12.5	2	100	0	50	0	0	48	52	1.00
4037490--4037528	6	6.3	6	85	5	51	64	17	2	15	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4049179--4049220	16	2.5	17	81	18	52	38	14	0	47	1.44
4053442--4053512	28	2.6	27	88	6	106	35	7	14	43	1.72
4054233--4054257	7	3.6	7	100	0	50	88	0	0	12	0.53
4054790--4054815	3	8.7	3	100	0	52	34	0	0	65	0.93
4059114--4059139	13	2.0	13	100	0	52	15	30	15	38	1.88
4071804--4071922	58	2.1	58	90	3	186	32	26	20	21	1.97
4081229--4081303	37	2.1	36	85	9	100	37	12	10	40	1.77
4083180--4083289	42	2.6	42	78	4	114	25	12	21	40	1.89
4083180--4083289	43	2.6	41	76	15	107	25	12	21	40	1.89
4084419--4084480	31	2.0	32	83	3	81	48	3	19	29	1.64

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