genome.fa.s13.2.7.7.80.10.50.1000.11.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_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  11  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)
4446009--4446084	34	2.2	34	78	0	80	18	17	27	36	1.93
4451645--4451698	28	1.9	28	85	7	74	62	9	3	24	1.41
4458837--4458910	30	2.5	30	80	6	80	33	6	6	52	1.54
4461971--4462102	27	4.8	26	79	18	110	66	0	0	32	0.97
4461998--4462129	27	4.7	27	79	17	144	67	0	0	32	0.91
4462071--4462146	38	2.0	38	90	10	120	64	1	1	32	1.10
4462075--4462145	19	3.7	18	73	19	63	63	1	1	33	1.12
4462340--4462400	15	4.0	15	91	2	77	39	8	0	52	1.31
4462962--4463003	18	2.3	19	84	12	61	28	0	7	64	1.20
4464023--4464064	20	2.1	20	82	8	50	76	0	2	21	0.90
4470005--4470035	16	1.9	16	100	0	62	25	6	25	41	1.79
4488496--4488563	23	2.7	23	78	17	64	48	4	1	45	1.31
4488682--4488715	16	2.2	16	89	5	52	47	0	0	52	1.00
4488914--4489004	15	6.3	15	77	13	86	57	2	0	40	1.11
4488931--4489007	40	1.9	40	94	0	136	55	2	0	41	1.13
4492856--4492897	2	21.0	2	95	0	66	54	0	0	45	0.99
4496113--4496197	29	3.1	28	72	16	81	35	11	17	35	1.87
4497689--4497726	13	2.8	13	84	15	51	71	2	0	26	1.00
4517700--4517728	11	2.6	11	100	0	58	10	10	17	62	1.54
4521717--4521762	17	2.7	18	83	9	53	63	2	8	26	1.35
4522936--4522979	12	3.5	13	82	11	56	65	4	2	27	1.23
4526550--4526617	21	3.2	21	78	0	73	27	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4535077--4535142	28	2.3	29	82	10	75	10	21	9	59	1.58
4535077--4535151	28	2.6	28	78	12	73	9	21	8	61	1.52
4535105--4535181	39	2.0	39	85	7	104	7	18	10	63	1.49
4535463--4535568	56	1.9	56	90	0	167	37	13	6	42	1.70
4542663--4542723	20	2.9	20	76	16	61	42	0	3	54	1.17
4542963--4543022	6	9.5	6	75	13	50	15	5	1	78	1.00
4543021--4543062	16	2.7	15	85	7	57	42	2	2	52	1.27
4543028--4543061	16	2.1	16	94	0	59	41	2	0	55	1.15
4543044--4543127	14	5.8	14	68	24	50	45	0	1	53	1.08
4543061--4543126	32	2.1	30	86	10	89	45	0	1	53	1.09
4544768--4544800	7	4.9	7	88	7	50	66	0	0	33	0.92
4545538--4545600	21	3.0	21	65	17	58	50	6	1	41	1.37
4545538--4545649	49	2.5	46	87	10	151	49	5	3	41	1.43
4549067--4549348	121	2.3	121	77	2	289	36	15	14	33	1.88
4549184--4549284	45	2.2	45	82	0	112	32	15	16	34	1.91
4552110--4552179	28	2.5	28	100	0	140	32	30	12	24	1.93
4552630--4552831	47	4.3	47	84	5	257	47	10	5	37	1.61
4553904--4553973	21	3.3	21	66	15	63	48	5	1	44	1.35
4556477--4556529	27	2.0	27	100	0	106	26	7	24	41	1.81
4558141--4558170	16	1.9	15	93	6	51	40	16	16	26	1.90
4575012--4575063	27	1.9	27	96	0	95	40	5	13	40	1.68
4578730--4578932	25	8.5	25	73	9	129	39	11	20	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4578823--4578860	18	2.1	18	95	0	67	39	18	21	21	1.93
4588859--4588957	25	4.0	25	74	2	83	36	15	18	30	1.91
4590549--4590595	24	2.0	24	83	8	60	68	4	23	4	1.26
4594105--4594273	30	5.6	32	69	16	128	44	9	8	37	1.67
4594122--4594300	30	6.1	30	70	16	108	45	8	6	39	1.62
4594114--4594277	88	1.9	88	84	2	224	45	7	7	38	1.63
4594217--4594312	28	3.4	28	81	9	90	39	9	5	45	1.59
4596747--4596779	3	11.0	3	100	0	66	0	33	0	66	0.92
4598871--4598923	16	3.3	17	80	17	51	67	0	3	28	1.07
4598884--4598938	21	2.8	19	83	8	65	72	0	0	27	0.85
4608310--4608363	28	1.9	28	81	7	65	46	18	1	33	1.60
4610767--4610806	19	2.1	19	90	0	62	52	0	0	47	1.00
4624672--4624704	4	8.8	4	87	12	52	75	0	0	24	0.80
4634856--4634899	18	2.4	18	88	7	63	47	0	0	52	1.00
4634975--4635038	25	3.0	20	74	24	58	34	0	0	65	0.93
4648044--4648087	22	2.0	22	83	16	56	40	9	0	50	1.34
4648389--4648445	27	2.2	26	81	12	64	33	0	1	64	1.04
4649401--4649437	17	2.1	17	90	5	56	29	0	0	70	0.88
4658662--4658714	26	2.0	26	100	0	106	47	11	3	37	1.58
4661066--4661120	21	2.5	22	88	5	85	27	7	20	45	1.77
4666683--4666753	27	2.6	27	82	8	72	30	25	11	32	1.91
4666705--4666764	27	2.2	26	80	8	66	38	18	13	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4666714--4666842	64	2.0	64	83	3	161	32	21	11	34	1.90
4666689--4666854	91	1.8	91	81	0	206	33	20	13	32	1.91
4666778--4667002	54	4.2	53	76	7	177	33	20	12	32	1.91
4666778--4667013	27	8.7	26	76	6	150	32	20	13	33	1.91
4668869--4668999	29	4.5	28	80	6	136	43	6	9	41	1.61
4668869--4669014	59	2.5	58	81	4	168	43	5	8	41	1.59
4670120--4670181	24	2.6	22	72	22	54	74	1	4	19	1.09
4670393--4670541	16	10.4	15	65	21	70	50	1	2	46	1.21
4670394--4670542	42	3.5	42	81	8	151	51	1	2	45	1.21
4670723--4670769	22	2.1	22	84	0	58	31	19	6	42	1.76
4672019--4672081	26	2.5	24	80	16	74	61	0	0	38	0.96
4679047--4679086	16	2.4	17	79	4	55	7	15	0	77	0.98
4689647--4689833	99	1.9	99	87	3	279	30	6	13	48	1.69
4692173--4692229	22	2.6	22	88	2	80	22	5	24	47	1.72
4692239--4692305	23	3.0	23	84	2	91	40	29	8	20	1.83
4692239--4692323	23	3.8	22	79	4	80	38	29	9	22	1.85
4692288--4692404	22	5.4	22	78	8	105	42	22	11	23	1.85
4692308--4692400	21	4.3	22	77	10	93	45	20	11	22	1.84
4720063--4720091	2	14.5	2	100	0	58	48	0	0	51	1.00
4728313--4728367	27	2.1	25	86	6	74	50	1	1	45	1.22
4732077--4732106	2	15.0	2	100	0	60	50	0	0	50	1.00
4742315--4742433	30	4.2	30	74	11	124	15	30	28	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746099--4746126	2	14.0	2	100	0	56	50	0	0	50	1.00
4748254--4748283	1	30.0	1	100	0	60	100	0	0	0	0.00
4751419--4751462	22	2.0	23	86	4	63	61	4	29	4	1.36
4762802--4762845	15	2.9	15	82	0	52	47	0	6	45	1.29
4762863--4762895	16	2.1	16	94	5	59	66	0	0	33	0.92
4762857--4762892	18	1.9	19	88	5	56	66	0	0	33	0.92
4763450--4763506	27	2.1	27	80	6	62	52	1	35	10	1.46
4775811--4775915	47	2.3	44	76	15	108	56	2	2	38	1.29
4782170--4782206	2	18.5	2	100	0	74	48	0	0	51	1.00
4787639--4787667	9	3.0	10	90	10	51	0	31	0	68	0.89
4787859--4787895	2	18.5	2	88	0	56	45	0	51	2	1.15
4804415--4804453	19	2.0	20	95	5	71	51	5	10	33	1.58
4806029--4806197	89	1.9	89	90	0	266	39	14	12	34	1.83
4806396--4806700	152	2.0	152	94	1	540	40	17	16	25	1.90
4817075--4817128	26	2.1	26	86	6	74	29	24	31	14	1.95
4817159--4817244	26	3.3	26	78	15	88	29	23	27	19	1.98
4817115--4817235	27	4.5	27	75	6	102	31	23	29	14	1.95
4817154--4817315	62	2.9	55	81	9	157	27	24	30	16	1.97
4817277--4817608	27	12.5	26	70	10	100	32	23	28	16	1.96
4817596--4817657	27	2.3	27	83	5	81	35	24	22	17	1.95
4826670--4826708	20	1.9	21	84	5	53	41	20	10	28	1.85
4828078--4828586	252	2.0	255	90	1	801	35	14	18	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4848814--4848858	6	7.5	6	89	0	54	17	6	13	62	1.52
4848814--4848857	12	3.7	12	87	0	61	18	6	13	61	1.54
4855809--4855845	15	2.5	15	90	0	56	29	0	27	43	1.55
4859950--4859976	4	6.8	4	100	0	54	51	22	0	25	1.48
4878367--4878428	30	2.1	30	87	0	88	50	11	12	25	1.74
4879308--4879447	33	4.6	33	73	19	108	66	0	2	30	1.11
4895867--4895894	4	7.0	4	100	0	56	25	0	25	50	1.50
4903404--4903494	46	2.0	46	84	4	121	18	35	14	31	1.91
4907184--4907214	7	4.4	7	100	0	62	45	12	41	0	1.42
4919265--4919295	15	2.1	15	93	0	53	58	6	0	35	1.24

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