genome.fa.s6.2.7.7.80.10.50.1000.12.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

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  12  of  22  ( 2632 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)
4872881--4873171	55	5.3	55	75	9	240	40	15	7	36	1.76
4872906--4873160	55	4.7	54	77	4	244	40	14	7	36	1.76
4872873--4873274	82	4.9	82	74	6	289	39	16	8	35	1.80
4872881--4873240	27	13.2	28	74	4	202	39	16	8	35	1.79
4872909--4873231	55	5.9	56	75	9	199	39	16	8	35	1.79
4873196--4873272	25	2.9	27	78	5	95	38	23	11	25	1.89
4875373--4875487	59	2.0	58	94	5	205	53	6	16	23	1.67
4877507--4877610	33	3.1	33	78	9	104	42	8	13	35	1.75
4883801--4883836	2	18.5	2	94	5	65	50	0	50	0	1.00
4887275--4887305	2	16.0	2	93	6	55	48	0	0	51	1.00
4900259--4900296	18	2.0	20	85	10	53	34	0	23	42	1.55
4901478--4901512	17	2.0	18	88	5	54	51	5	0	42	1.25
4901702--4901740	13	3.1	13	85	7	53	53	10	0	35	1.35
4902073--4902144	29	2.5	29	100	0	144	48	6	18	26	1.73
4903980--4904004	13	1.9	13	100	0	50	20	8	0	72	1.10
4904336--4904515	96	1.9	97	83	3	238	32	31	14	21	1.93
4908869--4908914	15	2.9	16	84	15	60	39	4	8	47	1.54
4913168--4913192	2	12.5	2	100	0	50	0	48	0	52	1.00
4914214--4914305	45	2.0	45	97	0	175	28	10	11	48	1.73
4918586--4918616	5	6.2	5	100	0	62	0	58	0	41	0.98
4924822--4924849	6	4.7	6	100	0	56	67	0	0	32	0.91
4924822--4924860	18	2.2	18	86	9	53	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4926806--4926944	74	1.9	74	89	3	217	46	9	5	39	1.58
4933673--4933715	22	2.0	22	86	9	61	48	4	2	44	1.36
4937914--4937960	3	15.7	3	100	0	94	31	0	0	68	0.90
4938880--4938906	2	13.5	2	100	0	54	48	0	0	51	1.00
4940346--4940540	60	3.3	60	73	12	208	32	3	1	62	1.19
4940377--4940549	54	3.1	54	70	18	163	32	4	0	62	1.20
4940415--4940578	15	10.0	16	68	16	86	31	3	0	65	1.12
4940399--4940570	57	3.2	49	68	26	123	31	3	0	63	1.15
4940426--4940486	9	7.2	9	72	18	51	27	0	0	72	0.85
4940345--4940615	33	8.6	32	65	21	110	32	2	0	64	1.14
4940431--4940590	24	6.7	24	69	16	84	31	3	0	65	1.09
4940346--4940577	114	2.0	114	95	0	419	32	3	0	63	1.17
4940402--4940577	54	3.1	54	73	17	178	31	3	0	64	1.14
4940557--4940620	20	3.2	20	76	8	76	29	0	0	70	0.88
4940351--4940610	14	18.0	15	67	25	95	31	3	0	64	1.14
4941316--4941390	31	2.4	33	85	12	97	26	2	0	70	1.00
4941526--4941550	13	1.9	13	100	0	50	40	20	0	40	1.52
4944913--4945217	151	2.0	152	92	0	513	46	19	10	23	1.81
4953914--4953962	25	2.0	25	84	15	66	51	0	2	46	1.12
4953933--4953976	18	2.4	18	85	11	54	50	0	0	50	1.00
4956637--4956702	18	3.9	16	72	14	51	42	3	4	50	1.38
4957074--4957128	24	2.6	19	74	20	56	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4967303--4967351	16	3.1	16	96	0	89	53	20	14	12	1.73
4968544--4968568	2	12.5	2	100	0	50	52	0	0	48	1.00
4971135--4971177	16	2.7	15	86	13	59	55	4	2	37	1.33
4971689--4971762	36	2.0	36	89	7	114	50	10	14	24	1.75
4971869--4972010	35	4.0	35	74	12	119	40	7	25	26	1.83
4971868--4972003	71	1.9	71	86	3	193	39	8	26	25	1.83
4972178--4972252	38	2.0	38	86	0	105	42	10	18	28	1.83
4972500--4972532	15	2.1	17	88	11	52	27	0	0	72	0.85
4973593--4973622	2	15.0	2	100	0	60	50	0	0	50	1.00
4976294--4976336	22	1.9	23	90	4	70	41	0	2	55	1.12
4976343--4976380	18	2.1	19	85	5	51	50	2	0	47	1.15
4981401--4981453	18	2.8	20	74	23	53	43	1	1	52	1.23
4983763--4983794	2	16.0	2	100	0	64	50	0	0	50	1.00
4985392--4985492	53	1.9	53	93	0	175	25	12	25	35	1.92
4997730--4997805	39	1.9	39	92	5	127	47	11	1	39	1.49
4999391--4999442	25	2.1	24	86	13	70	42	0	0	57	0.98
5000852--5000888	12	3.1	12	88	11	58	83	0	16	0	0.64
5000842--5000888	17	2.7	17	86	3	58	78	2	19	0	0.85
5008636--5008670	17	2.1	17	89	5	54	51	0	2	45	1.16
5009166--5009347	31	5.9	29	76	14	127	20	20	2	56	1.52
5011016--5011090	38	2.0	38	89	0	114	38	25	9	26	1.86
5011172--5011202	13	2.3	14	94	5	55	32	6	38	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5011193--5011337	71	2.0	72	89	1	220	37	18	13	30	1.90
5013876--5014180	166	1.8	169	92	2	517	19	13	23	44	1.85
5015380--5015418	19	2.1	19	85	0	51	35	7	17	38	1.79
5016868--5016969	28	3.6	27	76	15	80	46	8	6	38	1.62
5016865--5016979	59	2.0	57	83	10	144	44	9	6	39	1.64
5016833--5016980	27	5.2	28	73	13	88	42	8	8	41	1.64
5018160--5018243	35	2.3	37	77	6	91	34	3	9	52	1.51
5018201--5018293	37	2.5	35	79	17	91	37	3	4	54	1.36
5018233--5018284	18	2.8	18	81	13	61	34	1	1	61	1.18
5023627--5023665	3	13.0	3	94	0	69	69	0	0	30	0.89
5028639--5028744	53	2.0	53	100	0	212	35	15	15	33	1.88
5029651--5029794	72	2.0	71	91	1	234	30	18	15	34	1.93
5052238--5052291	27	2.0	27	100	0	108	37	7	25	29	1.83
5060757--5060796	6	6.7	6	97	0	71	55	0	45	0	0.99
5084158--5084183	2	13.0	2	100	0	52	50	0	0	50	1.00
5084353--5084396	20	2.1	21	87	4	63	27	0	0	72	0.85
5084338--5084410	29	2.5	29	78	10	78	35	2	0	61	1.10
5090234--5090291	28	2.1	28	96	0	107	17	17	29	36	1.92
5095528--5095581	27	2.0	28	82	10	67	55	0	1	42	1.10
5116204--5116235	16	2.0	16	100	0	64	37	37	6	18	1.76
5122032--5122136	43	2.4	45	85	9	137	63	0	24	10	1.32
5136382--5136433	26	2.0	26	84	0	68	42	21	3	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5143634--5143786	80	1.9	80	94	2	272	35	20	9	33	1.85
5146063--5146113	19	2.6	19	78	12	59	41	0	1	56	1.10
5146173--5146207	17	2.1	17	94	5	63	40	0	0	60	0.97
5147240--5147294	20	3.1	17	76	19	58	32	0	3	63	1.12
5165339--5165372	18	1.9	17	88	5	50	52	20	0	26	1.46
5167128--5167213	30	2.8	31	77	10	79	36	6	0	56	1.26
5167756--5167817	29	2.2	29	82	8	74	41	1	1	54	1.19
5183486--5183518	17	1.9	17	88	11	50	42	0	3	54	1.15
5203085--5203129	20	2.1	22	84	8	58	33	8	13	44	1.75
5204448--5204494	3	15.7	3	100	0	94	31	0	0	68	0.90
5212084--5212136	26	2.1	25	82	10	63	41	5	16	35	1.73
5213214--5213256	21	2.0	22	86	4	61	51	9	4	34	1.55
5216091--5216138	21	2.3	21	85	7	62	37	2	0	60	1.09
5216705--5216776	36	1.9	36	86	8	99	33	2	2	61	1.25
5217073--5217112	20	2.0	20	90	9	64	42	0	2	55	1.13
5239777--5239820	22	2.0	22	90	0	70	25	20	15	38	1.92
5242472--5242753	153	1.8	152	84	8	385	40	16	12	30	1.85
5248229--5248286	28	2.0	29	96	3	109	31	10	13	44	1.78
5249829--5249859	16	1.9	16	93	0	53	45	3	0	51	1.17
5250151--5250181	15	2.0	16	93	6	55	51	3	0	45	1.17
5250152--5250214	15	3.8	17	71	21	53	49	1	1	47	1.20
5250227--5250304	40	1.9	41	86	2	113	51	2	2	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5250227--5250332	40	2.6	39	78	10	97	49	1	1	47	1.23
5250281--5250343	27	2.3	28	83	10	85	42	0	1	55	1.09
5253649--5253683	6	5.8	6	93	0	52	80	14	5	0	0.89
5263263--5263341	39	2.0	39	100	0	158	45	11	12	30	1.77
5268953--5268978	3	8.7	3	100	0	52	34	34	0	30	1.58
5277575--5277609	13	2.7	13	95	0	61	40	5	14	40	1.69
5277848--5277874	14	1.9	14	100	0	54	48	0	0	51	1.00
5277904--5277970	32	2.1	32	82	2	80	52	5	1	40	1.35
5279518--5279555	20	1.9	20	88	0	58	76	15	2	5	1.08
5301386--5301436	26	1.9	27	84	11	70	27	11	15	45	1.81

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