genome.fa.s13.2.7.7.80.10.50.1000.10.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  10  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)
4085153--4085235	40	2.0	40	90	2	130	32	34	18	14	1.91
4092064--4092285	80	2.8	79	85	0	264	34	23	10	31	1.89
4101995--4102026	15	2.1	15	94	0	55	34	12	3	50	1.56
4102931--4103000	30	2.3	31	85	2	88	54	4	12	28	1.57
4106080--4106134	15	3.7	14	83	9	56	38	7	21	32	1.81
4106283--4106457	55	3.1	58	72	18	179	33	3	0	62	1.16
4106353--4106429	21	3.5	23	76	16	83	31	1	0	67	0.99
4106387--4106452	15	4.2	15	69	17	53	36	1	0	62	1.05
4106384--4106542	18	9.8	16	67	17	69	32	3	0	62	1.17
4106357--4106429	22	3.4	22	80	12	80	30	1	0	68	0.98
4106353--4106430	23	3.5	23	75	19	76	32	1	0	66	1.00
4106283--4106507	110	2.0	114	88	5	343	32	4	0	62	1.20
4106445--4106502	15	3.6	16	77	11	55	32	5	1	60	1.29
4106461--4106510	16	3.0	17	70	5	57	32	6	0	62	1.20
4106445--4106510	33	2.1	31	88	5	96	31	6	1	60	1.30
4112951--4112982	12	2.4	14	85	15	50	15	9	0	75	1.05
4123395--4123448	24	2.3	24	87	3	74	42	16	3	37	1.66
4123884--4123927	18	2.5	17	85	3	52	36	6	13	43	1.71
4123884--4123936	17	3.1	17	86	2	61	39	7	13	39	1.73
4132387--4132413	13	2.1	13	100	0	54	70	7	0	22	1.12
4139043--4139077	2	17.5	2	87	0	52	54	0	0	45	0.99
4147111--4147144	18	1.9	18	94	5	61	79	0	0	20	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147194--4147256	33	1.9	32	83	6	81	63	0	4	31	1.15
4160830--4160865	18	2.0	18	88	0	54	75	8	8	8	1.21
4161068--4161094	14	1.9	14	100	0	54	22	37	18	22	1.95
4161435--4161474	15	2.7	15	92	0	62	35	20	7	37	1.81
4164709--4164733	13	1.9	13	100	0	50	16	12	8	64	1.49
4169083--4169146	31	2.1	31	90	0	101	15	18	14	51	1.76
4176892--4177012	39	3.2	39	82	7	140	31	14	29	24	1.94
4181612--4181647	2	18.0	2	94	0	63	47	2	0	50	1.15
4183315--4183348	16	2.1	16	100	0	68	38	0	0	61	0.96
4183598--4183662	30	2.2	30	88	5	96	38	7	1	52	1.40
4186241--4186306	23	3.3	20	75	16	57	36	1	3	59	1.22
4186241--4186328	11	8.0	11	68	20	51	36	2	4	56	1.32
4195090--4195114	2	12.5	2	100	0	50	48	0	0	52	1.00
4197601--4197641	22	1.9	22	85	5	57	60	0	9	29	1.28
4201995--4202399	200	2.0	200	95	0	720	33	10	22	33	1.89
4206964--4208813	247	7.5	245	79	8	1829	35	10	5	48	1.62
4206952--4208813	987	1.9	973	81	7	2253	35	10	5	48	1.62
4206972--4209073	740	2.8	735	85	7	2729	35	10	5	48	1.60
4208793--4208837	3	15.0	3	100	0	90	33	0	0	66	0.92
4206952--4209266	755	3.1	728	84	7	2464	35	9	5	48	1.60
4214236--4214408	79	2.2	79	82	4	197	42	8	6	41	1.62
4221140--4221209	20	3.5	20	72	16	63	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4221132--4221643	21	22.7	23	64	23	82	33	1	0	64	1.08
4221172--4221550	8	43.9	9	63	26	60	34	1	0	63	1.07
4221243--4221554	32	9.6	33	67	18	113	33	1	0	64	1.06
4221065--4221516	113	4.0	114	91	5	728	34	2	0	62	1.10
4221473--4221521	6	7.7	6	78	13	53	22	0	0	77	0.77
4221478--4221660	55	3.5	52	72	16	139	28	1	0	69	1.02
4221567--4221615	25	2.0	25	84	4	64	30	0	0	69	0.89
4221598--4221668	34	2.1	33	87	12	101	30	1	0	67	0.99
4221486--4221645	89	1.9	83	83	15	209	29	1	0	68	1.05
4221579--4221671	34	2.6	37	73	18	88	31	1	0	67	0.98
4222180--4222219	17	2.2	19	86	8	57	12	10	7	70	1.35
4228184--4228358	79	2.2	79	84	2	217	45	9	5	40	1.60
4230458--4230606	76	1.9	77	82	8	187	42	12	16	28	1.85
4231602--4231826	124	1.8	125	85	4	321	40	17	16	25	1.90
4231742--4231901	48	3.4	47	80	7	184	38	21	16	23	1.93
4231931--4232036	28	3.7	29	83	5	135	47	14	17	20	1.83
4232269--4232374	49	2.1	49	81	11	126	38	19	11	30	1.87
4232961--4232988	2	14.0	2	100	0	56	50	0	0	50	1.00
4236571--4236622	21	2.5	22	81	9	63	42	0	0	57	0.98
4236667--4236732	27	2.4	29	87	7	93	40	1	1	56	1.18
4236704--4236746	22	1.9	23	85	4	61	48	4	0	46	1.22
4247684--4247897	118	1.8	118	91	2	358	28	27	10	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4254589--4254834	23	11.2	21	68	21	109	33	2	0	63	1.09
4254753--4255166	30	13.4	30	66	22	125	33	2	0	64	1.11
4254577--4255126	111	5.0	111	88	8	787	33	2	0	63	1.12
4255082--4255165	32	2.6	32	83	7	98	29	2	0	67	1.03
4255202--4255274	30	2.4	31	88	4	105	30	1	0	68	0.98
4255144--4255261	56	2.1	56	84	6	150	29	2	0	66	1.10
4255194--4255268	13	5.5	12	76	20	60	28	1	0	70	0.95
4259086--4259205	63	1.9	63	82	3	152	24	27	15	33	1.95
4259598--4259622	13	1.9	13	100	0	50	32	0	36	32	1.58
4265041--4265256	31	7.0	31	88	1	299	39	19	22	18	1.92
4265045--4265303	93	2.8	93	88	1	340	38	20	21	19	1.93
4265048--4265303	31	8.3	31	85	1	298	39	20	21	19	1.93
4265914--4265993	22	3.6	21	70	20	65	22	31	20	26	1.98
4265828--4266420	47	12.9	46	77	12	451	25	29	17	27	1.97
4265890--4266421	92	5.7	92	78	9	466	25	29	16	27	1.97
4265890--4266422	232	2.3	230	87	4	759	25	29	16	27	1.97
4266310--4266387	24	3.3	23	68	22	63	29	25	17	26	1.98
4275923--4275977	2	27.5	2	100	0	110	49	0	0	50	1.00
4282141--4282179	2	19.5	2	100	0	78	48	0	51	0	1.00
4285753--4285797	20	2.3	20	92	3	74	51	0	0	48	1.00
4290908--4290943	14	2.6	14	100	0	72	5	16	19	58	1.58
4301399--4301450	24	2.1	25	82	10	63	40	5	7	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302172--4302199	3	9.3	3	100	0	56	0	32	0	67	0.91
4302365--4302404	16	2.7	14	81	11	53	2	35	0	62	1.09
4303452--4303476	11	2.3	11	100	0	50	0	8	0	92	0.40
4305038--4305086	19	2.6	19	76	0	53	57	2	2	38	1.22
4310129--4310188	26	2.3	27	77	13	72	43	5	8	43	1.56
4311526--4311556	16	1.9	16	93	0	53	25	22	3	48	1.66
4314988--4315013	2	13.0	2	100	0	52	0	50	0	50	1.00
4328103--4328196	38	2.5	38	84	10	122	25	13	26	34	1.94
4334198--4334246	21	2.3	21	79	6	55	32	10	16	40	1.82
4334972--4335000	2	14.5	2	100	0	58	48	0	0	51	1.00
4345144--4345347	105	1.9	105	94	2	356	19	22	13	44	1.86
4349278--4349462	95	1.9	95	92	0	307	41	7	9	42	1.64
4358014--4358085	29	2.5	30	76	15	87	62	0	1	36	1.04
4358079--4358119	20	2.1	21	86	13	61	41	0	2	56	1.13
4360852--4361032	100	1.8	100	86	3	265	28	12	22	36	1.91
4364055--4364080	8	3.2	8	100	0	52	46	0	0	53	1.00
4365790--4365819	13	2.2	14	94	5	53	36	0	0	63	0.95
4372130--4372155	4	6.5	4	100	0	52	0	46	0	53	1.00
4374585--4374609	6	4.2	6	100	0	50	16	16	52	16	1.76
4382300--4382379	35	2.3	35	80	0	88	26	12	16	45	1.83
4397725--4397822	49	2.0	50	88	6	146	13	30	11	44	1.78
4401273--4401314	21	2.0	21	90	0	66	21	19	16	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4404175--4404223	2	26.0	2	88	12	77	48	0	0	51	1.00
4426851--4426925	30	2.5	29	77	12	80	38	8	18	34	1.80
4435703--4435746	17	2.6	17	81	0	52	47	25	4	22	1.70
4436893--4436926	16	2.1	17	88	5	52	70	0	0	29	0.87
4437120--4437241	56	2.2	56	80	1	136	36	16	3	44	1.64
4437638--4437681	22	2.0	21	83	12	54	52	0	4	43	1.22
4437694--4437738	19	2.4	19	85	3	56	44	4	6	44	1.50
4439477--4439516	19	2.1	19	100	0	80	27	0	5	67	1.11
4440873--4440951	35	2.2	36	86	2	106	30	16	26	26	1.97
4444162--4444186	2	12.5	2	100	0	50	0	48	0	52	1.00

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