genome.fa.s5.2.7.7.80.10.50.1000.18.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  18  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)
8855303--8855361	27	2.2	26	82	14	66	66	8	1	23	1.29
8864116--8864148	16	2.0	17	88	5	50	6	12	3	78	1.04
8865109--8865141	17	1.9	17	93	0	57	48	12	12	27	1.76
8867989--8868013	2	12.5	2	100	0	50	52	48	0	0	1.00
8868508--8868574	28	2.4	28	94	0	116	46	19	8	25	1.79
8869986--8870179	80	2.4	80	86	3	257	34	24	8	33	1.85
8886253--8886362	50	2.2	50	96	1	202	37	22	3	36	1.72
8892858--8892882	13	1.9	13	100	0	50	56	0	0	44	0.99
8893031--8893066	18	2.0	18	88	0	54	50	0	0	50	1.00
8893031--8893067	7	5.3	7	96	0	56	48	0	0	51	1.00
8893055--8893088	17	2.0	17	88	11	52	55	0	0	44	0.99
8895033--8895086	28	1.9	28	85	7	74	35	0	0	64	0.94
8895224--8895272	25	1.9	26	88	12	75	42	18	6	32	1.75
8895333--8895406	29	2.6	29	71	14	73	60	5	1	32	1.27
8896728--8896771	19	2.4	18	81	7	54	38	0	4	56	1.20
8907228--8907263	2	18.0	2	94	0	63	52	0	47	0	1.00
8918185--8918332	42	3.5	43	84	6	178	22	18	20	38	1.93
8919742--8919771	4	7.5	4	92	0	51	23	0	23	53	1.46
8924231--8924264	3	11.3	3	100	0	68	32	35	0	32	1.58
8932934--8932958	12	2.1	12	100	0	50	24	16	16	44	1.86
8938079--8938123	20	2.2	20	80	7	56	13	0	20	66	1.24
8940449--8940605	28	5.4	30	75	13	141	40	8	10	41	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8940443--8940605	59	2.8	57	81	8	188	40	8	10	40	1.70
8945256--8945282	2	13.5	2	100	0	54	48	0	0	51	1.00
8946956--8947026	35	2.0	35	83	0	88	29	26	14	29	1.95
8947828--8947871	22	2.0	22	83	12	56	20	20	13	45	1.85
8955358--8955388	12	2.6	12	100	0	62	0	6	48	45	1.28
8971947--8972119	54	3.1	54	72	15	179	32	5	1	61	1.26
8971993--8972067	22	3.4	23	75	15	79	29	1	0	69	0.97
8971995--8972068	24	3.3	23	73	16	66	29	1	0	68	0.97
8971916--8972147	114	2.0	114	97	0	437	32	4	0	62	1.21
8972220--8972279	7	8.7	7	72	17	54	25	1	0	73	0.93
8972211--8972279	14	4.8	14	81	12	59	26	1	0	72	0.93
8972250--8972281	15	2.1	15	100	0	64	28	0	0	71	0.86
8980307--8980356	26	1.9	26	95	0	91	56	10	22	12	1.65
8980383--8980415	6	5.8	6	89	10	52	54	0	18	27	1.44
8980383--8980415	17	1.9	17	100	0	66	54	0	18	27	1.44
8980383--8980415	11	2.9	12	91	8	52	54	0	18	27	1.44
8986601--8987172	292	2.0	292	89	0	876	34	12	20	32	1.90
8991999--8992033	15	2.3	15	90	0	52	42	22	5	28	1.76
8992675--8992715	21	2.1	19	86	9	55	26	0	12	60	1.31
9000236--9000520	147	2.0	145	88	2	428	29	12	11	45	1.78
9000480--9000535	10	5.4	10	82	4	58	46	7	3	42	1.48
9002008--9002105	35	2.8	35	85	0	124	30	11	24	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9002019--9002109	35	2.6	35	85	0	128	30	10	24	34	1.90
9004826--9004881	24	2.3	24	96	0	103	73	0	25	1	0.93
9006611--9006649	19	2.1	19	85	9	53	33	17	12	35	1.88
9007061--9007085	13	1.9	13	100	0	50	20	8	0	72	1.10
9007470--9007552	42	2.0	42	97	0	157	44	13	13	28	1.81
9009910--9009971	28	2.2	28	91	0	97	53	9	1	35	1.44
9012125--9012183	31	1.9	31	92	0	100	54	8	3	33	1.48
9012275--9012319	19	2.2	21	84	7	58	71	4	22	2	1.15
9012447--9012473	2	13.5	2	100	0	54	51	0	0	48	1.00
9016996--9017048	22	2.5	22	93	3	90	22	30	9	37	1.86
9023526--9023566	21	2.1	19	86	9	55	60	12	0	26	1.31
9028622--9028959	169	2.0	169	97	0	631	33	15	15	35	1.89
9030383--9030410	8	3.5	8	100	0	56	14	10	28	46	1.78
9034337--9034375	19	2.1	19	100	0	78	30	10	25	33	1.89
9035084--9035151	26	2.7	26	97	2	129	33	13	7	45	1.71
9051723--9051758	4	9.0	4	93	0	63	25	0	2	72	0.98
9055012--9055042	2	15.5	2	100	0	62	51	0	0	48	1.00
9082324--9082369	23	2.0	23	83	8	58	41	2	6	50	1.40
9089814--9089883	30	2.2	30	85	10	95	38	8	8	44	1.66
9090503--9090536	2	17.0	2	100	0	68	50	0	0	50	1.00
9090851--9090891	21	2.0	21	85	0	55	41	14	9	34	1.79
9095755--9095825	31	2.3	31	85	4	90	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9109679--9109834	76	2.1	76	98	0	303	32	21	15	31	1.94
9110059--9110124	23	2.8	24	81	9	64	19	6	1	72	1.13
9109898--9110297	206	1.9	207	85	4	551	33	12	7	46	1.71
9113536--9113570	10	3.4	10	88	4	52	65	0	5	28	1.15
9119040--9119065	10	2.6	10	100	0	52	73	0	0	26	0.84
9124373--9124556	73	2.5	73	82	1	199	25	19	17	37	1.93
9128907--9129081	68	2.6	68	85	0	233	40	8	16	35	1.78
9145164--9145218	28	2.0	28	82	7	67	20	23	5	50	1.68
9147239--9147283	22	2.0	24	86	8	67	60	13	0	26	1.34
9147268--9147313	24	1.9	24	86	0	65	63	2	0	34	1.07
9147268--9147318	23	2.2	24	82	3	59	64	1	1	31	1.15
9147299--9147832	260	2.1	260	89	2	824	29	22	19	28	1.98
9147821--9147880	19	3.3	19	73	15	63	63	1	3	31	1.20
9149158--9149325	29	5.9	28	77	12	135	39	11	7	41	1.69
9151316--9151366	21	2.5	21	84	9	61	31	1	7	58	1.37
9155181--9155212	3	10.7	3	100	0	64	68	0	31	0	0.90
9155390--9155424	2	17.5	2	100	0	70	0	51	0	48	1.00
9156991--9157036	22	2.1	22	100	0	92	56	4	0	39	1.19
9167593--9167909	68	4.6	67	74	7	201	29	23	17	30	1.96
9171511--9171830	105	3.0	105	87	0	444	41	14	8	35	1.75
9179830--9179869	21	1.9	21	84	0	53	45	17	12	25	1.83
9188236--9188274	20	2.0	20	89	0	60	43	5	5	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9192417--9192541	51	2.4	52	86	5	164	24	11	48	16	1.78
9199370--9199395	2	13.0	2	100	0	52	50	0	0	50	1.00
9206431--9206481	15	3.4	14	77	20	50	49	3	33	13	1.61
9206423--9206490	30	2.3	30	92	0	109	51	2	32	13	1.56
9211486--9211510	2	12.5	2	100	0	50	0	0	48	52	1.00
9215622--9215649	2	14.0	2	100	0	56	50	50	0	0	1.00
9220053--9220166	40	2.8	40	85	0	147	23	10	27	38	1.88
9220054--9220182	40	3.2	40	80	8	145	24	11	26	37	1.89
9224677--9224718	17	2.5	17	88	3	59	64	0	33	2	1.07
9225164--9225218	23	2.4	23	78	6	58	41	0	0	58	0.98
9247581--9248411	417	2.0	417	94	0	1450	32	13	19	33	1.92
9258466--9258505	20	2.0	21	90	5	64	20	2	7	70	1.24
9272382--9272422	20	2.0	20	100	0	82	34	12	9	43	1.75
9281935--9282007	2	36.0	2	72	2	56	45	6	5	42	1.54
9281993--9282025	16	2.1	16	94	0	57	45	9	12	33	1.73
9282051--9282075	2	12.5	2	100	0	50	0	0	48	52	1.00
9293123--9293180	2	29.0	2	85	0	80	43	0	6	50	1.29
9293123--9293192	26	2.7	26	95	0	122	40	0	10	50	1.36
9293123--9293188	22	3.0	22	93	0	114	40	0	9	50	1.34
9296889--9296926	20	1.9	20	89	10	60	55	0	13	31	1.38
9321402--9321438	13	2.9	13	88	11	51	75	0	24	0	0.80
9325758--9325831	21	3.6	21	78	10	89	24	20	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9325950--9326104	30	5.4	30	72	22	116	39	10	15	34	1.83
9336586--9336747	60	2.7	61	76	13	163	29	30	11	28	1.92
9347279--9347305	13	2.1	13	100	0	54	37	29	0	33	1.58
9347281--9347326	22	2.1	22	87	0	65	43	30	0	26	1.55
9359339--9359424	38	2.3	38	84	4	104	51	22	13	12	1.75
9363564--9363713	35	4.5	33	77	5	131	34	12	18	35	1.87
9363564--9363714	34	4.5	34	77	5	119	34	12	17	35	1.88
9363856--9363924	36	1.9	36	88	5	104	27	10	8	53	1.64
9363929--9364036	48	2.3	48	83	1	137	27	11	13	47	1.77
9364526--9364550	2	12.5	2	100	0	50	48	0	0	52	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