genome.fa.s17.2.7.7.80.10.50.1000.8.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1158 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)
3065125--3065180	28	2.0	28	92	3	94	53	7	7	32	1.55
3065881--3065914	17	1.9	18	88	5	52	55	8	0	35	1.31
3074140--3074216	29	2.6	29	70	13	68	59	6	2	31	1.36
3078314--3078354	2	20.5	2	100	0	82	48	0	0	51	1.00
3086421--3086476	29	1.9	29	85	0	76	50	19	8	21	1.75
3092249--3092308	18	3.0	20	73	22	54	56	0	1	41	1.09
3094277--3094353	25	3.0	25	78	10	84	49	1	1	48	1.17
3096385--3096418	17	1.9	18	88	5	52	50	5	8	35	1.58
3098432--3098479	20	2.3	21	89	3	71	68	2	27	2	1.11
3114154--3114237	35	2.4	35	97	0	159	33	14	20	32	1.92
3115733--3115783	27	2.0	25	84	7	66	37	3	7	50	1.50
3115774--3115818	22	2.0	23	87	12	67	42	0	0	57	0.98
3115799--3115834	13	2.6	14	82	8	56	36	2	0	61	1.11
3125108--3125174	30	2.3	30	84	10	93	34	17	2	44	1.64
3127835--3127963	52	2.5	52	89	2	188	51	10	11	26	1.71
3128681--3128727	20	2.3	20	96	0	85	27	23	10	38	1.88
3137039--3137091	12	3.9	12	74	25	52	54	7	1	35	1.40
3137033--3137089	30	1.9	29	92	3	96	50	8	1	38	1.44
3139384--3139436	21	2.8	18	74	20	54	43	5	1	49	1.37
3139498--3139540	3	14.3	3	90	0	68	27	0	4	67	1.10
3143072--3143128	18	3.1	18	73	14	62	21	14	17	47	1.82
3158345--3158402	28	2.1	28	84	12	77	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165163--3165197	18	1.9	18	88	11	54	2	25	0	71	1.00
3172730--3172792	19	3.3	19	74	14	58	77	0	17	4	0.93
3176780--3176830	21	2.3	21	83	6	66	50	5	0	43	1.26
3196494--3196535	3	14.0	3	94	0	75	66	2	0	30	1.04
3205231--3205498	36	7.4	36	76	15	268	18	6	52	22	1.67
3205234--3205332	51	1.9	51	93	0	171	18	6	52	23	1.67
3205224--3205498	72	3.8	72	80	10	310	17	6	53	22	1.67
3205298--3205497	21	9.7	21	65	29	92	18	6	53	22	1.66
3205562--3205721	15	10.2	15	75	11	79	18	5	53	22	1.63
3205593--3205757	66	2.5	67	96	1	305	18	5	53	22	1.65
3205739--3205778	21	1.9	21	94	0	71	12	5	57	25	1.55
3205741--3205791	21	2.4	21	87	6	68	13	7	52	25	1.67
3205800--3205897	36	2.7	36	93	0	160	16	8	53	22	1.69
3205808--3205875	21	3.5	21	64	22	58	16	5	54	23	1.63
3205824--3206258	51	8.5	52	75	12	260	17	8	51	22	1.72
3205880--3205982	15	6.5	15	69	14	64	13	8	53	24	1.68
3205985--3206061	15	5.1	15	78	6	84	18	7	50	23	1.72
3206087--3206433	36	9.5	36	76	11	296	19	7	49	23	1.73
3206018--3206363	105	3.3	105	84	4	396	19	7	50	23	1.72
3206087--3206443	71	4.9	72	77	12	325	19	7	49	23	1.72
3206332--3206360	15	1.9	15	100	0	58	13	0	55	31	1.39
3205984--3206291	15	20.2	15	64	19	77	19	8	50	22	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206287--3206464	80	2.2	81	89	5	288	19	4	50	25	1.67
3206411--3206449	15	2.6	15	91	0	69	17	0	53	28	1.44
3214500--3214584	44	1.9	44	88	4	127	44	11	17	25	1.83
3223087--3223139	5	10.4	5	76	11	54	73	3	1	20	1.08
3224915--3224963	17	2.9	16	87	6	53	79	2	0	18	0.83
3224927--3224962	8	4.5	8	90	10	56	80	0	0	19	0.71
3224932--3224963	9	3.7	9	91	8	57	81	0	0	18	0.70
3230385--3230441	28	2.0	28	96	0	105	24	26	7	42	1.80
3232252--3232300	17	2.9	17	79	11	57	51	0	6	42	1.27
3233233--3233401	50	3.4	50	91	0	257	24	16	23	35	1.95
3236049--3236078	2	15.0	2	100	0	60	50	0	0	50	1.00
3236562--3236594	15	2.3	15	89	5	50	63	6	6	24	1.40
3236796--3236825	2	15.0	2	100	0	60	50	0	0	50	1.00
3243509--3243588	36	2.3	35	82	10	92	33	16	21	28	1.95
3247532--3247565	15	2.4	14	85	5	50	20	2	0	76	0.92
3247544--3247580	19	1.9	19	94	0	65	21	5	0	72	1.04
3247545--3247585	19	2.2	19	86	4	57	21	7	0	70	1.11
3247913--3248287	48	7.6	49	75	11	282	39	19	13	26	1.89
3247913--3248287	100	3.8	97	77	10	350	39	19	13	26	1.89
3247913--3248287	197	1.9	195	81	8	447	39	19	13	26	1.89
3249026--3249055	8	3.6	8	95	4	51	0	13	0	86	0.57
3253345--3253383	9	4.6	8	90	9	60	12	0	2	84	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3253347--3253380	17	1.9	18	94	5	61	14	0	2	82	0.79
3253995--3254046	13	3.8	13	76	14	50	48	1	0	50	1.12
3254733--3254966	95	2.5	95	85	1	308	28	8	19	44	1.79
3264418--3264536	61	2.0	60	86	3	166	33	5	15	45	1.70
3264643--3264770	21	6.0	21	71	13	64	22	12	21	42	1.86
3264709--3264818	23	4.8	24	79	4	88	23	9	28	39	1.85
3264733--3264815	23	3.7	23	86	3	114	25	8	30	36	1.85
3266445--3268501	583	3.5	580	79	5	2088	35	12	15	35	1.86
3266445--3268582	591	3.6	589	79	6	2163	35	12	15	35	1.85
3272713--3272742	2	15.0	2	92	0	51	46	0	0	53	1.00
3272731--3272925	106	1.8	106	86	2	284	38	17	10	33	1.83
3275146--3275196	20	2.3	24	83	16	74	29	0	1	68	1.00
3275408--3276548	253	4.5	250	77	6	1034	33	12	6	47	1.67
3276696--3276744	16	3.1	16	77	11	55	44	2	0	53	1.12
3277621--3277701	41	2.0	41	85	4	110	35	8	18	37	1.82
3279439--3279490	13	3.8	13	74	18	52	7	11	1	78	1.02
3279446--3279478	17	1.9	17	88	11	50	9	9	3	78	1.05
3281994--3282050	16	3.7	15	74	9	53	1	36	1	59	1.18
3283920--3283957	14	2.5	15	87	8	51	13	0	7	78	0.94
3284166--3284221	24	2.4	25	77	20	66	62	3	5	28	1.34
3290827--3290904	41	1.9	41	83	0	102	42	15	5	37	1.69
3292799--3294586	252	7.2	251	74	10	1055	47	7	12	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3294786--3294886	25	4.4	23	68	22	61	63	0	1	33	1.12
3294818--3294843	10	2.6	10	100	0	52	73	0	0	26	0.84
3304037--3304091	11	5.2	11	74	24	55	27	0	1	70	0.97
3304042--3304091	21	2.4	21	80	16	59	26	0	2	72	0.96
3310704--3310738	17	2.1	17	94	0	61	28	25	11	34	1.91
3316741--3316773	15	2.1	16	94	5	59	24	9	6	60	1.49
3317051--3317102	2	26.0	2	100	0	104	50	50	0	0	1.00
3317370--3317405	15	2.3	16	90	4	56	19	0	0	80	0.71
3320178--3320215	16	2.4	16	95	0	67	21	21	31	26	1.98
3320594--3320674	41	2.0	41	82	4	101	40	17	3	38	1.67
3322472--3322523	27	2.0	26	96	3	95	65	0	1	32	1.04
3322658--3322735	22	3.6	22	67	19	56	39	5	1	53	1.31
3322711--3322798	27	3.3	26	75	15	83	43	0	1	55	1.07
3322713--3322798	26	3.3	25	79	11	84	43	0	1	55	1.07
3322906--3322963	27	2.1	28	81	9	66	36	1	0	62	1.06
3324232--3324262	16	1.9	16	100	0	62	16	19	6	58	1.59
3325832--3325896	30	2.2	30	88	2	96	26	15	15	43	1.86
3331834--3331904	26	2.7	26	82	4	72	46	12	8	32	1.72
3331849--3331904	26	2.2	26	87	3	78	50	10	8	30	1.68
3354502--3354526	13	1.9	13	100	0	50	36	0	16	48	1.46
3355416--3355585	92	1.8	93	91	1	279	25	16	17	40	1.90
3357273--3357305	3	11.0	3	87	12	50	63	3	0	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357263--3357310	12	3.7	13	81	16	55	60	6	4	29	1.40
3357810--3357838	2	14.5	2	100	0	58	51	0	0	48	1.00
3361281--3361347	30	2.3	30	82	7	84	32	7	4	55	1.48
3371526--3371563	18	2.0	20	90	10	62	47	0	2	50	1.15
3372847--3372894	19	2.6	18	80	6	60	47	10	2	39	1.49
3372631--3373442	253	3.2	250	81	6	910	34	10	6	48	1.62
3373996--3374043	14	3.5	13	78	13	51	37	0	2	60	1.09
3387342--3387380	18	2.0	20	85	14	55	41	12	5	41	1.65
3390241--3390282	16	2.6	16	96	0	75	23	30	4	40	1.75
3392390--3392416	2	13.5	2	100	0	54	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10