genome.fa.s19.2.7.7.80.10.50.1000.8.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_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3572271

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1018 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)
2840317--2840345	2	14.5	2	100	0	58	48	0	51	0	1.00
2843904--2843930	13	2.1	13	100	0	54	7	0	92	0	0.38
2846919--2846973	16	3.1	18	79	12	69	49	0	0	50	1.00
2846921--2846978	8	6.9	8	74	18	55	44	0	0	55	0.99
2853080--2853154	33	2.3	33	83	0	96	45	2	8	44	1.47
2859553--2859586	3	11.3	3	100	0	68	64	0	35	0	0.94
2869580--2869604	2	12.5	2	100	0	50	52	0	48	0	1.00
2870709--2870782	33	2.4	31	79	14	82	37	0	2	59	1.12
2910270--2910357	45	2.0	45	97	0	167	25	14	13	46	1.81
2917875--2917959	38	2.2	39	81	6	102	11	16	20	51	1.75
2918272--2918597	162	2.0	162	95	0	580	32	15	20	31	1.94
2923164--2923324	29	5.5	28	80	7	160	37	6	11	44	1.65
2923164--2923295	59	2.3	57	84	5	158	37	6	12	43	1.69
2927081--2927763	348	2.0	347	82	5	851	24	15	22	36	1.94
2929249--2929307	22	2.7	22	97	0	109	28	20	23	27	1.99
2940781--2940818	18	2.1	18	90	0	58	52	31	5	10	1.58
2943170--2943225	21	2.7	21	76	13	53	62	0	3	33	1.12
2943253--2943321	11	6.5	11	74	11	56	72	2	0	24	0.98
2944471--2944593	35	3.5	35	79	0	129	47	13	17	22	1.82
2947304--2947387	40	2.1	40	97	2	161	35	7	7	50	1.57
2956602--2956698	51	1.9	51	91	4	160	32	10	13	43	1.78
2956603--2956693	26	3.5	26	76	11	98	31	10	13	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2956975--2957015	21	2.0	21	100	0	82	63	21	4	9	1.44
2958448--2958511	30	2.1	30	91	5	103	32	7	4	54	1.50
2958771--2958834	30	2.1	30	82	11	76	54	3	9	32	1.48
2962057--2962089	16	2.1	16	94	0	57	45	12	3	39	1.57
2965391--2965434	21	2.0	22	91	4	72	31	0	6	61	1.22
2966166--2966202	19	1.9	19	100	0	74	27	16	5	51	1.66
2969982--2970033	2	26.0	2	100	0	104	50	0	0	50	1.00
2979042--2979073	15	2.1	15	94	0	55	68	0	0	31	0.90
2979148--2979242	18	5.3	20	66	26	54	68	1	2	28	1.08
2979197--2979411	113	1.9	113	95	0	385	61	1	4	32	1.23
2979547--2979605	15	3.9	15	82	6	75	28	23	13	33	1.93
2982887--2982916	15	1.9	16	93	6	53	36	30	0	33	1.58
2987518--2987565	12	4.0	12	91	8	80	41	16	41	0	1.48
2990212--2990272	29	2.1	29	84	6	79	13	24	1	60	1.42
3011251--3011367	50	2.3	51	85	2	157	47	9	11	31	1.72
3022864--3022905	21	2.0	20	86	13	59	38	0	9	52	1.34
3025168--3025228	31	2.0	29	81	12	70	37	1	0	60	1.07
3025722--3025820	35	2.8	35	78	6	94	46	15	12	26	1.80
3027483--3027517	2	17.5	2	100	0	70	51	0	0	48	1.00
3050603--3050650	20	2.3	20	85	3	60	47	14	0	37	1.44
3053049--3053075	2	13.5	2	100	0	54	48	0	0	51	1.00
3055399--3055428	15	1.9	16	93	6	53	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3055668--3055733	22	3.0	21	68	20	53	59	9	13	18	1.60
3057884--3057935	24	2.2	24	82	0	59	80	3	11	3	0.97
3059090--3059127	16	2.3	17	90	4	60	60	0	5	34	1.19
3061902--3061946	15	2.9	16	74	12	58	35	11	24	28	1.90
3062097--3062328	28	8.2	28	65	23	71	31	2	0	65	1.06
3062167--3062518	20	17.2	19	66	25	77	31	1	0	65	1.08
3062096--3062606	103	5.0	104	83	12	564	32	2	0	64	1.11
3062370--3062509	5	28.2	5	65	16	51	31	0	0	67	1.01
3062147--3062585	16	26.5	17	63	21	64	32	2	0	64	1.11
3062556--3062743	7	26.9	7	64	19	56	27	2	2	67	1.15
3062096--3062609	101	5.0	101	82	14	492	32	2	0	64	1.10
3062677--3062755	34	2.3	34	80	8	90	31	0	0	68	0.90
3074653--3074716	24	2.7	23	78	4	74	31	10	14	43	1.79
3074701--3074942	27	8.9	27	76	6	177	42	11	7	38	1.69
3074701--3074942	55	4.4	55	74	3	204	42	11	7	38	1.69
3074722--3074942	109	2.0	109	85	1	300	40	12	6	39	1.70
3074704--3074939	82	2.9	81	79	3	231	42	12	6	38	1.69
3074737--3074942	55	3.8	54	76	6	209	42	11	5	40	1.65
3089541--3089600	20	2.9	21	80	16	63	31	5	1	61	1.27
3089541--3089577	19	1.9	19	89	10	58	35	0	0	64	0.94
3090150--3090195	23	2.0	23	82	0	56	47	0	0	52	1.00
3104871--3104901	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109301--3109335	2	18.0	2	94	5	63	48	0	0	51	1.00
3111377--3111412	2	18.0	2	100	0	72	50	0	50	0	1.00
3111415--3111517	1	103.0	1	92	0	170	0	0	96	2	0.27
3123294--3123380	38	2.3	38	87	0	129	41	17	8	33	1.78
3129576--3129619	23	1.9	23	86	9	63	63	0	0	36	0.95
3129547--3129629	32	2.6	32	81	7	87	60	0	0	39	0.97
3129616--3129651	18	2.0	18	88	0	54	55	0	0	44	0.99
3135703--3135953	123	2.0	123	98	0	484	26	19	23	30	1.98
3142182--3142210	14	2.1	14	100	0	58	27	0	17	55	1.42
3142308--3142356	18	2.7	18	81	6	55	59	2	2	36	1.21
3150114--3150182	35	2.0	35	88	5	104	26	20	21	31	1.98
3157605--3157638	17	1.9	18	88	5	52	50	2	2	44	1.32
3159301--3159326	3	8.7	3	100	0	52	34	30	0	34	1.58
3161359--3161903	60	9.0	61	80	2	465	34	16	12	35	1.87
3177418--3177517	49	2.0	49	84	3	130	30	14	17	39	1.88
3189501--3189544	15	2.9	15	89	0	70	31	29	6	31	1.84
3192823--3192854	14	2.1	16	88	11	50	37	0	6	56	1.25
3200225--3200274	22	2.3	22	100	0	100	18	24	24	34	1.96
3223725--3223760	18	2.0	18	88	0	54	36	22	16	25	1.94
3237796--3237831	14	2.6	14	86	4	56	80	0	0	19	0.71
3256160--3256192	2	17.5	2	87	12	52	48	0	0	51	1.00
3266466--3266493	7	4.0	7	100	0	56	28	0	57	14	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268117--3268169	27	2.0	27	85	3	72	64	5	1	28	1.27
3271861--3271894	16	2.1	16	88	0	50	11	8	41	38	1.73
3292575--3292605	2	15.5	2	100	0	62	48	0	51	0	1.00
3299922--3299964	2	21.5	2	95	0	77	51	0	48	0	1.00
3300613--3300643	3	10.3	3	100	0	62	67	0	0	32	0.91
3305512--3305548	3	12.3	3	94	0	65	64	0	0	35	0.94
3318090--3318175	34	2.5	33	80	16	86	63	3	8	24	1.37
3318153--3318188	14	2.6	15	83	16	51	83	0	0	16	0.65
3334576--3334618	2	22.5	2	81	9	54	46	2	2	48	1.27
3338403--3338460	30	1.9	30	82	0	71	12	17	27	43	1.84
3340141--3340212	35	2.1	35	91	0	117	27	15	12	44	1.82
3340267--3340319	22	2.4	23	84	9	74	45	18	20	15	1.85
3342441--3342489	22	2.3	22	85	3	64	61	2	24	12	1.42
3343243--3343291	22	2.2	23	88	3	73	22	12	30	34	1.91
3343243--3343299	23	2.5	22	88	2	78	22	12	29	35	1.91
3343319--3343371	21	2.5	21	82	8	72	43	20	11	24	1.85
3343319--3343378	21	2.9	19	79	16	66	45	20	10	25	1.81
3344190--3344227	19	2.0	20	94	5	69	68	0	2	28	1.03
3347373--3347417	24	1.9	23	81	4	54	62	4	0	33	1.15
3352442--3352480	18	2.2	18	86	9	53	51	0	0	48	1.00
3378583--3378644	23	2.7	23	84	0	88	27	12	25	33	1.93
3378655--3378726	22	3.3	22	78	3	83	44	15	11	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383009--3383065	29	2.0	28	83	10	71	47	7	5	40	1.53
3388839--3388877	11	3.2	12	89	10	62	7	15	2	74	1.15
3390299--3390334	11	3.2	12	88	11	58	36	8	16	38	1.79
3390896--3390940	19	2.3	20	88	11	67	33	4	4	57	1.38
3393579--3393675	32	3.1	32	73	19	105	42	17	5	35	1.72
3394317--3394437	54	2.2	55	80	4	147	37	15	12	34	1.85
3396210--3396257	14	3.5	13	78	13	51	60	4	2	33	1.27
3396245--3396323	17	4.9	16	70	22	60	53	1	8	36	1.40
3399408--3399452	15	3.1	14	81	18	56	51	2	0	46	1.13
3403181--3403685	197	2.6	197	80	2	530	24	24	12	39	1.89

Tables:   1   2   3   4   5   6   7   8   9