genome.fa.s15.2.7.7.80.10.50.1000.5.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1452 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)
2731036--2731118	41	2.0	41	100	0	166	22	14	16	45	1.84
2733463--2733493	2	15.5	2	100	0	62	48	0	0	51	1.00
2737225--2737258	2	17.0	2	93	0	59	0	47	0	52	1.00
2738000--2738039	2	20.5	2	84	5	55	47	0	5	47	1.24
2738168--2738197	2	15.0	2	100	0	60	50	0	50	0	1.00
2745693--2745717	2	12.5	2	100	0	50	52	0	0	48	1.00
2745877--2745906	15	2.1	14	93	6	51	10	0	0	90	0.47
2751177--2751203	2	13.5	2	100	0	54	48	0	0	51	1.00
2775204--2775267	6	10.5	6	79	1	56	1	50	4	43	1.32
2775221--2775284	30	2.1	30	88	5	94	0	48	4	46	1.23
2775204--2775273	24	2.9	24	80	2	77	1	50	4	44	1.30
2779999--2780042	13	3.4	12	82	14	52	54	0	2	43	1.12
2792005--2792063	6	9.3	6	77	20	59	3	11	3	81	0.94
2796751--2796792	18	2.3	18	87	0	57	38	0	2	59	1.10
2798262--2798337	40	1.9	40	81	10	93	38	0	6	55	1.26
2804789--2804877	41	2.1	42	97	2	171	24	13	11	50	1.74
2805015--2805110	33	2.9	33	98	0	183	38	23	3	34	1.71
2807519--2807552	17	2.0	17	88	0	50	64	0	0	35	0.94
2829094--2829165	33	2.2	33	97	0	135	38	23	13	23	1.91
2831845--2831884	17	2.3	18	87	8	57	75	2	0	22	0.93
2831847--2831884	13	3.1	13	81	11	53	76	2	0	21	0.91
2831840--2831884	21	2.1	22	84	12	58	73	2	0	24	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2840542--2840574	2	16.5	2	100	0	66	51	0	0	48	1.00
2844977--2845045	28	2.5	28	84	11	88	57	1	1	39	1.16
2845547--2845588	12	3.6	12	87	3	59	0	40	0	59	0.97
2845554--2845592	6	6.5	6	96	0	60	0	38	0	61	0.96
2849296--2849329	17	1.9	18	88	5	52	64	0	0	35	0.94
2849420--2849549	64	2.0	65	82	4	156	50	9	9	31	1.66
2849597--2849629	15	2.2	15	89	10	50	63	0	6	30	1.18
2849381--2850183	234	3.3	230	82	7	755	48	5	8	36	1.59
2849534--2850178	247	2.6	248	85	3	837	48	5	8	37	1.56
2850534--2850579	24	1.9	24	86	8	67	56	0	0	43	0.99
2860919--2860958	20	1.9	22	85	10	57	17	37	12	32	1.87
2863487--2863518	11	2.9	11	95	0	55	84	9	6	0	0.78
2867656--2867929	139	2.0	141	90	1	435	29	14	7	47	1.72
2868091--2868152	26	2.4	26	83	5	72	61	3	0	35	1.12
2877910--2877936	11	2.5	11	100	0	54	59	0	0	40	0.98
2889997--2890061	28	2.5	24	80	17	78	64	0	1	33	1.03
2895111--2895146	17	2.1	18	94	5	65	38	0	0	61	0.96
2895325--2895371	9	5.4	9	85	10	53	2	27	0	70	0.99
2895325--2895378	17	3.2	16	87	7	72	1	25	0	72	0.95
2895335--2895382	8	5.3	9	80	14	55	0	20	0	79	0.74
2896105--2896138	2	17.0	2	93	0	59	47	0	2	50	1.16
2897829--2897860	15	2.1	15	94	0	55	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2897828--2897944	54	2.3	50	82	11	132	64	1	4	29	1.22
2897925--2898003	40	2.0	40	82	5	97	60	2	8	27	1.39
2898120--2898212	46	2.0	45	91	2	150	33	15	5	46	1.68
2908071--2908104	3	11.7	3	93	6	61	32	0	0	67	0.91
2915864--2916174	157	2.0	155	90	1	487	38	18	13	28	1.90
2921116--2921141	2	13.0	2	100	0	52	50	0	0	50	1.00
2923206--2923268	27	2.4	28	73	10	69	44	1	1	52	1.20
2923338--2923372	17	1.9	19	88	11	56	37	2	0	60	1.12
2923248--2923443	30	6.4	30	68	13	96	39	3	0	57	1.18
2923417--2923475	17	3.4	16	77	11	55	42	1	1	54	1.20
2923448--2923505	19	2.8	20	79	10	64	43	1	0	55	1.10
2923480--2923574	8	12.0	8	71	26	60	50	2	3	44	1.29
2923485--2923572	33	2.7	33	85	1	124	51	2	3	43	1.31
2923544--2923578	18	1.9	18	88	11	54	51	0	0	48	1.00
2923625--2923654	15	2.0	15	93	0	51	50	0	0	50	1.00
2923687--2923743	25	2.3	24	85	8	78	61	1	0	36	1.07
2930599--2930734	71	1.9	73	86	6	197	42	19	16	21	1.89
2932999--2933094	46	2.1	46	98	0	183	36	10	27	26	1.89
2935082--2935113	2	16.0	2	93	0	55	46	0	3	50	1.17
2940550--2940605	23	2.5	22	85	8	69	51	0	1	46	1.11
2940550--2940590	22	2.0	21	86	13	59	51	0	0	48	1.00
2941090--2941465	195	1.9	194	89	0	581	40	11	7	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2941597--2941639	22	1.9	23	85	4	61	23	30	25	20	1.99
2944444--2944475	2	16.0	2	93	0	55	46	0	3	50	1.17
2947573--2947618	23	2.0	23	83	8	58	56	10	28	4	1.53
2954538--2954573	5	7.2	5	90	0	54	75	2	22	0	0.94
2955597--2955674	1	78.0	1	94	0	138	0	0	97	2	0.17
2960548--2960574	2	13.5	2	100	0	54	48	0	51	0	1.00
2961022--2961048	5	5.4	5	100	0	54	81	0	18	0	0.69
2965189--2965230	2	21.0	2	95	0	75	50	2	0	47	1.14
2966188--2966215	2	14.0	2	100	0	56	50	0	50	0	1.00
2968928--2968966	3	13.0	3	89	10	62	0	30	0	69	0.89
2968931--2968966	14	2.7	13	95	4	63	0	30	0	69	0.89
2978514--2978552	2	19.5	2	94	0	69	51	2	0	46	1.14
2983262--2983287	1	26.0	1	100	0	52	0	0	0	100	0.00
2985284--2985592	155	2.0	155	97	0	582	39	15	12	33	1.85
2987155--2987204	23	2.1	24	85	14	68	50	0	0	50	1.00
2988835--2988887	15	3.2	17	78	13	56	45	0	0	54	0.99
2996606--2996806	102	1.9	103	89	5	314	31	15	18	33	1.93
3001788--3001867	22	3.8	21	75	18	69	45	1	3	50	1.28
3001788--3001869	21	3.9	21	73	4	76	45	1	3	50	1.27
3008990--3009016	6	4.5	6	100	0	54	85	0	0	14	0.61
3012023--3012063	17	2.5	17	84	11	50	29	0	2	68	1.03
3020869--3020898	14	2.1	14	100	0	60	53	6	0	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3028776--3028819	21	2.1	21	100	0	88	27	18	22	31	1.97
3029044--3029109	32	2.1	32	100	0	132	27	18	19	34	1.95
3031665--3031720	24	2.3	24	100	0	112	21	21	25	32	1.98
3032852--3032890	8	4.9	8	90	0	60	51	10	0	38	1.36
3033473--3033760	81	3.5	81	75	5	276	46	10	9	32	1.71
3033767--3033844	30	2.7	28	81	13	88	41	6	7	44	1.58
3042556--3042600	23	2.0	23	86	4	65	51	13	0	35	1.41
3045092--3045136	22	2.1	21	84	8	56	53	11	2	33	1.49
3045503--3045534	2	16.0	2	100	0	64	50	0	0	50	1.00
3055060--3055094	2	17.5	2	100	0	70	0	48	0	51	1.00
3056058--3056091	2	17.0	2	93	0	59	50	2	0	47	1.16
3056690--3056741	5	10.6	5	84	8	54	1	21	1	75	1.00
3058973--3059038	30	2.2	30	89	2	98	36	0	0	63	0.95
3058972--3059023	21	2.5	22	78	9	63	32	0	0	67	0.91
3059037--3059068	14	2.2	15	94	5	57	56	0	0	43	0.99
3060948--3060990	2	22.5	2	90	9	72	48	0	0	51	1.00
3061471--3061498	2	14.0	2	100	0	56	50	0	0	50	1.00
3062141--3062170	3	10.0	3	100	0	60	66	0	0	33	0.92
3062705--3062738	2	17.0	2	100	0	68	50	0	0	50	1.00
3064645--3064694	12	4.4	11	80	16	57	58	4	0	38	1.17
3064643--3064693	22	2.3	23	86	6	70	60	3	0	35	1.15
3074347--3074460	60	1.9	60	85	0	156	17	19	25	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3076849--3076901	15	3.3	15	74	10	52	30	1	0	67	1.01
3080125--3080160	3	12.0	3	100	0	72	66	0	0	33	0.92
3084165--3084224	31	2.0	30	86	3	84	63	10	5	21	1.44
3100521--3100600	8	9.2	8	70	15	52	70	0	0	30	0.88
3100517--3100686	26	6.5	26	75	16	140	66	1	0	32	0.99
3100517--3100686	50	3.3	49	79	17	152	66	1	0	32	0.99
3100512--3100638	52	2.5	51	81	14	156	66	0	0	33	0.98
3100643--3100726	42	2.0	42	81	4	98	64	0	0	35	0.94
3106026--3106064	19	1.9	19	85	10	51	41	15	15	28	1.87
3117861--3117941	37	2.2	37	95	0	144	19	3	24	51	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13