genome.fa.s20.2.7.7.80.10.50.1000.8.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 994 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)
2856253--2856293	16	2.5	16	92	4	64	0	36	2	60	1.10
2858986--2859332	35	9.8	35	84	4	358	34	7	14	43	1.72
2858986--2859311	71	4.6	70	83	5	374	34	7	13	44	1.72
2859014--2859311	106	2.8	106	84	1	389	34	7	13	44	1.72
2859071--2859331	143	1.8	143	88	1	398	33	6	15	44	1.73
2861449--2861501	28	2.0	27	82	14	65	35	16	9	37	1.82
2863193--2863267	36	2.1	35	85	7	98	36	22	13	28	1.92
2868401--2868602	112	1.8	112	87	0	305	30	20	25	24	1.99
2873358--2873401	16	2.8	16	89	6	63	22	0	13	63	1.29
2882295--2882329	18	1.9	18	88	0	52	42	0	5	51	1.25
2892431--2892636	72	2.8	72	84	2	234	38	13	19	28	1.90
2892784--2892853	36	1.9	36	85	0	95	32	18	25	22	1.97
2892785--2892872	36	2.5	36	76	9	90	34	18	28	19	1.95
2895804--2895839	15	2.4	15	100	0	72	41	19	8	30	1.81
2903208--2903247	2	22.0	2	80	19	52	50	0	0	50	1.00
2903208--2903247	15	2.8	15	88	7	57	50	0	0	50	1.00
2903208--2903247	17	2.5	17	88	8	57	50	0	0	50	1.00
2906041--2906070	2	15.0	2	92	0	51	46	0	3	50	1.18
2910349--2910509	80	2.0	80	90	2	252	27	13	11	47	1.77
2911650--2911709	21	2.8	22	71	5	59	23	6	25	45	1.77
2911716--2911777	23	2.7	23	89	0	106	35	30	11	22	1.89
2911787--2911866	21	3.8	21	76	1	79	40	25	16	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2911965--2912091	60	2.1	60	83	4	157	44	18	7	29	1.78
2915648--2915742	46	2.1	46	82	9	115	32	7	10	49	1.65
2932822--2932864	22	2.0	22	85	0	59	9	18	0	72	1.11
2940944--2941002	31	1.9	31	92	0	100	35	11	16	35	1.86
2960256--2960304	23	2.1	24	85	7	66	48	8	8	34	1.62
2999835--2999881	18	2.5	19	89	3	69	61	0	2	36	1.08
3000940--3001019	4	20.8	4	79	7	85	68	0	31	0	0.90
3000935--3001006	16	4.5	16	89	5	101	66	0	33	0	0.92
3002114--3002201	37	2.4	36	92	5	142	21	21	31	25	1.98
3004547--3004603	6	9.3	6	81	11	62	0	19	0	80	0.71
3010584--3011540	477	2.0	477	95	0	1720	32	19	14	32	1.92
3037265--3037441	68	2.6	68	84	1	230	38	10	18	32	1.85
3051441--3051475	11	3.0	12	91	8	63	0	40	17	42	1.49
3057416--3057442	2	13.5	2	100	0	54	51	0	0	48	1.00
3058179--3058207	2	14.5	2	100	0	58	51	0	0	48	1.00
3067720--3067774	27	2.0	27	100	0	110	38	25	10	25	1.88
3067857--3067898	19	2.2	19	91	0	66	35	9	11	42	1.74
3070501--3070543	16	2.7	16	82	10	52	62	11	0	25	1.29
3071873--3071960	44	2.0	43	88	2	131	42	19	14	23	1.88
3072699--3072723	13	1.9	13	100	0	50	0	0	4	96	0.24
3074766--3074792	14	1.9	14	100	0	54	88	3	7	0	0.61
3077971--3078042	6	12.5	6	84	8	96	19	2	66	11	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3077975--3078030	27	2.1	27	93	0	94	19	1	67	10	1.29
3078643--3078728	45	2.0	44	88	8	133	6	15	17	60	1.56
3088283--3088382	35	2.9	35	80	5	121	45	13	7	35	1.70
3095673--3095812	73	1.9	73	85	2	192	35	15	22	25	1.94
3104515--3104654	73	1.9	73	82	5	176	37	15	20	25	1.92
3106747--3106906	52	3.1	52	81	9	175	35	20	6	36	1.80
3107883--3107993	31	3.5	31	83	5	132	16	18	5	60	1.54
3107883--3107986	35	3.1	35	75	10	117	15	18	5	60	1.54
3108050--3108147	44	2.2	44	85	3	126	31	17	14	36	1.90
3112168--3112396	85	2.8	84	89	2	347	46	3	2	47	1.33
3113368--3113410	1	43.0	1	100	0	86	0	0	0	100	0.00
3117283--3117332	26	1.9	26	87	0	73	60	14	10	16	1.59
3131658--3131924	68	3.9	68	76	2	232	38	8	17	34	1.82
3136382--3136543	28	5.6	28	77	10	137	37	10	11	40	1.75
3136386--3136543	29	5.4	30	76	11	141	37	10	10	41	1.74
3136386--3136542	59	2.7	56	80	10	165	38	10	10	40	1.74
3136695--3136727	17	1.9	17	88	11	50	42	3	12	42	1.57
3138868--3138902	2	17.5	2	100	0	70	48	0	0	51	1.00
3140097--3140124	2	14.0	2	100	0	56	50	0	0	50	1.00
3140631--3140815	35	5.3	34	80	6	194	43	14	7	35	1.72
3140608--3140815	71	3.0	69	76	6	204	42	14	7	36	1.73
3148826--3148948	51	2.4	51	86	5	158	23	6	31	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148830--3148948	53	2.3	51	85	5	150	22	6	32	37	1.81
3149708--3149869	61	2.7	61	78	1	175	27	9	31	31	1.88
3152007--3152038	14	2.3	14	94	0	55	62	9	0	28	1.26
3155536--3155582	24	2.0	24	86	0	67	65	12	8	12	1.46
3160100--3160137	16	2.3	17	81	4	51	65	13	2	18	1.37
3163891--3163928	19	2.1	18	90	5	58	31	2	5	60	1.33
3169925--3169961	12	3.0	13	84	15	60	5	37	16	40	1.71
3176143--3176307	77	2.1	77	90	3	260	40	7	12	40	1.72
3182384--3182531	77	1.9	76	85	6	201	38	10	7	43	1.66
3201264--3201303	17	2.4	17	87	4	55	50	0	2	47	1.14
3201296--3201329	16	2.1	16	88	0	50	55	2	2	38	1.30
3201548--3201605	27	2.2	26	84	9	73	51	3	1	43	1.28
3203395--3203438	20	2.2	21	84	8	56	47	18	2	31	1.61
3203891--3204027	69	2.0	70	81	4	161	35	22	16	24	1.95
3213380--3213422	21	2.0	21	90	0	68	60	9	0	30	1.28
3215509--3215542	17	2.0	17	88	11	52	47	8	0	44	1.34
3215694--3215856	64	2.7	60	78	12	172	39	11	8	39	1.72
3215694--3215862	30	5.6	28	74	13	106	39	11	8	40	1.73
3215781--3215859	33	2.5	33	82	13	96	41	15	6	36	1.72
3215694--3215859	62	2.7	59	80	10	176	39	12	8	39	1.73
3215812--3215871	29	2.1	29	81	6	68	38	15	11	35	1.83
3222408--3222438	15	2.1	15	100	0	62	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223716--3223873	28	5.4	27	79	13	156	39	10	9	40	1.71
3223716--3223873	59	2.7	57	84	6	201	39	10	9	40	1.71
3223716--3223876	29	5.5	28	79	8	171	40	9	9	40	1.71
3224411--3224530	63	1.9	63	85	0	168	25	30	12	32	1.92
3224767--3224820	23	2.3	23	83	0	63	31	11	25	31	1.91
3228527--3228798	31	8.6	31	75	12	239	37	24	18	19	1.93
3228527--3228798	62	4.3	62	78	12	273	37	24	18	19	1.93
3229485--3229565	22	3.5	24	77	14	80	23	27	23	25	2.00
3229554--3229631	23	3.3	23	70	16	79	20	33	20	25	1.97
3229540--3230123	47	12.6	47	79	6	471	26	31	15	26	1.96
3261674--3261722	22	2.2	23	85	7	66	44	8	10	36	1.68
3272480--3272512	17	1.9	17	88	11	50	36	15	9	39	1.79
3272689--3272867	86	2.1	87	84	6	240	36	13	9	40	1.77
3272696--3272870	29	6.1	29	84	5	221	35	13	10	41	1.78
3283780--3283823	21	2.0	22	86	4	63	29	0	9	61	1.27
3303262--3303404	51	2.8	51	76	8	137	30	14	17	37	1.90
3309516--3309556	16	2.6	16	96	0	73	19	41	0	39	1.52
3313541--3313726	91	2.1	89	90	2	291	40	6	4	47	1.52
3319356--3319632	35	7.9	35	80	3	245	42	12	7	36	1.71
3319377--3319625	107	2.4	104	81	4	295	43	12	7	36	1.70
3327584--3327616	11	3.1	11	91	4	50	0	30	0	69	0.88
3329419--3329656	35	6.8	35	75	11	148	43	10	7	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3329430--3329593	36	4.6	35	79	8	118	43	12	7	36	1.70
3329418--3329601	71	2.6	69	78	5	206	42	11	7	37	1.70
3329573--3329660	32	2.7	32	80	5	86	46	10	6	36	1.64
3329431--3329676	67	3.5	66	73	8	170	44	11	6	36	1.67
3348010--3348042	17	1.9	17	88	11	50	42	12	3	42	1.57
3348280--3348353	29	2.6	28	82	4	94	39	14	6	39	1.73
3349451--3349525	38	2.0	38	100	0	150	24	18	10	46	1.80
3366923--3367034	59	1.9	59	88	0	170	33	15	15	35	1.89
3371276--3371319	21	2.1	21	91	0	70	20	29	0	50	1.49
3372608--3372650	21	2.0	21	82	8	52	16	6	18	58	1.60

Tables:   1   2   3   4   5   6   7   8   9