genome.fa.s2.2.7.7.80.10.50.1000.6.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  6  of  31  ( 3649 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)
2908252--2908289	2	19.5	2	91	5	60	50	2	0	47	1.15
2911104--2911137	15	2.3	15	90	5	52	44	0	0	55	0.99
2913727--2913753	2	13.5	2	100	0	54	48	0	0	51	1.00
2921885--2921915	2	15.5	2	93	0	53	48	0	3	48	1.17
2922827--2922865	19	2.2	19	86	9	55	46	5	0	48	1.24
2922626--2923084	218	2.1	216	85	6	597	41	6	5	47	1.51
2927461--2927562	49	2.1	49	96	0	186	29	19	19	31	1.97
2938718--2938766	24	2.1	23	84	3	62	2	61	2	34	1.19
2945063--2945095	2	16.5	2	100	0	66	51	0	0	48	1.00
2947800--2947829	15	2.0	15	93	0	51	0	0	16	83	0.65
2953709--2953740	13	2.3	15	89	10	50	3	9	0	87	0.64
2966385--2966410	10	2.6	10	100	0	52	15	50	0	34	1.45
2966365--2966390	2	13.0	2	100	0	52	0	50	0	50	1.00
2968136--2968228	28	3.2	28	78	6	89	37	12	12	36	1.82
2968264--2968333	21	3.3	21	66	4	59	37	18	14	30	1.90
2968565--2968613	13	3.5	13	79	17	53	46	2	0	51	1.12
2973818--2973959	72	2.0	72	87	2	205	30	21	9	37	1.86
2977633--2977676	13	3.4	13	77	0	52	47	11	0	40	1.39
2981404--2981490	33	2.8	30	81	10	111	36	8	42	12	1.73
2981416--2981491	33	2.3	33	93	0	125	34	9	43	13	1.75
2986135--2986189	2	28.0	2	92	3	94	49	1	0	49	1.11
2989930--2989969	21	2.0	20	85	5	53	10	65	20	5	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2994046--2994072	2	13.5	2	100	0	54	48	0	0	51	1.00
2995635--2995844	108	1.9	108	92	1	350	45	3	14	36	1.62
2996023--2996065	17	2.6	17	82	7	54	37	9	0	53	1.33
3007815--3007899	42	2.0	42	90	0	134	24	17	11	45	1.82
3027382--3027408	4	6.8	4	100	0	54	0	74	0	25	0.83
3029684--3029918	102	2.3	101	88	2	353	25	21	16	37	1.94
3029802--3030052	132	1.9	134	89	1	398	23	18	18	40	1.91
3029935--3030229	103	2.9	103	89	1	466	23	22	16	37	1.94
3037156--3037195	21	1.9	20	85	10	53	55	5	0	40	1.22
3060151--3060187	2	18.5	2	100	0	74	0	48	0	51	1.00
3065561--3065956	201	2.0	202	96	0	731	40	16	18	23	1.90
3080082--3080134	27	1.9	28	85	11	74	56	1	0	41	1.10
3080354--3080379	6	4.3	6	100	0	52	15	0	0	84	0.62
3080449--3080511	33	1.9	33	81	12	76	53	9	1	34	1.43
3103405--3103437	17	1.9	17	88	11	50	54	0	0	45	0.99
3106115--3106160	24	1.9	24	82	8	58	30	19	4	45	1.70
3106881--3106923	8	5.4	8	77	0	50	20	0	2	76	0.89
3106873--3106923	16	3.3	15	81	13	59	23	0	1	74	0.92
3107292--3107336	22	2.0	22	86	0	63	44	2	2	51	1.26
3107798--3107838	21	1.9	21	90	5	64	36	4	12	46	1.63
3132642--3132669	2	14.0	2	100	0	56	50	0	0	50	1.00
3145475--3145527	21	2.5	21	100	0	106	13	24	7	54	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3146047--3146262	45	4.8	45	85	1	263	31	18	16	33	1.93
3146121--3146194	24	3.2	24	67	11	73	32	14	16	36	1.89
3146229--3146283	21	2.6	21	83	11	76	36	27	16	20	1.93
3146254--3146340	45	1.9	45	90	0	138	28	25	17	28	1.97
3146183--3146328	66	2.2	66	87	4	231	31	23	17	27	1.97
3165046--3165084	18	2.1	19	90	4	62	66	2	0	30	1.05
3165041--3165085	18	2.5	18	79	13	56	62	2	0	35	1.08
3186090--3186127	2	19.5	2	94	5	69	47	0	0	52	1.00
3188658--3188706	23	2.1	22	81	7	53	46	0	0	53	1.00
3200232--3200273	2	21.0	2	100	0	84	50	0	0	50	1.00
3201858--3202025	84	2.0	84	95	0	300	22	26	17	33	1.96
3202033--3202059	14	1.9	14	100	0	54	22	33	22	22	1.97
3202406--3202588	87	2.1	88	78	16	206	24	22	18	34	1.96
3202577--3202881	102	3.0	102	91	0	484	22	31	18	27	1.97
3207028--3207061	3	11.3	3	100	0	68	32	0	0	67	0.91
3244855--3244884	6	5.0	6	100	0	60	33	0	50	16	1.46
3258350--3258397	24	2.0	24	91	0	78	35	8	0	56	1.30
3262488--3262514	1	27.0	1	100	0	54	0	0	100	0	0.00
3267202--3267241	20	2.0	21	85	5	55	22	12	5	60	1.52
3285704--3285839	50	2.8	50	86	2	186	7	58	17	16	1.59
3288725--3288786	24	2.6	24	100	0	124	37	11	4	46	1.61
3291611--3291657	24	1.9	25	91	4	78	31	2	2	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328861--3328901	9	4.3	10	84	6	50	0	90	7	2	0.54
3328873--3328901	9	3.3	9	90	9	51	0	93	6	0	0.36
3328866--3328901	17	2.1	17	94	0	63	0	91	8	0	0.41
3340743--3340796	13	4.3	13	75	17	60	57	3	0	38	1.17
3343013--3343101	2	44.5	2	95	0	88	43	0	0	44	1.04
3343302--3343331	11	2.7	11	89	0	51	40	0	33	26	1.57
3351366--3351397	2	16.0	2	100	0	64	0	50	0	50	1.00
3352850--3352880	15	2.1	15	100	0	62	35	19	12	32	1.90
3354400--3354464	26	2.5	26	80	7	80	41	13	16	27	1.87
3359420--3359460	22	1.9	22	85	5	57	14	41	9	34	1.79
3364856--3364919	31	2.0	32	84	3	85	32	25	4	37	1.77
3365575--3365617	22	2.0	22	86	4	61	55	6	23	13	1.62
3366481--3366637	78	2.0	78	97	0	296	33	23	10	33	1.88
3366493--3366614	38	3.2	38	63	25	92	33	20	11	34	1.89
3378453--3378499	23	1.9	25	87	12	71	44	6	0	48	1.28
3382936--3382974	2	19.5	2	94	0	69	0	48	0	51	1.00
3385516--3385546	3	10.3	3	92	0	53	35	0	0	64	0.94
3400412--3400448	2	18.5	2	94	0	65	0	51	0	48	1.00
3404711--3404761	4	12.8	4	91	0	66	49	5	1	43	1.38
3404711--3404761	10	5.1	10	87	0	66	49	5	1	43	1.38
3421287--3421311	2	12.5	2	100	0	50	52	0	0	48	1.00
3421342--3421385	18	2.3	19	84	7	63	29	0	2	68	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421423--3421543	35	3.2	35	71	20	109	39	0	4	55	1.22
3421423--3421569	78	1.9	79	88	5	226	42	0	4	53	1.20
3421533--3421565	16	2.0	17	88	5	50	45	0	0	54	0.99
3422677--3422878	89	2.3	90	89	2	300	20	17	10	51	1.75
3423633--3423663	9	3.4	9	95	0	53	51	9	29	9	1.66
3423675--3423749	24	3.1	24	77	7	80	57	1	36	5	1.30
3423736--3423797	27	2.3	27	91	0	97	58	4	30	6	1.44
3424965--3425110	51	2.9	51	90	4	215	41	17	23	17	1.90
3425012--3425147	51	2.9	46	85	8	159	41	18	25	15	1.89
3438502--3438548	12	4.1	12	75	10	53	48	0	2	48	1.13
3440398--3440431	16	2.2	16	89	5	52	52	5	5	35	1.50
3443020--3443086	15	4.4	15	82	1	80	37	11	20	29	1.89
3443291--3443498	26	7.4	30	66	20	87	34	2	0	62	1.12
3443300--3443478	23	7.9	23	64	23	78	33	1	0	64	1.08
3443419--3443502	21	4.2	20	74	18	61	34	1	0	64	1.02
3443409--3443474	6	11.0	6	72	23	50	31	0	0	68	0.90
3443408--3443513	48	2.2	48	80	11	119	35	0	0	63	1.01
3443233--3443548	110	2.9	112	91	7	499	34	2	0	62	1.15
3443436--3443514	11	6.8	11	70	11	50	37	1	0	60	1.05
3443470--3443536	25	2.7	24	79	4	71	35	2	1	59	1.22
3443470--3443542	24	3.0	23	74	9	65	35	4	1	58	1.25
3443243--3443586	110	3.1	109	87	8	445	33	3	0	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3443578--3443635	22	2.5	22	84	13	73	34	0	1	63	1.04
3443233--3443646	221	1.9	217	79	12	461	33	2	0	62	1.15
3444499--3444575	37	2.1	37	87	4	111	27	7	27	37	1.84
3444917--3444958	21	2.0	21	86	9	59	42	0	0	57	0.99
3445011--3445062	22	2.4	22	80	6	61	48	1	0	50	1.12
3445691--3445716	4	6.5	4	100	0	52	23	0	0	76	0.78
3453113--3453181	30	2.2	31	84	5	86	37	1	1	59	1.15
3453211--3453281	33	2.2	33	86	0	97	45	1	9	43	1.46
3453251--3453304	24	2.3	23	78	9	56	48	3	9	38	1.53
3455957--3455995	19	2.0	20	90	5	62	48	0	5	46	1.24

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31