genome.fa.s7.2.7.7.80.10.50.1000.9.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  9  of  20  ( 2374 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)
3241962--3241988	2	13.5	2	100	0	54	51	0	0	48	1.00
3243381--3243412	3	10.3	3	93	6	55	68	0	0	31	0.90
3243381--3243413	13	2.6	13	95	4	59	69	0	0	30	0.88
3256419--3256479	30	2.0	30	87	0	86	31	4	8	55	1.50
3279208--3279237	15	2.0	15	100	0	60	13	40	0	46	1.43
3293792--3293849	24	2.4	25	80	5	66	50	1	0	48	1.11
3300930--3300986	27	2.1	27	83	0	69	42	7	19	31	1.78
3311350--3311443	49	1.9	49	91	0	152	35	6	22	36	1.80
3317512--3317536	3	8.3	3	100	0	50	0	36	0	64	0.94
3321118--3321142	13	1.9	13	100	0	50	88	8	4	0	0.64
3324042--3324089	15	3.2	15	81	0	60	35	4	25	35	1.75
3328698--3328740	11	3.9	11	85	8	61	55	16	2	25	1.53
3328667--3328727	32	1.9	32	86	6	88	50	27	1	19	1.57
3328667--3328740	21	3.4	22	73	14	64	52	24	1	21	1.54
3330367--3330405	17	2.2	19	86	9	55	23	20	25	30	1.98
3339333--3339381	23	2.1	24	85	11	66	20	6	22	51	1.69
3344419--3344447	3	9.7	3	100	0	58	68	0	0	31	0.89
3344418--3344459	9	4.6	10	85	14	56	71	0	0	28	0.86
3350215--3350255	20	2.0	20	90	0	64	36	9	9	43	1.71
3351715--3351749	17	2.1	17	89	5	54	34	0	5	60	1.21
3353147--3353273	60	2.2	59	86	2	175	31	9	11	47	1.72
3362109--3362152	21	2.2	19	88	8	61	75	11	9	4	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3362460--3362491	3	10.7	3	100	0	64	34	31	0	34	1.58
3362827--3362852	3	8.7	3	100	0	52	34	0	65	0	0.93
3368942--3368989	19	2.5	19	93	0	87	47	4	27	20	1.68
3369487--3369516	14	2.1	14	93	0	51	46	0	0	53	1.00
3370080--3370192	40	2.7	39	81	9	109	37	16	15	30	1.91
3370155--3370202	24	2.0	24	83	0	60	41	16	12	29	1.85
3370170--3370263	32	3.1	29	79	14	100	43	17	10	28	1.82
3370378--3370407	11	2.7	11	100	0	60	23	16	10	50	1.75
3375108--3375172	27	2.4	27	85	7	80	33	21	15	29	1.94
3394320--3394348	12	2.3	13	94	5	51	6	24	0	68	1.13
3394700--3394737	17	2.2	18	85	4	51	57	7	7	26	1.54
3395482--3395513	2	16.0	2	100	0	64	50	0	0	50	1.00
3398306--3398386	40	2.0	40	95	0	144	38	12	13	35	1.82
3398842--3398950	53	2.1	53	100	0	218	39	18	7	34	1.78
3406256--3406340	36	2.4	36	82	4	100	32	24	9	32	1.87
3408254--3408303	25	2.1	24	85	7	66	14	32	10	44	1.78
3410998--3411042	22	2.0	22	83	8	56	48	20	6	24	1.73
3411086--3411168	22	3.8	22	82	3	87	49	20	6	24	1.71
3411179--3411222	16	2.8	16	100	0	88	36	29	13	20	1.91
3415873--3416295	161	2.7	155	84	5	519	38	10	19	31	1.85
3420013--3420328	144	2.2	144	80	4	368	37	18	17	27	1.93
3420569--3420598	14	2.1	14	93	0	51	33	13	23	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3422695--3422817	27	4.7	25	70	13	70	29	8	21	40	1.83
3427369--3427399	15	2.1	15	93	0	53	38	0	22	38	1.54
3429845--3429870	12	2.2	12	100	0	52	61	0	0	38	0.96
3437541--3437645	28	3.7	28	77	2	111	33	24	10	31	1.89
3437590--3437646	30	1.9	30	85	0	78	29	26	8	35	1.87
3438678--3438722	23	2.0	23	86	0	63	40	24	6	28	1.80
3438756--3438794	21	1.9	21	94	5	71	38	17	10	33	1.84
3438760--3438803	21	2.1	21	87	8	63	43	18	6	31	1.76
3438833--3438901	22	3.1	22	93	0	111	27	18	10	43	1.82
3447187--3447227	22	2.0	21	85	9	57	31	9	17	41	1.82
3456564--3456602	19	2.0	20	90	5	62	20	0	7	71	1.10
3457934--3457967	18	1.9	18	88	5	52	32	8	20	38	1.84
3460077--3460116	16	2.6	16	96	4	73	27	5	12	55	1.58
3476287--3476561	87	3.1	87	96	1	489	50	4	3	41	1.39
3476287--3476500	43	4.9	43	65	17	120	51	4	2	41	1.36
3476807--3476891	26	3.3	26	91	3	136	32	18	9	38	1.83
3479907--3480080	55	3.0	61	89	10	297	28	9	22	39	1.86
3483433--3483475	15	2.7	16	86	13	54	55	9	0	34	1.32
3485101--3485131	2	15.5	2	100	0	62	48	0	0	51	1.00
3492333--3492357	2	12.5	2	100	0	50	0	0	48	52	1.00
3499255--3499291	16	2.2	17	90	4	58	59	0	2	37	1.12
3499448--3499501	6	9.2	6	81	2	65	70	0	27	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3508112--3508145	15	2.3	15	89	0	50	0	32	0	67	0.91
3508122--3508163	11	4.0	11	84	12	61	0	30	0	69	0.89
3508118--3508163	20	2.4	19	92	3	74	0	32	0	67	0.91
3509547--3509596	24	2.1	23	81	3	55	34	6	4	56	1.43
3510300--3510332	2	17.0	2	93	6	59	51	0	0	48	1.00
3518137--3518180	20	2.1	22	87	8	65	18	15	13	52	1.75
3529490--3529664	22	7.9	22	79	8	167	37	15	13	33	1.86
3531530--3531597	27	2.5	27	80	7	75	47	2	1	48	1.26
3543573--3543629	27	2.2	26	90	3	87	31	1	12	54	1.48
3544462--3544563	47	2.2	47	87	5	145	34	4	24	36	1.77
3546692--3546733	21	2.0	22	85	4	59	64	4	0	30	1.14
3553202--3553261	21	2.8	21	87	7	68	25	3	21	50	1.64
3553434--3553480	21	2.2	21	85	7	60	31	4	21	42	1.72
3553441--3553523	21	4.0	21	85	6	96	30	3	20	45	1.68
3557199--3557238	20	2.0	20	100	0	80	35	15	25	25	1.94
3562357--3562430	30	2.5	31	84	4	89	56	6	5	31	1.48
3564341--3564370	16	1.9	16	93	6	53	30	0	6	63	1.20
3565205--3565232	14	2.0	14	100	0	56	42	28	7	21	1.79
3565834--3565874	3	13.7	3	85	10	57	31	2	0	65	1.05
3570509--3570588	23	3.5	23	77	0	88	40	27	11	21	1.87
3573199--3573279	33	2.5	33	81	0	90	43	17	3	35	1.67
3573357--3573427	28	2.5	28	86	0	97	54	5	12	26	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3581840--3581879	2	20.0	2	100	0	80	50	0	0	50	1.00
3583480--3583522	2	21.5	2	95	0	77	51	2	0	46	1.13
3584382--3584414	16	2.1	16	88	5	50	39	3	3	54	1.31
3586022--3586294	39	7.0	39	82	0	276	46	16	4	32	1.67
3592306--3592357	22	2.4	22	86	0	68	32	19	11	36	1.87
3593934--3594011	22	3.8	20	74	19	72	53	2	0	43	1.14
3594066--3594118	22	2.4	21	81	9	61	50	5	0	43	1.25
3594090--3594250	27	5.9	27	72	20	118	52	3	1	42	1.27
3594177--3594223	16	3.0	16	79	17	62	48	0	2	48	1.13
3594099--3594342	122	2.1	115	83	11	302	54	3	1	40	1.27
3594102--3594264	84	2.0	79	80	11	177	55	3	1	40	1.23
3594279--3594445	64	2.6	63	79	12	171	47	2	4	45	1.37
3594304--3594445	64	2.2	64	86	3	198	45	2	4	47	1.39
3594345--3594441	22	4.5	22	72	19	87	44	1	6	48	1.34
3594625--3594655	16	1.9	16	93	0	53	19	19	0	61	1.35
3594986--3595016	9	3.4	9	95	0	53	74	0	0	25	0.82
3596614--3596684	22	3.2	22	78	6	63	36	11	15	36	1.83
3596821--3596877	21	2.7	21	83	8	62	29	8	19	42	1.81
3596840--3596888	22	2.2	22	92	0	80	30	12	16	40	1.85
3599410--3599453	23	2.0	22	81	4	52	77	13	4	4	1.08
3602821--3602933	53	2.2	53	87	4	158	34	9	3	52	1.52
3605122--3605282	27	6.0	27	76	11	100	26	22	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3605218--3605304	27	3.2	27	93	0	138	22	24	34	18	1.96
3605336--3605410	27	2.8	27	82	6	82	30	16	33	20	1.94
3605220--3605413	107	1.8	107	80	6	232	28	22	30	18	1.97
3608860--3608897	16	2.5	15	84	16	51	47	2	0	50	1.15
3610539--3610602	10	6.2	10	75	13	67	32	0	0	67	0.91
3628512--3628539	2	14.0	2	100	0	56	50	0	0	50	1.00
3628539--3628570	2	16.0	2	100	0	64	50	0	50	0	1.00
3629174--3629208	16	2.2	16	90	5	54	60	0	0	40	0.97
3629450--3629500	9	5.6	9	77	11	50	66	0	1	31	1.03
3629510--3629543	15	2.1	17	89	10	54	38	0	0	61	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20