genome.fa.s15.2.7.7.80.10.50.1000.7.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  7  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)
3599213--3599270	15	3.6	16	75	11	55	58	3	6	31	1.41
3599470--3599526	15	3.8	15	78	0	60	31	21	10	36	1.87
3605363--3605406	22	2.0	22	95	0	79	22	20	29	27	1.99
3607936--3607965	2	15.0	2	92	0	51	46	0	0	53	1.00
3608167--3608193	2	13.5	2	100	0	54	51	0	0	48	1.00
3612053--3612078	2	13.0	2	100	0	52	50	0	0	50	1.00
3635769--3635810	21	2.0	21	86	13	59	11	14	0	73	1.09
3638271--3638308	13	2.7	15	84	15	55	15	0	0	84	0.63
3638272--3638308	19	2.0	19	89	5	58	16	0	0	83	0.64
3638605--3638965	31	11.7	31	66	16	169	29	19	19	31	1.96
3638604--3640319	61	27.9	62	79	10	1004	26	18	18	36	1.94
3638789--3639011	31	7.2	31	66	16	79	26	19	19	34	1.95
3639141--3639385	31	7.9	31	68	8	149	23	20	19	36	1.95
3639426--3639511	30	2.8	31	72	10	95	22	16	19	41	1.90
3639401--3639491	30	3.0	30	75	7	85	26	15	17	40	1.89
3639625--3639878	31	8.3	30	72	13	160	26	18	18	36	1.94
3639700--3640134	155	2.8	156	82	5	459	26	17	18	37	1.93
3639747--3639926	93	1.9	93	85	4	247	24	17	18	39	1.92
3639674--3640002	31	10.7	30	70	11	166	24	17	18	38	1.92
3640036--3640319	30	9.2	31	63	17	101	28	19	20	32	1.97
3646260--3646307	24	1.9	26	87	8	73	37	6	20	35	1.78
3649672--3649715	22	2.0	23	81	4	54	2	27	0	70	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3651540--3651580	21	2.0	21	95	4	75	26	9	0	63	1.25
3657580--3657613	17	2.0	17	88	11	52	76	0	2	20	0.92
3661164--3661207	20	2.1	21	84	12	56	50	0	6	43	1.29
3662054--3662093	15	2.7	15	92	3	64	22	7	35	35	1.82
3666522--3666570	21	2.3	21	100	0	98	26	18	34	20	1.95
3666522--3666580	21	2.8	21	89	5	66	27	20	32	20	1.97
3667165--3667207	22	2.0	22	85	0	59	30	20	41	6	1.79
3667509--3667548	15	2.7	15	88	3	55	25	5	35	35	1.78
3672510--3672551	22	2.0	22	85	4	59	59	0	2	38	1.10
3674584--3674637	27	1.9	29	88	7	85	27	3	0	68	1.06
3674770--3674799	16	1.9	16	93	6	53	36	0	0	63	0.95
3675007--3675066	28	2.1	29	81	9	70	31	5	5	58	1.41
3676844--3676881	19	2.0	19	100	0	76	21	15	26	36	1.93
3677132--3677507	130	2.9	131	81	4	427	34	8	11	45	1.71
3676967--3677507	262	2.1	254	81	6	644	34	9	12	43	1.74
3680637--3681899	427	2.9	427	85	2	1667	32	15	15	36	1.89
3683752--3683793	6	7.5	6	82	12	54	73	0	14	11	1.09
3683752--3683794	11	3.9	11	90	6	61	72	0	13	13	1.13
3689929--3690003	21	3.6	21	77	10	66	49	13	5	32	1.64
3690079--3690166	21	4.1	21	79	7	88	45	20	6	27	1.76
3690608--3690651	22	2.0	23	90	4	72	59	0	0	40	0.98
3694011--3694064	25	2.2	25	86	0	72	48	11	3	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695111--3695196	32	2.6	32	83	5	91	68	0	4	26	1.09
3695111--3695217	34	2.9	36	76	15	105	68	0	4	27	1.09
3695413--3695471	15	3.9	15	81	0	64	30	22	11	35	1.90
3699784--3702570	143	19.5	143	77	4	2058	36	13	17	32	1.88
3701454--3702266	291	2.8	291	79	5	636	37	13	16	31	1.88
3704695--3704728	16	2.1	16	88	0	50	55	8	5	29	1.54
3714421--3714511	37	2.4	36	78	7	101	8	16	6	68	1.37
3721619--3721660	19	2.2	19	91	0	66	38	14	9	38	1.78
3725064--3725131	29	2.3	29	76	5	73	25	7	17	50	1.72
3727869--3728130	142	1.8	143	89	4	413	48	7	7	37	1.59
3729164--3729495	170	2.0	165	84	8	354	52	1	1	41	1.21
3729356--3729414	27	2.1	27	84	6	73	50	1	5	42	1.34
3729482--3729575	42	2.2	41	83	10	111	51	2	2	44	1.25
3729233--3729560	179	1.8	180	82	5	412	52	1	1	41	1.20
3730239--3730273	16	2.1	17	89	5	54	37	11	0	51	1.38
3730260--3730332	21	3.2	24	64	25	59	26	12	4	57	1.53
3736608--3736659	25	2.1	25	96	0	95	57	13	3	25	1.53
3736745--3736782	15	2.5	15	84	16	51	44	0	0	55	0.99
3736745--3736782	16	2.4	16	87	12	53	44	0	0	55	0.99
3752232--3752268	20	2.0	20	89	10	60	56	0	0	43	0.99
3754924--3754968	22	2.0	22	100	0	90	31	8	8	51	1.64
3765750--3766410	219	3.0	219	88	0	928	26	18	25	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3768410--3768447	3	12.7	3	100	0	76	31	0	0	68	0.90
3780076--3780158	31	2.7	31	83	7	105	31	12	10	45	1.76
3781062--3781127	22	2.9	23	79	4	80	30	9	24	36	1.86
3782341--3782508	85	2.0	85	85	4	232	30	9	22	37	1.86
3787052--3787198	50	2.9	49	90	2	231	40	19	14	25	1.90
3788284--3788332	15	3.3	15	82	0	53	34	4	28	32	1.76
3788983--3789007	13	1.9	13	100	0	50	20	16	16	48	1.82
3789517--3789599	42	2.0	42	85	0	112	19	9	32	38	1.84
3801244--3801287	17	2.7	16	86	13	63	25	0	2	72	0.96
3803537--3803561	12	2.1	12	100	0	50	36	16	24	24	1.94
3803968--3804079	56	2.0	56	94	0	197	40	16	19	24	1.91
3806134--3806178	19	2.3	19	84	3	54	24	6	4	64	1.37
3810388--3810414	2	13.5	2	100	0	54	51	0	0	48	1.00
3812425--3812499	26	3.0	26	78	5	84	29	12	14	44	1.81
3824005--3824059	28	1.9	29	88	3	85	60	0	0	40	0.97
3824043--3824093	12	4.7	11	76	18	54	39	1	1	56	1.22
3833802--3834013	108	2.0	108	83	3	275	58	9	19	11	1.60
3852263--3852311	21	2.3	21	92	0	80	24	18	12	44	1.84
3857533--3857726	93	2.1	93	92	4	320	49	8	5	36	1.56
3857926--3857985	30	2.0	30	83	6	77	48	5	18	28	1.69
3861174--3861214	2	20.5	2	100	0	82	48	0	0	51	1.00
3863798--3863832	17	2.1	17	88	0	52	2	11	2	82	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864349--3864392	21	2.1	21	83	8	54	34	2	2	61	1.21
3864725--3864754	2	15.0	2	92	0	51	53	0	0	46	1.00
3865879--3865926	20	2.4	19	80	13	53	27	0	6	66	1.15
3869679--3869704	8	3.2	8	100	0	52	30	11	11	46	1.76
3873951--3875679	866	2.0	857	93	1	2784	40	13	8	35	1.75
3879051--3879079	2	14.5	2	100	0	58	0	51	0	48	1.00
3885026--3885053	2	14.0	2	100	0	56	50	0	50	0	1.00
3886616--3887060	116	3.8	115	75	15	397	40	3	2	53	1.31
3887857--3887902	23	2.0	24	91	4	76	26	15	6	52	1.67
3897274--3897300	2	13.5	2	100	0	54	0	51	0	48	1.00
3899345--3899417	33	2.2	32	83	7	85	24	6	49	19	1.72
3901898--3901935	20	2.0	20	89	5	60	68	10	18	2	1.30
3908380--3908411	9	3.6	9	100	0	64	0	0	9	90	0.45
3910572--3910626	26	2.1	26	82	0	65	63	5	1	29	1.27
3915201--3915370	84	2.0	82	80	10	186	44	4	7	44	1.50
3918656--3918690	11	3.2	11	95	0	61	25	28	14	31	1.95
3921759--3921825	29	2.4	30	80	16	81	59	1	1	37	1.16
3922439--3922475	17	2.1	18	90	5	58	45	0	2	51	1.15
3922654--3922843	81	2.4	81	75	5	181	46	10	7	35	1.68
3925024--3925169	51	2.8	51	79	11	143	47	6	7	38	1.59
3927003--3927074	37	2.0	36	88	2	108	65	4	1	29	1.20
3931332--3931379	23	2.1	23	88	0	69	50	0	8	41	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3938910--3939529	305	2.0	314	84	7	809	31	13	19	35	1.91
3944986--3945024	6	6.8	6	97	2	64	35	0	15	48	1.45
3950827--3950876	26	1.9	26	83	0	64	50	10	20	20	1.76
3977642--3977716	25	3.0	24	70	25	64	42	5	12	40	1.65
3982172--3982268	39	2.5	39	86	3	124	16	23	38	21	1.93
3986102--3986132	14	2.2	14	94	0	53	32	0	9	58	1.31
3986149--3986191	12	3.5	12	83	3	50	41	0	0	58	0.98
3989249--3989315	33	2.0	33	85	0	89	35	8	10	44	1.70
3994277--3994312	2	18.5	2	88	5	56	52	0	0	47	1.00
3995632--3995670	20	1.9	20	84	5	51	61	0	28	10	1.28

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