genome.fa.s13.2.7.7.80.10.50.1000.14.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  14  of  18  ( 2072 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)
5732514--5732567	26	2.1	26	85	0	72	35	20	5	38	1.76
5745575--5745640	21	3.1	21	77	2	78	25	4	18	51	1.65
5745419--5745779	142	2.6	142	86	4	482	34	6	13	45	1.71
5745736--5745815	21	3.8	21	85	5	99	26	3	16	53	1.59
5745768--5745804	12	3.3	12	78	21	53	16	5	18	59	1.55
5746018--5746061	22	2.1	20	87	8	61	70	6	2	20	1.21
5746023--5746078	15	3.9	14	82	13	53	67	3	3	25	1.22
5746022--5746069	22	2.2	20	79	13	51	68	4	2	25	1.18
5746273--5746320	6	8.2	6	86	4	62	81	0	18	0	0.70
5747610--5747819	108	1.9	108	87	1	305	35	15	4	44	1.68
5749257--5749291	14	2.5	14	82	17	54	48	5	5	40	1.51
5750448--5750515	28	2.4	28	100	0	136	39	14	17	27	1.89
5753824--5753848	4	6.2	4	100	0	50	76	0	0	24	0.80
5755211--5755288	31	2.5	31	89	4	113	53	6	11	28	1.61
5755469--5755511	22	2.0	22	95	0	77	46	13	0	39	1.44
5756426--5756450	7	3.6	7	100	0	50	60	40	0	0	0.97
5757608--5757642	2	17.5	2	93	0	61	45	0	0	54	0.99
5762868--5762895	2	14.0	2	100	0	56	50	0	0	50	1.00
5762938--5762968	2	16.0	2	93	6	55	51	0	0	48	1.00
5767922--5768008	43	2.0	43	93	0	147	29	13	8	48	1.71
5772636--5772695	29	2.1	29	100	0	120	55	6	15	23	1.64
5779326--5779380	20	2.6	22	88	8	80	30	14	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5781102--5781173	17	4.4	17	74	15	53	50	0	4	45	1.21
5793737--5793768	2	16.0	2	100	0	64	50	0	0	50	1.00
5795746--5795941	101	2.0	101	93	1	340	53	13	7	26	1.65
5805935--5806010	40	1.9	40	88	0	116	27	3	34	34	1.76
5807319--5807392	32	2.2	33	76	11	80	29	13	25	31	1.94
5821453--5822105	265	2.5	264	90	1	1054	19	30	24	25	1.98
5830213--5830255	8	5.6	8	83	10	54	53	6	39	0	1.28
5830213--5830247	14	2.5	14	95	0	61	51	8	40	0	1.33
5830213--5830255	14	2.9	14	80	12	50	53	6	39	0	1.28
5830213--5830255	6	7.2	6	86	0	50	53	6	39	0	1.28
5842332--5842383	15	3.2	17	78	15	65	30	3	15	50	1.62
5847811--5847837	2	13.5	2	100	0	54	51	0	0	48	1.00
5847837--5847861	2	12.5	2	100	0	50	52	0	48	0	1.00
5853397--5853424	4	7.0	4	100	0	56	50	0	50	0	1.00
5865462--5865527	27	2.4	27	82	0	78	19	24	22	33	1.97
5865787--5865881	27	3.5	27	73	12	79	27	24	16	31	1.97
5866059--5866150	36	2.5	37	77	5	98	28	19	13	39	1.89
5869131--5869197	27	2.5	27	87	0	98	16	23	23	35	1.95
5869380--5869436	27	2.1	27	80	6	62	19	21	19	40	1.92
5870287--5870331	2	23.5	2	91	8	76	48	0	0	51	1.00
5871561--5871591	16	1.9	16	93	0	53	74	0	0	25	0.82
5883030--5883064	13	2.6	14	90	4	54	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5893510--5893558	23	2.1	23	88	7	73	32	38	14	14	1.86
5893518--5893571	23	2.4	22	75	9	54	38	40	7	12	1.72
5893643--5893703	23	2.7	23	92	0	95	37	27	9	24	1.87
5893639--5893717	23	3.4	23	85	0	86	35	27	11	25	1.90
5893480--5893893	133	3.1	130	83	3	479	35	28	12	23	1.91
5893778--5893844	23	2.9	23	95	0	116	35	35	8	19	1.83
5893774--5893850	23	3.3	23	90	0	109	36	35	10	18	1.85
5895496--5895524	2	14.5	2	100	0	58	48	0	0	51	1.00
5903498--5904087	291	2.0	295	87	2	848	38	17	10	33	1.84
5905386--5905459	36	2.1	36	100	0	148	28	14	21	35	1.93
5914730--5914773	21	2.0	22	86	4	63	61	6	0	31	1.22
5915771--5915838	29	2.3	30	90	5	104	33	0	30	35	1.58
5918844--5919005	81	2.0	79	86	2	225	42	9	16	30	1.81
5919513--5920694	247	4.8	250	78	8	911	50	6	8	34	1.58
5919500--5920694	498	2.4	497	79	5	1275	50	6	8	34	1.58
5920725--5920767	20	2.0	22	86	8	63	55	6	4	32	1.47
5922311--5922340	15	2.0	15	100	0	60	53	13	6	26	1.64
5936431--5936483	2	27.5	2	84	7	74	50	0	47	1	1.12
5937339--5937379	17	2.2	18	87	12	57	2	19	0	78	0.87
5938066--5938139	24	3.0	23	69	13	58	47	2	2	47	1.30
5950046--5950090	20	2.3	19	85	11	56	44	2	2	51	1.26
5950046--5950104	20	3.0	20	79	18	54	45	3	1	49	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5960780--5960810	7	4.4	7	91	0	53	51	16	16	16	1.77
5962941--5963544	309	2.0	307	81	4	716	39	12	9	38	1.75
5963842--5963913	33	2.1	34	89	5	110	29	6	0	63	1.20
5966991--5967042	23	2.2	24	80	6	63	9	36	3	50	1.54
5968085--5968405	42	7.7	40	71	14	218	41	6	7	45	1.57
5968070--5968405	86	4.0	86	86	3	441	40	6	7	45	1.59
5969021--5969078	25	2.3	27	80	14	70	48	18	6	25	1.73
5969776--5969837	18	3.4	18	97	0	115	19	14	16	50	1.79
5974300--5974360	25	2.4	25	83	0	86	57	22	4	14	1.57
5975940--5976014	30	2.5	30	91	4	125	18	24	2	54	1.56
5976986--5977020	18	1.9	18	94	0	61	51	11	8	28	1.67
5982929--5982989	31	2.0	31	90	6	97	37	1	3	57	1.25
5983332--5983368	19	1.9	19	88	0	56	40	10	5	43	1.63
5992681--5992719	15	2.6	15	95	0	69	66	2	5	25	1.25
5992681--5992719	7	5.3	7	85	11	51	66	2	5	25	1.25
5996269--5996341	29	2.5	30	84	10	105	42	20	9	27	1.83
5996386--5996448	27	2.3	27	86	0	81	38	9	17	34	1.82
5996452--5996617	27	6.1	27	75	6	86	37	11	12	37	1.80
5996512--5996587	28	2.8	28	87	2	100	42	13	11	32	1.80
5996425--5996655	110	2.1	110	81	1	266	37	12	12	37	1.81
5996580--5996632	27	2.0	27	88	0	79	39	5	7	47	1.56
5997212--5997259	10	5.0	10	82	10	64	0	14	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5997212--5997259	15	3.2	15	85	14	64	0	14	0	85	0.60
5997213--5997259	19	2.5	19	100	0	94	0	14	0	85	0.61
5998765--5998822	26	2.1	27	82	17	68	56	1	5	36	1.32
6008161--6008855	352	2.0	353	96	0	1275	34	11	13	39	1.82
6009606--6009803	74	2.7	74	86	3	283	22	19	17	40	1.91
6011845--6011870	2	13.0	2	100	0	52	50	0	0	50	1.00
6014172--6014208	12	3.2	12	88	7	58	24	13	21	40	1.89
6015601--6015659	28	2.1	28	96	0	109	16	11	33	37	1.86
6016716--6016939	35	6.3	35	85	1	286	34	7	15	42	1.75
6016716--6016939	70	3.2	70	87	1	322	34	7	15	42	1.75
6017619--6017688	36	1.9	36	100	0	140	25	15	22	35	1.94
6043857--6043884	5	5.6	5	100	0	56	78	0	21	0	0.75
6046897--6046948	26	2.0	26	100	0	104	42	19	19	19	1.90
6048638--6048690	21	2.5	22	75	3	54	43	20	16	18	1.88
6052446--6052514	31	2.2	31	94	0	120	24	10	18	46	1.80
6053008--6053048	17	2.4	17	95	0	73	65	0	21	12	1.25
6055329--6055367	13	3.1	13	92	3	62	7	0	92	0	0.39
6055334--6055370	1	37.0	1	94	0	65	2	0	97	0	0.18
6055786--6055813	3	9.3	3	100	0	56	32	0	0	67	0.91
6065150--6065187	12	3.2	12	92	0	58	42	7	31	18	1.79
6065910--6065948	19	2.1	18	85	4	51	48	15	5	30	1.66
6065935--6065991	29	2.0	29	89	0	87	36	12	12	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6065944--6066000	29	2.0	29	82	6	71	38	14	14	33	1.85
6074721--6074775	17	3.4	15	80	14	65	38	1	1	58	1.20
6074720--6074778	15	3.6	16	80	15	75	38	1	1	57	1.19
6074719--6074778	18	3.5	17	80	15	70	38	1	1	58	1.18
6079220--6079247	2	14.0	2	100	0	56	50	0	0	50	1.00
6080767--6080800	16	2.1	16	100	0	68	38	26	23	11	1.89
6085087--6085258	84	2.0	84	84	0	218	43	15	25	15	1.86
6087559--6087583	2	12.5	2	100	0	50	48	0	0	52	1.00
6093292--6093348	21	2.7	21	77	2	60	40	15	15	28	1.88
6093591--6093624	18	1.9	18	88	5	52	55	0	14	29	1.40

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