genome.fa.s3.2.7.7.80.10.50.1000.24.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  24  of  29  ( 3437 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)
10125794--10125918	52	2.4	53	81	9	130	36	11	10	42	1.75
10126025--10126090	21	3.1	21	82	0	87	28	15	22	33	1.94
10126025--10126110	42	2.0	44	84	8	115	30	13	20	34	1.92
10126617--10126650	3	11.3	3	93	0	59	29	0	0	70	0.87
10128468--10128499	16	2.0	16	100	0	64	43	6	6	43	1.54
10143218--10143246	2	15.0	2	92	7	51	51	0	48	0	1.00
10145624--10146003	189	2.0	190	91	0	618	25	18	17	36	1.92
10161223--10161261	15	2.8	14	88	7	53	35	5	10	48	1.59
10161797--10161873	30	2.6	30	83	4	102	49	15	7	27	1.72
10168340--10168449	56	1.9	58	81	7	136	22	19	15	42	1.88
10169971--10170003	2	16.5	2	100	0	66	51	0	48	0	1.00
10174108--10174138	2	15.5	2	100	0	62	51	0	0	48	1.00
10176473--10176497	12	2.1	12	100	0	50	16	8	52	24	1.70
10182256--10182280	12	2.1	12	100	0	50	48	8	0	44	1.32
10187014--10187054	21	2.0	22	85	9	59	46	14	14	24	1.82
10201028--10201139	57	2.0	57	90	0	179	33	9	11	45	1.73
10202826--10202898	29	2.6	28	71	22	71	39	1	2	56	1.22
10203190--10203374	101	1.8	101	88	2	282	52	8	9	29	1.63
10203804--10203828	2	12.5	2	100	0	50	52	0	0	48	1.00
10207452--10207514	27	2.3	27	100	0	126	25	44	4	25	1.73
10213543--10213584	6	7.3	6	86	10	52	50	11	0	38	1.40
10213548--10213578	16	1.9	16	93	0	53	51	12	0	35	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10216129--10216159	8	3.9	8	95	0	53	0	41	6	51	1.27
10243458--10243483	3	8.7	3	100	0	52	69	0	0	30	0.89
10246710--10246854	47	3.1	47	85	0	218	39	31	15	14	1.87
10247379--10247525	73	2.0	74	93	1	251	25	20	23	31	1.98
10265771--10265821	20	2.7	18	77	19	50	50	3	0	45	1.20
10265774--10265823	19	2.5	20	78	15	59	46	4	0	50	1.20
10265792--10265863	35	2.1	35	81	5	83	48	1	1	48	1.18
10266232--10266265	16	2.1	17	88	5	52	41	0	0	58	0.98
10268476--10268517	21	2.0	21	95	0	75	45	19	14	21	1.85
10282360--10282389	5	6.0	5	92	0	51	56	0	0	43	0.99
10296650--10296682	15	2.1	17	88	11	52	45	0	6	48	1.27
10296734--10296783	22	2.3	22	82	0	64	32	6	10	52	1.59
10296881--10296936	23	2.4	23	87	0	76	35	16	7	41	1.75
10296894--10296942	23	2.1	23	88	0	71	34	16	10	38	1.82
10296900--10296999	23	4.4	24	75	9	68	34	24	11	31	1.90
10296934--10296995	23	2.7	23	80	2	72	33	32	11	22	1.90
10297021--10297074	22	2.5	21	76	8	54	46	16	9	27	1.78
10317109--10317137	2	14.5	2	100	0	58	51	0	0	48	1.00
10317943--10317971	2	14.5	2	100	0	58	51	0	48	0	1.00
10329423--10329453	6	5.2	6	96	0	53	67	0	29	3	1.06
10356728--10356762	7	5.0	7	90	10	54	42	0	0	57	0.99
10378353--10378524	85	2.0	85	94	0	299	40	12	19	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10388171--10388217	23	2.1	23	84	4	60	74	12	6	6	1.20
10389361--10389426	27	2.4	27	78	14	71	39	3	0	57	1.14
10389571--10389613	18	2.4	19	80	11	54	53	0	2	44	1.13
10389625--10389687	27	2.2	30	83	10	80	58	0	3	38	1.14
10412492--10412539	21	2.3	20	75	10	51	50	0	35	14	1.44
10430596--10430645	4	12.2	4	76	19	50	24	2	0	74	0.93
10430596--10430643	18	2.6	19	78	18	57	22	2	0	75	0.91
10430596--10430645	22	2.2	23	89	10	77	24	2	0	74	0.93
10430607--10430657	23	2.3	22	86	3	66	23	5	0	70	1.09
10430953--10431080	61	2.1	61	94	0	220	39	5	9	45	1.60
10434586--10434628	17	2.5	17	80	0	50	69	0	30	0	0.88
10442483--10442543	30	2.0	30	100	0	122	27	19	16	36	1.93
10443963--10444017	27	2.0	28	89	3	85	45	1	18	34	1.60
10464734--10464787	20	2.6	22	80	14	69	35	0	0	64	0.94
10467122--10467159	16	2.3	17	81	4	51	57	2	0	39	1.12
10467751--10467780	12	2.4	13	88	11	53	70	0	0	30	0.88
10470487--10470519	2	16.5	2	100	0	66	51	0	0	48	1.00
10486710--10486744	17	2.2	17	90	10	56	31	0	0	68	0.90
10487615--10487666	25	2.1	25	100	0	104	30	30	11	26	1.92
10487696--10487728	2	16.5	2	100	0	66	48	0	0	51	1.00
10489416--10489582	27	6.2	27	80	6	142	41	5	7	44	1.56
10489418--10489582	82	2.0	80	82	4	197	41	6	7	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10489416--10489582	55	3.1	52	78	5	154	41	5	7	44	1.56
10489526--10489575	25	2.1	23	89	10	75	42	4	8	46	1.52
10489445--10489598	80	1.9	82	82	2	195	42	5	7	44	1.55
10494263--10494328	28	2.3	29	80	12	75	46	3	1	48	1.26
10519219--10519289	30	2.3	30	79	11	81	54	5	5	33	1.47
10520703--10520989	142	2.0	143	85	4	391	40	8	8	43	1.64
10522130--10522176	20	2.3	20	86	10	69	57	0	42	0	0.98
10524340--10524502	64	2.5	64	82	5	179	61	9	26	1	1.36
10524597--10524657	33	1.9	33	86	6	90	45	3	1	49	1.28
10524680--10524740	15	3.7	16	74	20	54	39	1	0	59	1.08
10524677--10524744	33	2.1	33	81	10	77	39	1	0	58	1.07
10529464--10529521	25	2.3	25	76	5	64	43	1	1	53	1.21
10529774--10529808	18	1.9	18	88	11	54	54	0	0	45	0.99
10537201--10537323	62	2.0	62	93	3	212	14	17	19	48	1.81
10569706--10569735	2	15.0	2	92	0	51	46	0	0	53	1.00
10573545--10573571	2	13.5	2	100	0	54	51	0	0	48	1.00
10582649--10582683	3	11.7	3	100	0	70	65	0	0	34	0.93
10584399--10584453	14	3.9	14	77	20	51	3	18	0	78	0.90
10594035--10594072	2	18.5	2	94	5	67	50	2	0	47	1.15
10599082--10599166	32	2.6	33	81	5	100	27	4	2	65	1.24
10599069--10599153	32	3.0	27	70	21	66	28	5	1	64	1.24
10608839--10608873	3	11.7	3	87	0	52	0	28	34	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10608996--10609044	21	2.3	21	92	0	80	8	26	28	36	1.85
10609320--10609355	18	2.0	18	94	0	63	0	5	30	63	1.17
10609414--10609443	9	3.3	9	95	0	51	0	3	43	53	1.17
10626106--10626172	29	2.4	27	77	15	82	38	0	0	61	0.96
10626124--10626178	18	3.4	18	69	27	59	36	0	0	63	0.95
10626116--10626178	30	2.1	30	91	2	101	34	0	0	65	0.93
10626325--10626362	14	2.9	13	81	11	51	50	0	2	47	1.15
10626322--10626393	21	3.5	20	74	10	58	58	0	1	40	1.07
10626345--10626439	28	3.3	29	75	18	76	62	0	1	36	1.03
10626383--10626429	21	2.3	21	74	3	51	68	0	2	29	1.02
10633956--10633994	16	2.4	16	86	4	51	25	7	5	61	1.44
10634976--10635084	46	2.4	45	83	8	127	22	22	19	36	1.95
10634993--10635084	46	2.0	46	93	0	157	23	19	18	38	1.93
10634927--10635164	112	2.1	112	94	0	415	23	21	18	36	1.95
10635967--10636051	41	2.1	41	95	0	152	30	17	21	30	1.96
10636206--10636339	66	2.0	66	81	5	155	22	23	16	38	1.93
10636964--10637073	54	2.0	54	94	0	193	44	11	15	28	1.82
10638148--10638176	15	2.0	15	93	6	51	62	0	10	27	1.28
10659329--10659362	3	11.0	3	87	6	50	32	2	2	61	1.26
10678915--10678955	6	6.7	6	86	5	55	75	0	2	21	0.92
10698232--10698263	2	16.0	2	100	0	64	50	0	50	0	1.00
10709396--10709452	29	2.0	29	86	6	80	66	1	5	26	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10711517--10711557	14	2.8	15	82	14	50	0	17	4	78	0.93
10717517--10717562	17	2.7	17	79	0	56	80	0	10	8	0.91
10717513--10717563	18	3.0	18	80	8	54	80	0	9	9	0.91
10732542--10732566	13	1.9	13	100	0	50	60	16	24	0	1.36
10741798--10741833	2	18.0	2	94	0	63	0	52	0	47	1.00
10785411--10785441	6	5.3	6	96	3	55	0	12	0	87	0.55
10791754--10791794	3	13.7	3	89	0	64	31	29	34	4	1.79
10807131--10807172	22	1.9	22	85	9	59	61	16	2	19	1.44
10826796--10826823	5	5.6	5	100	0	56	57	0	42	0	0.99
10828946--10829537	209	2.8	207	84	3	776	45	4	7	42	1.52

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