genome.fa.s6.2.7.7.80.10.50.1000.13.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  13  of  22  ( 2632 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)
5312139--5312175	2	18.5	2	100	0	74	48	0	0	51	1.00
5325126--5325162	19	2.1	18	85	14	51	67	5	24	2	1.25
5342058--5342090	13	2.5	13	90	9	50	63	3	0	33	1.10
5342062--5342090	13	2.1	14	93	6	51	68	3	0	27	1.05
5347941--5347978	16	2.4	16	86	8	51	5	0	7	86	0.69
5350418--5350471	19	2.8	19	75	10	65	37	1	1	59	1.19
5351185--5351222	18	2.1	18	85	9	51	42	2	2	52	1.29
5366768--5366875	56	1.9	56	88	3	164	39	10	11	38	1.75
5367067--5367119	26	2.1	26	82	3	63	45	0	5	49	1.26
5367253--5367312	22	2.8	20	74	18	50	46	0	0	53	1.00
5368876--5368974	31	3.1	31	76	13	103	45	4	13	37	1.62
5391333--5391378	15	3.1	15	87	3	67	76	0	0	23	0.79
5391459--5391502	19	2.3	18	85	14	54	50	0	11	38	1.39
5391528--5391558	16	2.0	15	93	6	53	64	0	0	35	0.94
5391537--5391576	13	2.7	16	85	14	59	67	0	0	32	0.91
5399984--5400009	2	13.0	2	100	0	52	50	0	0	50	1.00
5400558--5400613	15	3.9	14	79	13	60	28	1	1	67	1.10
5400546--5400628	14	6.0	14	75	17	59	28	1	2	67	1.11
5400546--5400616	29	2.5	29	76	17	78	26	1	1	70	1.04
5400780--5400815	16	2.1	18	90	10	58	16	0	13	69	1.19
5400972--5401009	18	2.1	18	90	9	60	39	5	2	52	1.38
5401016--5401066	27	2.0	27	84	7	70	41	1	3	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5402418--5402472	22	2.5	22	84	0	65	56	0	0	43	0.99
5402703--5402739	19	2.0	19	94	5	67	27	2	5	64	1.28
5402727--5402777	24	2.2	23	82	10	59	45	1	0	52	1.12
5405665--5405689	13	1.9	13	100	0	50	44	0	0	56	0.99
5405704--5405855	79	1.9	81	84	8	209	42	5	5	46	1.50
5408043--5408085	14	3.2	13	87	9	59	53	0	0	46	1.00
5408076--5408117	18	2.4	18	80	4	50	57	0	0	42	0.99
5408579--5408612	16	2.2	15	89	5	50	61	0	0	38	0.96
5408866--5408909	19	2.3	18	85	14	54	50	0	11	38	1.39
5408935--5408964	16	1.9	15	93	6	51	63	0	0	36	0.95
5408947--5408976	11	2.6	12	94	5	53	66	0	0	33	0.92
5415492--5415744	27	9.1	27	70	16	137	33	2	0	63	1.10
5415481--5415650	55	3.2	48	69	25	137	33	2	0	63	1.09
5415480--5415763	29	10.1	27	69	19	111	33	2	0	63	1.12
5415555--5415627	21	3.5	22	78	17	84	31	0	0	68	0.90
5415482--5415749	35	7.3	37	68	20	127	33	2	0	63	1.11
5415554--5415627	15	5.1	15	69	22	50	31	0	0	68	0.89
5415480--5415812	111	3.0	112	90	8	540	32	2	0	63	1.14
5415661--5415739	23	3.5	22	77	16	74	32	0	0	67	0.91
5415480--5415812	112	3.0	112	91	6	538	32	2	0	63	1.14
5415771--5415849	30	2.6	30	75	16	74	25	2	0	72	0.98
5415827--5415910	26	3.2	24	71	20	71	29	1	1	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5415770--5415934	24	6.6	25	67	25	66	28	2	0	68	1.06
5415899--5415949	25	2.0	26	84	3	68	35	1	0	62	1.06
5416322--5416496	44	4.0	44	75	3	138	40	9	11	38	1.74
5429220--5429288	34	2.1	33	88	2	102	27	4	14	53	1.59
5437027--5437310	27	10.4	27	98	0	523	44	14	10	29	1.80
5437499--5437584	40	2.2	40	97	0	163	34	18	12	33	1.89
5437562--5437626	32	2.0	32	100	0	130	38	9	24	27	1.86
5437780--5437899	60	2.0	60	100	0	240	33	3	31	31	1.74
5442638--5442670	16	2.0	17	94	5	59	33	0	18	48	1.48
5450925--5450961	7	5.0	7	90	9	56	16	0	2	81	0.81
5451367--5451391	3	8.3	3	100	0	50	36	0	0	64	0.94
5460751--5460851	50	2.0	50	100	0	202	50	15	11	21	1.76
5461242--5461316	37	2.0	37	89	0	114	26	17	16	40	1.90
5463647--5463672	2	13.0	2	100	0	52	0	50	0	50	1.00
5468547--5468600	26	2.1	26	89	0	81	66	0	3	29	1.09
5468898--5468928	16	1.9	16	93	0	53	58	12	6	22	1.58
5469938--5469967	2	15.0	2	100	0	60	50	0	50	0	1.00
5475642--5475667	13	2.0	13	100	0	52	23	23	38	15	1.92
5484540--5484805	106	2.5	106	85	3	356	29	18	24	27	1.98
5502982--5503015	2	17.5	2	87	6	52	47	0	2	50	1.16
5503956--5504004	22	2.2	23	82	13	59	16	4	4	75	1.11
5511811--5511865	27	2.0	27	100	0	110	36	18	5	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5525634--5525863	115	2.0	112	82	4	273	39	6	12	41	1.70
5527857--5527894	17	2.3	17	86	4	51	18	0	7	73	1.06
5536612--5536636	2	12.5	2	100	0	50	0	48	0	52	1.00
5544216--5544305	3	30.0	3	78	8	58	0	21	34	44	1.52
5544223--5544299	21	3.5	22	79	10	86	0	18	36	45	1.49
5544514--5544585	6	12.5	6	75	8	60	6	12	33	47	1.68
5544529--5544585	12	4.8	12	86	0	69	8	12	33	45	1.72
5549396--5549463	29	2.3	29	90	5	102	27	22	11	38	1.89
5550199--5550250	25	2.2	25	86	6	72	42	3	23	30	1.72
5574878--5574934	4	14.8	4	80	14	66	28	0	24	47	1.52
5574879--5574931	18	3.1	18	78	10	74	26	0	24	49	1.51
5586751--5586823	26	2.8	26	97	0	137	49	15	5	30	1.67
5600768--5600824	26	2.1	27	87	3	80	43	7	15	33	1.74
5600770--5600832	26	2.5	25	77	7	65	39	6	15	38	1.73
5600792--5600939	52	2.9	51	77	5	131	45	9	10	35	1.70
5600831--5600938	26	4.2	26	81	0	99	48	9	8	34	1.65
5600796--5600876	26	3.2	25	75	6	74	44	11	11	33	1.75
5600904--5600981	29	2.8	27	77	15	70	46	5	7	41	1.55
5600863--5601061	26	7.5	26	72	9	100	48	8	7	36	1.61
5601028--5601090	30	2.1	29	85	2	81	53	9	7	28	1.61
5601761--5601834	37	1.9	38	89	8	114	21	22	8	47	1.77
5607619--5607661	21	2.0	21	82	8	52	20	18	4	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5608413--5608475	33	1.9	33	100	0	126	20	22	9	47	1.78
5612061--5612105	19	2.4	19	82	17	58	53	0	28	17	1.44
5613179--5613203	11	2.3	11	100	0	50	56	8	0	36	1.29
5613867--5613965	25	3.9	24	75	18	78	50	9	7	33	1.61
5613867--5613938	25	2.9	25	76	21	80	50	9	8	31	1.65
5613900--5613981	27	3.1	26	76	10	78	50	8	8	32	1.63
5613996--5614058	26	2.5	25	86	2	81	46	1	11	41	1.49
5614868--5614973	27	3.9	27	82	2	122	50	4	9	34	1.55
5615047--5615071	11	2.3	11	100	0	50	52	8	8	32	1.60
5619322--5619383	28	2.2	28	82	0	70	32	19	11	37	1.87
5619909--5619949	21	2.0	21	90	0	64	41	17	9	31	1.82
5619989--5620075	21	4.1	22	76	8	74	48	19	4	27	1.68
5622944--5623132	81	2.4	80	78	7	188	42	9	12	35	1.75
5624688--5625199	148	3.4	147	86	1	666	22	30	13	33	1.92
5625882--5626015	45	3.0	45	80	0	160	35	14	18	32	1.91
5625991--5626040	21	2.4	21	79	0	55	28	14	20	38	1.91
5626025--5626197	82	2.1	81	82	8	210	41	12	13	32	1.82
5626156--5626210	26	2.1	27	83	6	69	47	14	10	27	1.78
5638131--5638155	12	2.1	12	100	0	50	40	0	8	52	1.31
5641424--5641462	16	2.4	17	86	4	53	43	0	0	56	0.99
5645691--5645742	26	1.9	28	84	7	72	78	3	9	7	1.06
5653659--5653683	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5653683--5653712	2	15.0	2	100	0	60	0	0	50	50	1.00
5653903--5653948	23	1.9	25	91	8	78	56	4	0	39	1.19
5654886--5654966	20	4.0	21	65	22	57	40	0	0	59	0.98
5654913--5654966	16	3.1	18	71	20	51	42	0	0	57	0.98
5670194--5670223	8	3.8	8	95	0	51	43	6	0	50	1.28
5677814--5678144	164	2.0	165	91	1	531	23	13	12	50	1.75
5690798--5690835	2	19.0	2	88	0	58	50	0	47	2	1.15
5691267--5691308	22	2.0	21	82	13	52	38	4	7	50	1.51
5692473--5692499	2	13.5	2	100	0	54	51	0	0	48	1.00
5692717--5692755	2	19.5	2	100	0	78	0	48	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22