genome.fa.s8.2.7.7.80.10.50.1000.13.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  13  of  19  ( 2280 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)
5285238--5285282	15	3.0	15	81	12	56	26	22	2	48	1.62
5289930--5290209	140	2.0	140	98	0	542	27	12	17	41	1.86
5291367--5291400	2	17.0	2	87	0	50	47	5	0	47	1.26
5295498--5295552	28	1.9	29	85	10	78	30	0	3	65	1.10
5295804--5295864	30	2.0	30	84	6	79	50	4	4	39	1.45
5295895--5295933	21	1.9	21	89	5	62	48	0	5	46	1.24
5315911--5316131	110	2.0	110	84	3	293	40	16	8	34	1.79
5319486--5319559	27	2.7	27	75	10	80	56	0	0	43	0.99
5319489--5319568	24	3.0	27	76	20	87	53	0	0	46	1.00
5319507--5319576	35	2.1	33	84	10	88	50	1	0	48	1.09
5319882--5319936	26	2.1	27	86	3	76	36	12	9	41	1.75
5320069--5320107	17	2.3	18	82	13	55	41	2	0	56	1.13
5321066--5321091	2	13.0	2	100	0	52	50	0	0	50	1.00
5338329--5338364	2	18.0	2	100	0	72	50	0	0	50	1.00
5349368--5349430	32	2.0	32	90	0	99	26	20	19	33	1.96
5351044--5351079	2	18.0	2	88	0	54	44	0	5	50	1.25
5360810--5360849	2	20.5	2	89	5	64	45	0	2	52	1.14
5366946--5366982	1	37.0	1	88	0	56	5	0	0	94	0.30
5366947--5366986	12	3.2	12	92	3	62	7	0	0	92	0.38
5384886--5384919	13	2.5	13	90	4	50	44	11	14	29	1.81
5385514--5385575	22	2.8	22	85	0	79	30	9	14	45	1.77
5385538--5385623	22	3.9	22	87	0	100	32	6	11	48	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5387192--5387230	2	19.5	2	100	0	78	48	0	0	51	1.00
5388700--5388742	22	1.9	23	85	4	61	44	2	11	41	1.53
5403050--5403090	21	1.9	22	90	5	66	60	0	0	39	0.96
5403259--5403304	20	2.2	21	88	3	67	43	6	0	50	1.28
5406208--5406284	30	2.7	29	78	11	95	37	3	1	57	1.26
5406524--5406582	30	2.0	30	100	0	118	54	6	3	35	1.44
5407585--5407613	11	2.5	12	88	11	51	82	0	17	0	0.66
5413888--5413925	20	2.1	19	85	14	53	23	5	0	71	1.07
5423489--5423516	3	9.3	3	100	0	56	0	32	0	67	0.91
5425991--5426132	50	3.0	47	81	6	146	42	4	23	28	1.74
5426493--5426535	17	2.6	17	82	10	54	53	0	0	46	1.00
5456200--5456609	15	26.9	15	65	21	117	31	3	1	64	1.18
5456201--5456266	22	3.2	20	74	21	55	31	0	0	68	0.90
5456310--5456392	24	3.5	24	78	13	84	30	1	1	67	1.06
5456200--5456279	23	3.5	24	79	17	66	33	0	0	66	0.92
5456132--5456504	113	3.3	114	91	5	602	31	4	1	62	1.22
5456478--5456613	54	2.7	49	79	17	145	30	2	0	66	1.09
5456457--5456616	33	4.8	32	72	20	98	30	1	0	66	1.06
5457111--5457135	3	8.3	3	100	0	50	32	0	0	68	0.90
5462648--5462682	19	1.9	19	88	11	56	51	2	8	37	1.47
5464891--5464987	14	7.0	14	67	18	51	56	2	3	38	1.27
5466878--5466908	15	2.0	16	93	6	55	16	19	0	64	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5473323--5473352	2	15.5	2	93	6	53	53	0	0	46	1.00
5480964--5481048	35	2.4	35	86	4	107	58	2	3	35	1.28
5502417--5502459	7	6.0	7	81	5	50	76	2	4	16	1.05
5512491--5512525	17	2.1	17	88	0	52	42	0	0	57	0.99
5517130--5517159	2	15.0	2	100	0	60	50	0	0	50	1.00
5532708--5532770	31	2.1	31	84	3	83	38	3	0	58	1.14
5535071--5535122	15	3.5	14	89	5	68	51	0	7	40	1.30
5535276--5535408	33	4.1	33	72	12	105	32	1	0	65	1.07
5535641--5535673	16	2.0	17	88	5	50	63	3	6	27	1.32
5535967--5536028	25	2.5	25	86	5	81	45	11	27	16	1.81
5542152--5542187	15	2.2	16	90	9	56	58	0	19	22	1.40
5583256--5583303	20	2.5	20	90	10	73	31	6	20	41	1.77
5591281--5591339	22	2.7	22	81	2	66	55	1	1	40	1.20
5591773--5591963	105	1.8	106	80	5	235	48	9	7	35	1.64
5591957--5592142	91	2.0	92	85	5	252	48	10	9	31	1.69
5593013--5593099	39	2.2	40	93	6	160	36	4	12	45	1.63
5596811--5596843	17	1.9	17	93	0	57	0	21	0	78	0.75
5599311--5599395	30	2.8	31	83	5	111	34	3	7	55	1.44
5599318--5599411	30	3.1	30	82	0	107	35	4	6	54	1.46
5599625--5599800	89	2.0	88	98	1	343	61	2	4	31	1.28
5599646--5599769	32	4.2	28	68	20	92	62	2	4	31	1.27
5599665--5599799	30	4.6	29	71	15	107	65	2	5	26	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5608072--5608113	20	2.1	20	100	0	84	40	19	16	23	1.91
5617044--5617085	17	2.4	18	80	7	52	52	7	2	38	1.42
5617087--5617126	21	2.0	20	85	5	53	27	2	0	70	1.01
5617900--5617940	15	2.7	15	88	3	55	73	0	2	24	0.96
5617523--5618203	253	2.7	251	83	6	840	51	4	8	35	1.52
5618230--5618347	31	4.0	28	71	19	87	31	4	0	64	1.13
5618231--5618358	45	2.8	46	78	3	134	32	3	0	63	1.13
5652359--5652422	21	3.1	21	78	10	69	48	18	6	26	1.72
5652387--5652503	21	5.6	21	70	9	62	48	22	3	25	1.66
5653880--5653924	21	2.1	21	87	0	63	40	13	24	22	1.90
5653808--5654248	222	2.0	222	91	0	722	37	12	25	24	1.90
5664749--5664803	25	2.2	26	83	9	69	36	0	0	63	0.95
5664742--5664814	29	2.6	29	80	8	80	39	0	0	60	0.97
5666892--5667061	90	1.9	91	92	1	288	24	17	23	34	1.96
5672907--5672950	21	2.1	21	91	0	70	13	9	47	29	1.74
5681397--5681429	16	2.1	16	94	0	57	42	12	27	18	1.85
5690517--5690551	12	2.9	12	91	0	52	40	8	0	51	1.33
5692982--5693053	28	2.6	27	80	10	92	41	2	6	48	1.44
5704360--5704455	27	3.6	27	72	12	81	32	12	27	28	1.93
5704471--5704534	26	2.4	26	78	2	65	23	12	31	32	1.92
5707730--5707778	22	2.4	19	81	18	55	55	0	0	44	0.99
5716134--5716167	16	2.1	16	88	0	50	38	2	5	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5716173--5716205	14	2.4	14	90	10	50	51	0	0	48	1.00
5716171--5716206	12	3.0	12	83	0	54	52	0	0	47	1.00
5718312--5718358	19	2.5	19	100	0	94	27	6	21	44	1.76
5724109--5724873	201	3.8	200	78	3	747	33	12	19	34	1.89
5724815--5724929	56	2.1	56	100	0	230	33	13	16	35	1.88
5724614--5725132	257	2.0	256	90	1	815	31	13	17	33	1.89
5729715--5730008	148	2.0	145	85	5	396	50	4	1	43	1.30
5729912--5729945	17	2.0	17	88	0	50	50	2	0	47	1.16
5729987--5730045	29	2.1	27	81	6	64	62	5	1	30	1.26
5748464--5748512	12	3.8	13	76	12	57	53	8	2	36	1.43
5748464--5748518	26	2.1	26	100	0	110	50	7	3	38	1.48
5752166--5752223	25	2.4	24	78	16	66	43	1	0	55	1.10
5752365--5752429	27	2.6	25	80	17	80	61	0	0	38	0.96
5752359--5752426	29	2.4	27	86	11	93	60	0	0	39	0.97
5755045--5755109	25	2.6	26	83	11	91	1	58	0	40	1.07
5755049--5755098	11	4.4	11	75	24	50	0	58	0	42	0.98
5765160--5765193	15	2.2	16	89	5	52	2	58	2	35	1.28
5779391--5779425	2	17.5	2	100	0	70	48	0	0	51	1.00
5780927--5781030	42	2.4	42	77	4	109	22	11	10	55	1.65
5781273--5781322	16	3.2	16	77	5	57	82	4	6	8	0.96
5788090--5788145	28	2.0	28	89	0	85	62	12	1	23	1.39
5794273--5794367	39	2.6	39	86	8	137	36	1	4	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5794299--5794383	39	2.2	39	80	0	98	35	4	4	55	1.42
5796048--5796072	6	4.2	6	100	0	50	20	64	16	0	1.30
5802267--5802299	2	16.5	2	100	0	66	51	0	0	48	1.00
5808792--5808827	17	2.1	18	89	5	56	55	2	0	41	1.14
5813289--5813346	29	2.0	30	86	3	82	39	1	0	58	1.08
5819287--5819366	40	2.0	40	92	0	133	41	12	20	26	1.87
5821364--5821422	6	9.8	6	73	14	50	1	33	0	64	1.04
5834319--5834352	2	17.0	2	100	0	68	50	0	0	50	1.00
5839617--5839649	2	16.5	2	93	0	57	51	3	0	45	1.16
5845679--5845727	26	2.0	24	84	8	62	44	6	6	42	1.54

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