genome.fa.s1.2.7.7.80.10.50.1000.10.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   30   31   32   

This is table  10  of  32  ( 3821 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)
5144379--5144435	28	2.0	28	83	6	71	40	5	5	49	1.48
5148430--5148566	24	5.7	24	88	0	175	16	40	21	21	1.91
5148643--5148725	24	3.5	24	80	6	105	15	28	20	34	1.94
5156629--5156670	14	3.0	14	80	13	50	69	2	0	28	1.01
5158557--5158588	17	1.9	16	93	6	55	62	0	0	37	0.95
5164915--5164940	4	6.5	4	100	0	52	23	0	50	26	1.50
5164945--5164972	2	14.0	2	100	0	56	50	0	50	0	1.00
5178230--5178254	6	4.2	6	100	0	50	32	0	68	0	0.90
5197903--5197960	28	2.1	28	93	0	98	34	13	17	34	1.89
5215318--5215363	21	2.2	21	88	0	65	13	34	6	45	1.69
5218076--5218104	5	5.8	5	100	0	58	20	62	0	17	1.33
5230536--5230706	90	1.9	90	93	2	301	42	13	22	21	1.88
5231745--5231806	26	2.3	26	72	2	61	35	19	20	24	1.96
5232292--5232328	15	2.6	14	87	8	56	67	0	0	32	0.91
5235516--5235542	2	13.5	2	100	0	54	0	51	0	48	1.00
5256420--5256464	2	22.5	2	100	0	90	51	0	0	48	1.00
5258165--5258218	23	2.3	23	87	0	81	61	0	1	37	1.07
5258174--5258216	12	3.6	12	78	9	52	67	0	2	30	1.03
5258332--5258420	38	2.4	36	80	9	99	32	2	0	65	1.05
5265361--5265422	21	3.1	20	79	6	72	48	0	0	51	1.00
5278974--5279017	19	2.3	19	80	7	54	47	0	6	45	1.29
5279000--5279481	242	2.0	244	83	4	603	43	6	3	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5279320--5279369	22	2.3	23	83	16	70	38	4	2	56	1.30
5291066--5291105	19	2.0	21	85	9	57	37	0	0	62	0.95
5302079--5302118	21	2.0	19	90	9	62	50	0	2	47	1.14
5302073--5302127	21	2.6	21	77	16	60	50	1	1	45	1.22
5309109--5309143	18	2.0	18	88	5	54	48	0	0	51	1.00
5309123--5309203	29	2.9	28	70	21	71	33	0	2	64	1.07
5311371--5311410	10	3.9	10	84	15	55	30	2	0	67	1.04
5311450--5311517	32	2.1	32	83	5	84	29	1	0	69	0.98
5311475--5311538	18	3.3	20	74	12	71	29	0	0	70	0.88
5311450--5311527	30	2.5	32	79	6	79	30	1	0	67	0.98
5311460--5311514	18	2.9	18	76	12	56	27	1	0	70	0.97
5311567--5311644	38	2.0	40	82	9	99	28	0	1	70	0.95
5312087--5312142	22	2.5	22	100	0	112	62	0	0	37	0.95
5317709--5317754	24	1.9	24	100	0	92	17	10	30	41	1.84
5326331--5326365	3	11.7	3	100	0	70	0	31	0	68	0.90
5335211--5335237	2	13.5	2	100	0	54	48	0	0	51	1.00
5341828--5341874	22	2.1	23	84	11	62	34	6	10	48	1.63
5348943--5348976	16	2.1	16	100	0	68	55	17	5	20	1.62
5349256--5349300	16	2.9	16	86	3	56	13	11	22	53	1.71
5361766--5361857	2	46.0	2	100	0	184	0	50	0	50	1.00
5370875--5370994	60	2.0	60	93	0	204	36	16	20	25	1.94
5371320--5371353	8	4.2	8	96	0	59	11	2	14	70	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5378798--5378834	12	3.1	12	92	0	56	18	43	0	37	1.51
5378786--5378829	9	4.9	9	80	0	52	18	43	4	34	1.70
5378907--5378952	22	2.1	22	84	4	58	60	0	23	15	1.34
5383647--5383750	55	1.9	55	88	4	156	21	18	20	40	1.92
5384098--5384165	30	2.3	30	84	0	91	32	4	5	57	1.43
5385766--5385996	114	2.0	114	97	0	435	37	9	12	41	1.75
5405111--5405168	29	2.0	30	86	3	82	34	5	3	56	1.38
5405887--5405946	28	2.1	28	81	9	68	61	0	0	38	0.96
5405896--5405942	23	2.0	24	84	12	62	59	0	0	40	0.97
5415588--5415647	31	1.9	31	86	0	84	41	10	8	40	1.69
5417869--5418087	109	2.0	109	99	0	429	42	13	15	27	1.85
5421295--5421353	20	3.1	19	78	9	66	45	0	1	52	1.10
5421300--5421353	18	2.9	18	78	8	63	46	0	0	53	1.00
5428125--5428172	2	24.5	2	91	4	71	50	4	45	0	1.21
5453119--5453148	15	2.0	15	93	0	51	13	13	23	50	1.77
5463900--5463930	16	1.9	16	93	0	53	51	0	0	48	1.00
5465370--5465433	32	2.0	32	84	6	85	34	9	17	39	1.82
5468959--5468992	12	2.8	12	95	0	59	41	0	58	0	0.98
5468956--5468992	16	2.3	16	95	0	65	43	0	56	0	0.99
5473981--5474014	2	17.0	2	100	0	68	0	50	0	50	1.00
5483088--5483161	29	2.6	29	80	4	80	39	6	12	41	1.69
5502074--5502104	6	5.3	6	96	3	55	0	16	12	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5511731--5511786	23	2.4	23	81	3	67	33	1	0	64	1.04
5540291--5540336	6	7.7	6	95	0	65	8	4	52	34	1.52
5564645--5564758	55	2.0	57	90	6	180	55	7	6	31	1.51
5564569--5564819	135	1.9	135	81	8	314	53	6	6	33	1.52
5575220--5575244	5	5.0	5	100	0	50	20	60	0	20	1.37
5575726--5575785	23	2.6	23	100	0	120	26	23	31	18	1.97
5577168--5577192	5	5.0	5	100	0	50	80	0	20	0	0.72
5591266--5591290	6	4.2	6	100	0	50	48	0	36	16	1.46
5597959--5598015	20	2.8	20	81	5	60	68	0	0	31	0.90
5597968--5598048	15	5.5	15	72	16	64	71	0	0	28	0.86
5597959--5598144	33	5.5	34	70	14	100	67	0	1	30	1.04
5597956--5598048	38	2.5	39	75	16	92	69	0	0	30	0.88
5598012--5598124	30	4.2	25	71	18	84	69	0	1	28	1.05
5597967--5598084	15	8.0	15	64	23	63	68	0	1	29	0.99
5597965--5598156	88	2.2	91	77	15	217	67	0	2	29	1.06
5600137--5600179	18	2.4	18	80	0	50	11	18	20	48	1.79
5628101--5628193	46	2.0	46	91	0	150	33	16	11	38	1.85
5631690--5631730	6	6.3	7	78	16	52	85	0	12	2	0.70
5631694--5631730	19	2.0	18	94	5	65	86	0	10	2	0.67
5635520--5635552	2	16.5	2	100	0	66	48	0	0	51	1.00
5635984--5636030	22	2.0	24	84	15	64	44	0	0	55	0.99
5652323--5652408	44	2.0	44	92	0	145	20	27	10	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5668614--5668654	21	2.0	20	85	4	55	51	0	0	48	1.00
5668780--5668847	24	2.8	23	77	4	55	51	2	0	45	1.16
5673679--5673732	16	3.4	16	74	7	56	66	7	0	25	1.17
5673708--5673759	26	2.0	26	84	3	68	61	11	1	25	1.40
5680847--5680967	63	1.9	63	100	0	242	30	9	9	50	1.67
5680869--5680967	31	3.2	31	62	27	73	30	11	10	48	1.71
5684698--5684729	2	16.0	2	100	0	64	50	0	0	50	1.00
5697628--5697654	3	9.0	3	100	0	54	33	0	33	33	1.58
5698232--5698267	2	18.0	2	100	0	72	50	0	0	50	1.00
5698578--5698631	19	2.8	20	81	10	60	59	5	0	35	1.21
5710332--5710437	53	2.0	53	92	0	176	32	15	21	31	1.94
5731320--5731380	30	2.0	32	83	6	81	55	0	1	42	1.09
5740626--5740677	3	17.0	3	96	4	95	34	32	0	32	1.58
5750965--5750993	2	14.5	2	100	0	58	51	0	0	48	1.00
5768575--5768602	6	4.7	6	100	0	56	53	28	0	17	1.44
5771853--5771893	3	13.7	3	94	0	73	65	0	2	31	1.05
5781430--5781480	22	2.4	21	83	9	59	50	0	0	49	1.00
5781432--5781480	21	2.3	22	82	10	57	53	0	0	46	1.00
5784122--5784167	23	2.0	23	100	0	92	26	21	21	30	1.99
5790841--5790911	29	2.4	29	83	6	81	42	0	2	54	1.14
5791175--5791218	22	2.0	23	90	4	72	54	4	4	36	1.41
5793024--5793051	9	3.1	9	100	0	56	35	10	32	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5794277--5794310	2	17.0	2	100	0	68	50	0	0	50	1.00
5807984--5808021	18	2.1	18	90	9	60	21	5	10	63	1.46
5809237--5809270	16	2.1	17	88	5	52	52	0	2	44	1.16
5811379--5811415	15	2.4	16	86	8	51	10	13	13	62	1.55
5814563--5814589	5	5.4	5	100	0	54	81	0	0	18	0.69
5817513--5817543	6	5.2	6	100	0	62	16	0	16	67	1.23
5828968--5829006	8	4.8	8	84	6	51	84	10	2	2	0.81
5874718--5875182	230	2.0	230	93	0	788	26	18	20	34	1.96
5876681--5876705	4	6.2	4	100	0	50	24	0	0	76	0.80
5876932--5876970	15	2.5	15	87	8	51	79	2	10	7	1.02

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   30   31   32