genome.fa.s3.2.7.7.80.10.50.1000.17.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  17  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)
6204801--6205017	108	2.0	108	82	5	260	21	23	15	40	1.90
6220549--6220619	21	3.4	21	71	7	72	45	1	4	49	1.30
6220813--6220880	35	1.9	35	85	5	93	38	20	16	25	1.92
6232145--6232202	30	2.0	29	83	10	73	53	10	5	31	1.57
6232351--6232400	25	2.0	25	84	7	66	36	4	4	56	1.37
6241580--6241615	2	18.0	2	88	0	54	47	5	0	47	1.25
6250222--6250264	14	3.2	14	74	12	54	46	9	13	30	1.75
6251681--6251746	24	2.8	24	97	0	123	22	28	10	37	1.88
6262733--6262776	20	2.1	21	83	4	54	68	0	0	31	0.90
6262727--6262793	27	2.6	25	86	9	89	62	0	1	35	1.04
6262795--6262832	18	2.1	19	90	5	60	36	0	0	63	0.95
6283746--6283823	35	2.2	35	100	0	156	29	33	15	21	1.94
6291954--6291991	18	2.2	17	86	9	51	60	0	0	39	0.97
6292209--6292274	29	2.2	31	81	5	82	34	4	3	57	1.34
6310740--6310767	2	14.0	2	100	0	56	50	0	0	50	1.00
6320013--6320063	21	2.4	22	74	12	52	43	0	5	50	1.26
6320095--6320124	15	2.0	15	93	0	51	43	0	6	50	1.28
6325465--6325495	3	10.3	3	92	0	53	32	3	0	64	1.09
6326482--6326558	25	2.9	26	75	7	84	33	7	14	44	1.74
6338193--6338226	18	1.9	18	88	5	52	76	2	5	14	1.09
6343856--6343905	23	2.3	23	79	6	59	44	0	4	52	1.20
6348840--6348871	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6369782--6369811	3	10.0	3	100	0	60	33	0	0	66	0.92
6370927--6370979	26	2.0	26	96	0	97	26	13	3	56	1.54
6370992--6371119	65	2.0	66	92	1	213	54	7	5	32	1.50
6373625--6373656	7	4.6	7	92	0	55	56	28	0	15	1.40
6374163--6374214	23	2.3	22	80	6	68	19	25	1	53	1.55
6381868--6381895	13	2.2	13	100	0	56	35	21	14	28	1.92
6395276--6395313	18	2.1	18	85	9	51	57	7	0	34	1.28
6395766--6395841	17	4.7	17	66	18	54	52	2	9	35	1.47
6397074--6397147	37	2.0	37	97	0	139	37	17	2	41	1.64
6404711--6404878	87	1.9	87	89	2	257	19	25	22	33	1.97
6404897--6405009	36	3.1	36	81	5	138	18	28	19	33	1.95
6427656--6427698	14	3.1	15	84	15	58	46	0	0	53	1.00
6427710--6427756	21	2.3	21	85	10	62	59	0	4	36	1.17
6432208--6432346	73	1.9	73	89	0	215	31	20	21	26	1.98
6439030--6439090	22	2.8	22	76	0	68	29	4	11	54	1.57
6439943--6440007	25	2.6	25	75	17	73	30	13	12	43	1.81
6439919--6440003	26	3.4	26	71	14	72	31	14	10	43	1.79
6439958--6440148	84	2.3	84	80	3	217	34	10	12	43	1.76
6442604--6442641	19	1.9	19	89	5	58	71	0	28	0	0.87
6442513--6442677	79	2.1	79	96	1	305	63	1	21	14	1.38
6442992--6443027	17	2.1	17	100	0	72	19	0	22	58	1.40
6443686--6443749	27	2.4	27	89	0	101	53	3	12	31	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6443818--6443990	92	1.9	92	90	4	278	48	10	10	29	1.73
6444032--6444124	46	2.0	45	91	6	152	56	5	19	18	1.60
6482964--6482990	2	13.5	2	100	0	54	51	0	48	0	1.00
6490305--6490360	29	1.9	29	85	7	78	35	1	0	62	1.06
6496226--6496266	19	2.2	19	91	8	66	17	29	0	53	1.44
6496045--6497147	468	2.4	470	80	6	1167	29	20	8	41	1.83
6497822--6497872	28	2.0	27	85	14	72	31	19	15	33	1.93
6505851--6505951	35	2.8	37	82	8	122	40	7	3	47	1.51
6514372--6514400	2	14.5	2	100	0	58	51	0	48	0	1.00
6518424--6518464	19	2.1	20	90	4	66	24	14	56	4	1.58
6519625--6519770	71	2.1	71	98	0	283	36	4	16	42	1.69
6519884--6519943	23	2.6	23	81	0	75	36	25	13	25	1.92
6519955--6520012	21	2.8	21	78	0	62	36	25	17	20	1.94
6525216--6525248	15	2.3	15	89	5	50	12	9	3	75	1.14
6525365--6525434	26	2.7	26	72	12	63	35	14	11	38	1.82
6526672--6526713	22	1.9	22	85	9	59	59	0	0	40	0.97
6529564--6529598	18	1.9	18	88	0	52	31	0	54	14	1.40
6531155--6531194	22	1.9	20	85	10	53	50	0	5	45	1.23
6531296--6531358	27	2.3	27	78	10	67	50	1	1	46	1.20
6531336--6531382	20	2.4	20	78	3	60	42	6	4	46	1.48
6532281--6532320	21	1.9	21	94	0	71	67	15	0	17	1.23
6537334--6537375	21	2.0	21	90	0	66	33	28	7	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6543772--6544178	26	15.0	26	64	24	100	65	0	2	31	1.10
6543768--6543881	54	2.1	57	82	11	139	66	0	1	30	1.08
6543832--6543940	33	3.2	33	76	14	94	67	0	2	28	1.10
6543833--6543940	38	3.0	37	76	14	100	68	0	2	27	1.09
6543857--6544045	32	5.5	33	71	20	122	66	0	2	30	1.07
6543970--6544228	28	9.2	28	68	22	109	62	0	2	34	1.08
6543957--6544228	57	4.9	50	68	21	161	62	0	2	34	1.09
6543981--6544048	20	3.2	21	76	17	70	67	0	0	32	0.91
6543894--6544228	114	3.0	112	92	6	556	63	0	2	34	1.10
6543932--6544217	16	19.3	15	65	21	72	62	0	2	34	1.13
6544027--6544214	55	3.2	63	73	18	206	62	0	3	34	1.11
6544095--6544162	6	11.0	6	75	17	50	69	0	0	30	0.89
6544374--6544418	15	3.0	15	86	0	72	28	24	11	35	1.90
6550216--6550277	31	2.0	33	84	9	85	56	0	9	33	1.32
6550290--6550332	21	2.0	22	86	9	61	46	2	0	51	1.13
6552351--6552433	29	2.9	28	83	3	103	39	12	9	38	1.75
6553773--6553828	26	2.2	25	81	9	67	50	3	0	46	1.19
6555497--6555531	18	1.9	18	94	0	61	54	0	31	14	1.40
6560349--6560391	20	2.2	20	83	8	52	46	23	20	9	1.79
6574714--6574760	18	2.6	18	80	16	53	65	2	0	31	1.04
6577196--6577300	45	2.3	45	83	0	138	31	20	19	28	1.97
6577336--6577403	29	2.3	31	82	5	86	39	14	11	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6577355--6577430	29	2.7	28	81	4	73	42	14	7	35	1.75
6580123--6580430	98	3.2	94	86	3	400	47	4	5	43	1.46
6580373--6580417	17	2.6	17	89	6	65	60	0	0	40	0.97
6583090--6583403	167	1.9	167	91	4	517	37	14	9	38	1.79
6598244--6598329	43	2.0	43	100	0	172	41	4	25	27	1.75
6603641--6603711	36	2.0	36	82	0	88	28	11	16	43	1.83
6603958--6603988	9	3.4	9	95	0	53	32	0	19	48	1.49
6605249--6605279	15	2.0	16	93	6	55	25	6	25	41	1.79
6610162--6610204	2	21.5	2	95	0	77	48	2	0	48	1.14
6619012--6619036	12	2.1	12	100	0	50	24	8	8	60	1.52
6621167--6621197	2	15.5	2	100	0	62	51	0	0	48	1.00
6623264--6623304	22	1.9	21	85	14	57	48	0	0	51	1.00
6628489--6628580	29	3.2	28	77	6	96	42	9	8	39	1.69
6628612--6628686	24	3.0	25	77	15	66	33	12	13	41	1.81
6629807--6629836	2	15.0	2	100	0	60	50	0	0	50	1.00
6631678--6631834	74	2.1	73	87	4	217	40	5	8	46	1.56
6631927--6631966	21	1.9	21	84	0	53	35	0	0	65	0.93
6633733--6633757	4	6.2	4	100	0	50	24	0	0	76	0.80
6634081--6634116	2	18.0	2	88	0	54	0	50	0	50	1.00
6643574--6643607	17	1.9	18	94	5	61	41	0	0	58	0.98
6643574--6643616	17	2.4	18	85	11	54	41	2	0	55	1.12
6644161--6644198	3	12.7	3	100	0	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6645595--6645624	4	7.5	4	100	0	60	73	0	0	26	0.84
6647855--6647928	15	5.1	15	75	9	73	40	36	18	4	1.70
6647853--6648092	21	11.4	21	77	7	184	37	34	23	5	1.77
6647969--6648083	3	38.3	3	87	0	167	39	33	26	0	1.57
6649879--6649916	6	6.5	6	90	3	60	47	31	18	2	1.62
6659394--6659442	21	2.3	21	79	6	55	0	20	2	77	0.87
6669844--6669882	18	2.1	19	85	4	53	28	0	5	66	1.12
6677907--6678106	33	6.2	33	72	19	129	68	1	1	29	1.03
6678036--6678121	20	4.3	20	68	19	54	69	1	1	27	1.03
6678052--6678101	6	7.8	6	78	12	55	76	0	0	24	0.80

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