genome.fa.s12.2.7.7.80.10.50.1000.13.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  13  of  18  ( 2130 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)
5386676--5386708	15	2.1	16	88	5	50	75	0	3	21	0.93
5387055--5387097	22	1.9	23	95	4	79	27	18	32	20	1.96
5387054--5387102	22	2.2	22	85	7	73	32	18	30	18	1.95
5388140--5388180	20	2.0	20	100	0	82	9	19	24	46	1.80
5394037--5394178	49	2.9	49	89	1	196	34	16	23	25	1.95
5398592--5398666	30	2.5	30	80	4	80	53	5	26	14	1.62
5398592--5398690	15	6.4	16	68	20	59	52	5	28	14	1.62
5417440--5417492	6	8.8	6	79	8	54	50	7	7	33	1.59
5417440--5417492	12	4.4	12	88	9	81	50	7	7	33	1.59
5422636--5422681	16	2.9	16	81	12	51	30	0	6	63	1.20
5422652--5422711	26	2.2	28	85	5	79	31	0	3	65	1.09
5424742--5424780	18	2.2	18	95	0	69	28	10	23	38	1.87
5424766--5425026	113	2.3	113	83	2	335	23	11	29	34	1.91
5424887--5425365	191	2.4	200	83	6	573	23	11	29	35	1.90
5425192--5425478	94	3.1	94	79	7	343	24	10	28	36	1.89
5425458--5425501	23	1.9	23	90	0	70	20	11	27	40	1.86
5427619--5427665	24	1.9	25	82	4	60	29	19	29	21	1.97
5429354--5429405	26	2.0	26	88	3	77	30	11	7	50	1.67
5429852--5429993	72	2.0	72	81	2	169	35	8	20	35	1.83
5429966--5430010	23	2.0	23	95	0	81	28	8	26	35	1.87
5433857--5433919	22	2.9	22	79	6	65	50	20	9	19	1.74
5434060--5434109	22	2.3	22	82	6	57	44	18	14	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5433705--5434316	203	3.0	202	85	2	789	42	23	11	22	1.86
5434270--5434311	22	1.9	22	85	9	59	47	23	9	19	1.78
5437397--5437429	2	16.5	2	100	0	66	48	0	0	51	1.00
5446297--5446354	3	19.3	3	100	0	116	65	0	0	34	0.93
5452422--5452458	17	2.2	17	90	9	58	75	0	0	24	0.80
5454522--5454577	19	3.1	18	79	20	64	67	0	1	30	1.01
5454520--5454593	9	7.7	10	70	19	50	67	0	1	31	0.99
5454534--5454590	5	10.6	5	78	17	53	71	0	1	26	0.95
5454730--5454797	14	4.6	14	72	20	50	67	0	0	32	0.91
5454729--5455028	10	30.2	10	63	23	66	64	0	2	33	1.08
5454740--5454803	31	2.1	31	85	11	87	70	0	0	29	0.88
5454621--5454802	23	8.0	23	68	20	80	64	0	2	31	1.11
5454729--5454825	51	1.9	51	81	8	117	67	1	1	30	1.05
5454858--5454939	7	12.0	7	75	17	75	67	0	1	31	0.99
5454854--5455049	20	10.6	20	64	25	65	64	0	2	33	1.05
5454970--5455004	18	1.9	18	94	0	61	65	0	0	34	0.93
5454822--5455003	16	11.4	17	63	25	53	62	0	2	34	1.10
5454658--5455102	111	4.0	110	87	10	617	63	0	2	33	1.11
5454972--5455052	16	4.6	17	69	21	51	64	0	1	34	1.02
5454980--5455060	33	2.5	33	75	15	87	62	0	1	35	1.03
5455035--5455066	12	2.6	13	85	14	50	53	0	6	40	1.26
5454665--5455102	169	2.6	170	73	14	415	63	0	2	34	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455028--5455098	28	2.5	28	74	17	67	60	0	2	36	1.11
5455247--5455292	15	3.1	15	80	0	56	28	28	10	32	1.91
5456935--5456981	21	2.2	21	81	7	60	25	10	17	46	1.79
5458650--5458718	34	2.0	34	100	0	138	50	17	11	20	1.76
5459354--5459458	50	2.1	50	91	3	167	21	9	17	51	1.73
5462456--5462487	2	16.0	2	100	0	64	50	0	0	50	1.00
5473837--5473900	21	3.1	21	93	2	103	35	21	7	34	1.83
5473763--5474037	144	1.9	145	81	8	337	33	18	11	36	1.87
5477406--5477435	15	2.1	15	93	6	53	20	23	6	50	1.71
5494719--5494758	21	1.9	21	89	0	62	27	2	12	57	1.48
5497646--5497806	79	2.0	79	97	0	304	39	16	18	25	1.91
5501348--5501432	41	2.1	41	88	0	125	40	22	4	32	1.75
5511672--5511719	15	3.2	14	82	11	60	0	31	2	66	1.03
5512855--5512881	11	2.5	11	100	0	54	48	0	0	51	1.00
5516806--5517001	23	8.4	23	66	10	94	27	15	32	25	1.95
5516829--5517391	47	12.1	47	78	8	465	28	16	29	25	1.97
5517110--5517191	23	3.5	23	65	3	65	28	20	30	20	1.98
5516833--5517390	186	3.0	186	87	1	778	28	17	29	24	1.97
5516845--5517399	139	4.0	138	78	10	429	28	16	29	24	1.97
5517296--5517375	23	3.4	23	68	21	76	23	21	36	18	1.95
5517406--5517453	23	2.0	24	84	11	64	25	16	35	22	1.95
5518009--5518362	31	11.4	31	86	3	446	20	17	21	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5518751--5518887	31	4.4	31	91	0	220	18	18	20	42	1.90
5519695--5519813	63	1.9	63	87	0	175	35	14	26	23	1.93
5523450--5523499	19	2.6	19	100	0	100	44	18	10	28	1.81
5525310--5525336	4	6.8	4	100	0	54	0	22	51	25	1.48
5526416--5526448	2	16.5	2	100	0	66	48	0	0	51	1.00
5529784--5529821	18	2.1	18	85	9	51	2	26	0	71	1.00
5530436--5530544	53	2.1	53	80	3	121	52	6	8	33	1.57
5530469--5530578	55	2.0	53	85	3	148	50	7	10	31	1.63
5534606--5534710	28	3.7	28	75	11	90	35	13	16	35	1.87
5541804--5541929	35	3.7	35	75	10	125	34	24	11	29	1.90
5545383--5545426	22	2.0	22	87	12	65	56	2	0	40	1.11
5545869--5546123	54	4.7	54	79	3	280	32	19	5	42	1.74
5551276--5551315	19	2.0	20	85	4	55	22	22	5	50	1.68
5556484--5556526	2	22.0	2	80	4	52	48	6	0	44	1.29
5556747--5556792	17	2.8	17	74	16	51	65	0	6	28	1.17
5557064--5557109	3	15.7	3	86	4	67	65	2	2	30	1.16
5557351--5557403	21	2.5	24	82	17	64	69	0	9	20	1.15
5562368--5562406	2	19.5	2	94	0	69	46	51	2	0	1.14
5570094--5570174	41	2.0	41	87	0	117	39	8	16	35	1.79
5574860--5574895	15	2.4	15	90	0	54	36	11	22	30	1.89
5575145--5575176	17	1.9	17	93	6	57	31	0	0	68	0.90
5575111--5575192	23	3.5	23	77	19	73	31	1	0	67	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5575042--5575270	113	2.0	114	96	0	424	32	4	0	62	1.22
5575208--5575273	15	4.1	15	73	19	53	30	6	1	62	1.29
5575336--5575414	5	15.2	5	74	18	56	25	2	0	72	0.98
5575284--5575417	55	2.6	52	82	13	152	27	3	0	67	1.12
5575348--5575420	38	2.1	37	85	12	100	27	2	0	69	1.02
5575336--5575420	38	2.3	37	73	16	88	27	2	0	70	0.99
5580448--5580482	2	17.5	2	100	0	70	48	0	0	51	1.00
5589569--5589617	21	2.3	21	77	19	57	24	2	4	69	1.17
5605838--5605994	26	5.7	27	70	12	97	61	1	2	34	1.17
5606091--5606156	23	3.0	22	80	10	66	65	0	0	34	0.93
5606083--5606158	28	2.9	27	80	9	68	64	0	0	35	0.94
5606103--5606162	24	2.5	24	84	12	79	66	0	0	33	0.92
5606103--5606175	25	3.0	25	79	18	66	65	1	1	31	1.09
5605995--5606230	110	2.1	115	81	10	276	60	1	4	34	1.24
5606529--5606581	12	4.5	11	75	15	52	73	0	1	24	0.93
5607767--5607839	33	2.2	33	82	0	92	64	0	5	30	1.16
5608671--5608721	16	3.2	16	77	2	50	47	5	5	41	1.52
5609916--5609966	18	2.8	18	83	16	61	33	0	0	66	0.92
5610988--5611018	14	2.2	14	94	0	53	58	0	0	41	0.98
5613730--5613808	21	3.8	21	84	0	95	36	11	20	31	1.88
5616684--5616722	19	2.1	18	85	4	51	43	2	10	43	1.52
5636543--5636871	172	1.9	175	80	5	389	44	8	18	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5637069--5637429	27	13.3	27	69	12	107	35	10	8	45	1.69
5637045--5637122	27	2.9	28	82	3	88	34	7	7	50	1.60
5637204--5637403	26	7.3	27	75	7	102	35	10	7	47	1.65
5637167--5637272	55	1.9	54	83	9	135	33	9	8	49	1.66
5637261--5637342	29	2.8	29	79	0	92	40	13	8	37	1.75
5637204--5637429	26	8.2	27	73	10	75	34	9	7	47	1.66
5638440--5638485	17	2.6	17	86	3	56	60	0	0	39	0.97
5646106--5646171	34	1.9	34	84	0	87	25	9	25	39	1.85
5652220--5652393	73	2.4	74	81	5	185	40	16	18	24	1.90
5658785--5658814	2	15.0	2	100	0	60	50	0	0	50	1.00

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