genome.fa.s10.2.7.7.80.10.50.1000.14.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

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

This is table  14  of  18  ( 2155 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)
6308950--6309020	34	2.2	32	89	5	106	47	8	35	8	1.64
6309252--6309350	33	3.0	33	86	0	135	26	21	32	20	1.97
6310376--6310412	2	18.5	2	94	0	65	51	0	2	45	1.15
6331302--6331347	14	3.4	14	80	14	53	4	23	0	71	1.03
6331312--6331349	19	2.1	18	85	14	51	7	21	0	71	1.11
6331489--6331524	16	2.2	17	95	5	65	36	5	0	58	1.22
6331535--6331579	21	2.1	21	84	8	56	33	2	4	60	1.29
6331957--6331995	17	2.2	17	86	9	51	48	7	0	43	1.31
6333969--6334004	17	2.1	17	89	0	54	41	16	0	41	1.48
6337718--6337751	17	1.9	17	88	5	50	35	5	0	58	1.22
6338319--6338359	22	1.9	21	90	5	64	53	0	0	46	1.00
6338307--6338362	16	3.1	19	75	21	57	51	0	3	44	1.18
6338659--6338724	33	2.0	32	85	8	89	46	3	4	45	1.38
6339584--6339634	22	2.3	22	76	6	59	68	5	3	21	1.27
6345759--6346391	27	23.6	27	72	7	304	32	23	26	17	1.97
6345791--6346366	54	10.8	54	74	8	392	32	23	26	17	1.97
6345912--6346016	26	3.9	26	77	13	95	33	21	22	21	1.97
6346055--6346411	159	2.2	160	81	3	407	31	23	27	17	1.97
6345880--6346362	53	9.0	52	75	8	274	32	24	26	17	1.97
6346059--6346411	80	4.4	78	75	5	269	32	23	27	16	1.96
6362791--6362841	27	1.9	27	88	4	77	35	1	5	56	1.35
6362791--6362854	26	2.4	27	82	10	71	39	3	4	53	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6369844--6369890	14	3.5	14	77	11	62	29	0	17	53	1.44
6373552--6373599	12	4.0	12	89	10	80	0	41	16	41	1.48
6374244--6374286	21	2.0	21	86	8	61	62	9	0	27	1.25
6378022--6378061	18	2.2	18	86	0	53	52	12	2	32	1.52
6385604--6385629	4	6.5	4	100	0	52	46	0	26	26	1.53
6395287--6395328	22	1.9	22	100	0	84	45	14	16	23	1.84
6398721--6398752	6	5.3	6	96	0	55	50	0	50	0	1.00
6407507--6407550	19	2.4	19	84	3	63	15	34	2	47	1.58
6428912--6428941	14	2.1	15	93	6	53	73	0	13	13	1.10
6433047--6433101	23	2.4	23	100	0	110	36	3	27	32	1.74
6433132--6433173	16	2.5	17	81	18	52	33	0	23	42	1.55
6433867--6433900	17	1.9	18	88	5	52	55	0	5	38	1.24
6434988--6435022	18	2.0	18	88	5	54	82	2	8	5	0.91
6435627--6435701	29	2.5	30	79	12	84	62	1	1	34	1.12
6435636--6435701	29	2.4	29	85	7	93	62	1	1	34	1.14
6435647--6435703	29	1.9	29	92	3	96	64	3	1	29	1.20
6435910--6435945	18	2.0	18	100	0	72	27	11	38	22	1.88
6436484--6436523	19	2.2	19	86	4	55	22	7	5	65	1.38
6442785--6442861	33	2.3	33	84	6	102	37	18	9	35	1.82
6442929--6442985	30	1.9	30	89	7	89	47	1	14	36	1.54
6448440--6448636	103	1.9	103	85	0	268	30	15	16	37	1.90
6451960--6452028	4	17.2	4	75	19	56	0	26	1	72	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6451958--6452016	17	3.6	17	78	17	61	0	28	0	71	0.87
6451961--6452028	28	2.4	28	88	11	95	0	25	1	73	0.92
6451958--6451991	18	1.9	18	94	5	61	0	29	0	70	0.87
6451960--6452036	7	10.3	7	72	17	57	0	25	1	72	0.92
6453628--6453717	36	2.5	35	73	7	81	31	23	8	36	1.86
6460046--6460089	21	2.0	22	86	4	63	61	9	0	29	1.27
6463976--6464125	75	2.0	75	100	0	300	29	24	17	29	1.97
6465409--6465551	66	2.4	55	76	22	178	32	22	16	28	1.96
6465424--6465556	66	2.0	66	100	0	266	30	24	17	28	1.97
6471843--6471885	14	3.1	14	76	10	52	37	0	4	58	1.19
6475113--6475217	19	5.2	19	68	22	70	56	0	0	41	1.12
6475117--6475220	42	2.5	41	89	3	154	59	0	0	38	1.10
6475314--6475388	27	2.7	28	75	6	80	56	4	0	40	1.18
6475377--6475403	14	1.9	14	100	0	54	81	0	0	18	0.69
6475429--6475585	65	2.4	65	76	14	160	56	1	0	40	1.15
6475596--6475821	64	3.6	60	73	16	190	54	2	0	41	1.20
6475629--6475800	42	4.1	42	65	23	110	55	1	1	41	1.17
6475438--6475761	148	2.1	152	88	8	498	54	2	1	41	1.23
6475660--6475763	22	5.0	21	73	16	81	51	0	0	46	1.13
6475429--6475936	276	1.8	282	88	5	782	53	2	2	41	1.26
6475608--6475890	128	2.3	125	89	3	428	53	1	2	43	1.23
6475664--6475858	42	4.6	41	73	15	162	52	1	2	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6475614--6475930	128	2.5	128	83	6	337	53	1	2	42	1.24
6482363--6482600	29	8.3	28	78	8	237	40	10	12	36	1.77
6482401--6482600	57	3.5	57	82	8	228	41	10	12	37	1.76
6482762--6482795	17	2.0	17	88	11	52	38	0	14	47	1.45
6493502--6493542	17	2.4	16	84	11	55	60	12	0	26	1.31
6497323--6497458	71	1.9	69	79	10	150	25	24	13	36	1.92
6499286--6499462	84	2.1	84	82	2	212	29	24	7	38	1.82
6512534--6512602	29	2.3	30	74	16	72	50	4	8	36	1.53
6523112--6523164	21	2.5	21	84	0	70	30	24	16	28	1.97
6529917--6530105	35	5.3	35	75	12	136	46	12	6	34	1.69
6532109--6532627	60	8.7	60	76	7	358	37	10	18	33	1.85
6534412--6534459	25	1.9	25	82	0	60	25	35	18	20	1.95
6549644--6549674	15	2.0	16	93	6	55	77	16	0	6	0.97
6551417--6551456	20	2.0	20	86	13	57	80	0	2	17	0.83
6558674--6558704	16	1.9	16	93	0	53	41	6	3	48	1.45
6562302--6562411	58	1.9	58	84	3	150	38	13	9	39	1.77
6576550--6576708	85	1.9	84	84	6	214	42	16	5	35	1.72
6576660--6576687	13	2.2	13	100	0	56	57	14	7	21	1.61
6576577--6576762	97	1.9	98	88	1	284	41	16	5	36	1.72
6584346--6584391	21	2.1	22	84	4	58	43	4	0	52	1.21
6594386--6594445	31	1.9	32	86	3	86	33	31	8	26	1.86
6595859--6595885	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6596521--6596561	21	1.9	22	85	5	57	29	14	12	43	1.82
6608188--6608243	28	2.0	28	86	6	78	0	41	1	57	1.09
6608219--6608260	17	2.5	17	78	17	52	2	40	2	54	1.26
6608999--6609028	11	2.7	11	100	0	60	30	0	0	70	0.88
6613144--6613208	33	2.0	33	87	0	94	35	16	7	40	1.78
6614031--6614074	19	2.2	19	84	8	52	20	29	0	50	1.49
6614715--6614846	51	2.6	51	86	0	174	42	11	14	31	1.81
6614690--6614834	25	5.7	25	69	15	100	43	13	11	32	1.78
6614764--6614870	26	4.2	26	77	4	101	40	14	17	28	1.88
6614933--6615010	28	2.8	27	79	11	70	43	17	14	24	1.86
6618357--6618579	115	1.9	114	80	10	258	38	12	10	39	1.77
6619101--6619129	11	2.6	11	100	0	58	48	10	6	34	1.64
6623811--6623851	21	2.0	20	85	4	55	53	4	0	41	1.22
6624805--6624833	11	2.6	11	100	0	58	48	10	6	34	1.64
6625500--6625524	2	12.5	2	100	0	50	52	0	0	48	1.00
6637346--6637380	2	17.5	2	87	0	52	51	5	0	42	1.25
6643412--6643452	2	20.5	2	100	0	82	51	0	0	48	1.00
6647745--6647794	14	3.6	14	75	20	50	4	28	0	68	1.08
6647747--6647802	28	2.0	29	85	3	78	3	28	0	67	1.07
6657504--6657599	50	1.9	51	87	4	142	20	25	31	22	1.98
6658322--6658365	10	4.2	10	77	11	52	52	2	0	45	1.13
6658320--6658362	22	2.0	22	95	0	77	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6658342--6658374	17	1.9	17	93	0	57	48	0	3	48	1.17
6663754--6663800	23	2.0	23	100	0	94	19	29	4	46	1.68
6664324--6664370	22	2.1	23	84	4	60	46	12	6	34	1.67
6665282--6665357	31	2.3	31	77	8	80	47	3	1	47	1.29
6666059--6666114	22	2.6	21	78	13	60	48	10	1	39	1.49
6666368--6666559	103	1.9	103	94	0	339	42	3	9	45	1.52
6669085--6669144	2	31.0	2	75	6	52	45	5	3	46	1.41
6675197--6675250	27	2.0	27	85	0	72	42	5	20	31	1.75
6679270--6679301	2	16.0	2	93	0	55	50	3	0	46	1.17
6687920--6689533	805	2.0	799	95	0	2674	38	11	15	34	1.83

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