genome.fa.s15.2.7.7.80.10.50.1000.11.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  11  of  13  ( 1452 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)
5176413--5176444	11	2.9	11	100	0	64	53	28	0	18	1.45
5185525--5185588	31	2.1	31	85	8	87	40	6	18	34	1.76
5188042--5188090	25	1.9	26	83	4	64	22	14	32	30	1.93
5192652--5192818	77	2.2	79	82	6	216	41	8	12	37	1.73
5210432--5210465	10	3.4	10	84	15	52	61	8	0	29	1.26
5215564--5215594	16	2.0	15	93	6	53	38	19	6	35	1.77
5220004--5220058	23	2.3	24	81	12	60	56	7	5	30	1.49
5231753--5231791	14	2.8	14	76	0	51	58	0	0	41	0.98
5231753--5231808	28	2.0	28	83	13	71	55	1	0	42	1.10
5238754--5238791	20	1.9	20	88	0	58	39	10	10	39	1.74
5238752--5238797	20	2.3	20	76	0	56	39	8	17	34	1.80
5241519--5241642	56	2.2	55	85	7	162	41	7	25	25	1.81
5257587--5257663	30	2.6	29	76	12	75	48	5	18	28	1.69
5260130--5260202	25	2.8	24	82	14	74	27	17	28	26	1.98
5260149--5260207	25	2.4	25	85	0	82	25	16	32	25	1.97
5265281--5265318	12	3.2	12	85	3	51	65	0	34	0	0.93
5272482--5272530	19	2.6	19	93	0	89	57	2	0	40	1.10
5281350--5281457	35	3.2	35	81	3	132	44	10	7	37	1.66
5290086--5290111	6	4.3	6	100	0	52	50	0	30	19	1.48
5291778--5291814	16	2.4	16	95	4	67	29	13	32	24	1.93
5292866--5292906	16	2.4	18	84	15	61	29	0	9	60	1.28
5303517--5303578	22	3.0	21	73	13	56	41	9	11	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5305990--5306033	21	2.0	22	91	4	72	61	6	0	31	1.22
5305994--5306046	26	2.0	27	81	3	63	56	9	0	33	1.32
5312910--5313232	68	4.8	68	82	2	319	34	9	19	36	1.84
5329599--5329677	28	2.8	29	71	5	74	29	21	20	29	1.98
5330223--5330275	21	2.5	21	81	6	63	39	18	16	24	1.91
5331403--5331557	68	2.3	68	80	5	188	27	23	20	27	1.99
5332672--5332786	50	2.3	49	82	5	133	29	10	19	40	1.84
5332757--5332812	21	2.8	20	78	10	60	39	8	14	37	1.77
5332984--5333014	16	2.0	15	93	6	53	64	19	3	12	1.41
5339151--5339347	45	4.5	45	78	6	215	34	20	17	27	1.96
5339187--5339347	87	1.8	87	86	6	236	34	19	18	27	1.95
5339277--5339333	22	2.6	22	72	2	62	33	17	14	35	1.90
5344569--5344622	26	2.1	26	89	0	81	31	22	11	35	1.89
5358140--5358175	12	2.8	13	83	8	56	83	2	13	0	0.76
5361190--5361261	36	2.0	36	94	0	126	43	23	22	11	1.85
5370777--5370834	29	2.0	29	96	0	107	18	37	22	20	1.94
5380662--5380770	49	2.2	49	91	0	182	25	13	24	35	1.93
5380679--5380795	49	2.4	49	88	1	162	29	9	24	36	1.87
5393590--5393657	22	3.2	20	80	12	73	5	25	0	69	1.11
5396978--5397412	216	2.0	217	82	2	534	35	13	15	35	1.87
5397301--5397468	86	2.0	86	86	0	237	32	20	13	33	1.92
5403689--5403759	33	2.1	36	81	7	85	35	16	5	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5403871--5403908	20	2.0	20	89	5	60	47	13	2	36	1.56
5408115--5408162	4	12.0	4	86	0	69	68	0	31	0	0.90
5408118--5408188	16	4.6	16	79	10	76	64	0	35	0	0.94
5409593--5409648	27	2.2	25	81	12	60	25	17	28	28	1.98
5411611--5411635	11	2.3	11	100	0	50	80	0	20	0	0.72
5420055--5420081	11	2.5	11	100	0	54	37	11	14	37	1.82
5421454--5421493	20	2.0	20	85	5	53	22	2	5	70	1.19
5421578--5421625	24	2.0	24	95	0	87	22	20	14	41	1.89
5439115--5439174	29	2.0	29	87	3	84	43	15	10	31	1.79
5439151--5439208	28	2.1	27	90	3	89	29	13	8	48	1.73
5439013--5439221	27	7.7	27	74	12	126	31	16	12	39	1.86
5439144--5439216	28	2.9	24	81	15	85	34	15	9	41	1.79
5439627--5439794	27	6.2	26	72	11	97	34	13	11	41	1.80
5439627--5439794	53	3.1	53	79	9	169	34	13	11	41	1.80
5441174--5441199	2	13.0	2	100	0	52	50	0	50	0	1.00
5442275--5442314	18	2.2	18	86	0	53	52	15	0	32	1.43
5446213--5446414	28	7.0	28	77	9	165	36	12	9	41	1.77
5446213--5446407	57	3.4	57	76	7	171	36	12	9	40	1.77
5455336--5455384	26	1.9	25	83	4	62	18	16	34	30	1.93
5461737--5461793	26	2.1	28	80	6	64	40	12	12	35	1.80
5461716--5461913	29	6.7	30	76	11	162	38	13	9	38	1.77
5461750--5461874	56	2.2	56	85	5	164	37	13	8	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5461843--5461913	34	2.1	35	86	7	101	42	16	8	32	1.79
5461737--5461920	28	6.4	28	73	19	130	38	13	9	39	1.77
5464553--5464589	16	2.2	17	90	4	58	37	10	8	43	1.69
5466268--5466330	29	2.2	29	88	0	90	38	7	20	33	1.82
5466835--5466875	16	2.5	17	84	11	59	75	0	24	0	0.80
5474661--5474701	19	2.2	19	86	0	55	60	0	0	39	0.96
5487668--5487715	20	2.5	19	82	3	51	25	2	12	60	1.43
5495695--5495773	14	5.5	14	73	11	70	0	31	1	67	0.99
5495685--5495773	29	3.1	29	90	1	135	0	30	1	68	0.97
5495691--5495768	15	5.3	15	78	6	88	0	33	1	65	1.01
5495731--5495771	21	2.0	21	85	9	57	0	31	2	65	1.05
5496633--5496711	40	2.0	40	89	0	122	40	18	6	34	1.76
5499910--5500014	45	2.3	45	80	0	111	15	38	16	30	1.89
5502865--5502919	28	2.0	28	85	0	74	23	1	14	60	1.44
5508760--5508787	13	2.2	13	100	0	56	50	25	0	25	1.50
5514127--5514343	106	2.1	105	80	4	242	41	12	9	37	1.75
5516387--5516451	30	2.2	30	88	5	96	23	38	10	27	1.88
5521002--5521110	57	1.9	58	96	1	202	43	21	5	30	1.75
5525697--5525781	35	2.3	36	79	15	86	32	16	11	38	1.85
5527809--5527863	28	2.0	28	85	7	76	69	1	16	12	1.28
5530558--5530609	20	2.6	20	82	11	70	28	0	11	59	1.32
5532620--5532787	73	2.3	73	87	2	239	34	15	21	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5532978--5533044	35	1.9	35	87	0	98	40	14	23	20	1.90
5535828--5535865	20	1.9	20	94	0	67	31	15	15	36	1.90
5538777--5538810	17	2.0	17	100	0	68	29	5	29	35	1.81
5558593--5558631	16	2.4	16	82	0	51	66	0	33	0	0.92
5574419--5574470	21	2.5	21	87	3	70	38	11	9	40	1.74
5575497--5575661	80	2.1	77	84	5	215	32	10	23	33	1.89
5582773--5582833	21	3.0	20	80	7	68	36	18	9	36	1.84
5593512--5593554	21	2.0	21	95	0	77	60	6	0	32	1.23
5601050--5601074	13	1.9	13	100	0	50	24	16	16	44	1.86
5603000--5603077	41	1.9	41	84	5	104	48	12	19	19	1.80
5616685--5616722	20	1.9	19	89	5	58	44	5	21	28	1.73
5624305--5624340	17	2.1	18	89	5	56	0	25	5	69	1.10
5628693--5628738	19	2.4	19	81	3	56	41	0	0	58	0.98
5628955--5629030	21	3.4	21	74	16	64	48	2	2	46	1.30
5628925--5629031	23	4.5	24	70	14	80	47	2	1	47	1.27
5628996--5629048	26	2.0	26	89	7	81	54	0	1	43	1.11
5629127--5629199	27	2.7	26	77	12	76	53	0	1	45	1.09
5629195--5629248	20	2.7	20	94	0	90	44	0	0	55	0.99
5630396--5630526	45	2.9	46	70	5	115	24	23	18	33	1.97
5636923--5636992	30	2.3	31	80	14	83	34	18	17	30	1.94
5640823--5640877	26	2.1	26	93	0	92	32	3	3	60	1.32
5642753--5642798	6	7.7	6	87	0	56	47	17	2	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5642818--5642942	18	7.0	18	70	12	69	31	2	19	47	1.62
5642896--5642946	6	8.5	6	91	0	66	23	0	25	50	1.49
5642871--5642946	12	6.2	12	80	8	73	27	1	21	50	1.57
5642898--5642946	18	2.7	18	96	0	89	24	0	24	51	1.49
5642892--5642960	24	3.0	24	85	4	79	24	1	23	50	1.57
5644445--5644498	19	2.8	20	80	2	56	33	14	12	38	1.85
5653239--5653297	27	2.1	28	84	3	75	33	11	15	38	1.84
5655598--5655627	14	2.1	15	93	6	53	70	6	10	13	1.34
5656251--5656295	20	2.2	20	88	0	63	51	4	0	44	1.21
5656470--5656500	13	2.4	13	94	0	53	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13