genome.fa.s11.2.7.7.80.10.50.1000.4.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_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8132550

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

This is table  4  of  14  ( 1638 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)
1286556--1287153	208	2.8	215	86	4	780	46	5	8	40	1.56
1287462--1287505	2	22.5	2	83	4	54	54	0	0	45	0.99
1296106--1296234	15	8.2	15	70	10	69	25	16	43	14	1.86
1296115--1296234	48	2.5	48	87	2	161	26	15	45	13	1.83
1296160--1296223	33	1.9	33	90	0	101	28	17	42	12	1.85
1296208--1296250	15	2.9	15	82	0	50	34	23	32	9	1.87
1310660--1310698	20	2.0	20	84	0	51	23	10	17	48	1.78
1314668--1314762	30	3.1	29	83	8	118	37	1	0	61	1.03
1314769--1314831	33	1.9	33	96	0	117	33	4	19	42	1.72
1317922--1317953	6	5.3	6	100	0	64	0	15	65	18	1.27
1327596--1327631	2	18.0	2	100	0	72	50	0	50	0	1.00
1327442--1327784	173	2.0	174	91	2	557	30	7	37	24	1.83
1327616--1327906	146	1.9	151	91	4	484	29	8	35	26	1.86
1328539--1328837	151	2.0	151	93	1	510	35	13	24	27	1.92
1331509--1331533	2	12.5	2	100	0	50	0	0	48	52	1.00
1351319--1351360	17	2.3	19	84	12	52	45	0	2	52	1.13
1361924--1361965	7	6.0	7	97	0	75	26	28	16	28	1.97
1368480--1368509	2	15.0	2	100	0	60	50	0	0	50	1.00
1368970--1369046	40	1.9	40	100	0	154	55	2	20	20	1.55
1381279--1381310	3	10.7	3	100	0	64	0	31	0	68	0.90
1407836--1407878	16	2.6	16	82	13	52	55	0	0	44	0.99
1409479--1409509	15	2.1	15	100	0	62	25	19	0	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414194--1414320	42	3.1	40	79	13	127	40	11	13	33	1.81
1425939--1425974	2	18.0	2	94	0	63	0	47	0	52	1.00
1438465--1439018	276	2.0	275	95	2	1004	39	12	15	32	1.84
1441486--1441528	16	2.6	16	85	3	50	6	11	11	69	1.35
1448877--1448901	2	12.5	2	100	0	50	0	0	48	52	1.00
1449698--1449724	2	13.5	2	100	0	54	51	0	0	48	1.00
1451425--1451520	48	2.0	48	91	0	156	34	9	20	35	1.85
1453870--1453970	46	2.1	46	83	5	121	34	2	4	57	1.35
1454284--1454319	16	2.2	16	90	9	56	36	5	2	55	1.38
1473995--1474032	2	20.0	2	84	10	53	0	44	2	52	1.14
1480684--1480727	20	2.0	22	83	16	56	34	0	22	43	1.54
1482079--1482130	21	2.5	22	75	15	56	17	34	13	34	1.89
1487020--1487097	31	2.5	32	85	6	97	53	5	2	38	1.37
1487756--1487791	2	18.0	2	100	0	72	50	0	0	50	1.00
1513750--1513774	3	8.3	3	100	0	50	64	0	36	0	0.94
1521568--1522054	244	2.0	243	93	1	823	40	21	11	26	1.86
1546248--1546421	93	1.9	94	90	4	280	39	16	16	28	1.89
1567961--1568004	20	2.1	21	87	4	63	31	6	2	59	1.36
1583664--1583728	30	2.1	31	85	5	87	52	0	13	33	1.41
1595085--1595119	3	11.7	3	88	11	54	31	37	31	0	1.58
1595089--1595123	17	2.1	17	89	10	54	31	40	28	0	1.57
1611003--1611355	169	2.1	170	81	2	397	26	34	12	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619315--1619352	3	12.7	3	100	0	76	68	0	0	31	0.90
1620042--1620071	14	2.1	14	93	0	51	56	3	6	33	1.42
1620794--1620831	7	5.6	7	90	6	51	34	0	0	65	0.93
1633540--1633662	61	2.0	61	100	0	246	44	8	22	24	1.80
1634571--1634622	24	2.1	25	86	10	72	63	0	0	36	0.95
1634561--1634619	30	2.0	29	80	6	66	64	0	0	35	0.94
1634583--1634622	20	2.1	18	86	9	53	67	0	0	32	0.91
1641168--1641218	19	2.7	19	67	11	50	35	5	3	54	1.43
1653329--1653369	22	1.9	21	90	5	64	58	0	0	41	0.98
1653325--1653377	22	2.5	21	78	3	61	49	0	0	50	1.00
1654205--1654242	18	2.2	18	85	4	51	71	0	0	28	0.87
1675520--1675566	17	2.9	16	81	12	51	78	4	4	12	1.04
1691902--1691933	2	16.0	2	100	0	64	50	0	0	50	1.00
1694703--1694749	23	2.0	23	100	0	94	34	8	8	48	1.64
1697299--1697326	2	14.0	2	100	0	56	50	0	0	50	1.00
1707411--1707495	20	4.4	19	78	14	61	69	0	1	29	0.96
1707420--1707813	16	25.7	15	66	22	85	65	1	2	31	1.11
1707419--1707696	55	5.5	49	68	24	145	66	1	1	30	1.09
1707558--1707606	6	7.7	6	78	13	53	75	0	0	24	0.80
1707527--1707724	9	23.2	9	65	25	67	66	0	1	32	1.03
1707524--1707611	33	2.6	34	87	3	115	71	0	0	28	0.86
1707558--1707737	60	3.1	60	70	20	193	65	1	1	31	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707563--1707737	27	6.3	26	74	20	117	64	1	1	32	1.11
1707657--1707723	6	11.0	6	73	20	50	68	0	0	31	0.90
1707563--1707821	113	2.3	112	93	5	436	64	0	1	33	1.10
1707560--1707821	33	7.3	33	67	25	108	64	0	1	32	1.10
1707756--1707868	22	5.3	20	71	21	70	65	0	0	33	0.99
1707654--1707877	84	2.5	85	83	10	265	63	0	1	33	1.09
1707802--1707854	16	3.4	16	77	17	58	66	0	0	33	0.92
1707562--1707854	14	18.8	16	69	25	91	63	0	1	33	1.09
1707774--1707855	37	2.2	37	82	8	94	67	0	0	32	0.91
1707831--1707869	20	2.0	20	84	0	51	61	2	0	35	1.10
1711487--1711652	82	2.0	82	94	0	287	36	17	11	34	1.86
1718801--1718844	14	3.1	14	80	0	52	2	13	15	68	1.31
1736518--1736569	24	2.3	22	86	6	68	48	1	0	50	1.12
1751050--1751078	3	9.7	3	100	0	58	31	0	0	68	0.89
1751626--1751665	21	1.9	21	100	0	80	25	15	27	32	1.95
1761561--1761595	14	2.5	14	90	9	54	17	2	25	54	1.57
1769257--1769308	10	5.1	10	75	11	52	48	1	0	50	1.12
1778664--1778715	24	2.1	25	85	3	70	9	25	17	48	1.77
1786518--1786569	27	1.9	27	84	0	68	48	15	5	30	1.68
1787860--1787935	2	38.0	2	100	0	152	0	50	0	50	1.00
1790150--1790181	16	2.0	16	100	0	64	18	6	25	50	1.70
1811263--1811290	2	14.0	2	100	0	56	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)
1813294--1813846	276	2.0	276	96	0	1016	36	9	16	37	1.82
1815598--1815679	39	2.1	39	95	0	146	31	15	23	29	1.95
1820090--1820145	24	2.3	24	87	6	78	32	33	17	16	1.92
1820100--1820157	24	2.4	24	85	0	71	37	32	18	10	1.85
1834717--1834795	25	3.2	25	63	13	65	34	7	21	36	1.82
1834715--1834810	48	2.0	48	97	0	183	36	9	18	35	1.83
1857820--1857972	76	2.0	76	89	0	234	34	15	13	35	1.87
1857902--1858016	46	2.5	46	79	6	128	33	15	14	36	1.89
1857980--1858040	24	2.5	24	89	0	86	32	11	18	37	1.86
1859634--1859676	2	22.0	2	95	4	79	51	0	0	48	1.00
1868129--1868481	27	12.8	28	80	3	351	33	10	16	39	1.83
1868129--1868481	55	6.4	55	79	2	316	33	10	16	39	1.83
1868140--1868481	82	4.1	82	83	4	357	34	9	16	38	1.82
1868140--1868481	83	4.1	84	83	5	358	34	9	16	38	1.82
1870105--1870134	15	2.0	15	93	0	51	30	6	0	63	1.20
1870133--1870188	10	5.3	10	75	16	51	46	0	5	48	1.25
1882505--1882556	26	2.0	26	92	0	86	38	17	17	26	1.92
1888947--1888997	24	2.1	24	100	0	102	19	3	23	52	1.62
1890349--1890383	5	7.0	5	93	0	61	77	0	22	0	0.78
1896723--1896747	13	1.9	13	100	0	50	12	0	0	88	0.53
1897863--1897915	17	3.1	17	83	2	61	41	3	1	52	1.30
1912256--1912282	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917767--1917805	21	1.9	20	85	15	53	64	0	33	2	1.08
1920116--1920141	7	3.7	7	100	0	52	11	0	0	88	0.52
1922771--1922812	22	1.9	22	90	9	68	80	0	11	7	0.88
1925790--1925815	2	13.0	2	100	0	52	50	0	0	50	1.00
1928646--1928688	22	2.0	22	95	0	77	48	30	11	9	1.71
1951267--1951316	22	2.3	22	82	0	64	30	4	32	34	1.76
1951754--1951826	21	3.4	20	72	20	67	68	8	0	23	1.16
1953915--1953951	19	2.0	18	89	5	56	48	0	2	48	1.15
1959391--1959425	17	2.0	18	94	5	63	42	5	0	51	1.25
1967778--1967814	18	2.1	18	100	0	74	45	5	16	32	1.70

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