genome.fa.s26.2.7.7.80.10.50.1000.4.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_018397279.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2022356

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 501 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)
1465119--1465367	114	2.3	110	77	12	246	43	7	24	24	1.80
1476325--1476390	32	2.1	32	100	0	132	53	9	6	31	1.57
1478086--1478119	2	17.5	2	87	6	52	50	0	0	50	1.00
1478088--1478117	15	2.0	15	93	0	51	50	0	0	50	1.00
1478086--1478120	17	2.1	17	94	0	61	48	0	0	51	1.00
1478425--1478472	25	1.9	25	83	8	62	47	0	2	50	1.12
1492775--1492812	19	2.0	19	100	0	76	31	31	21	15	1.94
1509020--1509062	19	2.3	19	100	0	86	46	11	11	30	1.76
1512431--1512531	53	1.9	53	85	4	141	42	13	14	28	1.85
1512726--1512774	25	1.9	25	83	4	62	44	4	12	38	1.61
1512866--1512989	64	2.0	63	85	1	167	38	18	16	26	1.91
1517290--1517326	15	2.5	15	100	0	74	16	27	0	56	1.40
1531444--1531528	27	3.3	25	72	19	68	48	0	2	49	1.14
1536986--1537015	2	15.0	2	100	0	60	50	0	0	50	1.00
1540205--1540244	21	1.9	21	90	10	64	35	15	15	35	1.88
1540303--1540337	18	1.9	18	94	0	61	34	5	14	45	1.68
1540350--1540414	23	2.8	23	81	6	69	40	7	15	36	1.76
1540889--1540941	19	2.8	18	76	18	54	37	0	1	60	1.08
1540883--1540950	20	3.5	19	75	16	68	35	0	1	63	1.04
1551117--1551177	26	2.3	26	94	0	104	39	21	13	26	1.90
1552222--1552256	2	17.5	2	100	0	70	51	0	0	48	1.00
1566990--1567048	21	2.8	21	84	0	82	28	27	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568107--1568154	25	1.9	25	86	0	69	29	16	18	35	1.93
1573130--1573186	27	2.2	27	84	6	73	40	0	7	52	1.28
1573117--1573242	26	5.1	24	69	22	68	39	0	4	55	1.21
1573269--1573322	27	2.0	27	85	0	72	42	1	1	53	1.22
1573116--1573405	136	2.1	139	84	7	369	38	0	3	57	1.22
1573313--1573379	26	2.6	26	84	11	77	43	1	1	53	1.19
1573308--1573382	33	2.3	34	81	9	84	45	1	1	52	1.17
1573128--1573468	136	2.6	132	78	11	349	40	1	3	53	1.29
1573435--1573745	153	2.1	151	84	5	414	44	3	3	48	1.38
1573734--1573779	9	4.8	9	80	15	56	56	0	0	43	0.99
1573435--1573782	152	2.3	151	83	5	420	45	3	3	47	1.36
1573734--1573799	30	2.2	31	91	2	107	53	0	1	45	1.09
1573768--1573853	19	4.0	21	69	26	65	44	1	4	50	1.30
1573849--1573900	22	2.4	21	81	12	61	44	0	1	53	1.11
1583500--1583573	21	3.5	21	76	7	78	45	2	2	48	1.30
1583500--1583560	27	2.3	28	75	16	67	45	3	3	47	1.35
1592955--1592981	2	13.5	2	100	0	54	51	0	48	0	1.00
1603492--1603537	17	3.1	15	77	17	51	56	4	0	39	1.19
1614583--1614662	18	4.2	18	77	14	63	51	17	3	27	1.62
1614598--1614662	22	3.1	22	67	24	68	53	15	3	27	1.56
1614598--1614684	40	2.3	37	88	7	122	52	13	2	31	1.53
1614627--1614693	18	3.7	18	80	4	73	47	10	2	38	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628664--1628719	26	2.2	26	100	0	112	46	16	10	26	1.79
1630160--1630185	13	2.0	13	100	0	52	15	0	30	53	1.42
1652187--1652224	12	3.2	12	82	10	51	2	23	0	73	0.95
1652186--1652226	20	2.0	20	86	9	57	7	21	0	70	1.11
1662595--1662635	15	2.7	15	92	0	73	31	26	9	31	1.89
1662855--1662884	12	2.4	13	94	5	53	43	10	6	40	1.64
1670180--1670228	24	2.1	24	84	3	64	32	16	10	40	1.82
1673820--1673905	30	2.9	31	80	13	99	40	10	20	27	1.85
1694236--1694266	16	1.9	16	100	0	62	38	9	25	25	1.86
1698554--1698593	19	2.0	20	85	4	55	40	0	30	30	1.57
1714540--1714564	3	8.3	3	100	0	50	32	0	0	68	0.90
1715474--1715516	21	2.0	21	86	0	59	44	16	13	25	1.85
1719966--1720032	15	4.4	15	81	9	73	35	8	20	34	1.84
1720183--1720772	28	21.1	28	66	20	170	33	2	1	63	1.13
1720253--1720326	6	12.0	6	74	8	51	29	0	0	70	0.88
1720259--1720660	21	18.4	20	66	25	94	33	1	0	63	1.11
1720473--1720547	6	12.0	6	72	13	53	29	0	0	70	0.87
1720470--1720660	21	8.4	24	68	22	101	32	1	0	64	1.07
1720179--1720739	221	2.5	222	93	5	949	33	2	1	62	1.15
1720582--1720775	31	6.4	29	71	20	132	31	1	1	66	1.05
1720179--1720739	111	5.0	113	90	7	916	33	2	1	62	1.15
1720589--1720684	43	2.1	42	82	16	113	35	1	0	63	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1720699--1720786	38	2.2	37	82	11	95	26	0	2	71	0.98
1720737--1720859	29	4.4	27	67	24	69	28	2	1	67	1.13
1737960--1738119	80	2.0	82	88	4	245	35	13	10	40	1.80
1740602--1740634	2	16.5	2	93	0	57	45	0	0	54	0.99
1745189--1745232	22	2.0	22	90	4	70	40	11	9	38	1.73
1748458--1748497	19	2.1	19	90	0	62	15	47	5	32	1.66
1751007--1751049	21	2.0	22	86	4	61	39	2	2	55	1.25
1752831--1752912	26	3.2	26	64	3	67	40	7	6	46	1.56
1752823--1752929	51	2.1	51	82	3	126	43	7	4	43	1.53
1753050--1753089	15	2.4	18	80	12	50	45	0	5	50	1.23
1753081--1753120	17	2.3	17	86	4	62	47	0	5	47	1.24
1761667--1761738	22	3.3	22	75	7	74	44	19	8	27	1.79
1764354--1764423	34	2.1	34	89	5	106	42	5	12	38	1.67
1771883--1771938	22	2.5	22	77	8	60	60	0	0	39	0.97
1773718--1773780	25	2.5	25	100	0	126	39	12	17	30	1.87
1781552--1781599	25	1.9	24	83	8	60	54	4	10	31	1.53
1788784--1788833	2	25.0	2	100	0	100	50	0	0	50	1.00
1799367--1799420	27	1.9	29	81	7	67	35	3	0	61	1.14
1817631--1817687	20	2.8	21	68	7	55	49	7	1	42	1.40
1820693--1820730	17	2.3	17	86	4	51	15	18	7	57	1.62
1821374--1821414	18	2.2	18	91	8	64	53	0	0	46	1.00
1822417--1822472	17	3.3	17	75	9	60	76	1	17	3	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1826656--1826725	35	2.0	35	85	0	95	42	22	12	21	1.87
1831182--1831212	2	16.0	2	93	6	55	0	51	0	48	1.00
1835013--1835069	29	1.9	30	89	3	89	29	33	5	31	1.80
1835013--1835070	15	3.9	15	86	2	82	31	32	5	31	1.80
1835121--1835178	27	2.1	27	100	0	116	10	29	34	25	1.89
1835204--1835231	14	2.0	14	100	0	56	14	28	35	21	1.92
1835916--1835947	2	16.0	2	100	0	64	50	0	0	50	1.00
1836649--1836688	19	2.1	19	95	0	71	30	27	5	37	1.78
1844504--1844545	16	2.7	16	81	3	50	45	2	7	45	1.44
1850866--1850898	14	2.5	13	86	13	50	36	12	3	48	1.56
1852152--1852203	22	2.4	22	90	3	79	26	5	11	55	1.58
1852294--1852337	21	2.1	21	87	8	63	38	6	6	47	1.57
1856733--1856765	18	1.9	17	88	11	50	72	6	9	12	1.26
1863747--1863773	6	4.5	6	100	0	54	33	0	29	37	1.58
1869824--1869848	13	1.9	13	100	0	50	48	20	8	24	1.76
1882429--1882493	30	2.2	30	88	0	94	30	15	6	47	1.70
1891651--1891745	26	3.7	26	83	7	113	33	11	12	42	1.79
1899228--1899256	14	2.0	15	93	6	51	58	0	0	41	0.98
1900014--1900062	2	24.5	2	82	0	62	48	6	2	42	1.39
1903469--1903501	2	17.5	2	87	12	52	0	51	0	48	1.00
1903469--1903498	11	2.7	11	89	0	51	0	50	0	50	1.00
1913735--1913950	119	1.8	120	83	3	292	42	12	8	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1914009--1914215	112	1.8	113	85	3	292	28	22	13	36	1.91
1927711--1927786	39	1.9	39	91	0	125	10	31	28	28	1.90
1927745--1927804	30	2.0	30	83	0	75	16	30	25	28	1.97
1932222--1932253	2	16.0	2	93	0	55	46	3	50	0	1.17
1945752--1945781	4	7.5	4	92	0	51	0	23	0	76	0.78
1952799--1952827	2	14.5	2	100	0	58	51	0	48	0	1.00
1960017--1960052	14	2.5	15	86	13	58	75	5	0	19	1.00
1964001--1964773	181	4.1	182	77	9	687	23	11	24	40	1.87
1964218--1964592	203	1.8	203	85	2	529	23	12	22	40	1.88
1964049--1964953	384	2.4	384	86	1	1215	23	11	23	41	1.87

Tables:   1   2   3   4   5