genome.fa.s18.2.7.7.80.10.50.1000.5.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_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

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

This is table  5  of  11  ( 1249 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)
1416067--1416120	22	2.5	21	82	11	65	62	12	1	22	1.39
1420966--1421042	37	2.1	37	95	0	136	35	19	11	33	1.88
1433003--1433040	16	2.4	16	79	12	51	68	5	26	0	1.11
1434256--1434305	25	1.9	25	84	8	64	24	8	32	36	1.84
1440968--1441013	18	2.4	19	82	17	51	63	6	4	26	1.38
1441486--1441572	33	2.6	33	85	3	102	68	0	3	27	1.05
1443648--1443676	14	2.1	14	100	0	58	13	27	27	31	1.94
1447581--1447673	42	2.2	42	82	5	116	38	27	12	20	1.89
1449656--1449695	19	2.2	19	90	4	64	50	0	5	45	1.23
1450493--1450611	56	2.1	56	80	0	130	34	11	29	24	1.91
1457326--1457362	15	2.5	15	100	0	74	29	5	21	43	1.75
1457670--1457763	29	3.2	28	80	7	98	32	24	14	27	1.95
1464971--1465036	29	2.3	29	81	0	78	31	24	18	25	1.97
1471466--1471500	15	2.3	15	90	0	52	14	0	5	80	0.89
1471470--1471507	19	2.0	20	84	5	51	15	0	5	78	0.91
1477314--1477372	21	2.8	21	73	19	68	47	20	13	18	1.82
1480487--1480536	17	2.9	17	93	3	82	44	16	4	36	1.66
1480895--1480935	20	2.0	20	86	9	57	36	9	19	34	1.85
1496152--1496211	25	2.4	25	91	0	93	30	30	13	26	1.94
1497654--1497697	23	1.9	23	81	9	54	0	34	0	65	0.93
1504035--1504061	14	1.9	14	100	0	54	29	7	44	18	1.77
1509882--1509922	21	2.0	21	85	9	57	0	29	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522614--1522639	3	8.7	3	100	0	52	0	0	34	65	0.93
1526537--1526630	35	2.7	35	86	0	98	23	14	23	38	1.92
1526580--1526682	35	3.0	34	83	11	122	26	11	25	36	1.90
1545237--1545308	23	3.3	23	80	16	75	0	36	2	61	1.11
1545223--1545312	8	11.1	8	70	18	62	1	34	2	62	1.15
1545258--1545317	4	15.2	4	72	10	52	0	31	3	65	1.09
1545267--1545317	20	2.6	19	87	3	66	0	31	1	66	1.03
1546865--1547046	35	5.2	35	76	1	166	37	8	12	41	1.73
1546870--1547027	71	2.2	71	78	1	183	36	9	10	43	1.72
1551200--1551391	105	1.8	105	89	0	303	23	20	15	41	1.90
1551183--1551415	105	2.2	105	82	1	288	24	21	13	40	1.89
1553133--1553250	52	2.3	53	88	5	163	35	23	18	22	1.96
1553162--1553255	26	3.6	26	78	5	109	35	23	17	24	1.95
1553387--1553436	24	2.0	25	84	3	66	34	24	16	26	1.95
1553481--1553550	26	2.7	26	90	0	113	30	24	24	21	1.99
1573242--1573285	2	22.5	2	82	13	56	45	0	2	52	1.13
1576219--1576291	35	2.1	35	86	0	101	36	6	30	26	1.82
1578037--1578103	31	2.2	31	89	7	102	41	5	17	34	1.74
1580379--1580411	2	16.5	2	100	0	66	48	0	0	51	1.00
1580827--1580886	25	2.4	25	82	0	75	28	15	28	28	1.96
1582023--1582702	354	1.9	353	86	3	972	40	5	7	45	1.57
1595242--1595267	2	13.0	2	100	0	52	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)
1596390--1596495	26	4.1	26	75	13	103	38	13	17	30	1.88
1600845--1600889	19	2.3	19	84	3	54	17	28	4	48	1.66
1603740--1603783	21	2.0	22	91	4	72	61	6	0	31	1.22
1614234--1614298	2	32.5	2	78	6	60	49	6	3	41	1.43
1614189--1614298	8	12.7	9	76	14	65	47	12	1	38	1.52
1614228--1614294	34	2.0	34	93	0	116	49	8	2	38	1.50
1627776--1627903	27	4.7	27	71	9	107	42	12	7	37	1.72
1627834--1627899	26	2.5	27	85	7	82	43	15	6	34	1.71
1627822--1627900	28	3.0	26	80	7	88	45	13	6	34	1.69
1627945--1628018	37	2.0	37	97	0	139	29	20	5	44	1.73
1629160--1629205	20	2.3	21	78	17	53	58	8	0	32	1.28
1629952--1629979	7	4.0	7	100	0	56	42	0	0	57	0.99
1631760--1631799	18	2.2	18	86	0	53	32	2	12	52	1.52
1634094--1634149	29	1.9	29	85	7	78	37	0	0	62	0.95
1652755--1652808	28	1.9	28	88	0	81	40	0	1	57	1.09
1653934--1653962	2	14.5	2	100	0	58	51	0	0	48	1.00
1669625--1669670	15	3.2	15	93	6	78	30	30	0	39	1.57
1670059--1670123	30	2.2	30	86	5	87	7	30	36	24	1.84
1670149--1670291	51	2.8	50	87	2	196	5	37	36	20	1.77
1670149--1670291	50	2.8	51	87	2	198	5	37	36	20	1.77
1673928--1673973	15	3.2	15	82	17	62	30	23	0	45	1.53
1685170--1685195	10	2.6	10	100	0	52	30	0	15	53	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687438--1687467	15	2.0	15	93	0	51	0	23	10	66	1.21
1688059--1688104	22	2.1	22	95	0	83	45	26	6	21	1.76
1689966--1689995	15	2.0	15	93	0	51	66	10	23	0	1.21
1689980--1690083	35	3.0	35	85	12	117	50	17	17	15	1.79
1689898--1690127	114	2.0	114	88	1	336	52	16	17	12	1.74
1696195--1696348	74	2.1	72	83	7	204	38	5	7	48	1.54
1697417--1697474	23	2.6	23	76	13	66	34	20	13	31	1.92
1698175--1698222	20	2.4	20	100	0	96	31	20	18	29	1.97
1703146--1703265	60	2.0	60	81	0	141	30	13	19	37	1.90
1718752--1718794	16	2.8	15	82	3	50	72	6	2	18	1.19
1719481--1719520	20	2.0	21	90	5	64	32	20	10	37	1.85
1728513--1728671	50	3.2	50	84	5	205	35	13	16	35	1.87
1729473--1729513	11	3.8	11	83	6	57	46	7	26	19	1.76
1729473--1729513	21	2.0	21	90	0	64	46	7	26	19	1.76
1730758--1730829	32	2.4	31	83	6	76	27	9	22	40	1.85
1730768--1730936	32	5.3	32	76	7	119	26	13	23	36	1.92
1730892--1730969	32	2.4	32	79	8	79	25	10	28	35	1.89
1732198--1732386	71	2.7	71	78	6	204	32	16	9	41	1.81
1732265--1732304	21	2.0	20	90	5	62	22	15	12	50	1.77
1737324--1737357	5	6.8	5	100	0	68	38	0	0	61	0.96
1742159--1742303	68	2.2	68	83	3	179	35	17	5	41	1.73
1742409--1742565	65	2.4	65	80	9	187	35	15	5	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742128--1742623	256	1.9	259	87	3	725	32	17	6	44	1.73
1742533--1742666	72	1.9	71	87	4	198	29	20	2	47	1.64
1747799--1747855	24	2.5	22	78	18	62	52	3	0	43	1.18
1753332--1753368	15	2.5	15	100	0	74	21	13	18	45	1.84
1757389--1757424	16	2.3	15	90	4	54	44	0	0	55	0.99
1757666--1757708	19	2.3	19	84	8	52	65	6	0	27	1.18
1757763--1757805	21	2.2	21	84	12	56	46	2	4	46	1.36
1766434--1766476	14	3.1	13	75	18	50	30	32	4	32	1.78
1766527--1766584	27	2.1	27	96	0	107	12	29	34	24	1.91
1766610--1766637	14	2.0	14	100	0	56	14	28	35	21	1.92
1773934--1773994	12	5.2	12	71	9	54	36	1	24	37	1.66
1778174--1778232	30	2.0	30	89	0	91	33	13	15	37	1.86
1779230--1779298	36	1.9	36	82	5	86	33	18	13	34	1.90
1781018--1781066	18	2.6	19	87	6	64	53	0	4	42	1.20
1790350--1790384	2	17.5	2	93	0	61	54	0	0	45	0.99
1801404--1801448	12	3.9	11	88	8	63	0	42	17	40	1.50
1801402--1801448	23	2.0	23	91	4	76	0	42	17	40	1.49
1802092--1802135	21	2.0	22	86	4	63	61	9	0	29	1.27
1812529--1812563	12	2.9	12	86	0	52	20	14	11	54	1.70
1814289--1814393	37	2.8	36	77	8	104	28	9	27	34	1.88
1814301--1814397	37	2.6	37	88	0	140	25	11	26	36	1.90
1814671--1814714	21	2.0	22	91	4	72	31	0	6	61	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817383--1817524	39	3.6	39	80	3	151	31	20	19	28	1.97
1828504--1828580	36	2.1	36	83	4	93	37	14	29	18	1.90
1832620--1832683	34	1.9	33	87	3	92	28	7	28	35	1.85
1834030--1834092	33	1.9	33	87	6	92	38	9	19	33	1.84
1841349--1841384	15	2.4	15	90	0	54	33	38	8	19	1.82
1846027--1846078	25	2.0	25	85	10	70	15	7	3	73	1.21
1857521--1857601	40	2.0	40	95	0	144	49	9	12	28	1.72
1858032--1858103	33	2.2	33	94	0	126	31	8	25	34	1.85
1860412--1860491	40	2.0	40	90	2	126	50	11	10	28	1.70
1862386--1862425	14	2.9	15	78	14	50	20	0	0	80	0.72

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