genome.fa.s9.2.7.7.80.10.50.1000.5.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  5  of  20  ( 2302 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)
1563855--1563915	22	2.7	23	80	7	72	40	14	9	34	1.79
1571669--1571736	16	4.1	16	74	12	57	57	1	1	39	1.17
1571671--1571745	33	2.3	33	86	2	107	57	1	2	38	1.21
1572916--1572981	24	2.7	24	80	2	69	16	6	7	69	1.32
1572948--1572986	19	2.0	20	90	5	62	20	2	5	71	1.17
1574622--1574647	13	2.0	13	100	0	52	23	0	7	69	1.14
1577196--1577385	28	6.6	28	84	5	211	39	11	8	40	1.73
1577196--1577379	58	3.2	57	83	5	230	40	11	8	39	1.72
1577196--1577382	57	3.3	56	83	5	232	40	11	8	39	1.72
1579021--1579061	19	2.2	19	86	4	57	19	4	0	75	0.98
1579509--1579537	13	2.2	13	100	0	58	37	20	13	27	1.91
1583614--1583683	30	2.3	29	80	7	77	51	8	12	27	1.69
1586965--1587342	188	2.0	189	83	2	483	35	14	11	38	1.81
1589464--1589651	28	6.5	28	84	6	225	39	8	11	40	1.72
1589464--1589651	57	3.3	57	85	5	245	39	8	11	40	1.72
1590501--1590542	2	21.0	2	95	0	75	47	0	52	0	1.00
1593062--1593110	22	2.2	22	85	0	62	36	10	16	36	1.82
1598853--1598941	45	2.0	44	89	6	135	34	0	25	39	1.56
1601814--1601888	37	2.0	37	84	0	96	45	10	9	34	1.71
1615100--1615133	11	3.0	11	86	4	50	64	5	11	17	1.45
1615123--1615162	19	2.1	19	86	9	55	45	5	32	17	1.70
1617250--1617283	17	2.0	17	94	0	59	50	5	0	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1617690--1617759	23	2.9	22	77	22	86	55	1	0	42	1.08
1617715--1617760	15	3.3	15	70	17	53	58	0	0	41	0.98
1617706--1617760	27	2.0	28	92	3	94	56	1	0	41	1.10
1622867--1622923	6	9.2	6	77	11	53	19	3	1	75	1.04
1626540--1626579	5	7.6	5	83	10	53	22	22	0	55	1.44
1630980--1631057	12	6.3	12	75	16	63	80	0	15	3	0.85
1630982--1631055	19	3.7	19	76	8	69	79	0	16	4	0.87
1630975--1631057	39	2.2	36	81	12	96	80	1	14	3	0.90
1631777--1631803	10	2.7	10	100	0	54	51	7	11	29	1.64
1631885--1632049	50	3.3	50	78	8	181	34	7	15	43	1.74
1638891--1638934	21	2.0	22	86	4	63	61	9	0	29	1.27
1641786--1641830	22	2.1	23	84	12	60	60	8	2	28	1.39
1643998--1644044	3	15.7	3	93	0	76	70	2	0	27	0.99
1643995--1644047	9	5.8	9	88	2	61	71	1	0	26	0.96
1655888--1655934	22	2.1	23	84	11	62	46	14	8	29	1.74
1657251--1657496	125	2.0	125	82	1	305	24	13	20	41	1.88
1658202--1658246	16	2.7	17	82	3	56	17	35	6	40	1.76
1658458--1658854	27	14.6	27	76	7	315	36	20	12	30	1.90
1658458--1658862	110	3.7	109	84	4	448	35	20	12	31	1.89
1660575--1660619	22	2.1	23	84	12	60	60	8	2	28	1.39
1661021--1661065	10	4.3	10	80	8	54	75	2	4	17	1.07
1662473--1662502	13	2.2	14	94	5	53	60	3	0	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662582--1662686	52	2.0	53	81	3	122	16	11	9	62	1.53
1667335--1667378	23	1.9	23	85	0	61	25	9	27	38	1.86
1667557--1667604	23	2.1	23	88	7	71	22	10	27	39	1.87
1668467--1668496	14	2.1	14	100	0	60	20	0	23	56	1.42
1668508--1668580	23	3.2	23	84	0	83	34	15	19	31	1.92
1668546--1668674	69	1.9	69	82	6	163	30	10	24	34	1.88
1668657--1668721	23	2.8	23	70	9	60	29	10	30	29	1.91
1668567--1668901	112	2.9	113	86	2	429	30	10	24	34	1.89
1680090--1680153	33	1.9	34	90	3	103	28	12	25	34	1.92
1699527--1699602	28	2.8	27	87	2	98	34	18	9	38	1.83
1699536--1699608	27	2.6	28	84	4	94	36	15	10	36	1.82
1702757--1702802	22	2.1	22	91	0	74	15	39	17	28	1.90
1702757--1702815	22	2.7	22	83	0	73	15	38	16	28	1.89
1706540--1706591	26	2.0	27	92	3	88	36	9	3	50	1.54
1709320--1709347	7	4.0	7	100	0	56	14	14	57	14	1.66
1727530--1727556	4	6.8	4	100	0	54	48	0	0	51	1.00
1727713--1727746	3	11.3	3	100	0	68	35	0	0	64	0.94
1729017--1729050	17	2.0	17	94	0	59	0	26	11	61	1.30
1736305--1736331	3	9.0	3	100	0	54	0	0	33	66	0.92
1751384--1751419	18	2.1	18	89	5	56	41	8	16	33	1.78
1752290--1752330	19	2.2	19	95	4	75	53	0	0	46	1.00
1752294--1752336	19	2.5	16	82	14	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759369--1759449	29	2.7	31	79	11	87	48	12	9	29	1.73
1760844--1760897	21	2.7	20	80	5	54	61	3	5	29	1.36
1777522--1777633	35	3.2	35	82	1	136	38	19	11	30	1.87
1784569--1784636	21	3.2	21	72	2	64	27	14	14	42	1.85
1793254--1793314	30	2.0	30	96	0	113	45	14	3	36	1.62
1793267--1793315	12	3.1	17	68	31	54	44	14	4	36	1.64
1795208--1795253	19	2.4	19	85	0	65	45	21	8	23	1.80
1803344--1803399	21	2.7	21	81	13	62	51	21	1	25	1.57
1803462--1803538	21	3.6	21	84	6	84	54	18	1	25	1.51
1803480--1803538	10	5.5	11	74	10	50	54	18	0	27	1.44
1803619--1803698	21	3.8	21	81	5	81	48	18	7	25	1.74
1819772--1819815	19	2.3	19	84	4	52	20	11	6	61	1.52
1820820--1821441	310	2.0	310	96	0	1145	34	21	13	30	1.92
1822231--1822531	20	15.2	19	65	19	75	65	0	1	31	1.10
1822242--1822424	5	36.4	5	68	16	58	68	1	2	28	1.08
1822472--1822538	6	11.0	6	73	20	50	68	0	0	31	0.90
1822382--1823049	113	6.0	113	92	6	1093	63	0	2	33	1.12
1822792--1822972	21	8.4	21	72	19	110	64	0	2	33	1.06
1822852--1823021	50	3.2	50	70	20	162	62	0	3	34	1.12
1823199--1823269	15	4.7	15	87	0	106	30	26	9	32	1.89
1823199--1823269	30	2.4	30	95	0	124	30	26	9	32	1.89
1824150--1824679	170	3.1	170	89	1	731	42	13	3	38	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824455--1824492	13	2.8	13	81	18	51	50	18	0	31	1.47
1824156--1824682	255	2.1	255	85	1	707	43	13	3	38	1.61
1824156--1824679	85	6.2	85	81	2	622	42	13	3	38	1.61
1827223--1827383	77	2.1	76	88	4	236	40	13	6	40	1.69
1829817--1830929	342	3.3	337	82	7	1397	41	7	7	43	1.61
1844247--1844303	23	2.5	23	97	0	105	22	31	15	29	1.95
1844247--1844303	11	4.9	12	72	8	55	22	31	15	29	1.95
1849053--1849636	283	2.0	288	87	2	827	23	24	13	39	1.90
1863456--1863489	7	4.9	7	92	0	50	14	5	0	79	0.91
1866889--1866949	23	2.6	24	79	10	63	39	1	0	59	1.08
1868160--1868197	14	2.6	14	84	15	51	26	2	0	71	1.00
1870710--1870858	74	2.0	75	97	1	282	44	12	8	34	1.72
1878946--1879008	28	2.2	29	88	5	94	63	3	3	30	1.25
1881186--1881213	5	5.6	5	100	0	56	0	78	0	21	0.75
1902658--1902690	16	2.1	16	100	0	66	57	0	12	30	1.35
1903293--1903331	2	19.5	2	100	0	78	51	0	0	48	1.00
1903416--1903458	22	2.0	21	86	13	61	69	0	6	23	1.12
1908207--1908369	73	2.2	73	86	0	236	35	15	22	26	1.94
1917446--1918125	58	12.0	58	75	10	395	37	10	15	36	1.83
1918229--1918277	12	4.0	12	91	2	80	16	2	2	79	0.92
1918229--1918277	18	2.7	18	93	3	80	16	2	2	79	0.92
1918393--1918431	20	1.9	21	89	5	62	71	7	0	20	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1936024--1936066	23	2.0	20	82	13	50	44	0	0	55	0.99
1936369--1936462	21	4.5	21	74	4	84	42	13	22	21	1.88
1937607--1937900	66	4.4	65	80	7	254	20	22	19	37	1.94
1937619--1937943	132	2.5	132	78	4	323	22	20	19	37	1.94
1937790--1937985	67	2.9	68	82	5	213	24	19	18	36	1.95
1945386--1945436	24	2.1	24	100	0	102	21	25	11	41	1.87
1947819--1947860	15	2.8	15	96	0	75	42	0	23	33	1.55
1948209--1948247	8	4.8	8	87	3	51	2	17	0	79	0.84
1949516--1949598	42	2.0	42	97	0	157	24	19	18	38	1.93
1953175--1953218	20	2.3	19	88	7	63	27	6	6	59	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20