genome.fa.s3.2.7.7.80.10.50.1000.5.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  5  of  29  ( 3437 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)
1404361--1405663	435	3.0	433	92	1	2110	26	17	18	36	1.94
1408543--1408582	18	2.3	18	87	12	57	22	0	5	72	1.04
1409865--1409911	2	23.5	2	95	0	85	0	46	0	53	1.00
1412258--1412295	17	2.2	17	86	9	51	44	7	5	42	1.56
1417487--1417592	38	2.8	38	95	1	194	38	8	26	26	1.85
1424850--1424946	50	1.9	50	91	0	158	30	13	16	39	1.87
1425245--1425369	61	2.0	61	98	0	241	31	8	9	51	1.63
1425347--1425462	59	2.0	59	84	0	151	29	11	12	47	1.75
1430957--1431008	15	3.3	15	82	12	61	53	0	0	46	1.00
1431886--1431931	18	2.6	18	85	0	65	52	2	2	43	1.25
1434030--1434055	11	2.4	11	100	0	52	61	7	15	15	1.55
1446374--1446490	59	2.0	59	86	0	162	19	18	12	48	1.80
1447723--1447777	28	2.0	28	92	0	92	23	1	12	61	1.40
1448413--1448455	19	2.3	19	87	0	68	18	37	0	44	1.50
1448754--1448894	52	2.6	53	79	11	153	39	12	16	32	1.85
1462910--1462971	29	2.1	29	84	6	79	25	9	16	48	1.76
1476381--1476423	15	2.8	15	80	13	52	25	4	13	55	1.58
1486667--1486765	5	19.4	5	71	15	51	25	3	1	70	1.07
1486652--1486768	30	4.1	27	74	16	96	27	2	0	69	1.07
1486652--1486759	54	2.0	55	85	8	150	26	2	0	69	1.08
1486714--1486771	18	3.3	19	80	17	63	27	1	0	70	0.97
1486655--1486771	19	6.6	18	69	20	70	27	2	0	69	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486729--1486779	26	1.9	27	84	4	68	31	3	0	64	1.11
1496016--1496053	4	9.2	4	83	16	51	76	0	2	21	0.91
1503274--1503359	28	3.1	28	73	9	95	40	8	13	37	1.75
1503274--1503421	27	5.5	26	71	13	88	36	8	14	40	1.76
1503349--1503437	27	3.4	27	72	9	85	34	12	13	39	1.82
1503407--1503531	52	2.3	53	80	4	135	40	13	10	36	1.79
1503443--1503572	28	4.7	27	65	12	68	43	10	10	36	1.72
1503517--1503573	28	2.0	28	89	0	87	45	5	8	40	1.58
1503446--1503553	55	2.0	55	83	0	135	44	10	9	36	1.70
1508007--1508097	34	2.7	33	83	5	112	34	23	10	31	1.89
1510884--1510924	16	2.6	16	88	7	57	65	4	7	21	1.37
1515826--1515872	18	2.5	20	86	6	71	48	2	0	48	1.13
1515838--1515927	45	2.0	44	85	6	119	50	1	4	44	1.29
1531416--1531574	76	2.1	76	89	1	237	44	17	15	22	1.86
1539074--1539143	34	2.1	34	100	0	140	38	18	8	34	1.81
1542403--1542477	20	3.8	20	98	0	141	40	9	17	33	1.81
1548406--1548475	34	2.1	34	84	10	90	35	21	11	31	1.89
1548696--1548778	36	2.3	36	87	6	116	48	24	16	10	1.78
1552233--1552261	4	7.5	4	92	7	51	20	0	0	79	0.74
1552233--1552267	11	3.2	11	88	11	54	20	0	0	80	0.72
1555238--1555278	21	2.1	19	86	9	55	60	9	0	29	1.28
1562596--1562759	67	2.5	66	81	6	188	34	14	17	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1566081--1566150	30	2.3	30	80	4	79	34	4	8	52	1.51
1566406--1566485	29	2.7	30	90	5	119	58	0	1	40	1.06
1584846--1585003	71	2.2	70	78	5	158	39	17	16	26	1.90
1599068--1599124	21	2.8	20	75	22	55	61	3	8	26	1.42
1599395--1599424	2	15.0	2	100	0	60	50	0	0	50	1.00
1600736--1600767	16	2.1	15	94	5	55	59	0	6	34	1.23
1603069--1603111	16	2.5	17	81	7	52	44	2	2	51	1.27
1602611--1603740	360	3.2	356	82	5	1247	42	8	4	44	1.56
1605662--1605690	2	14.5	2	100	0	58	48	0	0	51	1.00
1615371--1615442	33	2.2	33	82	9	85	45	6	5	41	1.54
1619107--1619135	15	1.9	15	100	0	58	44	13	6	34	1.71
1622707--1622807	29	3.4	28	75	17	87	35	1	0	62	1.07
1622708--1622806	32	3.2	32	79	14	111	35	2	0	62	1.07
1623121--1623154	17	2.1	17	94	5	61	35	8	0	55	1.31
1627781--1627823	14	2.8	16	82	10	54	58	11	0	30	1.34
1644105--1644180	38	2.0	38	87	5	109	28	17	11	42	1.84
1644569--1644668	51	2.0	50	82	2	119	30	19	18	33	1.95
1645639--1645702	28	2.3	28	86	0	92	40	12	9	37	1.75
1651519--1651576	19	3.1	19	97	0	107	58	10	15	15	1.62
1681718--1681782	27	2.4	27	82	5	78	24	23	32	20	1.98
1681731--1681894	27	6.2	27	73	5	102	26	23	30	19	1.98
1681730--1681894	80	2.1	79	90	2	267	27	23	30	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1683013--1683325	101	3.2	98	82	7	345	27	21	15	36	1.93
1683151--1683350	92	2.2	92	81	3	242	25	22	17	35	1.95
1684440--1684545	33	3.2	33	71	0	95	33	36	9	20	1.85
1684436--1684564	66	2.0	66	82	0	159	31	34	9	24	1.87
1688346--1688656	26	11.8	26	74	6	171	30	24	26	18	1.98
1688331--1688468	52	2.6	52	78	12	147	31	23	25	19	1.98
1688450--1688657	27	7.8	27	74	6	149	30	25	26	17	1.97
1688384--1688657	53	5.2	52	75	5	163	31	25	26	17	1.97
1688436--1688683	27	9.4	26	73	9	110	32	25	25	16	1.96
1688633--1688698	26	2.4	28	85	7	82	40	22	19	16	1.91
1696760--1696853	41	2.3	41	94	1	163	27	15	9	46	1.77
1698247--1698309	32	1.9	32	83	3	81	41	6	22	30	1.78
1702275--1702306	14	2.3	14	94	0	55	21	21	0	56	1.43
1709572--1709685	57	2.0	58	83	8	144	32	23	15	28	1.95
1709593--1709688	28	3.4	28	85	4	131	32	26	14	27	1.95
1710786--1710814	2	14.5	2	100	0	58	51	0	0	48	1.00
1713379--1713435	29	2.0	29	89	0	87	24	12	15	47	1.80
1716978--1717119	74	1.9	73	82	1	176	23	22	14	39	1.91
1721527--1721572	23	2.0	23	91	0	74	28	10	36	23	1.89
1722146--1722180	2	17.5	2	100	0	70	51	0	48	0	1.00
1723960--1723999	20	2.0	19	85	9	53	70	15	7	7	1.33
1729633--1729712	37	2.2	37	93	0	133	25	12	15	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730452--1730585	63	2.1	63	83	6	164	33	17	4	44	1.68
1735631--1735673	22	1.9	23	90	4	70	65	0	0	34	0.93
1738017--1738062	16	2.8	16	83	9	58	76	0	4	19	0.96
1738016--1738062	8	5.8	8	85	12	51	74	0	6	19	1.03
1738018--1738070	16	3.3	15	79	12	52	75	0	5	18	0.99
1738249--1738294	19	2.4	19	88	3	65	63	26	4	6	1.38
1745834--1745929	35	2.8	35	80	1	113	23	13	23	38	1.91
1747450--1747492	19	2.3	18	84	7	59	65	0	30	4	1.13
1761003--1761042	4	10.5	4	84	10	57	0	27	0	72	0.85
1769058--1769083	2	13.0	2	100	0	52	50	0	0	50	1.00
1771650--1771684	18	1.9	18	94	0	61	28	11	20	40	1.87
1793301--1793450	56	2.7	55	78	11	137	41	12	12	34	1.80
1805476--1805719	69	3.5	68	74	7	206	30	25	17	27	1.97
1806480--1806512	12	2.8	12	100	0	66	39	0	33	27	1.57
1807680--1807865	99	1.9	99	83	0	246	31	16	10	41	1.82
1807839--1807900	27	2.2	29	83	8	76	30	11	12	45	1.78
1807839--1807908	28	2.5	28	84	6	81	30	12	14	42	1.83
1807741--1807997	126	2.0	124	84	6	331	30	15	14	40	1.86
1807866--1808103	97	2.4	98	83	3	291	31	15	14	38	1.88
1807678--1808113	223	1.9	224	84	4	576	31	15	12	40	1.85
1808058--1808149	26	3.4	28	73	8	91	36	13	9	40	1.77
1808210--1808256	24	2.0	24	91	0	76	38	14	14	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810062--1810107	22	2.0	23	84	12	60	6	41	0	52	1.27
1812534--1812794	58	4.5	58	83	3	319	31	15	27	24	1.96
1812575--1812822	116	2.1	116	81	5	270	31	17	27	23	1.97
1815667--1815718	26	2.0	26	92	0	86	38	23	11	26	1.89
1823486--1823531	22	2.1	22	100	0	92	30	4	23	41	1.74
1824726--1824775	3	16.3	3	87	4	73	36	28	2	34	1.69
1827341--1827374	14	2.4	14	95	0	59	29	5	14	50	1.67
1827997--1828094	34	2.9	33	77	11	83	34	28	12	24	1.91
1846964--1847032	34	2.0	34	97	0	129	47	20	11	20	1.80
1849152--1849177	8	3.2	8	100	0	52	0	11	0	88	0.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29