genome.fa.s6.2.7.7.80.10.50.1000.4.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  4  of  22  ( 2632 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)
1340731--1340763	3	11.0	3	100	0	66	0	33	0	66	0.92
1356984--1357479	188	2.6	193	81	10	587	31	16	13	38	1.87
1371925--1371968	22	2.0	23	82	13	56	18	13	20	47	1.82
1379772--1379800	14	2.0	15	93	6	51	75	13	3	6	1.13
1382686--1382754	35	1.9	37	88	5	106	47	0	4	47	1.21
1384206--1384239	17	2.0	17	88	0	50	52	2	0	44	1.16
1387344--1387547	93	2.2	93	80	1	232	35	14	8	42	1.75
1392644--1392715	36	2.0	36	94	0	126	34	18	29	18	1.94
1393260--1393315	28	2.0	28	89	3	87	44	1	0	53	1.11
1393409--1393449	16	2.4	16	88	12	55	26	0	0	73	0.84
1395256--1395310	17	3.2	17	75	17	51	49	1	3	45	1.30
1402291--1402352	27	2.3	27	77	5	72	56	0	0	43	0.99
1402433--1402496	27	2.7	23	78	19	76	48	1	0	50	1.10
1402443--1402499	27	2.2	25	87	9	87	50	1	0	47	1.11
1402416--1402615	107	1.9	107	91	0	328	55	2	1	41	1.20
1402550--1402605	27	2.1	26	90	3	85	53	1	1	42	1.21
1402559--1402614	27	2.1	27	83	6	69	58	0	1	39	1.08
1406473--1406506	2	17.0	2	100	0	68	50	0	0	50	1.00
1425300--1425336	2	18.5	2	100	0	74	51	0	0	48	1.00
1429757--1429858	48	2.1	48	94	1	179	54	17	8	18	1.68
1433935--1433965	12	2.5	12	94	5	53	67	12	0	19	1.22
1444626--1444746	57	2.1	56	85	5	163	39	9	12	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455171--1455201	3	10.3	3	100	0	62	67	0	0	32	0.91
1465717--1465741	3	8.3	3	100	0	50	0	32	0	68	0.90
1467807--1467846	13	3.2	12	92	3	62	17	17	0	65	1.28
1467809--1467846	19	2.0	20	94	5	69	18	15	0	65	1.27
1467807--1467846	6	6.3	6	91	8	62	17	17	0	65	1.28
1469244--1469283	4	9.8	4	97	2	71	22	0	25	52	1.47
1470164--1470238	31	2.6	26	76	15	69	34	2	1	61	1.18
1480494--1480525	2	16.0	2	93	0	55	46	3	50	0	1.17
1484262--1484288	12	2.2	12	100	0	54	33	25	14	25	1.95
1494639--1494688	25	2.0	25	88	0	73	34	18	10	38	1.84
1495500--1495554	22	2.5	22	79	5	58	36	0	7	56	1.27
1498040--1498075	2	18.0	2	100	0	72	50	0	0	50	1.00
1499055--1499095	21	2.0	21	85	9	57	46	2	0	51	1.14
1503784--1503847	28	2.3	29	81	13	80	39	4	7	48	1.53
1504750--1504817	22	3.1	22	70	8	66	44	5	0	50	1.26
1504863--1504948	45	1.9	45	85	4	120	46	4	3	45	1.41
1504923--1504974	22	2.5	22	81	6	63	48	1	1	48	1.24
1509491--1509537	2	23.5	2	100	0	94	48	0	0	51	1.00
1526884--1526919	6	5.8	6	87	6	54	50	0	0	50	1.00
1527391--1527432	21	2.0	21	90	4	66	28	0	0	71	0.86
1527386--1527433	8	6.4	8	75	20	50	25	0	0	75	0.81
1527384--1527434	22	2.3	23	83	10	70	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527395--1527445	14	3.4	14	82	12	57	31	1	0	66	1.03
1527386--1527445	30	2.0	30	87	6	86	28	1	0	70	0.97
1536500--1536618	58	2.1	58	90	3	186	37	12	14	35	1.84
1548807--1548871	34	1.9	34	93	0	112	46	3	26	24	1.67
1551994--1552068	35	2.1	35	80	0	87	48	5	21	25	1.71
1552008--1552082	35	2.1	36	82	2	89	49	4	24	22	1.67
1557122--1557151	12	2.5	12	88	0	51	26	0	0	73	0.84
1566949--1566974	2	13.0	2	100	0	52	0	50	0	50	1.00
1566974--1567004	2	15.5	2	100	0	62	48	0	0	51	1.00
1576233--1576266	12	2.8	12	86	0	50	32	11	17	38	1.86
1609971--1610070	42	2.3	43	81	8	114	44	4	2	50	1.32
1610232--1610270	18	2.2	18	85	0	51	58	12	0	28	1.34
1610280--1610332	12	4.2	12	88	11	72	81	0	0	18	0.70
1610284--1610334	17	3.1	17	91	5	79	82	0	0	17	0.67
1610280--1610334	26	2.1	26	83	12	69	81	0	0	18	0.68
1610284--1610334	16	3.1	16	88	5	75	82	0	0	17	0.67
1611215--1611277	32	2.0	32	87	0	90	41	12	12	33	1.81
1611938--1611962	6	4.2	6	100	0	50	48	0	0	52	1.00
1613391--1613436	21	2.2	21	100	0	92	8	30	32	28	1.87
1621114--1621157	21	2.0	22	86	4	63	61	9	0	29	1.27
1635753--1635827	35	2.2	34	83	6	91	50	13	13	22	1.76
1647226--1647290	28	2.4	27	84	5	85	41	9	4	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1647244--1647301	28	2.1	28	86	0	80	46	10	3	39	1.55
1647253--1647449	27	7.2	27	75	8	130	42	13	8	35	1.74
1647251--1647402	28	5.5	28	73	14	120	44	14	7	34	1.73
1647251--1647425	55	3.2	54	80	8	176	43	13	8	34	1.74
1647271--1647449	82	2.2	82	80	2	207	43	13	8	35	1.74
1651733--1651784	27	2.0	27	84	3	70	57	7	19	15	1.62
1652207--1652602	199	2.0	199	92	1	659	24	12	15	47	1.81
1653494--1653525	4	8.0	4	92	0	55	28	0	21	50	1.49
1656513--1656571	23	2.6	23	100	0	118	38	0	3	57	1.15
1657151--1657191	21	1.9	22	90	5	66	34	0	9	56	1.32
1668174--1668199	13	2.0	13	100	0	52	38	0	38	23	1.55
1670048--1670132	43	2.0	43	97	0	161	21	4	20	54	1.63
1673295--1673352	26	2.2	25	85	11	73	50	10	13	25	1.74
1675952--1675982	16	1.9	16	100	0	62	45	0	0	54	0.99
1675952--1676054	17	6.6	17	70	23	59	44	0	1	53	1.11
1676040--1676072	16	2.0	17	88	5	50	42	0	0	57	0.98
1676008--1676072	34	2.0	33	82	8	80	44	0	0	55	0.99
1686134--1686179	19	2.2	21	88	11	69	30	0	0	69	0.89
1686134--1686177	18	2.5	19	82	14	58	29	0	0	70	0.88
1686134--1686179	10	4.5	11	82	17	55	30	0	0	69	0.89
1686137--1686191	23	2.3	24	87	3	76	29	3	0	67	1.08
1686137--1686201	23	2.7	24	79	11	62	30	3	0	66	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692020--1692085	34	1.9	34	87	0	96	57	1	4	36	1.28
1702660--1702697	19	2.0	19	89	0	58	23	26	0	50	1.50
1704499--1704673	59	3.0	59	90	0	260	34	18	11	34	1.87
1704718--1704798	26	3.1	26	74	0	81	39	9	20	29	1.85
1704842--1704935	28	3.4	28	85	2	100	39	17	15	27	1.90
1706257--1706874	306	2.0	306	87	1	880	37	12	15	34	1.85
1710647--1710926	121	2.3	121	87	4	386	44	4	10	40	1.59
1714700--1714752	17	3.3	17	69	15	58	56	3	0	39	1.17
1714690--1714760	31	2.3	31	100	0	142	59	2	0	38	1.12
1714708--1714759	17	3.2	17	68	15	56	57	3	0	38	1.17
1715971--1716004	2	17.0	2	100	0	68	50	0	0	50	1.00
1726019--1726052	3	11.3	3	100	0	68	67	0	0	32	0.91
1728736--1728775	21	1.9	21	89	0	62	47	0	2	50	1.14
1728884--1728923	15	2.6	16	84	8	55	47	0	2	50	1.14
1729087--1729137	23	2.2	23	82	6	59	43	11	1	43	1.52
1729193--1729229	17	2.4	16	86	13	51	37	0	2	59	1.12
1728867--1729314	207	2.2	204	79	9	480	43	5	3	47	1.44
1729363--1729408	22	2.1	22	84	4	58	60	0	0	39	0.97
1737789--1737821	2	16.5	2	93	0	57	48	3	0	48	1.17
1741047--1741084	18	2.1	18	90	9	60	44	0	0	55	0.99
1741055--1741114	22	2.7	22	80	19	72	53	0	0	46	1.00
1742285--1742722	218	2.0	219	87	4	627	33	11	5	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742082--1742960	469	1.9	470	85	6	1217	33	10	5	50	1.60
1744531--1745370	250	3.4	249	82	4	915	33	9	6	49	1.62
1748211--1748269	27	2.3	26	82	5	75	57	0	0	42	0.98
1748112--1748316	104	1.9	107	82	9	256	57	1	0	40	1.14
1748156--1748363	105	2.0	107	81	7	246	56	1	1	39	1.22
1749243--1749295	26	2.0	26	96	0	97	30	13	15	41	1.85
1752775--1752800	13	2.0	13	100	0	52	53	0	0	46	1.00
1758824--1758868	21	2.1	22	91	4	74	0	31	0	68	0.89
1759113--1759167	25	2.2	25	84	12	69	0	30	1	67	1.01
1759101--1759187	25	3.6	25	71	14	58	1	33	2	63	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22