genome.fa.s17.2.7.7.80.10.50.1000.4.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

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

This is table  4  of  10  ( 1158 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)
1248899--1248955	23	2.6	23	81	15	68	29	0	0	70	0.88
1249346--1249377	17	1.9	17	93	6	57	40	0	0	59	0.97
1253358--1253411	15	3.6	15	80	7	56	16	5	1	75	1.07
1255160--1255218	31	1.9	31	85	0	82	16	8	0	74	1.05
1262547--1262598	21	2.6	20	81	6	61	28	3	5	61	1.37
1263509--1263547	20	2.0	20	94	0	69	33	5	17	43	1.72
1271967--1272066	32	3.1	32	97	0	182	38	20	25	17	1.93
1275526--1275563	2	19.0	2	94	0	67	0	47	0	52	1.00
1277940--1278015	33	2.2	35	86	4	102	26	10	21	42	1.85
1281971--1282022	27	1.9	27	88	0	77	25	21	23	30	1.99
1285782--1285858	29	2.8	26	68	11	73	42	9	25	22	1.82
1286101--1286250	35	4.3	35	88	0	192	20	13	18	48	1.81
1288147--1288221	23	3.3	23	79	5	64	26	10	37	25	1.89
1288157--1288222	23	2.9	22	80	6	69	25	12	36	25	1.91
1288250--1288349	23	4.3	23	79	5	94	30	17	28	25	1.97
1288133--1288323	104	1.8	103	82	3	240	27	13	31	27	1.93
1288312--1288510	104	1.9	104	81	2	238	30	11	33	25	1.91
1288557--1288601	23	2.0	23	90	0	72	35	13	31	20	1.91
1288632--1288755	23	5.4	23	78	3	106	29	12	31	26	1.93
1289289--1289473	87	2.1	87	84	4	230	29	15	22	32	1.95
1289490--1289594	31	3.4	31	85	0	111	32	14	18	35	1.90
1291029--1291552	151	3.5	150	79	4	516	32	19	14	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292048--1292235	81	2.3	81	79	7	204	29	20	28	21	1.98
1293920--1294319	76	5.2	76	77	4	365	32	25	17	25	1.96
1293995--1294288	157	1.9	157	83	0	381	32	24	17	25	1.96
1293907--1294325	233	1.8	232	85	0	595	33	24	17	24	1.96
1295701--1295743	16	2.7	16	82	10	52	60	11	2	25	1.43
1295685--1295743	15	3.8	15	78	13	57	62	10	1	25	1.36
1304819--1304848	13	2.2	14	94	5	53	10	26	20	43	1.83
1307756--1307798	15	2.9	14	81	18	52	69	4	0	25	1.07
1308173--1308257	22	3.7	23	77	6	82	36	18	11	32	1.88
1312530--1312613	34	2.4	34	86	2	114	35	28	10	25	1.89
1321358--1321495	72	1.9	72	100	0	276	43	2	19	34	1.63
1336891--1336930	21	1.9	21	89	0	62	42	5	2	50	1.37
1344958--1345037	35	2.3	35	82	4	99	30	11	27	31	1.91
1349737--1349787	26	1.9	26	84	11	68	39	3	13	43	1.63
1351573--1351614	17	2.5	16	85	11	57	14	2	0	83	0.75
1351573--1351605	8	3.7	9	88	12	50	15	0	0	84	0.61
1351575--1351614	9	4.9	8	85	14	55	12	2	0	85	0.71
1358933--1359096	77	2.1	77	93	0	274	40	6	13	40	1.69
1366753--1367313	167	3.3	164	77	9	522	39	11	14	34	1.83
1366753--1367308	170	3.3	168	75	10	522	39	11	14	34	1.82
1367776--1368164	171	2.3	171	84	0	474	39	13	12	34	1.82
1370557--1370594	16	2.2	18	90	9	62	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377844--1377877	17	2.0	17	88	11	52	47	5	5	41	1.52
1380455--1380481	1	27.0	1	100	0	54	100	0	0	0	0.00
1383440--1383602	56	3.0	53	78	6	182	30	9	21	38	1.86
1384442--1384561	44	2.7	44	75	8	118	45	5	2	46	1.40
1388044--1388114	29	2.4	30	81	11	76	40	5	21	32	1.76
1389705--1389795	38	2.4	38	73	10	87	35	20	15	28	1.93
1390672--1390715	21	2.1	21	95	0	79	40	9	18	31	1.81
1393711--1393735	11	2.3	11	100	0	50	28	20	36	16	1.93
1395821--1395903	41	2.1	39	80	10	96	38	1	2	57	1.19
1396394--1396428	18	1.9	18	94	0	61	42	28	0	28	1.56
1434252--1434340	45	2.0	45	88	0	133	26	19	11	42	1.84
1435830--1435892	30	2.1	30	85	5	83	42	1	3	52	1.27
1435836--1435899	30	2.1	30	82	5	76	37	4	3	54	1.37
1448751--1448790	17	2.4	17	87	4	55	45	0	2	52	1.14
1469715--1469759	23	1.9	24	90	4	74	55	2	2	40	1.24
1480431--1480473	21	2.0	22	86	4	61	44	13	11	30	1.80
1482614--1482716	49	2.1	49	88	0	152	38	22	8	30	1.84
1486154--1486194	21	2.1	19	90	9	64	26	0	9	63	1.25
1487262--1487340	5	16.2	5	72	15	58	72	0	2	25	0.98
1487250--1487427	41	4.2	40	68	24	114	65	0	4	29	1.12
1487251--1487332	33	2.5	35	86	13	113	70	0	2	26	0.99
1487367--1487452	33	2.5	33	85	10	104	66	1	5	26	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491333--1491372	20	2.0	20	100	0	80	35	25	15	25	1.94
1498173--1498214	21	2.0	21	95	0	75	35	19	9	35	1.84
1513682--1513749	24	2.8	25	82	10	88	44	8	17	29	1.79
1513683--1513780	25	4.0	26	79	9	98	43	6	22	27	1.76
1517957--1517989	16	2.1	16	100	0	66	30	18	6	45	1.73
1518610--1518758	69	2.1	71	83	3	185	34	11	20	32	1.89
1520591--1520687	33	2.9	34	81	4	117	30	18	26	23	1.98
1521149--1521191	21	2.0	21	90	0	68	30	0	9	60	1.28
1526148--1526188	21	2.1	19	86	9	55	60	9	0	29	1.28
1532446--1532493	18	2.7	18	100	0	96	22	18	29	29	1.98
1533348--1533389	15	2.9	14	82	3	57	54	9	0	35	1.33
1540492--1540550	30	2.0	30	96	0	109	35	16	20	27	1.94
1545849--1545876	2	14.0	2	100	0	56	50	50	0	0	1.00
1576819--1576874	27	2.1	27	86	3	78	19	16	16	48	1.82
1584416--1584516	33	3.1	32	81	5	121	15	14	24	44	1.85
1587392--1587418	8	3.4	8	100	0	54	88	0	0	11	0.50
1594634--1594677	22	2.0	22	86	8	63	27	18	11	43	1.84
1597232--1597270	19	2.1	19	90	0	60	33	5	23	38	1.77
1597318--1597345	6	4.7	6	100	0	56	50	0	17	32	1.47
1599457--1599544	28	3.1	27	80	3	77	27	17	17	38	1.91
1599477--1599545	28	2.5	28	83	4	86	28	15	14	40	1.87
1601287--1601322	16	2.3	16	90	4	56	19	27	11	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605619--1605663	18	2.6	18	89	3	65	46	0	0	53	1.00
1608797--1608827	4	7.8	4	92	0	53	0	29	0	70	0.87
1611815--1611867	23	2.4	21	81	6	61	62	1	3	32	1.24
1614844--1614891	18	2.7	17	84	12	53	50	0	4	45	1.21
1641851--1641893	9	4.8	9	83	16	54	41	2	0	55	1.12
1641851--1641898	18	2.7	18	75	18	55	41	2	0	56	1.11
1642114--1642147	16	2.1	16	88	0	50	38	2	5	52	1.41
1644396--1644428	6	5.7	6	92	7	50	0	9	18	72	1.10
1648503--1649310	254	3.2	253	88	3	1162	32	13	8	45	1.74
1652920--1652953	16	2.1	16	94	0	59	47	8	0	44	1.34
1662570--1662598	2	14.5	2	100	0	58	48	0	0	51	1.00
1663089--1663154	35	1.9	35	82	11	84	39	1	4	54	1.30
1663128--1663166	21	1.9	20	89	5	60	41	2	5	51	1.38
1663431--1663477	24	2.0	24	84	8	62	59	0	4	36	1.17
1673047--1673089	2	21.0	2	80	4	50	48	2	4	44	1.36
1675974--1676209	74	3.2	73	81	6	278	22	15	18	43	1.87
1687432--1687465	14	2.4	14	90	0	59	32	0	8	58	1.29
1688367--1688558	75	2.5	76	81	13	216	50	2	5	42	1.38
1690157--1690267	47	2.4	46	84	1	132	52	14	2	30	1.56
1690931--1690961	14	2.2	14	94	0	53	41	35	12	9	1.76
1690858--1691024	92	1.8	91	82	8	214	38	25	8	26	1.84
1692376--1692408	15	2.1	16	88	5	50	24	0	6	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1694758--1694914	79	2.0	79	100	0	314	27	19	15	38	1.91
1698352--1698409	25	2.3	25	80	11	73	55	1	25	17	1.52
1702544--1702569	2	13.0	2	100	0	52	50	0	0	50	1.00
1703083--1703115	16	2.1	16	100	0	66	39	30	12	18	1.87
1710212--1710246	8	4.4	8	96	0	52	51	5	0	42	1.25
1710216--1710246	2	15.5	2	93	0	53	51	3	0	45	1.17
1715239--1715282	22	1.9	23	86	9	63	22	6	15	54	1.65
1719256--1719292	3	12.3	3	91	0	56	35	2	0	62	1.10
1719756--1719795	17	2.4	17	91	0	62	17	12	12	57	1.65
1723565--1723622	15	3.9	15	76	0	62	27	20	18	32	1.97

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