genome.fa.s5.2.7.7.80.10.50.1000.3.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

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  3  of  22  ( 2636 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)
1077383--1077559	72	2.5	72	86	1	248	24	22	14	38	1.91
1078931--1078962	3	10.7	3	93	0	55	34	0	3	62	1.11
1080583--1080621	15	2.5	16	91	4	62	38	2	0	58	1.12
1085064--1085185	40	3.2	38	77	14	126	45	1	0	52	1.16
1091535--1091654	60	2.0	60	86	3	170	32	24	17	25	1.97
1093728--1093776	22	2.2	22	88	0	71	26	6	20	46	1.73
1093744--1093786	22	2.0	22	90	0	68	34	4	13	46	1.65
1093867--1093920	23	2.3	23	83	0	72	33	11	22	33	1.89
1093886--1093934	23	2.1	23	84	0	62	36	12	18	32	1.88
1094035--1094079	22	2.0	22	95	0	81	42	13	11	33	1.79
1096842--1096893	27	2.0	27	85	11	72	50	1	7	40	1.42
1103280--1103576	148	2.0	148	100	0	594	38	15	9	37	1.80
1122885--1122931	1	47.0	1	100	0	94	0	100	0	0	0.00
1127399--1127452	2	27.0	2	100	0	108	0	50	0	50	1.00
1143275--1143420	45	3.2	45	85	0	193	21	28	19	30	1.97
1153071--1153109	15	2.5	16	79	8	53	58	7	0	33	1.26
1161616--1161692	31	2.5	31	97	2	147	54	15	7	22	1.66
1164068--1164101	16	2.1	16	89	10	52	38	0	14	47	1.45
1170504--1170536	14	2.3	15	90	10	52	48	9	0	42	1.35
1172131--1172167	17	2.1	18	90	5	58	18	13	18	48	1.80
1176598--1176640	2	21.5	2	90	0	68	44	0	4	51	1.22
1177847--1177875	2	14.5	2	100	0	58	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192709--1192738	15	2.0	15	93	0	51	20	6	30	43	1.77
1192844--1192886	20	2.1	21	82	4	52	58	0	0	41	0.98
1194336--1194407	30	2.5	28	78	10	74	43	1	0	55	1.08
1227535--1227591	25	2.2	25	79	17	64	36	1	1	59	1.18
1228665--1228911	102	2.4	102	84	2	300	36	10	34	18	1.85
1228505--1229277	330	2.3	330	85	3	1022	38	10	33	17	1.83
1228995--1229316	102	3.2	101	80	7	287	39	10	31	18	1.85
1235998--1236032	17	2.1	17	88	0	52	77	5	2	14	1.07
1239257--1239408	76	2.0	76	85	2	207	32	15	17	34	1.91
1241579--1241677	30	3.3	30	78	4	112	34	3	6	56	1.39
1246967--1246998	15	2.1	15	100	0	64	0	59	0	40	0.97
1253219--1253250	10	3.2	10	100	0	64	18	0	9	71	1.12
1263561--1263631	24	3.0	24	93	0	115	16	22	28	32	1.96
1273192--1273231	12	3.3	12	89	0	62	22	5	55	17	1.61
1273191--1273231	18	2.3	18	86	0	55	21	4	56	17	1.60
1276808--1276850	21	2.0	21	86	0	59	32	6	0	60	1.23
1277701--1277763	16	3.8	16	79	8	63	42	0	1	55	1.09
1277702--1277767	34	1.9	35	84	3	89	43	0	1	54	1.09
1277754--1277805	19	2.7	19	82	5	70	36	0	1	61	1.07
1277911--1277980	24	2.7	26	74	24	67	38	4	5	51	1.45
1286903--1286964	23	2.7	23	92	2	106	41	6	0	51	1.27
1299715--1299759	2	22.5	2	95	0	81	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312366--1312395	2	15.0	2	100	0	60	50	0	0	50	1.00
1314732--1314810	26	3.0	26	83	9	90	31	0	0	68	0.90
1314759--1314821	30	2.0	32	81	9	76	34	1	0	63	1.04
1321913--1322117	45	4.6	45	87	1	272	29	25	17	27	1.97
1343729--1343756	2	14.0	2	100	0	56	50	0	0	50	1.00
1345893--1345938	18	2.4	19	85	7	58	47	2	4	45	1.34
1345893--1345946	18	2.9	18	78	15	56	48	1	3	46	1.30
1348975--1349016	21	2.0	21	100	0	84	28	9	38	23	1.86
1349257--1349360	51	2.0	51	88	0	154	34	5	16	43	1.72
1354210--1354255	23	2.0	23	95	0	83	41	13	28	17	1.86
1355056--1355086	2	15.5	2	100	0	62	51	0	0	48	1.00
1358571--1358630	31	1.9	31	86	0	84	50	8	8	33	1.63
1360817--1360849	14	2.4	14	94	0	57	81	6	9	3	0.95
1361638--1361736	35	2.8	35	78	4	101	53	16	5	25	1.63
1362357--1362407	9	5.8	9	76	4	50	45	7	0	47	1.32
1362357--1362412	26	2.2	26	100	0	112	46	7	0	46	1.30
1362392--1362426	17	2.1	17	89	10	54	51	8	0	40	1.33
1362357--1362424	26	2.6	26	93	4	102	45	8	0	45	1.34
1362713--1362803	47	2.0	47	91	2	148	56	10	18	14	1.67
1376429--1376455	2	13.5	2	100	0	54	0	51	0	48	1.00
1387245--1387272	2	14.0	2	100	0	56	50	0	50	0	1.00
1396582--1396623	15	2.8	15	92	7	68	0	21	0	78	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396774--1396814	16	2.5	17	84	4	57	17	7	0	75	1.02
1400218--1400248	2	15.5	2	100	0	62	48	0	0	51	1.00
1400542--1400604	27	2.2	29	86	8	85	31	1	1	65	1.12
1401696--1401742	20	2.3	20	85	0	58	44	6	12	36	1.68
1402461--1402778	159	2.0	159	91	0	519	33	15	16	34	1.90
1417030--1417209	19	9.3	20	70	16	94	67	0	1	31	1.02
1417016--1417195	33	5.6	33	72	21	118	67	0	0	31	0.95
1417051--1417196	33	4.4	34	74	15	126	67	0	0	32	0.96
1417070--1417258	71	2.7	72	80	6	194	64	0	1	33	1.08
1417414--1417455	15	2.8	16	85	10	61	35	26	4	33	1.77
1424735--1424767	2	17.0	2	87	6	50	0	54	0	45	0.99
1430016--1430068	22	2.3	23	78	12	56	43	1	7	47	1.42
1430132--1430166	17	2.1	17	88	0	52	48	5	0	45	1.26
1430136--1430563	208	2.0	211	87	3	612	41	7	4	46	1.51
1442110--1442350	123	2.0	123	90	0	383	19	25	24	30	1.98
1451249--1451296	22	2.1	24	84	7	64	52	0	2	45	1.12
1454827--1454858	4	8.0	4	92	0	55	25	21	0	53	1.46
1456292--1456336	2	22.5	2	86	0	63	51	2	44	2	1.26
1464672--1464724	21	2.4	21	84	6	61	50	1	9	37	1.46
1466263--1466287	10	2.5	10	100	0	50	28	0	0	72	0.86
1468214--1468292	39	2.0	39	100	0	158	45	7	12	34	1.71
1469297--1469373	22	3.6	21	71	11	59	48	11	7	32	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472397--1472422	2	13.0	2	100	0	52	50	0	0	50	1.00
1477536--1477572	17	2.1	19	90	10	60	54	5	0	40	1.24
1477536--1477573	18	2.1	19	90	5	60	55	5	0	39	1.23
1489728--1489770	2	21.5	2	80	0	50	44	0	6	48	1.29
1503236--1503315	40	2.0	39	88	7	117	27	5	31	36	1.78
1503472--1503514	21	2.0	21	86	8	61	51	2	0	46	1.13
1508825--1509057	118	2.0	120	93	1	398	50	12	11	26	1.72
1513937--1513975	14	2.7	15	84	4	53	46	2	2	48	1.29
1513986--1514022	18	2.1	18	94	0	65	54	2	5	37	1.38
1533738--1533772	15	2.3	15	90	0	52	5	57	0	37	1.23
1535110--1535213	29	3.6	29	92	0	172	51	10	10	26	1.69
1560425--1560497	21	3.5	21	65	12	51	50	1	0	47	1.09
1563333--1563374	22	1.9	22	85	0	57	50	0	0	50	1.00
1575452--1575490	20	2.1	19	90	9	62	74	0	17	7	1.05
1588329--1588390	26	2.3	27	86	2	81	43	9	6	40	1.63
1602650--1602697	20	2.4	19	80	10	51	43	0	0	56	0.99
1602657--1602697	21	2.0	20	85	4	55	41	0	0	58	0.98
1613757--1613801	19	2.2	21	88	7	67	48	2	2	46	1.26
1638876--1638901	4	6.5	4	100	0	52	23	0	0	76	0.78
1638909--1638974	2	34.5	2	83	8	57	42	0	9	48	1.35
1644568--1644606	20	2.0	20	84	0	51	7	7	5	79	1.05
1651004--1651047	2	22.0	2	90	0	70	45	0	54	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660486--1660527	14	2.7	15	82	13	50	71	2	9	16	1.23
1681092--1681118	5	5.4	5	100	0	54	81	0	18	0	0.69
1689256--1689328	16	4.6	17	73	14	68	36	1	1	60	1.14
1689265--1689345	29	2.8	28	74	10	74	35	1	2	60	1.18
1693553--1693586	2	17.0	2	87	0	50	47	5	0	47	1.26
1716261--1716285	2	12.5	2	100	0	50	52	0	0	48	1.00
1720932--1720967	2	18.0	2	100	0	72	50	0	0	50	1.00
1730554--1730579	3	8.7	3	100	0	52	69	30	0	0	0.89
1731977--1732038	29	2.1	30	82	8	74	56	0	9	33	1.32
1752035--1752069	16	2.2	17	90	10	56	60	2	0	37	1.12

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