genome.fa.s13.2.7.7.80.10.50.1000.3.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  3  of  18  ( 2072 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)
879681--879706	12	2.2	12	100	0	52	26	26	15	30	1.96
897610--897634	2	12.5	2	100	0	50	52	48	0	0	1.00
899914--899939	2	13.0	2	100	0	52	50	0	50	0	1.00
912658--913080	228	1.8	227	83	6	557	24	18	20	36	1.95
936574--936656	28	3.1	27	75	17	68	46	0	1	51	1.08
963987--964046	30	2.0	30	90	0	93	58	0	3	38	1.15
964389--964460	33	2.2	31	81	13	83	36	4	13	45	1.63
968624--968657	8	4.5	8	89	10	54	41	0	0	58	0.98
975180--975229	26	1.9	26	84	15	68	36	0	0	64	0.94
975216--975278	18	3.4	18	79	14	65	50	0	0	49	1.00
975236--975269	10	3.3	10	88	8	50	47	0	0	52	1.00
976252--976297	17	2.6	17	86	6	56	17	13	4	65	1.42
982071--982118	25	1.9	25	100	0	96	16	27	16	39	1.90
984016--984060	20	2.1	22	88	8	67	55	0	0	44	0.99
993380--993425	23	2.0	23	87	8	67	36	0	0	63	0.95
994233--994413	42	4.4	42	82	8	176	44	4	2	47	1.39
995186--995259	28	2.6	27	83	10	94	59	0	0	40	0.97
995207--995263	28	2.0	29	93	3	98	61	0	0	38	0.96
1007611--1007721	55	2.0	55	98	0	213	29	19	17	33	1.95
1008330--1008378	24	2.0	24	84	7	64	34	4	14	46	1.63
1012521--1012563	10	4.2	10	88	5	59	55	0	0	44	0.99
1012523--1012571	21	2.3	22	86	6	66	46	0	2	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019893--1019922	3	10.0	3	92	0	51	63	3	33	0	1.11
1020073--1020118	23	2.0	23	86	0	65	54	0	34	10	1.36
1022612--1022647	2	18.0	2	100	0	72	50	0	0	50	1.00
1023232--1023283	17	2.8	19	80	13	56	53	0	3	42	1.19
1023437--1023480	17	2.5	17	79	17	54	47	0	6	45	1.29
1023254--1023630	184	2.0	190	84	7	502	46	4	7	41	1.51
1026287--1026330	21	2.2	20	83	4	52	36	6	4	52	1.49
1026370--1026412	15	3.1	14	86	6	52	53	0	0	46	1.00
1030828--1030859	2	16.0	2	100	0	64	0	50	0	50	1.00
1031476--1031507	2	16.0	2	100	0	64	50	0	0	50	1.00
1032789--1032829	2	20.5	2	89	0	64	43	2	2	51	1.28
1033963--1034021	31	1.9	31	96	0	109	25	22	22	30	1.99
1042764--1042865	30	3.4	29	85	5	132	34	0	9	54	1.40
1043094--1043165	28	2.5	28	82	10	83	58	4	2	34	1.32
1045019--1045045	2	13.5	2	100	0	54	51	0	0	48	1.00
1046045--1046117	28	2.5	28	86	4	101	38	0	0	61	0.96
1046096--1046150	24	2.2	24	78	12	58	50	0	1	47	1.11
1049105--1049169	30	2.2	30	81	15	82	36	1	1	60	1.16
1072741--1072775	2	17.5	2	100	0	70	51	0	0	48	1.00
1075985--1076009	2	12.5	2	100	0	50	52	0	0	48	1.00
1081292--1081324	15	2.1	17	88	11	52	60	0	0	39	0.97
1081561--1081620	31	1.9	31	90	6	95	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081896--1081972	29	2.6	28	79	16	86	61	3	1	33	1.23
1088363--1088400	16	2.4	16	86	8	51	63	2	0	34	1.09
1088335--1088390	27	2.1	27	83	6	69	57	0	3	39	1.16
1088481--1088515	18	2.0	17	94	5	61	34	0	2	62	1.10
1088483--1088522	17	2.3	18	86	4	55	40	0	2	57	1.12
1099467--1099519	27	2.1	26	86	10	74	39	0	0	60	0.97
1099467--1099529	24	2.5	24	79	18	67	38	0	0	61	0.96
1099456--1099529	29	2.8	26	76	17	71	41	0	0	58	0.98
1099476--1099538	26	2.4	27	85	12	80	42	0	0	57	0.99
1099479--1099554	26	2.8	28	78	17	79	43	0	0	56	0.99
1102435--1102460	2	13.0	2	100	0	52	0	50	0	50	1.00
1110301--1110364	33	1.9	33	81	9	76	40	3	3	53	1.33
1121097--1121140	15	2.9	15	79	0	52	45	2	0	52	1.13
1121328--1121405	34	2.2	36	84	8	99	28	1	8	61	1.34
1122303--1122362	31	2.0	30	86	3	84	50	3	1	45	1.28
1122298--1122366	31	2.4	28	77	15	77	49	2	1	46	1.25
1122823--1122865	19	2.4	19	80	7	54	44	0	4	51	1.22
1122924--1122961	17	2.2	18	85	4	51	50	2	0	47	1.15
1126817--1126866	22	2.2	23	85	3	66	34	6	10	50	1.60
1134728--1134820	46	2.0	45	93	2	159	47	8	20	23	1.78
1134822--1134875	27	2.0	27	96	0	99	33	24	7	35	1.83
1137615--1137646	5	6.4	5	92	0	55	0	18	3	78	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140826--1140862	3	12.3	3	100	0	74	67	0	0	32	0.91
1142066--1142110	2	22.5	2	95	0	81	46	0	53	0	1.00
1155441--1155471	16	1.9	16	93	0	53	83	9	6	0	0.79
1180354--1180423	24	2.8	25	77	16	74	44	0	0	55	0.99
1186217--1186450	129	1.8	129	89	1	371	28	34	23	13	1.92
1189067--1189237	93	1.8	93	83	0	225	32	20	28	18	1.96
1190309--1190340	11	2.8	12	90	9	57	31	9	0	59	1.29
1194434--1194472	15	2.6	16	92	8	64	23	10	66	0	1.22
1205756--1205787	2	16.0	2	93	0	55	50	0	3	46	1.17
1219527--1219559	2	16.5	2	100	0	66	0	48	0	51	1.00
1219570--1219594	12	2.1	12	100	0	50	52	40	0	8	1.31
1219590--1219632	6	7.2	6	94	0	77	51	13	2	32	1.54
1244528--1244588	4	15.2	4	89	0	77	31	1	19	47	1.59
1256339--1256486	68	2.2	68	90	2	228	28	15	32	23	1.95
1257980--1258082	53	1.9	53	92	0	170	25	12	25	36	1.91
1270470--1270506	3	12.3	3	100	0	74	64	0	0	35	0.94
1271610--1271647	15	2.5	15	83	12	51	39	0	0	60	0.97
1280764--1280837	27	2.8	27	82	8	91	52	0	0	47	1.00
1283290--1283323	17	2.0	17	100	0	68	29	5	17	47	1.71
1284329--1284361	2	16.5	2	93	0	57	0	3	45	51	1.16
1289513--1289550	2	19.0	2	100	0	76	50	0	0	50	1.00
1296943--1296991	15	3.1	15	79	5	53	59	2	2	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296963--1297007	23	1.9	24	90	4	74	55	0	4	40	1.20
1312258--1312296	20	1.9	20	84	5	51	43	10	12	33	1.77
1317300--1317329	2	15.0	2	100	0	60	50	0	0	50	1.00
1327054--1328203	572	2.0	573	91	0	1865	38	11	9	41	1.72
1341412--1341507	25	4.0	24	73	18	76	58	2	3	36	1.26
1344480--1344519	21	1.9	21	89	0	62	47	0	0	52	1.00
1344564--1344639	33	2.5	31	87	8	102	55	1	0	43	1.08
1344855--1345017	81	2.0	81	90	2	256	42	8	7	41	1.63
1345057--1345093	15	2.4	16	86	4	58	51	0	5	43	1.24
1355192--1355260	36	2.0	36	83	11	90	37	2	13	46	1.58
1360134--1360225	29	3.1	29	87	9	141	42	1	0	56	1.06
1360181--1360257	24	3.2	23	74	15	75	40	0	0	59	0.97
1360382--1360425	18	2.4	19	84	3	54	52	0	0	47	1.00
1360380--1360445	25	2.8	24	80	13	66	53	0	0	46	1.00
1360416--1360449	17	2.0	17	88	11	52	55	0	0	44	0.99
1365268--1365320	23	2.3	23	100	0	106	37	3	3	54	1.36
1365592--1365631	16	2.5	16	88	8	55	37	0	7	55	1.29
1366177--1366376	65	3.1	65	81	2	231	45	5	12	37	1.65
1378682--1378726	4	11.8	4	86	9	58	0	26	0	73	0.84
1403618--1403784	35	4.8	34	81	7	174	45	23	12	17	1.83
1403979--1404054	28	2.7	28	83	2	80	17	28	7	46	1.76
1404347--1404389	12	3.5	12	87	9	52	16	30	0	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415318--1415382	32	2.0	32	93	0	112	43	20	18	18	1.89
1426473--1426606	36	3.7	36	89	2	180	23	11	35	29	1.91
1426735--1426849	36	3.2	37	87	7	157	26	38	11	23	1.89
1426755--1426816	20	3.3	20	73	17	78	29	38	9	22	1.86
1426767--1426827	19	3.3	19	71	17	65	32	34	11	21	1.89
1426775--1426832	16	3.4	16	71	17	53	32	34	10	22	1.88
1426753--1426808	17	3.2	17	72	18	60	30	33	12	23	1.92
1428154--1428196	22	2.0	22	90	0	68	27	11	25	34	1.91
1428244--1428363	44	2.7	44	80	0	132	26	10	19	43	1.84
1428245--1428351	22	4.9	22	70	4	90	27	10	16	45	1.80

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