genome.fa.s22.2.7.7.80.10.50.1000.3.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_018397275.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_34.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2955990

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 891 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)
850935--850998	33	1.9	33	90	0	101	29	4	0	65	1.13
851257--851307	13	3.8	13	77	12	50	50	1	0	47	1.12
851549--851578	5	6.0	5	100	0	60	0	60	20	20	1.37
857830--857869	15	2.4	18	80	12	50	45	0	5	50	1.23
858478--858533	29	1.9	29	88	0	85	28	10	14	46	1.78
871261--871302	21	2.0	21	85	0	57	42	2	0	54	1.13
871642--871702	20	3.0	20	77	13	61	40	0	1	57	1.08
871769--871802	12	2.7	13	90	4	52	23	5	0	70	1.09
881629--881653	7	3.6	7	100	0	50	0	12	0	88	0.53
883409--883470	32	1.9	32	86	0	88	24	11	3	61	1.44
891894--893104	468	2.6	469	81	4	1282	31	15	13	39	1.86
894505--894578	38	1.9	39	83	8	98	45	1	6	45	1.38
894581--894628	19	2.9	15	84	12	51	47	4	2	45	1.33
895862--895965	27	3.9	26	75	5	91	23	30	18	27	1.97
895924--895983	27	2.2	27	85	11	79	16	30	21	31	1.96
896280--896350	27	2.6	27	82	6	90	18	29	23	28	1.98
897262--897319	27	2.1	27	87	6	82	22	34	15	27	1.94
897397--897469	27	2.7	27	80	0	83	21	26	19	32	1.97
898605--898642	19	2.0	19	85	10	51	65	2	0	31	1.06
898623--898696	35	2.1	35	87	2	105	59	13	0	27	1.35
899212--899361	74	2.0	75	93	1	257	49	12	12	26	1.75
905868--905914	19	2.4	19	86	10	60	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
905871--905930	23	2.6	23	78	0	66	53	1	0	45	1.10
910548--910586	18	2.1	18	85	4	51	17	20	23	38	1.93
910518--910629	47	2.4	47	96	0	206	21	19	23	35	1.96
910959--911086	54	2.3	56	85	2	170	31	15	10	42	1.82
911407--911444	15	2.5	15	95	0	67	52	0	26	21	1.47
915642--915668	9	3.0	9	100	0	54	11	22	0	66	1.22
926437--926470	2	18.0	2	88	11	54	47	0	0	52	1.00
934403--934451	22	2.3	20	83	13	55	16	6	2	75	1.09
934394--934459	30	2.2	29	78	7	71	18	4	1	75	1.04
947870--947925	20	2.9	21	76	12	57	58	0	5	35	1.21
949974--949998	2	12.5	2	100	0	50	52	0	0	48	1.00
950116--950366	45	5.7	44	82	4	247	31	15	19	32	1.94
950116--950366	90	2.8	88	83	4	308	31	15	19	32	1.94
950534--950607	28	2.6	28	81	12	89	39	10	9	40	1.73
962513--962546	2	17.5	2	93	6	61	47	0	0	52	1.00
971954--971988	2	17.5	2	87	0	52	42	0	5	51	1.25
1012644--1012713	29	2.4	29	85	2	97	38	1	31	28	1.66
1021085--1021152	13	5.4	12	75	12	57	75	4	17	2	1.10
1021085--1021145	25	2.4	25	83	8	70	75	3	18	3	1.08
1024519--1024629	35	3.2	34	84	3	159	37	18	18	25	1.93
1028590--1028616	2	13.5	2	100	0	54	51	0	0	48	1.00
1036898--1036961	28	2.3	28	83	5	76	26	4	10	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038369--1038399	6	5.2	6	92	0	53	16	12	32	38	1.86
1041342--1041780	219	2.0	219	98	0	842	39	7	14	38	1.75
1043152--1043198	23	2.0	23	83	0	58	21	12	6	59	1.55
1044027--1044060	17	2.1	17	88	5	52	44	0	0	55	0.99
1059153--1059343	69	2.8	68	83	4	224	32	9	19	37	1.85
1063805--1063859	21	2.8	20	78	10	60	45	5	3	45	1.44
1067386--1067501	36	3.2	36	90	2	162	29	14	21	34	1.93
1067517--1067650	70	1.9	70	85	0	187	26	17	20	35	1.95
1067623--1067781	49	3.2	49	79	1	167	24	15	21	38	1.91
1077835--1077869	15	2.2	16	90	5	54	62	8	5	22	1.45
1081677--1081707	14	2.1	15	94	5	55	67	0	0	32	0.91
1081673--1081748	33	2.4	34	87	10	108	68	1	2	27	1.11
1083328--1083354	14	1.9	14	100	0	54	44	22	22	11	1.84
1087504--1087539	18	2.0	18	100	0	72	33	0	16	50	1.46
1091589--1091614	13	2.0	13	100	0	52	23	30	7	38	1.83
1092964--1092989	12	2.2	12	100	0	52	34	15	15	34	1.89
1096337--1096361	12	2.1	12	100	0	50	32	24	8	36	1.84
1113837--1113876	21	1.9	21	100	0	80	47	5	0	47	1.24
1114102--1114146	19	2.4	18	81	3	54	80	2	4	13	0.97
1121446--1121501	28	2.1	27	80	9	62	25	19	33	21	1.97
1126621--1126660	21	1.9	21	85	10	55	57	0	30	12	1.36
1158346--1158384	3	13.0	3	100	0	78	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)
1159090--1159149	27	2.2	28	81	3	68	43	8	11	36	1.71
1159506--1159631	34	3.7	34	79	0	126	38	20	14	26	1.91
1159688--1159785	34	2.9	34	70	8	83	40	16	13	29	1.86
1159494--1159824	162	2.0	162	87	0	473	36	20	12	30	1.89
1160441--1160470	2	15.0	2	100	0	60	50	0	0	50	1.00
1173642--1173843	99	2.0	99	95	0	359	45	17	6	30	1.74
1175656--1175690	12	2.9	12	95	0	61	0	45	17	37	1.48
1176340--1176383	21	2.0	22	86	4	63	61	9	0	29	1.27
1179220--1179279	19	3.2	19	78	2	59	68	5	1	25	1.19
1179240--1179286	14	3.5	14	83	11	55	68	6	0	25	1.13
1180897--1180932	19	1.9	19	88	5	56	36	5	5	52	1.48
1191520--1191624	23	4.5	24	74	7	67	22	16	24	36	1.94
1192806--1192844	20	2.0	20	84	0	51	12	28	2	56	1.50
1204321--1204362	19	2.2	19	86	0	57	61	0	0	38	0.96
1209875--1209906	5	6.4	5	96	0	55	0	21	0	78	0.76
1210017--1210056	19	2.1	19	90	9	64	7	12	0	80	0.91
1210017--1210060	17	2.5	17	85	7	52	6	13	0	79	0.92
1219280--1219478	106	1.9	106	83	4	258	30	10	25	33	1.90
1226528--1226609	34	2.4	35	89	6	123	34	18	18	29	1.94
1226579--1226751	89	1.9	89	83	4	224	31	10	22	34	1.89
1227835--1227927	44	2.1	44	84	4	116	39	17	17	25	1.91
1231243--1231418	28	6.0	28	79	9	174	36	11	10	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231254--1231418	59	2.8	57	81	4	213	38	11	10	38	1.77
1243110--1243271	31	5.2	31	68	14	118	32	20	14	32	1.93
1243110--1243408	62	4.8	62	80	2	325	32	20	14	32	1.93
1243314--1243515	107	1.9	105	80	2	233	35	19	15	29	1.93
1243572--1243832	31	8.3	32	72	11	186	36	19	13	30	1.90
1243442--1243835	125	3.2	123	82	3	448	36	20	14	29	1.92
1245117--1245160	23	1.9	23	100	0	88	22	15	29	31	1.95
1253805--1253859	28	2.0	28	100	0	110	43	9	18	29	1.80
1256170--1256202	17	1.9	17	88	11	50	42	15	3	39	1.62
1256344--1256511	29	5.7	29	77	11	146	41	11	7	39	1.69
1256352--1256483	59	2.2	59	84	5	160	43	9	7	38	1.66
1256352--1256517	28	5.7	28	78	9	136	42	11	7	39	1.69
1259520--1259660	73	1.9	73	81	5	169	41	14	15	27	1.87
1262705--1262745	21	2.0	21	85	0	55	41	0	2	56	1.13
1273032--1273133	45	2.3	45	84	3	125	36	16	15	31	1.91
1273046--1273134	45	2.0	45	88	0	133	35	15	16	31	1.91
1285305--1285359	20	2.8	19	76	13	58	20	1	9	69	1.25
1285306--1285367	21	3.0	21	76	4	65	22	3	8	66	1.33
1286619--1286667	25	2.0	25	84	8	64	22	4	8	65	1.37
1294475--1294551	41	1.9	41	83	2	102	38	23	19	18	1.93
1306954--1307065	33	3.5	30	78	11	116	27	1	0	70	0.97
1306990--1307083	5	19.0	5	75	14	63	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306957--1307084	38	3.6	36	78	9	111	26	1	0	71	0.94
1307637--1307674	17	2.2	18	85	4	51	71	0	0	28	0.87
1308088--1308129	7	5.9	7	78	15	50	80	16	2	0	0.81
1308104--1308128	13	1.9	13	100	0	50	92	8	0	0	0.40
1309347--1309377	3	10.0	3	93	6	53	64	0	3	32	1.09
1309531--1309559	2	15.0	2	92	7	51	51	0	0	48	1.00
1311150--1311273	66	1.9	66	88	3	187	31	19	19	29	1.96
1311384--1311453	24	2.9	24	89	4	106	40	15	17	27	1.90
1313547--1313571	11	2.3	11	100	0	50	0	20	0	80	0.72
1313479--1313964	254	1.9	251	87	5	712	23	14	11	51	1.74

Tables:   1   2   3   4   5   6   7   8