genome.fa.s20.2.7.7.80.10.50.1000.4.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 994 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)
1017157--1017202	21	2.2	21	84	7	58	58	6	0	34	1.24
1018040--1018079	15	2.6	15	88	4	53	70	0	2	27	1.01
1018000--1018847	252	3.4	249	82	3	939	49	5	10	34	1.59
1019820--1019862	16	2.9	14	83	12	59	46	4	0	48	1.22
1019904--1019944	21	2.0	21	85	9	57	46	2	0	51	1.14
1020083--1020160	34	2.3	34	84	10	97	46	7	2	43	1.46
1034083--1034207	32	3.8	32	76	13	126	34	23	11	31	1.90
1034077--1034205	68	1.9	69	86	1	188	35	23	10	30	1.89
1034648--1034734	21	4.0	22	82	4	88	52	13	3	29	1.57
1034840--1034904	21	3.1	21	79	0	76	44	21	7	26	1.79
1037897--1038025	67	1.9	67	83	0	168	22	15	27	34	1.94
1043661--1043693	17	2.0	17	88	5	50	45	21	6	27	1.75
1046454--1046734	28	10.1	28	83	2	307	39	18	8	34	1.80
1046457--1046725	55	4.9	55	82	0	322	39	18	8	32	1.81
1046454--1046725	110	2.5	111	88	1	402	39	18	8	33	1.81
1050785--1050842	29	2.0	30	89	3	91	39	3	27	29	1.73
1052334--1052567	49	4.7	49	78	7	213	30	14	20	33	1.93
1058584--1058628	2	22.5	2	95	0	81	48	48	2	0	1.13
1062858--1062902	16	3.0	16	81	12	60	71	4	8	15	1.28
1062858--1062916	30	2.0	29	84	15	77	69	5	10	15	1.33
1064059--1064108	25	2.0	25	100	0	100	24	20	16	40	1.91
1069325--1069825	174	2.9	173	87	2	662	38	14	24	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073511--1073602	48	1.9	48	100	0	184	38	19	20	21	1.94
1076371--1076427	17	3.4	16	76	9	51	33	8	1	56	1.41
1078574--1078637	33	1.9	33	81	6	76	32	3	17	46	1.63
1088571--1088624	12	4.7	12	70	25	53	35	0	0	64	0.94
1088754--1088791	15	2.4	16	95	4	69	18	13	26	42	1.87
1089247--1089932	85	8.1	85	87	3	947	39	4	13	42	1.64
1089685--1089726	13	3.2	13	80	6	50	30	2	21	45	1.65
1089771--1089811	13	3.1	14	79	10	50	34	0	19	46	1.50
1089261--1089925	335	2.0	335	90	2	1041	39	4	13	42	1.64
1097840--1097864	13	1.9	13	100	0	50	16	12	0	72	1.13
1098758--1098788	9	3.4	9	90	0	53	19	3	0	77	0.90
1101016--1101058	21	2.1	20	82	4	50	32	0	30	37	1.58
1103348--1103397	16	3.4	16	73	21	63	24	0	12	64	1.27
1103345--1103413	28	2.4	29	92	4	115	21	0	11	66	1.23
1104628--1104682	26	2.1	26	83	6	67	58	5	16	20	1.58
1108108--1108150	22	2.0	22	85	0	59	62	16	6	13	1.51
1108104--1108141	11	3.3	12	82	14	53	63	18	5	13	1.48
1110532--1110571	19	2.1	19	100	0	80	35	10	30	25	1.88
1112993--1113057	15	4.3	15	86	2	85	36	9	21	32	1.85
1113280--1113354	6	12.0	6	75	10	53	28	0	1	70	0.95
1113310--1113461	23	6.7	23	65	25	67	33	1	0	63	1.10
1113206--1113547	113	3.0	113	96	2	616	33	2	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113275--1113547	15	16.9	15	68	20	126	32	1	0	64	1.09
1113396--1113469	21	3.5	22	79	20	86	32	0	0	67	0.91
1113388--1113544	9	18.2	9	63	26	56	34	1	0	64	1.02
1113501--1113567	33	2.0	33	85	2	89	28	2	0	68	1.04
1113621--1113699	32	2.5	33	84	15	105	29	1	0	69	0.96
1113577--1113688	54	2.1	53	84	11	142	28	2	1	66	1.15
1113309--1113690	15	24.1	15	66	21	72	31	2	1	64	1.14
1120119--1120178	27	2.2	27	80	11	77	28	3	1	66	1.17
1121630--1121673	21	2.2	20	88	12	63	22	6	0	70	1.11
1121630--1121673	10	4.3	10	82	5	52	22	6	0	70	1.11
1122133--1122201	34	2.0	34	97	0	129	34	17	11	36	1.86
1122845--1122893	21	2.3	21	100	0	98	32	14	14	38	1.86
1124081--1124112	14	2.3	14	94	0	55	56	9	0	34	1.32
1138150--1138225	33	2.3	32	82	13	91	28	9	26	35	1.87
1144698--1144739	21	2.1	19	86	8	57	59	4	0	35	1.19
1150450--1150520	37	1.9	37	86	11	101	45	25	8	21	1.80
1151283--1151329	24	2.0	24	95	0	85	23	29	17	29	1.97
1151286--1151340	24	2.3	24	87	0	74	23	30	12	32	1.92
1154601--1154671	21	3.4	21	70	3	63	23	21	22	32	1.98
1156539--1156617	31	2.6	30	81	2	95	17	6	30	45	1.73
1156568--1156638	30	2.4	30	82	0	79	15	12	25	46	1.81
1159672--1159728	21	2.8	20	82	7	71	82	8	3	5	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161238--1161705	244	1.9	245	91	3	764	37	12	17	32	1.87
1166439--1166504	32	2.1	32	100	0	132	39	6	27	27	1.80
1167818--1168013	74	2.7	72	79	7	207	41	16	20	21	1.90
1169497--1169542	21	2.2	20	81	7	56	73	4	21	0	1.00
1170808--1170840	11	3.0	11	95	0	57	24	0	9	66	1.20
1170871--1170910	14	3.0	14	86	13	50	75	0	5	20	0.99
1172242--1172320	21	3.8	21	88	3	115	26	16	15	41	1.88
1174994--1175045	22	2.3	23	83	3	61	51	19	5	23	1.67
1177547--1177685	70	2.0	70	94	0	242	35	13	13	37	1.85
1177664--1177754	44	2.0	45	93	2	157	42	6	7	42	1.59
1178443--1178490	19	2.6	19	80	3	62	39	10	12	37	1.77
1187558--1187751	68	2.9	68	91	1	300	41	7	11	39	1.69
1187549--1187848	68	4.4	68	82	5	295	40	8	14	37	1.75
1195507--1195713	68	3.0	68	80	4	238	35	10	18	35	1.84
1196191--1196243	20	2.7	20	81	0	70	33	13	16	35	1.88
1198076--1198125	24	2.1	24	85	7	66	24	22	14	40	1.90
1200616--1201147	27	19.9	27	72	3	277	15	27	24	32	1.96
1200615--1201224	54	11.4	54	73	3	266	15	27	24	31	1.96
1200611--1201223	107	5.7	107	79	2	498	15	27	24	31	1.96
1200651--1201089	188	2.3	188	83	2	551	16	27	23	31	1.96
1200892--1201224	133	2.5	133	82	3	375	16	29	24	29	1.96
1201150--1201246	27	3.6	27	77	6	108	16	30	24	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201158--1201272	53	2.2	53	80	3	124	16	30	26	26	1.97
1205473--1205578	33	3.2	33	70	5	97	19	8	37	33	1.82
1207139--1207197	15	3.9	15	84	0	64	32	27	6	33	1.83
1208136--1208164	14	2.1	14	100	0	58	44	13	20	20	1.85
1210603--1210628	2	13.0	2	100	0	52	50	0	0	50	1.00
1219895--1219925	13	2.4	13	94	0	53	64	9	6	19	1.45
1232641--1232703	30	2.1	31	93	3	110	15	12	28	42	1.84
1236407--1236461	26	2.1	26	86	6	76	27	18	30	23	1.97
1236459--1236587	26	4.9	26	77	5	125	29	17	32	20	1.95
1236408--1236578	80	2.2	79	81	5	193	26	18	32	22	1.97
1236460--1236686	53	4.3	52	74	10	165	31	18	29	21	1.97
1236538--1236621	27	3.2	26	74	1	69	34	17	28	19	1.95
1236632--1236715	27	3.1	27	77	0	96	36	21	23	17	1.94
1236522--1236793	107	2.6	107	77	7	284	34	19	26	19	1.96
1236730--1236853	54	2.3	54	87	0	176	36	20	21	21	1.95
1240809--1240849	12	3.4	12	89	0	55	48	9	2	39	1.49
1250039--1250293	35	7.3	35	81	3	284	35	6	13	44	1.70
1250066--1250293	71	3.2	70	83	2	287	35	7	13	43	1.72
1250087--1250314	106	2.2	105	89	3	341	36	7	14	42	1.72
1253578--1253612	11	3.0	12	91	8	63	0	40	17	42	1.49
1262849--1262897	20	2.4	21	86	6	66	24	0	12	63	1.29
1275123--1275173	25	2.0	25	84	0	66	23	27	11	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276472--1276796	110	3.0	105	72	13	253	33	18	22	25	1.96
1283555--1283585	2	15.5	2	100	0	62	51	0	0	48	1.00
1287640--1287678	20	2.0	20	84	0	51	33	7	17	41	1.79
1288064--1288217	63	2.4	63	83	2	184	40	17	15	25	1.89
1299623--1299754	63	2.1	63	82	0	156	35	11	1	51	1.47
1306074--1306108	18	1.9	18	88	0	52	25	14	5	54	1.62
1309522--1309567	23	2.0	23	91	0	74	41	4	30	23	1.74
1312264--1312290	12	2.2	12	100	0	54	51	7	0	40	1.30
1314117--1314196	21	3.9	21	72	4	74	38	12	12	36	1.81
1316503--1316540	18	2.1	18	100	0	76	21	23	10	44	1.83

Tables:   1   2   3   4   5   6   7   8   9