genome.fa.s3.2.7.7.80.10.50.1000.4.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  4  of  29  ( 3437 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)
828120--828324	80	2.5	80	85	2	268	24	29	14	31	1.94
828282--828408	44	2.8	46	79	7	143	25	29	10	33	1.89
828280--828445	90	1.8	89	80	5	199	26	30	10	33	1.89
828942--829282	171	2.0	171	94	0	601	39	15	9	36	1.80
832636--832703	32	2.1	32	86	0	91	33	17	29	19	1.95
837390--837438	14	3.5	14	78	10	55	71	2	2	24	1.07
850384--850415	2	15.5	2	93	6	55	46	3	0	50	1.17
865275--865366	25	3.8	25	65	21	70	31	34	23	9	1.88
866842--866871	15	2.0	15	100	0	60	6	20	26	46	1.75
869830--869898	31	2.2	31	97	0	129	43	8	7	40	1.63
869842--869898	16	3.6	16	72	13	55	47	7	7	38	1.58
869832--869882	15	3.3	15	74	15	59	39	9	5	45	1.62
871135--871166	16	2.0	16	93	0	55	9	0	6	84	0.78
871312--871554	87	2.8	86	80	6	251	39	15	16	28	1.89
871316--871550	43	5.4	43	78	4	195	39	15	16	28	1.89
873758--873801	21	2.0	22	86	4	63	61	9	0	29	1.27
881251--881277	7	3.9	7	100	0	54	44	25	0	29	1.54
903863--903935	11	6.6	11	82	0	56	50	16	6	26	1.70
923437--923476	18	2.2	18	86	0	53	47	22	7	22	1.76
923528--923570	21	2.0	21	100	0	86	39	27	0	32	1.57
928004--928031	2	14.0	2	100	0	56	50	0	0	50	1.00
928428--928477	25	2.0	25	84	0	64	30	14	28	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939930--940042	49	2.3	49	95	1	210	46	12	4	37	1.62
941451--941486	18	2.0	18	88	0	54	66	0	5	27	1.13
943059--943112	27	2.0	28	88	3	83	59	7	3	29	1.42
944524--944563	20	2.0	20	85	9	55	67	5	5	22	1.30
948934--948972	15	2.7	15	88	4	53	15	5	0	79	0.90
948945--948973	15	1.9	15	100	0	58	13	10	0	75	1.04
953391--953446	27	2.1	27	93	0	94	37	5	23	33	1.78
954842--954870	2	14.5	2	100	0	58	51	0	48	0	1.00
958502--958543	15	2.9	15	85	3	59	47	0	0	52	1.00
982716--982758	23	1.9	23	85	4	61	55	11	13	18	1.68
983668--983711	21	2.0	22	91	4	72	31	0	6	61	1.22
992399--992464	30	2.2	30	83	5	80	16	28	4	50	1.65
996854--996879	6	4.3	6	100	0	52	84	0	0	15	0.62
1008434--1008466	11	2.8	12	86	9	50	0	42	18	39	1.50
1009109--1009152	21	2.0	22	86	4	63	61	9	0	29	1.27
1011139--1011230	29	3.2	28	80	10	89	0	58	38	3	1.14
1011174--1011262	43	2.0	43	81	12	101	1	57	37	4	1.26
1014810--1014862	27	2.0	27	85	7	72	0	45	37	16	1.48
1015511--1015574	1	64.0	1	100	0	128	0	100	0	0	0.00
1022150--1022285	53	2.5	54	77	11	143	41	13	13	30	1.83
1028081--1028173	16	6.4	14	71	26	61	56	2	1	39	1.18
1028128--1028184	26	2.2	26	84	12	73	63	0	1	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037797--1037831	18	1.9	18	94	0	61	25	0	22	51	1.48
1045244--1045282	17	2.5	15	87	8	51	61	7	2	28	1.37
1055902--1055951	24	2.1	24	85	7	66	36	0	4	60	1.16
1056973--1057049	34	2.3	34	90	0	127	33	24	6	35	1.81
1062575--1062604	2	15.0	2	100	0	60	50	0	0	50	1.00
1066764--1066811	22	2.3	20	82	7	51	4	29	35	31	1.76
1067185--1067209	13	1.9	13	100	0	50	24	0	4	72	1.02
1072520--1072546	2	13.5	2	100	0	54	48	0	0	51	1.00
1072814--1072847	2	17.0	2	100	0	68	50	0	0	50	1.00
1074598--1074634	19	2.0	19	89	5	58	54	0	2	43	1.14
1082879--1082922	2	22.0	2	95	0	79	52	0	0	47	1.00
1089462--1089499	20	1.9	20	89	10	60	21	5	2	71	1.19
1089466--1089512	24	2.0	23	83	4	58	25	2	2	70	1.10
1096471--1096524	20	2.6	21	76	23	53	59	0	0	40	0.98
1096620--1096689	27	3.0	23	69	18	54	50	5	1	42	1.35
1103880--1104123	114	2.1	114	85	0	317	32	17	14	35	1.90
1106818--1106853	4	8.8	4	90	3	54	25	0	0	75	0.81
1110156--1110195	21	1.9	21	90	10	64	27	0	5	67	1.11
1110405--1110460	15	3.7	15	75	0	58	41	19	1	37	1.62
1121453--1121521	34	2.0	34	97	0	129	33	23	13	30	1.92
1126239--1126274	4	9.0	4	93	0	63	72	0	27	0	0.85
1126760--1126801	20	2.0	21	90	4	68	54	7	4	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134797--1134935	73	1.9	73	80	5	165	38	17	20	23	1.93
1139003--1139049	22	2.1	22	84	0	58	38	31	8	21	1.83
1139015--1139079	22	2.9	22	90	2	94	33	27	12	26	1.92
1139018--1139089	22	3.2	22	86	3	90	34	29	12	23	1.92
1142824--1142910	22	3.9	22	72	14	70	41	18	12	27	1.87
1142923--1143117	81	2.4	81	76	8	216	35	30	10	22	1.88
1144119--1144361	50	4.8	51	83	6	307	18	6	25	49	1.70
1144692--1144915	42	5.3	42	78	9	201	36	10	17	35	1.85
1144732--1144915	84	2.2	86	87	3	257	35	10	17	35	1.84
1150118--1150156	2	18.5	2	89	10	60	46	5	0	48	1.24
1150526--1150584	28	2.1	28	87	0	82	27	16	27	28	1.97
1171356--1171406	22	2.3	23	83	10	61	39	3	3	52	1.38
1171358--1171412	23	2.4	23	78	6	67	36	3	3	56	1.34
1172126--1172237	34	3.2	34	76	3	89	34	20	16	28	1.94
1173310--1173339	16	1.9	15	93	6	51	20	3	0	76	0.92
1175681--1175720	12	3.3	12	92	0	62	50	10	0	40	1.36
1175690--1175723	2	17.0	2	87	0	50	50	5	0	44	1.26
1182984--1183047	15	4.2	15	74	9	58	45	0	6	48	1.27
1203769--1203848	37	2.2	37	82	8	101	25	26	11	37	1.89
1209979--1210022	21	2.0	22	83	16	56	54	6	2	36	1.40
1216583--1216625	23	1.9	23	85	4	61	51	16	9	23	1.73
1217536--1217572	10	3.7	10	88	0	56	83	2	13	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229052--1229080	2	14.5	2	100	0	58	0	0	48	51	1.00
1236448--1236489	21	2.0	21	90	4	68	30	0	9	59	1.29
1237136--1237168	12	2.7	13	86	13	52	42	18	39	0	1.50
1246288--1246429	74	1.9	74	84	2	187	42	13	19	24	1.87
1250053--1250162	47	2.4	46	81	3	114	33	5	13	47	1.66
1250071--1250162	47	2.0	47	82	4	116	32	5	13	48	1.64
1256682--1256811	44	3.0	44	98	0	251	47	0	20	32	1.50
1256718--1256823	44	2.8	35	80	15	90	48	0	20	31	1.50
1256801--1256842	20	2.1	21	86	8	61	57	0	19	23	1.41
1261484--1261638	32	4.9	31	77	5	141	32	23	12	31	1.92
1266514--1266538	11	2.3	11	100	0	50	40	20	0	40	1.52
1278257--1278331	20	3.7	20	83	1	96	44	25	4	26	1.72
1281178--1281339	79	2.1	79	90	2	254	38	24	19	16	1.92
1295974--1296006	15	2.1	17	88	11	52	54	0	0	45	0.99
1300657--1300736	31	2.5	32	77	4	99	30	7	18	43	1.78
1306792--1306841	23	2.1	24	81	3	57	20	8	6	66	1.40
1330452--1330509	18	3.2	18	80	0	71	32	6	10	50	1.63
1334008--1334131	53	2.3	54	88	4	178	30	15	15	38	1.88
1340033--1340137	34	3.1	34	83	2	104	27	12	23	36	1.91
1356943--1357142	74	2.7	74	85	1	258	40	17	20	22	1.92
1360708--1362742	316	6.5	314	81	3	2184	40	8	21	29	1.82
1364117--1364200	30	2.8	29	77	8	80	30	11	7	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364159--1364225	30	2.2	29	76	7	71	31	8	8	50	1.64
1367725--1367750	3	8.7	3	100	0	52	34	30	0	34	1.58
1370480--1370504	4	6.2	4	100	0	50	76	0	0	24	0.80
1377675--1377729	25	2.2	25	96	0	101	41	7	12	38	1.71
1379391--1379458	21	3.2	20	79	6	64	35	14	22	27	1.93
1382739--1382776	3	12.7	3	88	0	58	28	0	34	36	1.58
1383141--1383216	35	2.2	35	100	0	152	19	26	18	35	1.95
1389151--1389204	22	2.5	22	96	0	99	46	7	9	37	1.64
1389947--1390021	20	3.7	20	78	1	69	33	16	16	34	1.90
1395960--1396003	21	2.0	22	86	4	63	29	0	9	61	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29