genome.fa.s16.2.7.7.80.10.50.1000.3.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  3  of  14  ( 1598 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)
860631--860691	29	2.1	29	100	0	122	27	3	22	45	1.68
860790--860877	35	2.5	35	87	3	115	35	11	10	43	1.75
863806--863846	1	41.0	1	95	0	73	0	2	0	97	0.17
863804--863852	9	5.3	9	92	2	62	0	6	2	91	0.47
869146--869194	25	1.9	25	87	4	71	57	2	0	40	1.10
883705--883835	61	2.2	60	81	12	144	30	12	16	40	1.85
883998--884083	43	2.0	43	88	0	127	27	6	19	45	1.76
884067--884125	23	2.6	22	84	5	82	27	6	27	38	1.81
884094--884174	23	3.6	23	80	8	87	23	11	27	38	1.88
884187--884254	21	3.2	21	68	2	55	45	19	11	23	1.83
885708--885746	20	2.0	20	85	10	53	56	20	0	23	1.42
885741--885791	14	3.6	14	79	10	68	29	0	7	62	1.23
885745--885806	28	2.2	29	88	8	92	30	0	6	62	1.20
886207--886291	33	2.5	33	84	5	116	60	23	1	15	1.42
886227--886279	16	3.2	16	70	15	54	56	28	1	13	1.47
886316--886362	24	2.0	24	84	12	62	61	14	0	23	1.33
887050--887080	16	1.9	16	93	0	53	48	3	0	48	1.17
888868--888897	9	3.2	9	90	9	51	80	0	20	0	0.72
891312--891338	14	1.9	14	100	0	54	66	7	3	22	1.33
892839--892881	22	2.0	22	90	0	68	27	6	20	44	1.77
892891--892963	23	3.3	22	83	7	85	38	26	10	24	1.88
893062--893127	21	3.1	21	84	0	78	39	10	16	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
900019--900043	3	8.3	3	100	0	50	64	0	0	36	0.94
907606--907630	13	1.9	13	100	0	50	72	8	0	20	1.10
911648--911676	2	14.5	2	100	0	58	48	0	0	51	1.00
913109--913142	15	2.4	14	90	5	50	79	5	2	11	1.02
913270--913379	27	4.0	27	67	18	75	61	1	36	0	1.06
913270--913417	27	5.4	27	66	16	74	60	2	37	0	1.09
913445--913484	19	2.1	19	85	4	53	55	7	35	2	1.42
920107--920177	36	2.0	36	86	5	99	29	9	30	29	1.89
922688--923195	246	2.0	247	92	1	838	35	12	10	42	1.76
925774--925813	20	2.1	19	85	4	53	60	7	0	32	1.25
931365--931443	35	2.3	35	81	0	95	26	10	12	50	1.72
936605--936633	12	2.5	12	94	5	51	44	0	6	48	1.29
948114--948169	27	2.1	27	100	0	112	37	10	10	41	1.75
948799--948977	38	4.9	37	68	22	119	55	1	2	41	1.19
948841--948882	19	2.2	19	86	4	57	52	2	2	42	1.27
948898--948972	18	4.1	18	77	16	73	54	0	2	42	1.14
948804--949152	148	2.4	145	81	8	404	54	3	2	40	1.28
948987--949204	117	1.8	115	81	5	265	54	4	0	40	1.25
949098--949156	27	2.1	28	90	3	93	54	1	0	44	1.10
949183--949279	42	2.3	42	82	10	110	50	4	2	43	1.33
949239--949335	22	4.2	22	74	10	86	47	5	1	46	1.31
949244--949308	25	2.5	26	85	9	80	50	4	1	43	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949379--949433	27	2.0	27	85	3	74	52	0	0	47	1.00
957097--957137	14	3.0	14	85	3	57	70	0	4	24	1.06
971152--971198	24	2.0	24	86	0	67	31	10	14	42	1.80
971152--971214	25	2.6	24	82	2	72	30	11	19	39	1.86
975392--975436	21	2.1	22	84	8	58	22	4	11	62	1.46
980368--980426	28	2.1	28	90	0	91	66	13	1	18	1.34
986959--987115	36	4.4	35	81	7	181	38	5	10	45	1.61
987040--987129	36	2.6	36	85	7	96	43	4	7	44	1.53
992462--992494	8	3.7	9	88	11	50	30	0	3	66	1.06
993479--993509	12	2.5	13	89	10	55	22	6	0	70	1.09
993480--993533	20	2.8	18	81	15	63	22	1	1	74	1.02
996946--997109	28	5.6	28	72	9	96	41	9	8	40	1.69
997014--997119	29	3.6	29	73	19	94	46	10	5	37	1.62
1004151--1004211	20	3.1	20	81	13	65	75	1	3	19	1.03
1004693--1004739	21	2.2	21	84	0	58	25	10	21	42	1.85
1009694--1009735	22	1.9	22	85	9	59	52	0	4	42	1.22
1010911--1010974	26	2.5	26	85	7	78	60	0	0	39	0.97
1017425--1017717	154	1.9	154	85	1	399	39	9	10	40	1.72
1017820--1017891	31	2.4	31	88	2	101	51	6	8	33	1.59
1018532--1018587	14	3.9	14	84	11	60	25	3	0	71	1.02
1018533--1018592	19	3.2	19	79	9	61	25	5	0	70	1.08
1021587--1021616	8	3.8	8	95	0	51	43	6	0	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039488--1039526	19	2.0	20	85	5	53	69	5	7	17	1.32
1043347--1043406	30	2.0	30	81	15	72	38	3	1	56	1.26
1046120--1046162	2	21.5	2	100	0	86	48	0	0	51	1.00
1052992--1053154	45	3.7	45	70	11	122	25	9	24	40	1.85
1053214--1053264	22	2.3	22	80	6	59	43	15	15	25	1.86
1055880--1055982	45	2.3	45	98	0	197	39	8	11	39	1.73
1055880--1056012	45	3.0	45	90	6	182	42	9	10	38	1.71
1057373--1057439	33	2.1	33	82	2	82	14	2	14	67	1.36
1059223--1059266	19	2.3	19	88	0	61	43	0	6	50	1.29
1076708--1076754	21	2.2	22	85	11	62	48	4	0	46	1.21
1076708--1076752	20	2.1	22	84	8	58	48	4	0	46	1.22
1077188--1077312	42	3.0	41	78	4	124	44	12	14	28	1.82
1082825--1082892	15	4.4	15	83	5	73	36	10	22	30	1.87
1083040--1083316	16	19.1	15	67	22	96	34	2	0	62	1.09
1083111--1083170	22	2.7	22	76	19	63	30	0	0	70	0.88
1083043--1083177	12	10.0	12	68	22	65	32	1	0	65	1.01
1083219--1083276	22	2.6	21	77	20	64	31	0	0	68	0.89
1083225--1083313	40	2.1	39	82	15	99	34	2	0	62	1.07
1083176--1083457	57	5.1	60	68	23	206	35	2	0	61	1.16
1083036--1083439	28	14.6	27	67	21	141	34	2	0	62	1.12
1083104--1083603	27	18.1	27	66	22	113	32	2	0	64	1.12
1083036--1083471	109	4.0	110	90	8	669	34	2	0	62	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083109--1083400	19	13.8	20	65	25	83	33	2	0	64	1.08
1092433--1092487	26	2.1	27	93	3	94	41	0	1	56	1.10
1106505--1106561	30	1.9	30	88	0	87	28	7	17	47	1.73
1107032--1107069	13	2.8	14	88	8	60	44	5	0	50	1.24
1120888--1120918	16	1.9	16	100	0	62	16	6	25	51	1.68
1122366--1122394	13	2.2	13	100	0	58	20	6	24	48	1.74
1125048--1125140	48	1.9	48	97	0	177	23	25	15	35	1.94
1131339--1131381	19	2.3	18	76	4	50	65	4	0	30	1.13
1131592--1131622	10	3.1	10	95	0	53	35	9	12	41	1.76
1131873--1131958	43	2.0	43	97	0	163	32	24	6	36	1.82
1132700--1132728	7	4.1	7	100	0	58	27	41	13	17	1.87
1132692--1132725	14	2.4	15	85	14	54	32	41	11	14	1.82
1137175--1137203	14	2.1	14	100	0	58	34	20	13	31	1.92
1158510--1158554	19	2.5	17	76	13	54	2	28	0	68	1.01
1159017--1159062	20	2.3	20	92	0	74	47	0	2	50	1.13
1159793--1159873	18	4.3	18	77	11	90	7	18	48	25	1.74
1159829--1159877	21	2.3	21	85	0	71	8	14	48	28	1.72
1169507--1169537	2	15.5	2	100	0	62	51	0	0	48	1.00
1170827--1170872	14	3.1	15	82	17	53	10	13	0	76	1.03
1170843--1170909	13	4.9	13	80	7	62	7	17	0	74	1.04
1170881--1170921	22	1.9	21	90	5	64	0	21	0	78	0.76
1174701--1174770	33	2.1	33	86	0	95	35	17	8	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175288--1175396	55	2.0	55	94	0	191	37	7	15	39	1.75
1179307--1179339	2	16.5	2	93	0	57	45	3	0	51	1.16
1181872--1181902	13	2.3	14	94	5	55	48	0	3	48	1.17
1181872--1181912	13	3.0	14	86	10	50	41	4	2	51	1.36
1189292--1189639	190	1.8	188	86	3	509	47	7	13	31	1.71
1189606--1189775	68	2.5	68	98	0	322	47	8	13	31	1.72
1192531--1192814	98	2.9	98	96	0	514	28	15	22	34	1.94
1199464--1199493	5	6.0	5	96	0	51	76	0	0	23	0.78
1200139--1200190	22	2.2	25	77	16	58	25	21	3	50	1.65
1201744--1201785	20	2.2	19	86	4	57	23	0	2	73	0.94

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