genome.fa.s2.2.7.7.80.10.50.1000.2.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   30   31   

This is table  2  of  31  ( 3649 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)
734154--734193	2	21.5	2	80	14	50	0	47	0	52	1.00
750586--750611	6	4.3	6	100	0	52	15	15	19	50	1.79
755173--755212	17	2.3	18	86	8	64	30	17	17	35	1.93
768222--768251	8	3.8	8	95	0	51	40	3	56	0	1.16
768764--768801	3	12.7	3	100	0	76	65	34	0	0	0.93
771689--771744	23	2.5	23	76	2	69	51	3	1	42	1.29
771690--771742	11	4.7	11	75	13	54	52	3	1	41	1.30
783466--783499	2	17.0	2	100	0	68	50	0	0	50	1.00
793724--793852	45	2.9	44	90	4	188	30	17	14	37	1.90
793829--793873	21	2.1	21	87	0	63	35	20	15	28	1.93
793784--793984	66	3.0	66	83	2	269	30	20	17	31	1.95
793916--794057	45	3.2	45	88	0	194	28	16	19	35	1.94
809425--809457	2	16.5	2	100	0	66	48	0	0	51	1.00
820702--820736	17	2.1	17	88	0	52	57	2	0	40	1.14
822241--822317	23	3.4	23	92	1	120	31	29	15	23	1.95
822353--822405	21	2.5	21	71	0	52	41	20	11	26	1.86
822536--822659	59	2.1	59	84	6	160	47	13	6	32	1.68
837773--837822	25	2.0	26	92	4	84	58	0	2	40	1.10
837815--837880	27	2.5	27	85	4	82	51	6	1	40	1.36
837928--838046	27	4.1	27	71	21	82	57	5	0	36	1.26
838045--838126	15	6.0	14	71	24	59	48	0	1	50	1.08
840819--840934	12	9.4	12	77	11	56	13	3	68	14	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
840776--840844	31	2.3	31	82	7	88	20	0	66	13	1.24
840879--840913	3	11.7	3	93	0	61	28	0	68	2	1.04
840819--840914	6	15.5	6	80	6	66	14	4	67	13	1.37
844253--844337	35	2.3	37	90	6	129	25	2	11	60	1.44
847613--847649	19	2.0	20	89	10	60	5	10	0	83	0.79
854257--854336	38	2.1	39	97	2	153	31	5	17	46	1.70
858459--858544	45	1.9	45	85	0	118	18	24	12	44	1.85
859009--859034	6	4.3	6	100	0	52	19	0	15	65	1.27
874618--874658	12	3.5	12	78	18	50	36	0	0	63	0.95
881537--881630	33	2.9	33	93	1	154	24	12	10	52	1.71
891168--891192	13	1.9	13	100	0	50	56	8	12	24	1.62
898257--898286	15	2.1	15	93	6	53	70	0	0	30	0.88
900043--900074	6	5.3	6	92	0	55	3	0	81	15	0.82
900763--900809	16	2.9	16	80	0	58	38	0	12	48	1.41
905837--905867	16	1.9	16	100	0	62	54	0	0	45	0.99
914070--914130	32	1.9	32	90	6	97	42	18	8	31	1.79
917948--918020	29	2.4	30	86	4	94	45	4	5	45	1.45
918603--918672	29	2.3	30	87	4	97	42	1	7	48	1.39
917624--919554	655	3.0	655	85	4	2510	32	15	17	33	1.92
919511--919585	28	2.8	27	78	6	80	32	24	28	16	1.96
919619--919795	52	3.4	52	74	6	162	31	18	27	22	1.97
919728--919794	25	2.6	25	83	2	80	29	13	31	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919469--919846	26	14.4	26	68	11	137	31	19	27	20	1.97
919826--919900	27	2.7	28	77	4	80	37	21	24	17	1.94
924791--924845	28	2.0	28	85	7	76	58	3	10	27	1.49
936907--936944	7	5.7	7	90	3	53	0	42	28	28	1.56
949874--949914	20	2.0	20	100	0	82	63	9	4	21	1.44
954807--954835	4	7.2	4	100	0	58	75	0	0	24	0.80
978689--978713	2	12.5	2	100	0	50	48	0	0	52	1.00
991595--991657	28	2.2	29	76	13	69	63	0	0	36	0.95
994089--994157	33	2.1	35	83	8	90	39	0	1	59	1.06
1005922--1005960	20	2.0	20	89	0	60	48	0	0	51	1.00
1005930--1005966	20	1.9	19	89	10	58	43	0	0	56	0.99
1010288--1010318	6	5.2	6	96	0	53	32	64	0	3	1.09
1031492--1031519	2	14.0	2	100	0	56	50	0	0	50	1.00
1035566--1035610	18	2.5	19	79	20	60	53	0	0	46	1.00
1040858--1040922	31	2.1	30	83	8	78	63	12	3	21	1.42
1042402--1042461	25	2.4	25	100	0	120	48	0	0	51	1.00
1043081--1043148	17	3.9	17	71	9	57	50	1	1	47	1.19
1043089--1043149	26	2.3	27	77	5	72	47	1	1	49	1.21
1058948--1058998	15	3.4	14	78	10	57	45	3	13	37	1.63
1058949--1059019	30	2.4	31	85	7	101	43	4	16	35	1.68
1058959--1059007	15	3.3	15	82	0	62	44	2	14	38	1.56
1059116--1059168	19	2.7	20	77	11	65	49	1	1	47	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059198--1059230	12	2.8	12	82	17	50	39	6	0	54	1.25
1059240--1059431	20	9.4	20	69	21	80	31	1	1	66	1.05
1059243--1059383	27	5.2	26	70	18	92	31	0	1	65	1.06
1059205--1059332	33	4.0	32	74	15	104	34	0	0	64	1.05
1059343--1059435	10	9.3	10	70	19	61	29	1	0	69	0.95
1059370--1059447	5	15.0	5	79	10	68	28	1	0	70	0.95
1059219--1059461	20	12.6	20	63	26	62	32	1	0	65	1.09
1059224--1059444	26	8.2	26	67	20	80	31	1	0	66	1.07
1059347--1059449	14	7.1	14	72	12	66	28	0	0	70	0.93
1079266--1079331	27	2.4	27	89	0	105	10	31	16	40	1.83
1086682--1086766	36	2.4	36	86	5	111	25	15	16	42	1.87
1087258--1087297	21	2.0	21	85	14	57	42	12	10	35	1.76
1087258--1087297	20	2.0	19	85	9	53	42	12	10	35	1.76
1089137--1089197	23	2.5	25	80	20	76	49	0	0	50	1.00
1089127--1089189	23	2.7	25	83	13	82	53	0	0	46	1.00
1089382--1089682	116	2.6	115	89	1	458	32	10	2	53	1.48
1102043--1102083	18	2.5	17	77	14	50	46	2	7	43	1.44
1102986--1103032	25	1.9	25	86	4	69	38	0	4	57	1.18
1105228--1105304	38	2.1	38	90	2	120	31	14	7	46	1.72
1108827--1108969	45	3.2	45	85	0	196	32	19	18	29	1.95
1109060--1109136	29	2.7	29	88	4	113	49	15	1	33	1.53
1108927--1109080	76	2.0	76	84	7	184	41	15	11	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113742--1113869	58	2.2	58	85	0	166	20	8	21	49	1.75
1117875--1117951	38	2.1	38	90	2	120	46	7	14	31	1.72
1129484--1129540	19	2.9	19	77	15	53	56	1	0	42	1.10
1130819--1130845	6	4.5	6	100	0	54	33	0	33	33	1.58
1134892--1134932	14	2.9	15	71	14	50	36	12	12	39	1.80
1152058--1152099	18	2.4	18	88	7	61	35	0	0	64	0.94
1155803--1155849	17	2.7	18	77	9	53	17	10	0	72	1.12
1162364--1162457	39	2.4	38	83	3	107	9	31	7	51	1.62
1176266--1176304	19	2.1	19	90	0	60	41	12	2	43	1.56
1177122--1177170	25	2.0	25	87	0	71	48	0	2	48	1.12
1177239--1177281	13	3.2	13	80	3	50	34	6	6	51	1.56
1179708--1179787	40	2.0	40	100	0	160	17	10	20	52	1.72
1196574--1196624	22	2.4	22	78	21	63	33	0	3	62	1.13
1217137--1217264	36	3.4	36	82	16	170	35	14	10	39	1.81
1224587--1224666	42	1.9	42	89	2	126	61	23	5	10	1.47
1224590--1224674	19	4.3	19	76	12	82	63	21	4	10	1.44
1244315--1244349	18	2.0	18	88	5	54	48	2	0	48	1.16
1260631--1260690	17	3.3	19	79	11	63	46	6	6	40	1.56
1260646--1260690	20	2.4	18	85	7	54	44	8	6	40	1.62
1261058--1261091	14	2.4	14	100	0	68	35	5	14	44	1.70
1263082--1263210	60	2.1	61	88	2	190	31	10	16	41	1.81
1263307--1263393	44	2.0	44	88	0	129	25	5	19	49	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263535--1263671	22	6.3	22	76	6	118	46	13	6	32	1.69
1263538--1263670	43	3.1	43	78	0	149	46	14	6	32	1.70
1270300--1270353	15	3.4	17	80	17	62	50	5	0	44	1.25
1270300--1270341	17	2.4	17	84	11	50	50	7	0	42	1.30
1282512--1282547	14	2.5	15	90	4	56	0	25	2	72	0.98
1286465--1286494	5	6.0	5	100	0	60	0	20	20	60	1.37
1287065--1287098	12	2.8	12	86	13	52	0	17	0	82	0.67
1287067--1287108	20	2.1	20	82	8	50	2	21	2	73	1.06
1290939--1291034	48	2.0	48	91	0	156	33	15	6	44	1.72
1301938--1301971	12	2.9	11	87	12	50	55	0	0	44	0.99

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   30   31