genome.fa.s26.2.7.7.80.10.50.1000.2.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_018397279.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2022356

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 501 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)
585327--585357	16	1.9	16	100	0	62	19	0	3	77	0.90
599471--599539	4	18.0	4	70	24	51	69	0	2	27	1.02
599481--599548	14	4.6	14	71	21	50	72	0	1	26	0.94
599476--599529	18	2.9	18	86	8	65	70	0	3	25	1.04
599469--599539	18	3.9	17	83	9	63	69	0	2	28	1.03
602851--602882	2	16.0	2	93	0	55	53	0	0	46	1.00
603763--603829	21	3.2	21	74	19	77	61	7	5	25	1.46
611937--612023	30	2.9	29	77	5	93	27	6	8	57	1.53
624699--624728	2	15.0	2	92	0	51	0	46	3	50	1.18
632196--632225	15	2.0	15	93	0	51	70	0	30	0	0.88
638550--638580	3	10.3	3	100	0	62	35	0	0	64	0.94
652363--652387	2	12.5	2	100	0	50	48	0	0	52	1.00
652818--652866	12	4.3	12	72	12	50	42	0	0	57	0.99
652831--652869	14	2.7	15	84	8	53	46	0	0	53	1.00
653278--653320	22	2.0	22	81	9	52	55	2	4	37	1.33
668885--669610	117	6.2	117	73	9	443	44	3	8	42	1.54
668885--669137	118	2.2	118	89	2	375	45	4	5	43	1.49
672773--672825	21	2.5	21	71	0	52	54	7	24	13	1.64
674251--674277	2	13.5	2	100	0	54	48	0	0	51	1.00
674275--674299	12	2.1	12	100	0	50	16	0	32	52	1.44
675669--675731	25	2.5	25	84	5	74	60	6	17	15	1.55
678723--678796	33	2.1	33	82	9	85	29	8	0	62	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678785--678925	56	2.5	55	81	5	167	27	8	1	62	1.33
678792--678907	31	3.9	30	68	15	98	28	8	1	61	1.36
678894--678968	14	5.3	14	76	16	57	25	4	0	70	1.04
678894--678947	16	3.6	15	80	14	67	25	5	0	68	1.11
678945--678971	14	1.9	14	100	0	54	22	0	0	77	0.76
680846--680877	14	2.1	16	88	11	50	15	15	0	68	1.21
691159--691196	2	19.0	2	94	0	67	47	0	0	52	1.00
703900--703927	14	2.0	14	100	0	56	42	14	0	42	1.45
704238--704347	58	1.9	58	96	0	202	38	14	15	31	1.88
705309--705341	2	16.5	2	100	0	66	48	0	0	51	1.00
707407--707439	5	6.6	5	96	0	57	0	36	3	60	1.12
714063--714138	28	2.6	28	79	6	80	61	0	2	35	1.10
714126--714173	20	2.4	21	86	13	75	50	0	0	50	1.00
714079--714160	36	2.3	35	77	12	87	62	0	0	37	0.96
714125--714173	11	4.7	11	78	14	59	51	0	0	48	1.00
714108--714176	30	2.3	30	77	2	77	57	0	0	42	0.98
731266--731292	4	6.8	4	100	0	54	22	0	0	77	0.76
756044--756082	20	1.9	21	89	5	62	35	0	0	64	0.94
757268--757364	30	3.3	30	83	8	119	36	3	6	54	1.41
772717--772742	2	13.0	2	100	0	52	50	0	0	50	1.00
778122--778179	25	2.4	25	85	8	75	58	17	1	22	1.47
784252--784302	15	3.2	15	83	8	57	19	1	3	74	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
784268--784309	15	2.9	15	86	10	52	21	0	2	76	0.90
819292--819351	14	4.2	14	70	17	52	51	1	0	46	1.10
821957--822021	28	2.4	28	84	2	87	43	10	9	36	1.72
822113--822268	83	1.9	84	81	5	192	46	8	9	34	1.68
822196--822463	127	2.1	127	82	6	321	45	10	11	32	1.74
822278--822350	28	2.6	28	76	8	85	47	10	6	34	1.65
825401--825443	21	2.0	21	86	0	59	51	0	0	48	1.00
827592--827620	6	4.8	6	100	0	58	48	0	0	51	1.00
828300--828335	17	2.1	17	100	0	72	52	0	5	41	1.24
828303--828342	17	2.4	17	91	0	62	55	0	7	37	1.29
829856--830173	161	2.0	161	91	0	510	27	14	24	33	1.94
834219--834296	29	2.7	29	74	7	77	41	1	0	57	1.07
834954--835013	29	2.0	29	84	9	77	56	3	3	36	1.32
842765--842797	2	16.5	2	100	0	66	48	0	51	0	1.00
852692--852804	26	4.4	26	75	9	88	48	4	7	38	1.53
852694--852804	25	4.3	24	76	10	78	48	4	8	38	1.53
854560--854596	16	2.3	16	95	0	65	27	0	27	45	1.54
862434--862467	11	3.1	11	86	0	50	26	11	20	41	1.87
871005--871093	44	2.0	43	85	8	117	21	7	22	48	1.76
874660--874695	2	18.0	2	100	0	72	0	50	0	50	1.00
874695--874725	2	15.5	2	100	0	62	48	0	0	51	1.00
879346--879681	90	3.7	89	72	5	264	25	16	29	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879279--879650	180	2.1	180	82	0	456	25	16	30	28	1.97
880168--880221	17	3.2	16	78	17	56	42	0	1	55	1.10
880392--880421	13	2.2	14	94	5	53	26	0	0	73	0.84
881606--881643	19	2.0	19	94	0	67	60	2	0	36	1.11
889525--889566	18	2.3	18	91	4	66	52	0	2	45	1.13
896526--896570	24	1.9	23	86	4	63	53	0	2	44	1.13
902993--903033	20	2.0	20	86	9	57	58	0	0	41	0.98
912969--913003	4	8.5	4	87	6	52	51	2	2	42	1.31
913318--913369	2	26.0	2	100	0	104	50	0	0	50	1.00
914358--914397	16	2.6	16	80	4	55	20	2	5	72	1.15
914443--914483	13	3.2	13	77	19	50	31	2	0	65	1.05
920700--920742	23	1.9	22	85	4	59	11	11	2	74	1.17
920745--920813	27	2.6	27	77	9	77	30	21	7	40	1.80
920910--920952	23	2.0	23	86	9	63	37	18	6	37	1.78
926807--926846	3	13.3	3	100	0	80	65	0	35	0	0.93
930217--930301	27	2.9	31	83	8	90	62	3	3	30	1.29
933420--933457	18	2.1	19	85	5	51	39	7	0	52	1.31
933687--934067	208	1.8	206	83	8	504	40	4	14	39	1.68
939771--939799	4	7.2	4	100	0	58	48	0	0	51	1.00
940039--940095	23	2.5	22	86	10	80	42	0	1	56	1.10
942051--942103	26	2.1	25	89	3	79	49	0	1	49	1.12
953235--954376	500	2.3	497	84	3	1463	35	9	4	50	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953121--954376	251	5.0	250	81	5	1283	35	10	4	49	1.57
957192--957223	4	8.0	4	92	0	55	50	3	0	46	1.17
964232--964444	110	1.9	109	87	4	313	38	13	3	45	1.60
965869--965901	15	2.1	16	94	5	59	36	0	18	45	1.49
966103--966190	33	2.7	33	82	10	101	30	4	0	64	1.13
967575--967618	16	2.9	15	83	6	54	40	0	2	56	1.11
974534--974593	22	2.7	23	73	17	63	53	3	1	41	1.27
974751--974816	22	3.0	22	88	6	89	71	4	3	21	1.18
974774--974822	22	2.5	19	81	18	64	71	4	0	24	1.03
978188--978240	23	2.3	23	76	0	61	32	1	3	62	1.24
981699--981734	2	18.0	2	94	0	63	47	2	0	50	1.15
992371--992490	62	1.9	62	85	6	163	46	4	16	32	1.66
1007058--1007133	31	2.5	30	76	17	77	31	10	6	51	1.62
1007247--1007311	33	2.0	33	87	6	96	40	18	1	40	1.60
1007817--1007914	30	3.3	30	75	12	94	59	2	4	34	1.28
1011195--1011249	21	2.6	21	100	0	110	36	9	5	49	1.58
1016803--1016906	52	2.0	52	96	0	190	34	12	11	41	1.79
1026502--1026526	7	3.6	7	100	0	50	28	28	44	0	1.55
1031242--1031272	16	1.9	16	93	0	53	35	6	29	29	1.82
1031385--1031440	15	3.6	16	75	15	55	42	1	0	55	1.10
1033974--1034012	19	2.1	19	85	9	53	51	0	0	48	1.00
1034181--1034218	20	1.9	20	84	10	51	42	5	2	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036953--1037006	27	2.0	27	100	0	108	37	37	7	18	1.79
1038870--1038975	54	2.0	54	86	0	149	28	31	11	29	1.91
1042520--1042585	30	2.2	30	88	0	96	13	34	28	22	1.92
1054626--1054664	14	2.7	15	88	8	62	64	2	0	33	1.08
1054633--1054664	14	2.3	14	100	0	64	68	0	0	31	0.90
1054633--1054697	14	4.9	13	78	12	53	70	0	0	29	0.87
1054646--1054710	19	3.4	19	77	12	62	72	0	0	27	0.85
1060614--1060764	75	2.0	75	96	0	275	34	25	11	28	1.91
1063656--1063784	63	2.0	63	96	0	240	42	3	6	46	1.49
1063665--1063762	30	3.2	30	64	13	72	45	4	6	43	1.47

Tables:   1   2   3   4   5