genome.fa.s12.2.7.7.80.10.50.1000.2.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  2  of  18  ( 2130 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)
586836--586885	8	6.2	8	86	6	66	0	34	4	62	1.14
590904--590938	14	2.5	13	86	13	52	31	17	14	37	1.89
604194--604240	23	2.1	23	92	4	78	34	10	19	36	1.86
609780--609819	21	2.0	21	90	5	64	22	12	30	35	1.91
612598--612631	10	3.3	10	87	4	50	67	0	5	26	1.13
615389--615459	36	2.0	36	83	5	90	22	23	26	26	2.00
641237--641368	54	2.5	53	80	7	158	34	14	18	33	1.91
646544--646656	35	3.3	35	83	4	133	35	21	13	30	1.91
646556--646693	35	3.9	35	82	6	113	37	23	11	27	1.89
647999--648034	12	2.9	13	84	16	58	0	41	16	41	1.48
648687--648730	21	2.0	22	86	4	63	61	9	0	29	1.27
655405--655436	15	2.1	15	100	0	64	18	18	18	43	1.88
660292--660333	21	2.1	20	86	8	59	57	9	2	30	1.44
668082--668157	29	2.6	29	87	4	98	28	9	14	47	1.75
668384--668459	29	2.6	29	85	4	80	47	11	9	31	1.72
668396--668459	29	2.1	29	88	5	92	50	10	9	29	1.69
672500--672532	15	2.1	16	88	5	50	21	9	12	57	1.62
688810--688946	69	2.0	69	97	0	256	41	12	10	35	1.78
692070--692226	71	2.2	70	88	1	233	33	8	13	44	1.75
692042--692226	35	5.3	35	87	3	241	32	7	13	45	1.72
692042--692246	106	2.0	104	82	5	252	34	7	13	44	1.72
698860--699080	35	6.3	35	86	4	286	33	7	13	45	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698887--699080	71	2.7	71	91	0	316	33	8	13	44	1.73
698860--699080	71	3.2	71	88	1	304	33	7	13	45	1.70
702222--702258	15	2.5	15	100	0	74	45	0	27	27	1.54
718644--718728	35	2.4	35	84	0	98	27	18	20	34	1.96
720490--720645	35	4.5	35	86	3	172	21	19	21	37	1.94
720457--720641	70	2.6	68	77	8	183	21	17	21	39	1.92
724982--725020	20	1.9	21	94	5	71	41	10	12	35	1.77
725158--725196	20	2.0	20	94	0	69	43	12	7	35	1.72
728501--728535	1	35.0	1	94	0	61	0	0	2	97	0.19
733047--733098	15	3.4	16	79	12	56	0	32	0	67	0.91
733053--733099	24	2.0	24	82	0	58	0	31	0	68	0.90
734349--734375	11	2.5	11	100	0	54	37	0	0	62	0.95
734730--734809	35	2.3	35	80	0	88	11	20	26	42	1.85
740911--740935	11	2.3	11	100	0	50	0	20	0	80	0.72
745381--745460	35	2.3	35	86	0	106	22	11	28	37	1.89
745445--745511	35	1.9	35	84	6	91	31	7	22	38	1.82
749415--749567	34	4.5	34	86	1	180	27	7	22	42	1.81
749415--749540	34	3.7	34	89	2	189	26	8	22	42	1.82
749415--749548	69	2.0	68	86	1	187	26	8	22	42	1.81
749415--749567	69	2.2	69	83	2	184	27	7	22	42	1.81
749715--749753	19	2.1	19	85	9	53	23	12	7	56	1.62
755946--756055	34	3.2	33	83	5	130	31	15	20	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
759148--759288	67	2.1	67	81	4	158	28	21	14	35	1.93
767474--767748	134	2.0	134	96	0	505	22	19	13	44	1.85
770134--770182	6	7.8	6	82	8	62	2	20	0	77	0.87
770134--770182	18	2.5	20	90	6	75	2	20	0	77	0.87
770152--770189	18	2.1	18	90	0	58	2	21	0	76	0.91
779100--779293	26	7.4	26	72	12	128	35	7	10	45	1.68
779101--779283	53	3.5	52	73	5	179	36	7	11	44	1.69
779094--779327	105	2.2	105	93	0	387	36	8	11	44	1.71
779155--779326	52	3.3	51	72	8	166	34	8	11	44	1.72
779102--779382	105	2.7	104	85	7	318	35	11	11	42	1.76
780280--780326	18	2.6	18	82	0	58	46	10	2	40	1.50
781716--781799	36	2.4	36	82	6	109	35	13	17	33	1.89
782828--782898	37	1.9	36	83	11	90	40	22	7	29	1.80
782874--782979	28	3.8	28	86	1	133	30	23	13	33	1.93
783981--784024	17	2.6	17	85	0	61	36	20	2	40	1.65
786724--788236	502	3.0	501	84	4	1904	35	17	12	35	1.87
804999--805069	34	2.1	34	86	5	99	19	2	11	66	1.36
809082--809108	13	2.1	13	100	0	54	59	7	0	33	1.25
817079--817165	36	2.4	36	81	7	97	36	21	25	16	1.94
820687--820734	12	4.0	12	89	10	80	0	41	16	41	1.48
821384--821427	21	2.0	22	86	4	63	61	9	0	29	1.27
821595--821645	21	2.4	21	90	0	84	27	11	21	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
829318--829348	2	15.0	2	93	6	53	48	0	3	48	1.17
831220--831274	15	3.7	15	85	0	65	32	5	25	36	1.79
835052--835088	12	3.3	12	78	21	53	40	16	8	35	1.78
835074--835146	29	2.5	29	95	0	128	36	23	9	30	1.87
839733--839851	30	3.9	31	89	6	156	23	8	19	48	1.76
839735--839927	31	6.3	31	82	9	173	18	7	21	51	1.71
849540--849570	16	1.9	16	93	0	53	22	12	9	54	1.67
851699--851804	52	2.0	53	81	7	126	31	22	8	37	1.84
861895--861932	18	2.1	18	90	0	58	15	57	15	10	1.64
870580--870604	2	12.5	2	100	0	50	0	48	0	52	1.00
891894--891973	21	3.9	21	69	11	67	33	12	13	40	1.83
892990--893267	80	3.5	80	77	1	306	28	9	25	32	1.87
894981--895053	35	2.1	35	92	0	119	35	10	15	38	1.82
898000--898062	29	2.1	32	85	8	87	30	12	9	47	1.73
899662--899777	33	3.4	34	77	8	130	27	15	21	35	1.94
899662--899784	34	3.7	33	78	2	129	29	15	21	34	1.94
899940--900028	36	2.5	36	90	0	142	33	7	6	51	1.57
900926--901004	35	2.3	35	88	0	122	32	25	12	29	1.93
926858--926884	11	2.5	11	100	0	54	48	0	22	29	1.51
926858--926893	13	3.0	12	92	8	56	47	0	25	27	1.52
928475--928520	3	15.3	3	90	0	74	32	32	0	34	1.58
931492--931554	21	3.0	21	85	2	81	31	14	11	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
934853--934932	21	3.8	21	75	11	74	26	8	17	47	1.76
935013--935113	21	4.8	20	77	11	85	30	3	15	49	1.63
935301--935341	21	2.0	20	85	4	55	41	7	9	41	1.66
935365--935417	21	2.6	21	87	3	72	37	11	13	37	1.80
954290--954360	36	2.0	36	94	0	124	47	14	14	23	1.80
962744--962800	16	3.6	16	72	13	55	31	3	1	63	1.22
962821--962941	14	8.6	14	69	21	51	30	1	0	67	1.00
962809--962952	34	4.3	33	69	18	93	32	1	0	65	1.01
962866--962952	6	13.5	6	71	20	52	32	1	0	66	0.99
962850--962904	25	2.2	25	83	6	67	29	1	0	69	0.99
962833--962901	5	13.2	5	71	14	50	28	1	0	69	0.97
962858--962946	14	6.6	14	70	17	73	31	1	0	67	0.98
962866--962969	25	3.9	28	71	13	67	34	0	0	64	1.00
963484--964097	251	2.4	252	82	4	738	35	9	4	50	1.56
964596--964645	20	2.5	20	96	0	91	42	18	10	30	1.82
966773--966826	28	2.0	27	88	3	81	22	1	12	62	1.39
966777--966826	14	3.6	14	70	20	50	22	2	14	62	1.42
975224--975276	21	2.7	20	83	11	65	47	1	0	50	1.12
976582--976726	29	5.1	28	76	9	132	37	11	10	40	1.75
1016658--1016728	20	3.5	20	78	3	79	28	5	19	46	1.72
1017946--1017974	15	1.9	15	100	0	58	27	20	3	48	1.66
1018260--1018407	77	1.9	77	84	2	199	38	13	6	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039900--1040077	85	2.1	85	89	1	268	48	17	6	27	1.72
1042703--1042794	46	2.0	46	97	0	175	36	14	19	29	1.91
1046185--1046227	18	2.5	17	82	14	52	2	18	4	74	1.10
1047044--1047087	21	2.0	22	86	4	63	29	0	6	63	1.20
1047723--1047768	22	2.0	22	84	12	58	32	4	34	28	1.77
1061187--1061241	25	2.2	24	93	6	101	41	10	5	41	1.63
1061266--1061312	19	2.6	18	75	18	53	57	0	2	40	1.11
1064489--1064619	44	3.0	44	81	8	133	37	22	16	23	1.94
1068583--1068630	24	2.0	24	95	0	87	52	8	25	14	1.69
1069302--1069332	15	2.1	15	93	0	53	54	6	0	38	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18