genome.fa.s31.2.7.7.80.10.50.1000.2.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_018397284.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_115.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1289616

Tables:   1   2   3   

This is table  2  of  3  ( 347 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)
503195--503246	16	3.3	16	76	12	54	61	1	0	36	1.07
504604--504639	18	2.0	18	100	0	72	33	11	16	38	1.84
505161--505196	15	2.4	15	100	0	72	50	11	13	25	1.75
509989--510030	19	2.2	20	86	4	59	66	0	0	33	0.92
510354--510428	19	3.8	19	82	3	96	56	1	9	33	1.40
510366--510443	39	2.0	39	97	2	149	56	2	7	33	1.41
510557--510616	18	3.3	18	68	9	50	70	5	5	20	1.26
510548--510769	36	6.0	36	78	13	254	65	4	8	21	1.37
510469--510734	114	2.3	115	98	1	509	63	5	7	23	1.42
510671--510729	18	3.3	18	67	9	57	69	3	5	22	1.23
510548--510854	150	2.0	150	96	2	573	64	4	7	22	1.39
510469--510854	114	3.4	110	86	6	321	63	5	7	23	1.42
512821--512889	35	2.0	35	94	0	120	34	13	14	37	1.85
512987--513105	62	1.9	62	83	8	152	57	5	16	19	1.59
513242--513418	56	3.2	56	83	5	182	62	5	16	16	1.50
520447--520520	29	2.5	30	88	2	105	37	6	12	43	1.69
521467--521493	4	6.8	4	100	0	54	51	22	0	25	1.48
531859--532029	85	2.0	85	84	0	225	35	15	11	37	1.84
538612--538733	56	2.2	55	79	5	138	29	18	19	32	1.95
543101--543140	2	20.5	2	94	5	73	50	0	0	50	1.00
544898--544949	26	2.0	26	100	0	104	34	19	19	26	1.95
545819--545881	30	2.1	30	100	0	126	28	23	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546872--546930	23	2.6	23	88	0	82	25	20	15	38	1.91
546896--546974	23	3.5	22	79	16	74	27	24	13	34	1.93
546919--546975	21	2.5	22	75	16	55	28	26	12	33	1.92
546988--547046	23	2.5	24	75	8	68	23	33	6	35	1.82
548301--548343	21	2.0	22	86	4	61	46	9	6	37	1.63
550783--550817	18	1.9	18	88	11	54	0	22	0	77	0.78
550791--550845	28	2.0	28	85	3	76	7	18	0	74	1.04
553766--553824	29	2.0	29	100	0	118	13	23	10	52	1.71
573146--573197	23	2.3	23	83	6	72	30	19	23	26	1.98
582223--582274	23	2.2	24	86	10	81	40	28	11	19	1.86
584578--584611	14	2.6	13	86	13	52	26	14	17	41	1.88
591489--591545	23	2.5	22	77	8	60	28	17	19	35	1.94
592902--592961	30	2.0	30	93	0	102	30	8	18	43	1.79
601934--601960	13	2.1	13	100	0	54	48	22	22	7	1.75
601617--602896	187	6.6	197	77	9	729	41	14	12	30	1.83
601955--603077	187	5.9	187	77	6	929	41	14	12	30	1.83
601974--603060	377	2.9	374	78	5	929	40	14	12	30	1.83
621804--622018	113	1.9	113	80	3	254	36	27	10	25	1.88
626965--628303	190	7.0	188	82	5	1252	30	12	15	42	1.83
627964--628505	200	2.7	200	78	8	463	31	11	14	42	1.81
635156--635188	2	16.5	2	93	0	57	45	3	0	51	1.16
636511--636579	26	2.6	26	86	11	88	69	1	13	15	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639164--639227	22	2.9	22	97	0	119	42	26	12	18	1.86
643868--644107	113	2.1	115	81	3	277	25	12	26	35	1.91
649654--649694	21	1.9	22	90	5	66	34	14	12	39	1.84
651873--651916	21	2.0	22	86	4	63	29	0	9	61	1.27
652569--652616	12	4.0	12	91	8	80	41	16	41	0	1.48
663632--663667	6	6.0	6	90	0	54	13	2	47	36	1.58
664239--664298	15	3.9	16	77	12	54	68	3	1	26	1.15
664246--664298	16	3.5	15	80	10	54	69	3	1	24	1.15
665103--665143	17	2.2	20	80	20	54	14	7	2	75	1.12
665354--665401	19	2.6	19	90	3	71	43	0	0	56	0.99
665355--665402	11	4.8	10	80	17	55	43	0	0	56	0.99
668251--668293	16	2.7	16	82	10	52	62	11	0	25	1.29
668251--668303	15	3.7	15	72	20	51	64	11	0	24	1.26
676332--676592	44	5.8	44	81	5	281	45	14	13	26	1.82
676332--676591	90	2.8	89	80	9	283	45	14	13	26	1.82
680542--680575	2	17.0	2	88	11	52	47	0	50	2	1.16
682788--682952	76	2.2	75	84	4	224	39	12	7	40	1.72
689179--689366	47	4.0	45	84	8	241	52	11	10	26	1.69
689179--689366	94	2.0	94	88	4	281	52	11	10	26	1.69
689179--689402	94	2.4	94	84	8	269	52	10	10	26	1.69
689580--689668	33	2.7	32	77	3	88	35	21	13	29	1.91
691600--691639	19	2.2	18	95	4	71	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691605--691648	19	2.3	19	84	0	61	61	0	0	38	0.96
697660--697714	24	2.3	23	80	17	60	20	9	1	69	1.25
699178--699212	18	1.9	18	88	0	52	20	14	5	60	1.54
699784--699835	22	2.4	22	80	3	61	42	3	28	25	1.72
714026--714065	19	2.2	19	86	4	55	50	2	2	45	1.28
721788--721855	23	3.0	23	81	12	77	54	2	0	42	1.15
731483--731607	63	2.0	63	82	3	153	26	25	8	39	1.85
731866--731946	22	3.7	22	76	14	87	30	11	16	41	1.82
731857--731969	44	2.6	44	86	8	158	30	10	17	41	1.83
731888--731984	23	4.3	23	74	11	94	29	8	19	42	1.80
731942--731998	23	2.3	23	82	8	60	35	5	21	38	1.76
738447--738509	24	2.6	24	84	0	81	26	17	26	28	1.98
739542--739786	107	2.3	108	82	2	280	24	14	28	31	1.95
743792--743995	31	6.6	30	84	3	237	34	18	16	29	1.93
743792--743995	93	2.2	93	84	5	261	34	18	16	29	1.93
744617--744702	23	3.7	23	72	6	66	26	32	16	24	1.96
744566--744700	46	3.0	46	85	1	164	26	28	17	26	1.98
744835--744885	23	2.2	23	82	6	59	23	29	13	33	1.93
744966--745061	47	2.0	47	89	0	147	27	29	14	29	1.95
745063--745131	23	3.0	23	82	0	84	24	34	14	26	1.94
745183--745320	23	6.0	23	65	21	58	20	30	12	36	1.89
745364--745416	23	2.3	23	93	0	88	28	37	9	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752005--752060	27	2.1	27	90	6	87	71	5	0	23	1.06
753771--753803	2	16.5	2	93	0	57	0	45	0	54	0.99
754816--754888	38	1.9	38	88	5	112	31	9	15	43	1.78
754860--754935	22	3.5	22	78	3	82	22	9	25	43	1.82
754955--755014	22	2.7	23	86	5	86	33	26	11	28	1.91
754996--755054	22	2.7	22	75	0	73	38	18	15	27	1.91
755044--755096	21	2.5	21	81	0	61	35	22	16	24	1.95
763964--764014	24	2.2	23	82	10	59	72	3	5	17	1.20
774579--774624	21	2.2	20	84	3	56	50	6	4	39	1.48
774744--774775	14	2.3	14	88	0	55	43	6	0	50	1.27
782910--782998	32	2.9	31	80	6	101	32	12	16	38	1.86
783062--783152	21	4.2	21	72	13	67	32	20	17	28	1.96
783062--783205	64	2.2	65	87	2	209	31	19	18	29	1.96
783128--783229	43	2.3	43	83	3	123	30	18	19	31	1.96
788824--788878	25	2.2	25	83	6	67	32	16	23	27	1.96
801640--801802	76	2.1	76	87	4	247	41	11	7	39	1.69
801661--801780	39	3.1	39	64	13	95	36	11	8	43	1.71
811548--811762	112	1.9	112	86	0	304	35	13	5	45	1.67
811852--812046	91	2.2	90	82	6	227	39	9	4	46	1.58
811765--812306	204	2.6	204	76	8	511	37	7	5	46	1.54
814322--814467	28	5.1	28	76	10	127	44	6	9	39	1.64
814429--814485	30	1.9	30	85	7	80	47	8	7	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
814322--814487	57	2.9	59	74	16	159	44	7	10	37	1.66
824470--824621	81	1.9	79	87	5	225	47	12	19	21	1.81
830134--830216	26	3.2	26	80	0	94	25	12	26	36	1.91
833645--833703	23	2.6	23	83	0	91	27	27	13	32	1.94
833784--833860	23	3.3	23	87	0	109	27	25	11	35	1.91
834225--834296	29	2.4	30	83	2	92	61	6	11	20	1.53
835276--835305	8	3.6	8	95	4	51	20	3	0	76	0.92
835714--835787	23	3.2	23	71	7	69	36	12	21	29	1.90
835711--835819	46	2.4	46	89	3	157	35	11	21	31	1.89
835803--835869	23	2.9	23	78	8	64	34	7	25	32	1.84

Tables:   1   2   3