genome.fa.s13.2.7.7.80.10.50.1000.2.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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  ( 2072 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)
396075--396124	19	2.6	20	82	17	70	48	0	0	52	1.00
398262--398312	12	4.0	12	78	14	57	49	0	7	43	1.32
398262--398324	27	2.3	27	100	0	126	49	0	7	42	1.32
398262--398360	27	3.8	27	83	9	98	49	1	5	44	1.31
413849--413887	20	2.1	18	90	9	60	28	0	0	71	0.86
413850--413879	15	1.9	16	93	6	53	26	0	0	73	0.84
424036--424062	14	1.9	14	100	0	54	37	7	0	55	1.28
424359--424456	25	4.0	26	71	22	86	50	0	0	50	1.00
424411--424480	17	4.0	17	72	22	56	54	0	1	44	1.09
424455--424502	22	2.2	21	88	3	69	58	0	2	39	1.10
424463--424503	22	1.9	22	95	5	75	56	0	0	43	0.99
424652--424687	11	3.3	11	84	0	54	27	0	2	69	1.02
424885--424911	9	3.0	9	100	0	54	11	44	11	33	1.75
432880--432935	29	1.9	30	85	7	80	33	5	0	60	1.19
439338--439375	17	2.3	17	86	4	51	76	2	2	18	1.02
449163--449200	2	19.0	2	100	0	76	0	50	0	50	1.00
450040--450096	30	1.9	30	88	0	87	50	8	3	36	1.50
451438--451478	3	13.7	3	100	0	82	68	0	0	31	0.90
452367--452394	6	4.7	6	100	0	56	35	0	0	64	0.94
457875--457921	2	23.5	2	100	0	94	51	0	0	48	1.00
459654--459811	56	2.7	56	75	8	163	27	11	18	42	1.84
462335--462389	22	2.5	22	84	0	74	25	5	20	49	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462447--462495	23	2.2	23	92	3	82	38	26	8	26	1.84
462490--462531	22	1.9	22	85	0	57	50	14	7	28	1.69
464678--464710	2	16.5	2	100	0	66	48	0	0	51	1.00
479589--479617	4	7.5	4	92	7	51	75	0	24	0	0.80
487946--488015	22	3.1	22	76	15	63	54	0	1	44	1.09
487967--488026	8	7.4	8	73	16	52	51	0	0	48	1.00
491450--491493	16	2.8	15	80	10	52	36	2	4	56	1.32
491478--491529	19	2.8	18	79	5	59	40	0	1	57	1.10
503686--503711	7	3.7	7	100	0	52	46	42	0	11	1.40
504524--504567	2	22.0	2	100	0	88	50	0	0	50	1.00
506973--507019	24	2.0	24	83	8	60	53	2	0	44	1.12
508805--508841	19	1.9	19	88	0	56	45	0	29	24	1.53
509096--509130	16	2.2	16	89	0	52	62	14	8	14	1.53
510710--510744	17	2.1	17	100	0	70	28	17	17	37	1.92
511839--511879	14	2.9	15	79	20	52	14	4	0	80	0.87
517809--517853	18	2.5	19	72	13	51	44	0	4	51	1.21
518572--518601	2	15.0	2	100	0	60	50	0	0	50	1.00
519840--520021	96	1.9	96	89	6	287	43	3	16	36	1.64
530000--530033	4	8.5	4	100	0	68	50	23	0	26	1.50
530223--530328	56	1.9	56	92	0	176	33	10	17	37	1.84
543352--543378	12	2.2	12	100	0	54	40	7	0	51	1.30
545240--545273	17	2.0	17	88	11	52	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545236--545280	18	2.5	20	75	17	53	44	0	0	55	0.99
565846--565914	33	2.1	33	100	0	138	34	14	15	34	1.89
568473--568518	24	1.9	24	86	0	65	50	0	4	45	1.21
568711--568757	24	2.1	23	84	11	62	17	2	4	76	1.04
571667--571716	2	26.0	2	92	8	86	50	0	0	50	1.00
582817--582873	30	1.9	30	85	0	78	54	17	22	5	1.63
587003--587074	24	3.2	24	70	22	82	37	13	6	41	1.72
587003--587089	44	2.0	44	97	0	165	40	13	8	37	1.75
592626--592686	19	3.2	19	67	4	50	11	57	0	31	1.34
595086--595143	29	2.0	29	83	6	73	77	1	3	17	0.99
601376--601405	2	15.5	2	93	6	53	0	53	0	46	1.00
604987--605368	190	2.0	191	92	1	642	30	17	17	35	1.92
606482--606508	2	13.5	2	100	0	54	0	0	48	51	1.00
619544--619675	66	2.0	66	90	0	210	25	18	16	39	1.91
646476--646522	21	2.3	21	85	10	62	42	4	10	42	1.59
648499--648539	22	1.9	21	90	5	64	43	34	0	21	1.53
652801--652859	23	2.5	23	80	2	73	42	5	15	37	1.69
669146--669184	18	2.2	18	86	4	53	33	2	28	35	1.71
669148--669264	62	1.9	61	83	1	153	33	5	23	36	1.80
674095--674171	37	2.1	38	97	2	147	48	7	5	38	1.55
687352--687684	164	2.0	164	95	0	603	34	16	13	35	1.88
690573--690743	88	1.9	88	85	2	236	50	7	14	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703390--703492	52	2.0	53	86	5	147	28	13	26	32	1.94
706092--706129	20	1.9	20	88	0	58	42	21	7	28	1.81
711333--711366	2	17.0	2	100	0	68	50	0	0	50	1.00
712637--712688	25	2.1	24	82	10	61	40	0	1	57	1.10
725591--725625	17	2.1	17	89	5	54	0	20	5	74	1.02
725710--725757	15	3.1	15	75	16	53	29	0	0	70	0.87
726661--726690	15	2.0	15	93	0	51	53	3	0	43	1.17
726706--726744	4	9.5	4	86	13	53	76	0	0	23	0.78
727159--727204	17	2.6	18	83	13	60	36	6	0	56	1.25
746351--746401	22	2.3	23	83	10	61	33	3	0	62	1.13
747583--747650	28	2.4	28	90	0	109	26	19	25	29	1.98
757339--757363	2	12.5	2	100	0	50	52	0	0	48	1.00
773772--773837	24	2.8	24	83	0	69	46	1	13	37	1.53
774693--774748	29	2.0	29	85	3	78	39	0	1	58	1.08
774729--774769	21	2.0	21	90	0	64	39	0	0	60	0.96
775230--775330	43	2.3	43	98	0	193	41	9	18	29	1.83
778730--778793	28	2.2	29	86	5	94	40	12	4	42	1.64
778675--778843	84	2.0	84	89	0	257	38	11	10	39	1.76
778986--779158	93	1.9	93	91	2	285	41	12	10	34	1.78
794714--794752	2	19.5	2	100	0	78	48	0	0	51	1.00
800808--800840	14	2.4	14	94	0	57	42	3	0	54	1.15
801634--801672	18	2.1	19	86	13	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
803328--803421	28	3.4	28	88	2	127	34	5	13	46	1.66
814441--814495	21	2.6	21	85	0	83	29	9	20	41	1.82
814610--814665	21	2.6	22	86	8	71	23	1	17	57	1.50
814703--814796	21	4.5	21	83	0	89	35	6	9	48	1.61
814935--815027	20	4.6	20	80	5	89	41	11	9	36	1.75
815543--815619	28	2.8	28	84	4	102	33	11	20	33	1.89
816136--816164	14	2.1	14	100	0	58	20	20	13	44	1.85
822888--822934	8	5.9	8	89	0	76	61	0	4	34	1.15
822888--822933	16	2.9	16	100	0	92	63	0	4	32	1.14
841315--841398	41	2.0	41	90	0	132	21	19	22	36	1.95
842441--842475	4	8.8	4	87	0	52	25	2	20	51	1.61
845339--845377	19	2.1	18	85	4	51	17	10	0	71	1.12
846256--846322	35	1.9	35	87	0	98	38	4	20	35	1.73
849448--849475	3	9.3	3	100	0	56	0	32	0	67	0.91
856243--856292	2	25.0	2	91	0	82	50	0	50	0	1.00
858395--858430	15	2.4	15	90	0	54	27	0	11	61	1.30
858445--858481	17	2.2	16	90	4	56	29	5	5	59	1.42
862432--862586	81	1.9	81	84	9	208	48	10	8	32	1.68
863246--863295	14	3.7	13	77	15	57	28	2	6	64	1.28
866290--866364	17	4.6	17	73	15	77	37	4	0	58	1.17
866290--866326	16	2.2	18	95	4	53	35	5	0	59	1.20
866315--866390	28	2.5	30	79	14	77	35	2	2	59	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
866357--866401	22	2.1	21	87	4	63	26	0	8	64	1.23
867477--867514	16	2.4	17	86	8	53	31	5	5	57	1.43
867544--867577	14	2.5	14	85	4	52	50	0	5	44	1.26
867837--867866	12	2.5	12	100	0	60	23	0	0	76	0.78
875944--875974	2	15.5	2	100	0	62	48	0	0	51	1.00
876260--876305	19	2.3	20	78	14	51	41	6	13	39	1.70
877017--877113	45	2.2	45	81	1	106	34	20	17	27	1.95
877036--877143	45	2.4	45	82	1	128	35	21	16	26	1.95
877164--877332	81	2.1	81	86	4	243	42	14	13	30	1.83
878849--878916	30	2.3	30	80	10	84	58	7	1	32	1.34

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