genome.fa.s4.2.7.7.80.10.50.1000.2.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  2  of  26  ( 3073 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)
269325--269368	21	2.0	22	86	4	63	61	9	0	29	1.27
271097--271127	15	2.1	15	93	0	53	32	0	29	38	1.57
279732--279765	17	2.0	17	88	0	50	8	14	5	70	1.31
282582--282614	18	1.9	17	88	11	50	15	18	15	51	1.77
288980--289081	52	2.0	49	80	14	111	25	13	11	49	1.76
292858--292901	22	2.0	24	86	13	67	31	13	11	43	1.80
298243--298408	73	2.3	72	80	1	197	25	20	17	36	1.94
307729--307868	73	1.9	73	88	2	210	25	17	17	39	1.91
310109--310228	58	2.1	57	80	1	132	38	15	10	35	1.81
313686--313754	29	2.3	30	80	5	77	47	13	10	28	1.74
314834--314875	19	2.2	19	86	0	57	40	9	11	38	1.75
330897--331073	92	1.9	92	91	0	291	33	9	16	40	1.81
346052--346093	19	2.3	18	84	8	50	28	0	4	66	1.12
354097--354143	20	2.3	21	85	7	62	65	12	0	21	1.25
370312--370342	15	2.0	16	93	6	55	6	38	32	22	1.80
374566--374594	2	14.5	2	100	0	58	51	48	0	0	1.00
375003--375091	26	3.4	26	92	0	142	22	16	32	28	1.96
379490--379570	33	2.5	33	87	0	117	32	13	17	37	1.89
379712--379782	37	1.9	36	91	2	115	29	7	7	56	1.53
379744--379924	47	3.9	46	81	5	186	27	9	11	51	1.68
379744--379924	93	1.9	93	82	7	224	27	9	11	51	1.68
381347--381397	24	2.1	24	96	0	93	39	7	3	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389426--389525	33	3.1	32	85	5	121	29	17	21	33	1.95
389435--389532	31	3.1	32	85	4	119	28	14	22	34	1.93
389655--389722	36	1.9	36	81	3	84	33	7	10	48	1.65
389749--389887	47	3.0	47	86	0	197	28	8	9	53	1.63
393959--393990	2	16.0	2	100	0	64	50	0	0	50	1.00
396518--397201	251	2.7	250	82	2	806	49	6	8	35	1.59
403374--403443	36	1.9	36	88	0	104	31	5	24	38	1.79
410840--410872	15	2.1	16	94	5	59	33	21	18	27	1.96
417474--417498	2	12.5	2	100	0	50	52	0	0	48	1.00
421488--421512	13	1.9	13	100	0	50	24	24	0	52	1.48
430595--430635	17	2.4	17	91	0	64	36	9	7	46	1.65
435909--435936	2	14.0	2	100	0	56	50	50	0	0	1.00
436286--436316	15	2.1	15	100	0	62	19	12	38	29	1.89
442422--442540	36	3.3	36	76	16	95	21	16	15	45	1.85
442455--442540	37	2.4	37	81	16	101	22	16	16	45	1.85
447777--447890	39	2.9	39	84	5	149	23	14	20	41	1.89
474785--474821	15	2.5	15	100	0	74	40	18	27	13	1.88
488049--488127	40	2.0	40	89	0	122	39	26	18	15	1.91
490568--490605	20	1.9	20	94	0	67	39	15	23	21	1.92
500844--500892	21	2.3	21	92	0	80	38	8	10	42	1.68
521935--521973	2	19.5	2	94	0	69	0	46	2	51	1.14
532361--532408	25	2.0	25	84	12	64	22	29	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544224--544262	20	2.0	20	90	9	64	56	0	0	43	0.99
544224--544273	18	3.1	17	77	16	52	58	0	0	42	0.98
550011--550063	26	2.0	26	100	0	106	37	7	28	26	1.83
572961--573024	32	2.0	32	87	0	92	31	28	6	34	1.82
573212--573310	30	3.2	32	90	8	161	26	20	11	42	1.85
578063--578149	8	11.1	8	86	7	117	60	0	37	1	1.04
578070--578128	4	15.0	4	75	3	57	64	0	35	0	0.94
578070--578149	31	2.6	31	90	4	117	62	0	37	0	0.95
578063--578149	23	3.7	23	83	13	106	60	0	37	1	1.04
578840--578883	20	2.3	19	92	7	72	52	0	2	45	1.13
595417--595457	16	2.6	16	88	11	59	34	9	7	48	1.64
630068--630193	35	3.7	35	82	6	123	34	13	15	36	1.87
631129--631157	2	14.5	2	100	0	58	48	0	0	51	1.00
637185--637217	17	1.9	17	88	11	50	9	9	3	78	1.05
637387--637426	18	2.2	18	90	0	62	30	5	15	50	1.65
638730--638794	29	2.2	29	83	5	76	32	9	7	50	1.63
642334--642363	4	7.5	4	100	0	60	76	0	23	0	0.78
642616--642645	12	2.5	12	100	0	60	13	20	20	46	1.83
642954--642987	17	1.9	18	88	5	52	64	0	0	35	0.94
642877--643535	244	2.7	247	84	4	798	49	6	8	35	1.60
642895--644186	691	1.9	692	81	4	1584	48	6	9	35	1.60
643557--645840	251	9.3	250	79	6	1943	49	5	9	34	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644380--644421	20	2.2	19	87	12	59	61	4	4	28	1.36
645877--645956	29	2.8	28	78	17	76	58	2	0	38	1.11
645926--645974	21	2.3	22	82	10	66	63	2	2	32	1.17
646638--646668	2	15.5	2	93	0	53	0	51	0	48	1.00
648078--648106	2	14.5	2	100	0	58	51	0	48	0	1.00
654151--654193	5	8.6	5	86	0	50	0	18	0	81	0.69
656471--656503	16	2.1	16	100	0	66	45	18	24	12	1.83
666699--666763	34	1.9	34	90	0	103	35	13	26	24	1.93
667098--667200	27	3.8	27	77	0	89	30	23	27	19	1.98
667340--667401	27	2.3	27	88	0	88	33	20	24	20	1.97
668505--668765	52	5.0	52	82	3	283	24	22	14	38	1.91
668576--668788	104	2.0	104	79	7	227	26	23	13	35	1.92
673579--673614	18	1.9	19	88	5	56	27	36	8	27	1.86
682143--682460	112	2.9	112	82	6	326	29	14	15	41	1.86
687646--687690	19	2.4	19	85	3	56	28	20	22	28	1.98
687772--687796	12	2.1	12	100	0	50	44	0	0	56	0.99
688509--688538	15	2.0	15	93	0	51	53	10	0	36	1.35
689090--689171	31	2.7	29	76	14	85	29	17	2	51	1.58
692085--692153	34	2.0	34	97	0	129	30	10	23	36	1.88
696994--697051	17	3.4	17	75	0	62	62	10	1	25	1.37
699556--699613	8	7.2	8	88	5	82	0	37	1	60	1.07
699556--699606	23	2.2	24	89	3	77	0	37	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699604--699661	24	2.4	24	94	0	98	15	29	6	48	1.71
699939--699978	21	1.9	21	85	10	55	47	30	0	22	1.52
703447--703494	19	2.6	19	90	3	71	39	4	0	56	1.19
727805--727992	91	2.0	93	86	4	263	39	16	14	29	1.88
739845--740093	85	2.9	85	89	0	374	43	15	1	38	1.57
739970--740009	13	3.0	13	82	17	55	47	20	0	32	1.50
755195--755341	71	2.1	71	80	11	167	14	14	22	47	1.81
760075--760116	22	1.9	22	90	0	66	45	2	4	47	1.36
760164--760190	14	1.9	14	100	0	54	51	7	0	40	1.30
760156--760196	14	2.6	17	74	22	52	51	4	0	43	1.23
766364--766550	57	3.3	53	77	12	178	38	11	9	40	1.75
766364--766544	29	6.4	29	76	12	164	39	11	9	39	1.74
766384--766548	57	2.9	57	81	10	180	37	12	9	40	1.76
769845--769874	15	2.0	15	93	0	51	26	36	0	36	1.57
772753--772793	21	2.1	19	86	9	55	60	9	0	29	1.28
774098--774210	58	1.9	58	83	0	145	38	13	10	38	1.79
777527--777561	3	11.7	3	100	0	70	65	0	0	34	0.93
777578--777612	18	1.9	18	88	0	52	45	2	2	48	1.32
778532--778566	12	3.0	12	87	4	54	45	8	20	25	1.79
785062--785136	30	2.5	30	86	0	114	48	5	32	14	1.67
785062--785148	15	5.8	15	69	15	63	50	4	31	13	1.62
790090--790121	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
790862--790909	15	3.2	15	85	5	53	58	2	27	12	1.46
791145--791465	110	2.9	110	94	0	543	25	9	13	50	1.72
797852--797885	16	2.1	16	94	0	59	47	17	14	20	1.83
798650--798700	21	2.6	20	80	20	63	72	19	5	1	1.15
808539--808588	26	1.9	26	84	8	66	52	4	4	40	1.39
808320--808828	277	1.8	277	94	0	910	41	11	10	36	1.75
816269--816428	30	5.4	29	78	8	153	39	9	10	40	1.72
823831--823870	18	2.2	20	86	13	59	40	7	7	45	1.61
824597--824656	25	2.4	25	85	0	75	26	28	16	28	1.97
825125--825173	25	2.0	25	84	8	64	40	14	8	36	1.75

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