genome.fa.s20.2.7.7.80.10.50.1000.2.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 994 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)
366190--366252	33	1.9	32	81	9	74	25	9	17	47	1.77
375736--375767	3	10.7	3	93	0	55	0	62	0	37	0.95
383034--383066	7	4.9	7	96	3	59	84	0	0	15	0.61
383442--383477	14	2.6	14	91	4	56	2	11	0	86	0.68
383897--384279	197	1.9	196	84	6	513	34	22	18	24	1.96
387121--387159	5	7.6	5	88	5	51	64	35	0	0	0.94
392038--392070	16	2.0	17	88	5	50	75	0	3	21	0.93
392391--392660	28	9.5	28	76	9	260	40	8	10	41	1.70
392384--392697	57	5.5	57	79	8	300	39	8	11	40	1.72
392437--392697	85	3.0	85	78	8	287	40	9	11	39	1.73
402667--402699	2	16.0	2	93	6	57	48	3	0	48	1.17
407231--407261	9	3.4	9	95	0	53	29	58	12	0	1.35
411262--411286	12	2.1	12	100	0	50	0	68	8	24	1.16
424409--424434	5	5.2	5	100	0	52	61	38	0	0	0.96
424845--424922	29	2.7	28	82	4	93	16	19	12	51	1.76
432921--432954	8	4.0	8	85	14	50	35	11	14	38	1.83
432920--432955	18	2.0	18	100	0	72	33	11	16	38	1.84
435927--435955	2	14.5	2	100	0	58	48	0	0	51	1.00
436942--436968	6	4.5	6	100	0	54	18	33	0	48	1.49
443303--443362	28	2.1	29	81	9	70	60	5	1	33	1.29
443560--443593	16	2.2	16	89	5	52	61	0	0	38	0.96
443715--443763	22	2.2	22	82	13	57	71	0	2	26	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443724--443764	11	3.6	12	83	9	50	70	0	0	29	0.87
443876--443914	13	2.9	14	88	7	55	58	0	0	41	0.98
447072--447107	19	1.9	19	94	5	65	33	0	2	63	1.08
447229--447255	2	13.5	2	100	0	54	48	0	0	51	1.00
447615--447645	15	2.0	16	93	6	55	54	0	0	45	0.99
449830--449872	7	6.0	7	97	2	77	83	0	0	16	0.64
449824--449872	21	2.3	22	89	10	84	81	0	0	18	0.69
457949--458014	14	5.0	14	71	17	52	63	3	0	33	1.10
457965--458014	24	2.1	24	85	3	66	66	4	0	30	1.10
467031--467064	7	4.9	7	96	0	59	23	14	32	29	1.94
467031--467067	14	2.6	14	91	0	65	21	13	37	27	1.91
482077--482116	21	2.0	21	90	5	64	57	7	0	35	1.27
482366--482538	86	2.0	86	90	2	276	45	9	7	36	1.66
483886--483928	16	2.7	16	85	7	52	4	2	6	86	0.79
483886--483930	21	2.0	22	87	8	65	4	2	8	84	0.84
487265--487300	2	18.0	2	94	0	63	0	52	0	47	1.00
490652--490723	35	2.0	36	81	7	85	48	0	1	50	1.09
490698--490740	22	1.9	23	90	4	70	53	2	2	41	1.26
495920--495952	16	2.1	16	100	0	66	48	15	12	24	1.78
499379--499409	16	1.9	16	100	0	62	58	9	6	25	1.54
508068--508115	18	2.8	16	82	14	60	75	0	0	25	0.81
508072--508115	4	10.2	4	81	13	52	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508233--508267	17	2.1	17	89	5	54	37	0	0	62	0.95
509522--509569	6	7.3	6	80	17	51	22	0	2	75	0.91
509525--509574	21	2.3	22	89	6	75	24	2	2	72	1.06
509546--510323	251	3.1	249	88	2	1062	35	9	5	49	1.60
516025--516059	15	2.3	15	90	0	52	17	2	28	51	1.59
516477--516520	21	2.2	20	83	4	52	38	0	11	50	1.39
516740--516810	8	8.5	8	74	9	61	46	1	9	42	1.46
517328--517475	72	2.1	72	98	0	287	34	10	23	31	1.89
520641--520673	16	2.1	16	94	0	57	27	18	21	33	1.96
520868--521043	90	2.0	89	86	1	244	25	9	22	42	1.84
520843--521037	45	4.4	45	76	2	162	24	9	24	42	1.83
520967--521288	22	14.3	22	73	6	126	21	11	29	37	1.88
520921--521273	45	7.8	45	72	7	162	22	10	28	38	1.87
520890--521288	90	4.4	89	72	8	254	22	10	27	39	1.86
521137--521270	23	5.9	23	74	5	110	21	9	33	35	1.86
522887--522949	33	1.9	33	96	0	117	38	17	26	17	1.92
524755--524895	22	6.4	22	76	11	128	28	9	19	43	1.81
524731--524897	66	2.5	65	82	3	190	25	10	20	43	1.83
530665--530705	21	2.1	19	86	9	55	60	9	0	29	1.28
535713--535750	18	2.1	18	90	0	58	26	34	13	26	1.93
538526--538916	194	2.0	195	87	3	563	35	14	18	31	1.91
540624--540662	20	2.0	20	94	0	69	41	28	5	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545914--545956	21	2.0	21	82	8	52	25	2	9	62	1.37
547219--547266	18	2.5	20	78	21	59	33	2	6	58	1.35
549204--549235	3	10.7	3	100	0	64	65	0	0	34	0.93
550660--550707	18	2.5	20	78	21	59	33	2	6	58	1.35
555586--556708	251	4.5	249	79	4	1121	34	11	5	48	1.63
557602--557637	14	2.4	15	90	9	56	61	0	5	33	1.19
557602--557642	14	2.8	14	88	7	55	58	2	4	34	1.32
557343--558977	505	3.2	498	76	9	1388	48	6	11	34	1.64
557441--558837	751	1.9	748	81	6	1714	47	6	10	35	1.65
559884--559925	15	2.9	15	78	3	50	28	2	0	69	1.01
559892--561418	255	6.1	251	71	15	830	35	10	4	49	1.58
559910--561417	247	6.1	249	70	14	751	35	10	4	48	1.59
560661--560694	17	1.9	18	88	5	52	26	5	2	64	1.30
561214--561631	219	1.9	217	81	7	497	33	10	5	51	1.58
563118--563152	18	1.9	18	88	11	54	40	11	2	45	1.55
579608--579696	33	2.7	33	82	0	115	35	26	10	26	1.88
584460--584497	3	12.7	3	100	0	76	68	0	0	31	0.90
584733--584824	27	3.4	27	75	19	84	34	22	22	19	1.96
589078--589128	6	8.5	6	100	0	102	33	0	50	15	1.44
591647--591760	57	2.0	57	100	0	228	33	17	17	31	1.93
598084--598207	62	2.0	62	93	0	212	40	11	16	32	1.83
603272--603396	62	2.0	62	95	0	223	48	9	13	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606757--606797	19	2.2	19	86	8	57	21	24	4	48	1.69
607859--608055	74	2.7	74	81	1	225	25	20	13	40	1.89
612090--612283	93	2.1	93	94	0	336	26	18	23	30	1.98
617509--617963	215	2.1	218	86	4	623	47	3	6	41	1.48
618208--618241	16	2.1	16	88	0	50	38	8	5	47	1.59
622958--623000	20	2.1	21	82	4	52	27	16	0	55	1.41
623020--623056	18	2.0	19	89	5	58	10	16	0	72	1.10
624218--624253	17	2.1	17	89	0	54	33	22	5	38	1.77
624249--624308	22	3.0	22	75	22	60	55	1	0	43	1.10
626294--626371	40	2.0	40	84	0	102	25	15	23	35	1.94
630347--630402	21	2.7	20	77	5	58	30	28	19	21	1.98
632004--632047	2	22.0	2	100	0	88	50	0	0	50	1.00
642969--643048	26	3.1	25	78	7	88	28	17	15	38	1.90
643405--643444	19	2.1	19	100	0	80	47	0	32	20	1.50
644779--644841	29	2.2	29	82	5	74	34	3	3	58	1.30
656454--656633	90	2.0	90	98	0	351	27	21	14	37	1.92
661140--661165	2	13.0	2	100	0	52	50	0	0	50	1.00
662401--662432	14	2.2	15	94	5	57	50	0	0	50	1.00
662410--662444	18	2.0	17	88	5	52	45	0	0	54	0.99
674091--674264	83	2.1	84	83	1	224	40	5	5	47	1.51
674150--674359	55	3.9	54	83	3	237	45	3	5	45	1.45
674126--674359	55	4.3	53	83	3	211	44	5	5	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674102--674359	28	9.5	27	76	4	198	44	5	5	43	1.52
688376--688425	26	1.9	26	87	0	73	40	6	12	42	1.67
693010--693071	30	2.0	32	90	6	101	35	0	0	64	0.94
694378--694456	38	2.0	38	85	7	104	48	1	36	13	1.51
699019--699170	26	5.9	26	74	3	119	29	18	12	39	1.87
699062--699143	25	3.2	25	75	3	83	32	13	12	41	1.81
699026--699178	51	3.0	51	85	1	182	30	16	13	40	1.86
701054--701094	17	2.4	17	80	19	50	43	19	0	36	1.51
701096--701120	2	12.5	2	100	0	50	52	0	0	48	1.00
702064--702104	20	2.0	20	95	0	73	19	24	2	53	1.57

Tables:   1   2   3   4   5   6   7   8   9