genome.fa.s2.2.7.7.80.10.50.1000.1.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   27   28   29   30   31   

This is table  1  of  31  ( 3649 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)
223--262	21	1.9	21	84	0	53	52	15	7	25	1.68
528--573	21	2.2	21	84	0	56	52	17	0	30	1.45
1174--1221	22	2.2	22	85	7	62	66	12	6	14	1.42
2123--2164	22	2.0	21	85	4	57	52	11	7	28	1.64
5619--5659	21	2.0	21	85	9	57	51	14	7	26	1.69
5846--5888	21	2.1	21	83	12	54	67	6	2	23	1.27
21266--21298	15	2.2	15	89	10	50	33	12	15	39	1.84
28588--28817	114	2.0	113	90	1	343	27	20	17	34	1.95
39500--39614	48	2.4	48	88	0	167	26	9	21	41	1.84
39597--39629	15	2.2	15	94	0	57	33	9	18	39	1.82
39636--39693	22	2.6	22	86	0	80	15	15	31	37	1.89
41182--41758	203	2.8	202	83	3	674	23	11	23	40	1.88
41579--42087	182	2.8	180	81	5	553	24	11	22	40	1.88
43056--43151	42	2.3	42	87	3	131	29	19	22	28	1.98
43286--43370	42	2.0	42	97	0	161	34	12	21	31	1.91
44856--44888	2	17.0	2	87	6	50	51	3	0	45	1.16
48037--48091	23	2.4	23	87	0	74	70	1	1	25	1.06
52468--52592	62	2.0	64	92	4	209	20	11	21	47	1.81
61857--61881	2	12.5	2	100	0	50	48	0	0	52	1.00
64266--64304	2	19.5	2	89	0	60	0	46	0	53	1.00
73680--73712	2	17.0	2	93	6	59	48	0	0	51	1.00
91692--91730	20	2.1	20	86	13	57	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92952--92979	4	7.0	4	100	0	56	50	0	50	0	1.00
93783--93835	2	26.5	2	96	0	97	49	1	0	49	1.12
94214--94241	2	14.0	2	100	0	56	50	0	0	50	1.00
106938--107053	59	2.0	59	98	0	223	47	10	14	27	1.77
106967--107056	28	3.1	28	67	14	83	48	8	14	27	1.73
110471--110506	7	5.1	7	93	0	63	13	16	27	41	1.87
119616--119640	3	8.3	3	100	0	50	68	0	0	32	0.90
131268--131335	16	3.8	16	71	23	55	69	1	0	29	0.98
132015--132085	32	2.2	33	85	7	92	35	4	7	53	1.48
132359--132499	74	1.9	74	88	0	210	40	2	10	46	1.50
132557--132609	19	2.7	20	82	5	63	35	0	3	60	1.15
134213--134241	2	14.5	2	100	0	58	48	0	0	51	1.00
139146--139173	13	2.2	13	100	0	56	39	17	14	28	1.89
150735--150815	40	2.0	40	100	0	162	9	34	14	40	1.80
152259--152293	16	2.2	16	89	0	52	34	0	0	65	0.93
197490--197546	22	2.6	22	97	0	105	45	21	8	24	1.80
202114--202159	16	2.9	16	86	0	65	26	10	17	45	1.81
203728--203777	25	2.0	25	81	14	59	24	4	4	68	1.24
204659--204691	17	2.0	17	88	5	50	63	12	0	24	1.28
218120--218145	3	8.7	3	100	0	52	0	30	0	69	0.89
225993--226041	15	3.3	15	85	2	64	34	30	2	32	1.69
228312--228552	51	4.7	51	84	4	292	9	33	31	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
228314--228600	51	5.6	51	78	7	147	10	32	32	24	1.90
228312--228636	153	2.1	152	79	5	334	10	33	31	24	1.89
229964--230069	48	2.2	49	84	5	162	29	13	20	36	1.91
234609--234646	14	2.5	16	83	16	62	52	0	0	47	1.00
250342--250379	18	2.0	20	85	10	53	50	0	0	50	1.00
250400--250437	15	2.4	16	86	8	60	55	0	0	44	0.99
250435--250474	18	2.4	17	88	12	64	42	10	0	47	1.37
251724--251784	32	1.9	32	90	6	97	29	8	0	62	1.24
261558--261616	30	2.0	30	93	0	100	61	1	1	35	1.16
261585--261630	21	2.1	22	92	4	76	60	0	0	39	0.97
273633--273657	8	3.1	8	100	0	50	28	24	24	24	2.00
319702--319782	40	2.0	40	100	0	162	34	9	19	35	1.85
322044--322083	3	13.3	3	100	0	80	0	35	0	65	0.93
324022--324072	12	4.2	12	82	5	59	23	23	27	25	2.00
335635--335727	42	2.2	41	79	9	107	21	11	35	31	1.90
335662--335723	21	3.0	21	82	0	79	24	9	35	30	1.87
335730--335936	42	4.9	42	80	3	193	21	7	45	25	1.78
335730--335936	21	9.9	21	79	1	137	21	7	45	25	1.78
335692--335873	84	2.2	84	80	0	193	22	8	43	25	1.81
335734--335948	63	3.4	62	74	3	189	21	7	45	25	1.78
335845--335957	42	2.7	42	88	2	156	21	9	43	25	1.83
335881--336020	42	3.3	40	77	7	111	23	10	41	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335860--335993	21	6.4	21	78	10	114	22	10	42	24	1.85
335995--336038	21	2.1	21	100	0	88	22	11	40	25	1.87
335974--336053	21	3.8	21	83	3	72	23	12	38	25	1.90
359094--359126	16	2.0	17	94	5	59	60	0	15	24	1.35
362323--362364	22	2.0	21	85	4	57	52	0	4	42	1.22
375265--375319	6	8.8	6	88	7	65	0	40	10	49	1.38
375262--375320	8	7.4	8	79	5	57	0	42	10	47	1.37
382976--383013	17	2.2	17	90	0	58	47	2	2	47	1.30
383640--383665	13	2.0	13	100	0	52	38	7	15	38	1.76
397255--397279	4	6.2	4	100	0	50	48	0	0	52	1.00
411892--411930	2	19.5	2	89	0	60	51	0	46	2	1.14
421478--421519	8	5.4	8	94	2	50	0	45	0	54	0.99
421484--421519	2	18.0	2	94	0	63	0	47	0	52	1.00
422660--422693	3	12.0	3	87	12	54	67	0	0	32	0.91
430843--430871	3	10.0	3	92	7	51	0	34	0	65	0.93
435622--435648	6	4.5	6	100	0	54	14	0	66	18	1.25
449350--449385	17	2.1	18	89	5	56	44	0	0	55	0.99
449458--449492	13	2.5	14	90	9	54	45	0	0	54	0.99
449536--449577	9	4.6	9	82	11	50	33	2	0	64	1.07
449536--449570	17	2.0	18	88	5	54	31	2	0	65	1.07
451669--451782	60	1.9	60	87	1	167	38	12	8	40	1.74
455752--455853	53	1.9	53	97	0	195	23	12	25	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482586--482651	33	2.0	33	96	0	123	34	6	30	28	1.81
486707--486734	13	2.2	13	100	0	56	60	0	0	39	0.97
497513--497627	58	2.0	58	96	0	212	44	9	14	31	1.78
500296--500328	13	2.5	13	90	9	50	42	0	3	54	1.15
538458--538722	132	2.0	132	91	0	431	42	24	12	21	1.87
551778--551812	15	2.3	15	90	0	52	17	5	0	77	0.96
551786--551812	5	5.4	5	100	0	54	18	0	0	81	0.69
552002--552033	2	16.0	2	100	0	64	50	0	0	50	1.00
552436--552466	2	15.5	2	93	0	53	51	3	0	45	1.17
556960--557098	71	2.0	71	98	0	269	35	15	22	25	1.94
564772--564807	16	2.3	16	90	4	56	61	0	0	38	0.96
565338--565391	22	2.5	22	84	3	65	51	22	1	24	1.57
565437--565483	22	2.1	22	84	0	58	53	14	4	27	1.60
568083--568113	2	15.5	2	100	0	62	48	0	0	51	1.00
570200--570238	2	20.5	2	89	10	64	48	0	0	51	1.00
576451--576485	14	2.4	14	90	4	52	57	11	17	14	1.66
600418--600504	24	3.7	24	75	15	76	49	2	1	47	1.21
604841--605576	174	4.2	175	91	1	1113	19	27	19	34	1.96
604841--605576	349	2.1	348	90	2	1154	19	27	19	34	1.96
606483--606520	20	1.9	20	84	10	51	63	13	21	2	1.42
648324--648361	3	12.7	3	94	0	67	0	34	2	63	1.09
649787--649845	27	2.2	27	79	11	68	44	5	1	49	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655000--655087	45	2.0	45	81	0	104	37	12	13	36	1.83
667221--667335	39	2.9	40	96	2	214	30	20	15	33	1.94
677467--677516	22	2.3	22	82	3	57	24	2	24	50	1.60
677557--677599	22	2.0	22	85	0	59	44	13	9	32	1.76
677928--677957	15	1.9	16	93	6	53	36	0	10	53	1.35
688626--688654	3	9.7	3	100	0	58	65	0	0	34	0.93
689554--689597	20	2.2	20	84	8	54	65	15	0	18	1.27
717389--717454	24	2.8	24	92	0	105	48	16	31	3	1.62
717389--717464	24	3.2	23	82	14	91	47	18	31	2	1.62
730202--730253	3	17.3	3	77	15	54	59	3	36	0	1.16

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   27   28   29   30   31