genome.fa.s5.2.7.7.80.10.50.1000.1.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  1  of  22  ( 2636 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)
3152--3222	21	3.4	21	76	11	74	60	12	1	25	1.40
3184--3229	21	2.2	21	88	0	65	67	10	0	21	1.21
3185--3376	9	20.0	9	68	20	70	54	16	0	28	1.46
3133--3845	10	73.4	10	66	15	144	51	15	2	30	1.55
3445--3485	19	2.2	19	86	8	57	65	12	0	21	1.25
3265--3501	125	1.9	121	79	10	264	51	17	1	29	1.55
3512--3582	28	2.4	30	81	4	83	50	12	2	33	1.55
3623--3837	19	11.2	19	70	9	80	51	14	2	32	1.55
3771--3839	19	3.5	19	84	4	84	50	13	4	31	1.60
6040--6087	2	24.0	2	100	0	96	50	0	0	50	1.00
9373--9429	21	2.7	21	81	8	62	24	14	21	40	1.90
9373--9454	22	3.8	22	78	3	85	24	13	20	41	1.88
9473--9547	23	3.3	22	78	9	62	29	28	16	26	1.96
9557--9628	22	3.3	22	84	0	99	43	16	11	29	1.82
9665--9707	22	2.0	22	85	0	59	41	20	13	23	1.88
10598--10634	17	2.2	17	95	0	65	0	32	0	67	0.91
13166--13200	18	1.9	18	88	0	52	40	2	14	42	1.60
13296--13355	27	2.2	28	93	3	104	26	1	6	65	1.27
23249--23301	28	1.9	27	84	3	70	37	5	15	41	1.70
23433--23485	22	2.4	22	100	0	106	28	13	22	35	1.92
23405--23554	65	2.2	68	83	4	180	28	15	19	36	1.92
23501--23566	24	2.8	24	95	0	123	22	13	16	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23503--23566	12	5.3	12	67	14	51	23	12	17	46	1.81
25211--25259	2	24.0	2	95	4	89	48	0	2	48	1.12
30980--31008	6	4.8	6	100	0	58	34	0	48	17	1.47
41851--41885	4	8.8	4	93	0	61	0	25	0	74	0.82
44659--44715	2	28.5	2	89	0	87	49	0	5	45	1.24
50425--50464	22	1.9	19	85	14	53	47	0	2	50	1.14
55704--55761	29	2.0	29	96	0	107	37	12	17	32	1.86
56385--56409	13	1.9	13	100	0	50	64	0	0	36	0.94
61812--61836	2	12.5	2	100	0	50	0	48	0	52	1.00
61836--61883	2	23.5	2	95	4	87	47	0	2	50	1.12
61883--61927	2	23.0	2	95	4	83	0	0	51	48	1.00
62956--62995	2	20.0	2	89	0	62	45	0	5	50	1.23
68265--68294	6	5.0	6	95	0	51	20	16	63	0	1.31
90371--90396	2	13.0	2	100	0	52	50	0	0	50	1.00
91569--91608	16	2.5	16	83	0	53	50	0	0	50	1.00
91839--91889	21	2.3	23	87	12	72	50	0	1	47	1.12
98750--98820	37	1.9	37	97	0	133	36	22	7	33	1.81
127712--127743	6	5.3	6	100	0	64	18	31	15	34	1.93
128992--129031	2	20.0	2	94	0	71	50	2	0	47	1.14
130718--130745	2	14.0	2	100	0	56	50	0	0	50	1.00
145597--145634	7	5.4	7	100	0	76	15	13	26	44	1.83
157505--157534	7	4.3	7	100	0	60	26	0	26	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
178362--178426	32	2.1	31	97	2	121	41	13	24	20	1.88
181905--181954	23	2.2	23	89	7	75	46	0	0	54	1.00
189145--189176	2	16.0	2	100	0	64	50	0	50	0	1.00
193758--193818	29	2.1	29	85	11	81	37	1	0	60	1.07
193756--193809	21	2.6	21	80	8	58	40	1	0	57	1.09
199492--199522	7	4.4	7	100	0	62	41	12	12	32	1.81
214496--214531	2	18.0	2	100	0	72	50	0	0	50	1.00
215926--215954	2	14.5	2	100	0	58	48	0	51	0	1.00
221898--221940	21	2.1	20	83	12	52	34	11	9	44	1.73
227381--227413	2	16.5	2	100	0	66	51	0	0	48	1.00
253457--253483	2	13.5	2	100	0	54	51	0	0	48	1.00
273530--273556	7	3.9	7	100	0	54	88	0	11	0	0.50
276117--276336	118	1.9	117	93	0	377	22	21	16	39	1.92
277734--277758	2	12.5	2	100	0	50	52	0	0	48	1.00
304658--304703	23	2.0	23	91	0	74	30	6	28	34	1.82
314070--314116	23	2.0	23	100	0	94	44	12	21	21	1.85
327170--327240	33	2.2	33	84	0	88	38	14	7	40	1.73
327880--327986	30	3.6	30	84	2	108	47	9	11	31	1.71
327916--327992	29	2.6	29	89	2	109	48	9	10	32	1.69
331397--331431	8	4.5	8	92	3	54	14	0	8	77	0.99
334550--334656	30	3.8	29	71	21	102	66	0	1	30	1.09
334562--334667	52	2.0	51	85	14	144	65	0	1	32	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334638--334722	33	2.5	32	81	11	82	68	0	2	29	1.02
334684--335002	26	11.6	29	68	22	131	62	0	2	35	1.12
334634--334830	31	6.7	30	70	20	89	63	0	2	33	1.09
334773--334824	20	2.5	20	87	9	70	67	0	0	32	0.91
334677--335013	109	3.0	110	90	7	538	62	0	2	34	1.11
334791--335008	30	7.3	29	68	17	76	62	0	2	34	1.11
335162--335202	15	2.7	15	96	0	73	34	26	7	31	1.84
335162--335215	15	3.6	15	89	0	54	35	25	5	33	1.80
342689--342744	20	2.8	20	86	2	69	25	7	12	55	1.62
346625--346734	58	1.9	58	86	0	157	52	18	3	25	1.61
347458--347490	16	2.1	16	94	0	57	45	12	12	30	1.78
361784--361822	20	1.9	20	84	5	51	43	10	15	30	1.80
369770--369795	12	2.2	12	100	0	52	11	15	15	57	1.65
371967--372013	22	2.0	24	88	8	71	46	2	17	34	1.59
372565--372623	27	2.2	26	85	11	84	28	1	0	69	0.98
372503--372608	17	5.9	18	64	23	55	33	2	0	63	1.16
372753--372803	20	2.5	22	76	17	58	47	0	0	52	1.00
373050--373098	12	4.3	12	74	10	50	71	0	0	28	0.86
373055--373106	24	2.2	24	82	6	61	63	0	0	36	0.95
373026--373098	33	2.2	33	95	0	128	65	0	0	34	0.93
373099--373142	22	2.1	20	87	8	61	31	0	0	68	0.90
374100--374253	69	2.2	68	82	11	172	63	3	13	19	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374394--374428	15	2.4	14	90	4	52	80	0	11	8	0.92
378645--378709	29	2.3	29	82	12	82	18	9	4	67	1.35
389856--389890	5	7.0	5	93	0	61	77	0	22	0	0.78
396818--396854	2	18.5	2	100	0	74	48	0	0	51	1.00
398863--398988	22	5.8	22	70	10	80	26	12	19	42	1.87
398863--398950	21	4.1	21	80	10	99	25	13	15	45	1.83
399495--399608	58	2.0	58	89	3	176	31	25	14	28	1.94
411933--411965	3	11.0	3	93	0	57	30	0	33	36	1.58
429259--429292	7	4.9	7	96	0	59	29	14	32	23	1.94
437400--437432	3	11.0	3	93	0	57	36	0	63	0	0.95
453984--454030	24	2.0	23	87	4	67	14	14	21	48	1.80
476856--476920	32	2.0	32	96	0	121	26	16	26	30	1.97
488988--489088	29	3.4	27	75	14	85	40	0	1	57	1.10
489011--489102	30	3.0	30	79	6	96	43	0	0	56	0.99
489080--489132	18	2.9	20	81	15	62	54	0	0	45	0.99
489069--489132	20	3.0	23	76	21	68	53	0	0	46	1.00
489152--489185	7	4.9	7	86	13	52	67	0	0	32	0.91
489152--489185	13	2.4	15	90	9	54	67	0	0	32	0.91
490486--490584	29	3.4	30	80	9	98	61	2	2	34	1.19
490507--490584	29	2.7	29	86	9	99	67	1	0	30	0.98
491819--491848	11	2.7	11	94	0	51	63	3	0	33	1.11
491855--491920	23	2.9	23	80	10	66	50	4	0	45	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508842--508872	2	15.5	2	100	0	62	51	0	48	0	1.00
524327--524554	97	2.4	92	82	8	262	16	49	14	20	1.80
524356--524622	97	2.8	96	79	7	283	17	51	13	18	1.76
559900--559932	2	16.0	2	93	6	57	48	0	3	48	1.17
573773--573808	2	18.5	2	88	5	56	44	0	2	52	1.15
578746--578776	2	15.5	2	100	0	62	48	0	0	51	1.00
600827--600860	18	1.9	18	88	5	52	26	8	2	61	1.40
601225--601273	24	2.1	22	85	7	62	51	0	0	48	1.00
601796--601855	21	2.8	22	72	10	61	56	1	0	41	1.09
607776--607805	15	2.0	15	93	0	51	50	16	33	0	1.46

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22