genome.fa.s1.2.7.7.80.10.50.1000.1.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   32   

This is table  1  of  32  ( 3821 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)
1919--1966	22	2.2	22	84	0	60	47	39	2	10	1.49
1950--2026	21	3.8	21	75	11	70	33	46	6	12	1.68
2316--2350	15	2.4	14	90	4	52	51	0	2	45	1.16
6285--6334	25	2.0	25	88	7	75	42	30	8	20	1.80
13930--13984	12	4.4	12	83	4	65	72	0	0	27	0.85
13922--13968	24	2.0	24	91	8	78	68	0	0	31	0.90
14084--14143	29	2.0	31	84	12	81	41	0	3	55	1.16
15089--15151	30	2.1	30	93	0	108	50	4	7	36	1.53
15099--15173	30	2.5	30	84	2	89	58	5	6	29	1.46
15692--15773	39	2.1	39	84	2	103	53	6	2	37	1.39
15798--15839	22	2.0	22	90	4	68	38	0	0	61	0.96
16391--16941	251	2.2	240	82	6	640	34	7	6	50	1.57
27484--27595	55	2.0	55	91	3	181	56	12	7	24	1.61
29657--29681	3	8.3	3	100	0	50	0	0	68	32	0.90
29913--29938	9	2.9	9	100	0	52	11	0	69	19	1.18
30074--30125	3	18.0	3	86	7	72	28	0	67	3	1.08
33049--33087	12	3.2	12	92	3	60	41	0	0	58	0.98
33122--33151	15	1.9	16	93	6	53	30	0	0	70	0.88
33132--33156	11	2.3	11	100	0	50	32	0	0	68	0.90
35238--35500	57	4.7	56	74	8	171	43	11	6	38	1.66
35183--35500	110	2.9	109	71	12	272	43	11	7	38	1.68
36252--36312	25	2.4	25	82	17	74	39	1	4	54	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36262--36323	26	2.4	26	82	17	76	40	1	3	54	1.26
37716--37767	26	2.0	27	84	3	70	9	25	9	55	1.62
39718--39913	109	1.8	108	82	7	258	37	6	7	49	1.55
40902--40927	12	2.2	12	100	0	52	46	15	0	38	1.46
53224--53293	29	2.4	29	80	0	77	17	24	12	45	1.83
59323--59349	2	13.5	2	100	0	54	48	0	0	51	1.00
60910--60998	43	2.1	43	97	0	169	40	16	13	29	1.87
61087--61145	15	3.8	15	72	16	57	71	0	1	27	0.96
61075--61275	40	4.9	40	70	17	135	66	0	3	29	1.14
61078--61388	20	15.6	20	65	22	88	65	0	3	30	1.11
61228--61382	33	4.9	32	74	15	92	65	0	2	31	1.06
61310--61383	21	3.5	22	79	20	86	68	0	1	29	0.97
61230--61455	113	2.0	113	93	3	384	63	0	3	33	1.10
61270--61448	16	12.5	15	67	25	77	63	0	2	34	1.09
62996--63049	15	3.6	15	84	0	63	38	22	3	35	1.72
63448--63481	16	2.1	16	100	0	68	0	38	5	55	1.24
90314--90343	7	4.3	7	100	0	60	0	0	13	86	0.57
101864--101944	40	2.1	39	88	2	117	41	12	14	30	1.83
106862--106886	2	12.5	2	100	0	50	52	0	0	48	1.00
114693--114743	25	2.0	25	100	0	102	35	11	33	19	1.88
119662--119686	13	1.9	13	100	0	50	48	4	48	0	1.20
125276--125322	2	23.5	2	95	0	85	0	2	48	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141434--141459	2	13.0	2	100	0	52	50	0	0	50	1.00
153821--153848	2	14.0	2	100	0	56	50	0	0	50	1.00
154823--154854	3	10.7	3	93	0	55	34	3	0	62	1.11
179658--179782	31	4.3	29	71	22	102	67	0	1	30	1.06
179698--180122	14	29.9	14	64	20	109	64	1	2	32	1.13
179748--179833	33	2.6	33	88	3	120	70	1	0	27	0.94
179661--179832	23	7.4	24	63	25	68	68	1	1	29	1.04
179785--180127	113	3.0	113	96	1	609	63	1	2	33	1.15
179891--180074	33	5.2	34	70	22	119	64	0	2	33	1.10
179992--180058	6	11.0	6	73	20	50	68	0	0	31	0.90
179825--180100	16	19.3	15	64	26	68	61	1	2	34	1.18
180277--180315	15	2.6	15	87	0	60	35	20	5	38	1.75
186487--186536	24	2.1	24	81	7	57	60	6	10	24	1.51
187079--187105	2	13.5	2	100	0	54	51	0	48	0	1.00
188369--188394	8	3.2	8	100	0	52	34	0	11	53	1.37
190097--190169	36	2.0	36	86	0	101	42	19	13	24	1.87
194981--195024	21	2.1	21	83	8	54	54	0	0	45	0.99
196933--197002	30	2.3	30	77	0	77	38	10	4	47	1.57
207708--207759	23	2.3	23	100	0	104	26	5	17	50	1.69
212411--212450	13	3.0	14	85	10	57	25	0	0	75	0.81
212575--212608	16	2.2	16	89	5	52	38	0	0	61	0.96
214128--214182	21	2.8	20	76	15	62	21	5	3	69	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
214362--214404	15	2.9	14	80	10	50	34	0	0	65	0.93
217856--217944	42	2.1	44	89	4	137	17	24	14	42	1.87
223366--223391	2	13.0	2	100	0	52	50	0	0	50	1.00
238705--238736	2	16.0	2	100	0	64	50	0	0	50	1.00
239676--239735	21	3.0	20	82	4	68	35	1	8	55	1.40
240752--240830	30	2.6	30	82	4	106	43	3	0	53	1.19
255861--255903	6	7.3	6	86	5	61	0	32	23	44	1.54
258500--258524	6	4.2	6	100	0	50	32	0	68	0	0.90
259947--259980	17	2.0	17	94	0	59	26	5	17	50	1.69
260121--260155	2	18.0	2	88	5	54	48	0	2	48	1.16
261135--261161	2	13.5	2	100	0	54	51	0	0	48	1.00
264231--264267	18	2.0	19	85	15	51	27	13	5	54	1.61
271277--271316	21	1.9	21	89	0	62	57	2	0	40	1.12
288865--288895	15	2.1	15	93	0	53	16	29	12	41	1.85
288880--288928	24	2.0	24	96	0	89	20	28	14	36	1.92
301826--302141	56	5.5	59	72	20	269	33	2	0	62	1.15
301900--301958	10	5.5	10	78	11	55	30	0	0	69	0.89
301904--302063	11	14.5	11	69	18	52	31	1	1	65	1.11
301826--302167	112	3.0	111	89	7	523	33	2	0	63	1.13
301884--302167	27	10.3	27	67	19	108	32	2	1	64	1.13
301907--302201	8	34.7	9	62	28	69	32	2	1	64	1.11
302119--302203	33	2.6	33	80	14	95	29	1	0	69	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302140--302288	81	1.9	81	84	9	207	29	2	1	66	1.14
302155--302301	49	3.2	46	74	17	128	28	2	1	67	1.13
302218--302292	7	11.0	7	70	16	50	30	1	1	66	1.08
302185--302248	33	1.9	32	81	12	76	29	3	3	64	1.24
302218--302261	23	2.0	22	86	4	61	29	0	2	68	1.02
302275--302300	12	2.2	12	100	0	52	34	0	0	65	0.93
302189--302285	49	2.0	51	84	9	132	27	3	2	67	1.17
302179--302301	33	4.0	30	67	23	51	29	2	1	66	1.14
302556--302609	15	3.4	15	82	12	72	37	12	18	31	1.89
302783--302931	56	2.7	56	76	15	170	34	3	0	61	1.12
302775--302989	27	8.2	27	70	22	95	35	3	0	61	1.12
302790--302889	32	3.1	32	75	16	89	33	1	0	66	0.99
302891--302998	25	4.4	25	68	19	82	36	5	0	57	1.28
302907--303098	16	13.1	15	68	24	83	35	2	1	60	1.17
302742--302945	54	3.8	54	74	15	190	36	2	0	60	1.14
302927--303089	28	5.7	29	73	15	126	33	2	1	62	1.16
302854--303035	74	2.5	74	90	8	281	34	3	0	61	1.16
302999--303136	27	5.1	25	67	22	82	32	1	1	64	1.11
302998--303143	6	21.7	7	66	21	57	32	1	1	65	1.10
302742--302941	27	7.4	27	71	16	110	36	2	0	60	1.14
302751--303253	180	2.8	184	85	10	625	33	2	0	63	1.13
303096--303155	18	3.3	17	78	17	50	25	1	1	71	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303110--303276	18	9.4	18	66	22	77	29	1	0	68	1.04
302926--303148	110	2.0	112	89	8	350	32	2	1	63	1.15
303225--303276	17	3.0	17	81	13	61	26	1	0	71	0.97
307479--307592	57	2.0	57	100	0	228	26	14	22	36	1.92
307660--307711	3	17.3	3	82	7	61	0	32	3	63	1.12
323843--323890	15	3.1	15	88	8	69	58	2	2	37	1.22
329352--329377	13	2.0	13	100	0	52	84	15	0	0	0.62
334610--334648	2	19.5	2	100	0	78	51	0	0	48	1.00
334682--334721	2	20.5	2	94	5	73	52	0	47	0	1.00
344643--344667	12	2.1	12	100	0	50	48	0	8	44	1.32

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   32