genome.fa.s7.2.7.7.80.10.50.1000.20.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

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

This is table  20  of  20  ( 2374 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)
9512146--9512322	33	5.6	32	78	15	190	46	4	11	36	1.61
9512190--9512312	29	4.1	29	82	8	147	46	4	11	38	1.59
9512158--9512322	62	2.7	62	91	1	260	46	4	12	37	1.61
9523092--9523177	33	2.6	34	83	5	104	68	0	2	29	1.02
9523095--9523262	87	1.9	88	81	12	204	64	0	2	32	1.10
9523131--9523358	113	2.0	113	96	3	424	64	0	2	32	1.12
9523503--9523547	15	3.0	15	93	0	72	33	26	6	33	1.83
9525420--9525459	8	4.9	8	84	3	53	7	42	0	50	1.30
9537664--9537759	47	2.0	47	91	0	156	20	21	17	39	1.92
9548739--9548799	24	2.7	23	78	14	72	44	1	3	50	1.28
9570494--9570518	6	4.2	6	100	0	50	52	32	0	16	1.44
9572869--9572917	21	2.3	22	75	13	57	44	4	2	48	1.33
9590007--9590034	13	2.2	13	100	0	56	14	0	46	39	1.44
9597201--9597226	13	2.0	13	100	0	52	23	0	7	69	1.14
9612678--9612769	43	2.1	44	87	2	132	34	19	9	35	1.85
9638080--9638156	25	3.2	25	68	7	77	18	12	25	42	1.86
9638069--9638170	48	2.1	48	94	0	177	17	10	30	41	1.84
9638334--9638436	53	1.9	53	98	0	197	42	16	28	12	1.84
9638397--9638461	34	1.9	34	100	0	130	44	10	30	13	1.78
9638528--9638612	44	1.9	44	100	0	170	44	11	2	41	1.54
9648783--9648808	2	13.0	2	100	0	52	50	0	0	50	1.00
9651816--9651847	10	3.2	10	90	0	55	9	0	40	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9653505--9653552	23	2.1	23	100	0	96	47	16	18	16	1.82
9656971--9657025	21	2.6	21	100	0	110	18	40	25	16	1.91
9678472--9678506	3	12.0	3	93	6	63	65	0	34	0	0.93
9686633--9686667	3	11.7	3	93	0	61	31	2	0	65	1.07
9699633--9699729	47	2.1	47	96	0	176	30	11	19	38	1.87
9706442--9706476	12	2.9	12	86	0	52	65	0	34	0	0.93
9723029--9723097	35	2.0	35	94	0	120	18	23	23	34	1.96
9731855--9731985	69	1.9	71	87	6	196	14	33	45	6	1.72
9741480--9741543	26	2.4	25	85	12	76	45	9	12	32	1.74
9760417--9760441	2	12.5	2	100	0	50	48	0	0	52	1.00
9761251--9761305	4	13.5	4	75	17	51	27	1	5	65	1.25
9761250--9761301	13	3.8	13	75	9	50	28	1	5	63	1.28
9763599--9763640	5	8.4	5	100	0	84	61	0	38	0	0.96
9796211--9796236	2	13.0	2	100	0	52	50	0	0	50	1.00
9806745--9806773	2	14.5	2	100	0	58	48	0	0	51	1.00
9826928--9827371	222	2.0	222	89	1	676	27	17	22	32	1.96
9832845--9832873	15	1.9	15	100	0	58	0	20	37	41	1.53
9857863--9857898	2	18.0	2	94	0	63	47	0	2	50	1.15
9859530--9859554	2	12.5	2	100	0	50	48	0	0	52	1.00
9863267--9863308	2	21.0	2	85	9	59	45	2	0	52	1.13
9883724--9883763	2	20.0	2	85	10	55	5	47	0	47	1.24
9897466--9897514	23	2.0	24	85	14	66	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9921967--9922001	14	2.4	14	85	4	52	68	0	31	0	0.90
9922370--9922453	32	2.7	31	76	5	89	35	16	14	33	1.89
9926280--9926318	17	2.3	17	91	8	62	58	0	0	41	0.98
9926260--9926318	8	7.4	8	70	14	50	54	0	0	45	0.99
9932723--9932749	5	5.4	5	100	0	54	18	18	40	22	1.91
9933594--9933618	2	12.5	2	100	0	50	48	0	0	52	1.00
9935755--9935784	2	15.0	2	100	0	60	50	0	0	50	1.00
9938524--9938550	5	5.4	5	100	0	54	0	55	0	44	0.99
9946341--9946366	2	13.0	2	100	0	52	50	0	0	50	1.00
9948149--9948179	2	15.5	2	93	0	53	0	0	45	54	0.99
9954817--9954846	2	15.5	2	93	6	53	0	50	0	50	1.00
9968027--9968052	9	2.9	9	100	0	52	57	0	34	7	1.27
9987941--9987975	16	2.2	16	89	0	52	74	0	0	25	0.82
9987926--9988025	43	2.3	44	81	8	116	63	5	3	29	1.31
9988037--9988248	101	2.1	102	78	10	220	44	1	0	53	1.12
9988117--9988169	26	2.0	26	89	7	81	33	0	0	66	0.92
9988137--9988194	14	4.3	14	70	16	50	44	0	0	55	0.99
9988223--9988339	22	5.3	21	65	21	53	41	1	0	56	1.15
9988220--9988281	27	2.2	28	82	8	72	40	3	0	56	1.15
9988278--9988345	19	3.5	19	75	16	59	41	0	1	57	1.08
9988282--9988353	18	3.8	18	77	16	58	41	0	1	56	1.07
9988236--9988356	18	6.2	18	64	25	50	41	1	0	56	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9988128--9988591	151	3.0	150	82	9	535	39	1	2	56	1.21
9988376--9988453	22	3.5	21	78	15	77	38	0	3	57	1.17
9988391--9988445	23	2.5	22	87	3	74	45	0	3	50	1.19
9988538--9988603	27	2.5	26	80	11	71	45	0	4	50	1.22
9988825--9988881	28	2.0	29	86	6	82	42	0	3	54	1.17
9989372--9989439	15	4.7	15	74	17	63	58	0	0	41	0.98
9989420--9989463	22	1.9	24	86	9	65	40	4	0	54	1.21
9989357--9989458	42	2.4	42	78	6	116	51	1	0	45	1.19
9989770--9989828	27	2.1	28	87	3	84	57	1	3	37	1.25
9989516--9989882	189	1.9	188	82	5	456	54	2	2	39	1.29
9989859--9989906	22	2.3	22	82	13	57	47	2	2	47	1.25
9990025--9990129	22	4.4	24	78	15	103	50	0	1	47	1.12
9990062--9990127	27	2.7	23	88	11	89	45	0	1	53	1.09
9990062--9990138	22	3.3	23	80	16	77	50	0	1	48	1.09
9990083--9990170	27	3.1	27	77	11	70	56	1	1	40	1.14
9999408--9999451	21	2.1	21	95	0	79	40	11	18	29	1.85
9999838--9999971	52	2.6	51	80	2	151	38	10	14	37	1.80
10000072--10000115	22	2.0	22	86	0	61	29	11	18	40	1.85
10000125--10000177	23	2.4	22	80	3	61	26	13	24	35	1.92
10005192--10005249	29	2.0	28	80	9	64	75	8	13	1	1.10
10010210--10010247	20	1.9	20	89	10	60	71	2	5	21	1.19
10020802--10020834	2	17.5	2	87	12	52	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10032160--10032199	21	2.0	21	90	5	64	22	22	12	42	1.87
10048540--10048571	2	16.0	2	100	0	64	50	0	50	0	1.00
10056508--10056537	15	2.0	15	93	0	51	56	0	36	6	1.26
10067223--10067294	29	2.4	31	81	4	85	33	12	4	50	1.59
10067947--10067992	18	2.5	18	89	10	67	52	0	0	47	1.00
10067947--10067993	19	2.5	19	86	3	69	53	0	0	46	1.00

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

The End!