genome.fa.s4.2.7.7.80.10.50.1000.23.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  23  of  26  ( 3073 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)
9859774--9859923	29	5.4	28	65	23	100	65	0	3	30	1.14
9859774--9859933	15	10.3	15	67	19	73	64	0	3	31	1.16
9859695--9860035	112	3.0	112	95	2	605	62	1	4	31	1.24
9859807--9859966	33	4.5	33	69	21	117	64	0	4	30	1.18
9859774--9859935	14	11.5	14	69	23	92	64	0	3	30	1.15
9883274--9883344	37	1.9	37	91	0	115	25	23	11	39	1.88
9886312--9886344	2	16.5	2	93	0	57	48	3	0	48	1.17
9894358--9894383	1	26.0	1	100	0	52	0	0	0	100	0.00
9917387--9917437	23	2.3	22	83	10	59	58	1	1	37	1.20
9923654--9923799	68	2.1	68	80	6	161	33	14	6	45	1.69
9937341--9937381	20	2.0	21	85	4	57	63	4	0	31	1.15
9942367--9942400	18	2.0	17	88	11	52	26	23	11	38	1.89
9943885--9943911	3	9.0	3	100	0	54	66	0	33	0	0.92
9944245--9944269	13	1.9	13	100	0	50	12	0	0	88	0.53
9946378--9946418	21	2.0	20	85	4	55	36	2	0	60	1.10
9946902--9946958	24	2.3	24	84	6	69	45	7	5	42	1.53
9975571--9975614	22	2.0	22	82	4	54	56	0	2	40	1.11
9981387--9981421	2	17.5	2	100	0	70	48	0	51	0	1.00
9982367--9982392	2	13.0	2	100	0	52	50	0	50	0	1.00
10003806--10003850	16	2.6	18	86	10	58	0	24	4	71	1.05
10016617--10016645	2	14.5	2	100	0	58	51	48	0	0	1.00
10022933--10022968	18	2.1	18	89	5	56	38	2	5	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10037762--10037806	23	2.0	23	82	8	56	51	0	0	48	1.00
10037936--10037984	24	2.0	25	92	8	82	44	0	2	53	1.12
10037939--10037992	24	2.2	24	86	0	81	48	0	1	50	1.11
10039721--10039782	25	2.5	25	97	2	117	20	27	17	33	1.96
10048047--10048083	19	1.9	19	88	0	56	32	13	0	54	1.40
10059242--10059280	18	2.2	18	100	0	78	33	15	15	35	1.89
10065182--10065217	9	4.3	9	80	20	51	0	52	0	47	1.00
10083505--10083537	16	2.0	17	88	5	50	27	0	12	60	1.32
10092457--10092654	101	2.0	101	81	6	231	39	9	7	43	1.65
10117065--10117117	18	2.9	18	85	0	70	30	9	35	24	1.87
10117469--10117543	27	2.8	27	95	0	132	25	14	21	38	1.91
10118374--10118515	70	2.0	69	93	1	239	35	7	16	40	1.76
10118639--10118699	28	2.2	28	90	0	95	31	13	14	40	1.84
10118681--10118916	60	4.1	59	70	17	176	35	9	13	41	1.77
10118677--10118877	106	1.9	106	87	0	294	36	9	11	41	1.75
10149144--10149226	22	3.9	22	75	22	79	42	0	0	57	0.98
10149156--10149226	19	3.4	20	78	21	83	42	0	0	57	0.98
10149136--10149191	29	2.0	28	83	10	71	42	0	0	57	0.99
10165470--10165506	2	18.5	2	100	0	74	48	0	0	51	1.00
10185987--10186030	21	2.2	20	91	4	70	22	0	4	72	1.02
10192815--10192870	21	2.8	21	77	17	57	51	0	0	48	1.00
10192824--10192866	17	2.6	17	82	13	54	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)
10206660--10206709	22	2.2	22	82	13	57	48	0	0	52	1.00
10206661--10206713	25	2.2	25	83	6	65	50	0	0	49	1.00
10208408--10208712	69	4.4	69	79	8	284	39	5	14	40	1.70
10208448--10208712	138	1.9	138	83	5	338	40	5	13	40	1.69
10208663--10208760	48	2.0	48	84	2	124	26	5	18	50	1.68
10216142--10216209	35	1.9	35	93	0	118	29	16	23	30	1.96
10222718--10222751	16	2.1	16	88	0	50	52	0	2	44	1.16
10240220--10240275	29	1.9	29	82	7	69	64	1	3	30	1.21
10240584--10240648	33	2.0	33	87	0	94	43	4	10	41	1.60
10263854--10263932	36	2.2	36	84	8	99	34	34	1	30	1.66
10264730--10264770	21	2.0	21	85	9	57	53	19	12	14	1.72
10267681--10267877	89	2.2	89	84	1	270	48	2	5	43	1.40
10270985--10271405	220	1.9	222	86	3	600	47	4	8	40	1.54
10274705--10274774	30	2.5	25	76	19	52	67	1	1	30	1.08
10274689--10274797	55	2.0	55	80	10	125	69	0	1	27	1.04
10274750--10274834	33	2.5	33	84	5	100	69	0	2	28	1.01
10274794--10274965	49	3.2	49	68	25	139	62	1	4	32	1.22
10274875--10274933	24	2.5	24	83	8	77	66	0	1	32	1.02
10274787--10274916	16	8.0	16	68	19	65	63	0	3	33	1.16
10274787--10275018	114	2.0	114	97	0	437	62	0	4	32	1.21
10275168--10275200	15	2.1	16	94	5	59	39	18	6	36	1.75
10276122--10276168	24	2.0	24	83	8	60	70	2	2	25	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10276112--10276226	54	2.2	51	76	16	121	66	2	1	29	1.15
10276192--10276411	73	3.0	73	73	10	191	64	0	2	31	1.14
10276198--10276283	33	2.6	34	83	5	104	68	0	2	29	1.02
10276249--10276409	27	5.9	26	73	19	107	63	1	2	32	1.16
10276315--10276388	21	3.5	22	82	14	93	67	0	0	32	0.91
10276329--10276395	6	11.0	6	73	20	50	68	0	0	31	0.90
10276237--10276464	113	2.0	114	96	2	424	62	0	2	33	1.15
10276297--10276464	57	3.0	56	69	10	162	60	0	2	35	1.16
10278811--10278848	15	2.7	15	88	8	53	60	18	0	21	1.36
10280818--10280885	23	3.1	23	66	12	70	29	5	10	54	1.58
10282045--10282072	2	14.0	2	100	0	56	50	0	0	50	1.00
10283382--10283442	28	2.2	28	88	5	88	32	0	4	62	1.17
10286536--10286575	15	2.7	15	84	0	62	5	37	20	37	1.74
10292859--10292911	27	2.0	27	88	0	79	41	18	20	18	1.91
10294603--10294786	92	2.0	92	90	2	289	38	20	11	29	1.88
10296352--10296390	2	19.5	2	100	0	78	51	0	0	48	1.00
10299156--10299189	16	2.1	16	89	10	52	79	2	5	11	1.02
10299288--10299346	26	2.3	26	93	0	100	38	3	1	55	1.26
10299298--10299669	119	3.0	122	83	8	495	39	2	3	54	1.32
10299524--10299612	22	4.3	20	74	14	74	42	0	2	55	1.12
10299524--10299624	41	2.5	41	83	13	120	43	0	1	54	1.11
10299517--10299608	16	6.5	14	70	22	68	42	0	2	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10299512--10299603	48	1.9	48	82	8	116	42	0	2	55	1.12
10299644--10299702	27	2.1	28	84	3	75	42	0	3	54	1.17
10299518--10299889	160	2.4	157	85	6	483	39	0	2	56	1.18
10299636--10299742	26	4.2	26	71	15	82	39	0	1	57	1.16
10299646--10299823	85	2.0	89	79	16	194	39	0	2	57	1.15
10299810--10299872	27	2.7	23	85	14	76	42	0	4	52	1.22
10299794--10300001	111	1.9	111	83	8	271	38	0	4	56	1.23
10299910--10299976	31	2.2	30	82	12	84	41	0	4	53	1.21
10299977--10300047	19	3.5	19	72	20	72	36	2	1	59	1.21
10299949--10300013	34	1.9	32	82	14	78	38	0	1	60	1.07
10304402--10304471	35	2.0	35	94	0	122	32	12	17	37	1.87
10306340--10306432	48	2.0	45	82	13	111	47	21	13	17	1.82
10309999--10310038	15	2.4	16	88	12	55	42	0	0	57	0.98
10310620--10310670	22	2.3	22	83	12	61	21	5	21	50	1.69
10310748--10310808	22	2.8	22	84	0	68	45	11	6	36	1.66
10311394--10311540	27	5.5	27	74	9	140	46	4	10	38	1.60
10311385--10311544	51	3.1	51	78	9	169	45	6	10	38	1.64
10311382--10311468	24	3.5	23	73	14	75	40	8	12	39	1.73
10312494--10312545	25	2.1	25	82	13	63	21	0	1	76	0.87
10312511--10312545	14	2.3	16	90	9	56	20	0	0	80	0.72
10312540--10312705	26	6.1	27	75	8	133	42	5	4	48	1.45
10312539--10312705	28	6.1	27	75	6	124	41	5	4	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10315531--10315572	15	2.8	15	96	0	75	0	42	16	40	1.48
10326892--10326948	28	2.0	28	89	3	87	59	1	0	38	1.08
10329544--10329589	22	2.1	22	100	0	92	36	19	8	34	1.83
10342972--10343028	13	4.2	14	76	13	57	42	3	1	52	1.28
10343535--10343608	23	3.2	23	81	9	71	48	1	1	48	1.18
10343976--10344000	12	2.1	12	100	0	50	40	24	0	36	1.55
10344393--10344428	2	18.0	2	100	0	72	50	0	0	50	1.00
10351594--10351637	21	2.2	20	87	4	61	47	4	4	43	1.44
10353866--10353900	2	18.0	2	88	5	54	51	0	0	48	1.00
10353980--10354024	22	2.0	22	87	8	65	53	4	0	42	1.21

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