genome.fa.s2.2.7.7.80.10.50.1000.16.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  16  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)
8032390--8032421	15	2.1	15	94	0	55	53	18	3	25	1.59
8033286--8033315	3	10.0	3	100	0	60	66	0	0	33	0.92
8033575--8033605	2	15.0	2	93	6	53	48	3	0	48	1.17
8041312--8041389	33	2.3	33	84	4	93	28	3	0	67	1.07
8046143--8046571	218	2.0	217	80	4	488	31	19	15	33	1.93
8046870--8046941	35	2.1	35	86	0	99	11	38	2	47	1.54
8048711--8048736	2	13.0	2	100	0	52	50	0	0	50	1.00
8049678--8049706	2	15.0	2	92	7	51	48	0	0	51	1.00
8050923--8050968	6	7.7	6	87	0	56	0	41	0	58	0.98
8050923--8050968	4	11.5	4	90	0	56	0	41	0	58	0.98
8051314--8051340	3	9.0	3	100	0	54	0	33	0	66	0.92
8062823--8062860	19	2.0	19	100	0	76	42	10	10	36	1.74
8064230--8064275	2	24.0	2	91	8	78	50	0	0	50	1.00
8070748--8070783	19	1.9	19	88	5	56	22	5	0	72	1.05
8075258--8075288	2	15.5	2	100	0	62	51	0	0	48	1.00
8075387--8075426	20	2.1	20	90	9	66	52	0	0	47	1.00
8077465--8077507	2	22.0	2	95	4	79	51	0	0	48	1.00
8080062--8080094	8	4.0	8	96	4	57	15	0	0	84	0.61
8080232--8080272	21	2.0	21	85	0	55	24	2	4	68	1.22
8087734--8087770	2	19.0	2	94	5	67	51	0	0	48	1.00
8088954--8089017	18	3.6	18	70	8	58	31	7	14	46	1.72
8089168--8089213	16	2.9	16	80	3	58	19	0	10	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8099382--8099416	2	17.5	2	100	0	70	51	0	0	48	1.00
8108757--8108802	24	2.0	24	82	4	58	36	2	21	39	1.66
8122961--8123062	30	3.4	30	98	1	197	38	11	11	38	1.79
8123526--8123551	4	6.5	4	100	0	52	23	0	0	76	0.78
8139237--8139313	24	3.2	24	96	0	136	23	29	28	18	1.97
8142044--8142078	2	17.5	2	100	0	70	48	0	51	0	1.00
8147104--8147160	29	1.9	30	85	3	80	26	8	19	45	1.79
8147104--8147187	29	2.9	28	78	7	71	26	11	17	44	1.84
8157147--8157189	17	2.6	18	82	17	58	46	0	0	53	1.00
8157215--8157261	18	2.6	18	83	6	51	51	4	2	42	1.33
8158262--8158290	2	14.5	2	100	0	58	51	0	0	48	1.00
8160702--8160765	31	2.1	31	96	0	119	42	12	23	21	1.87
8164675--8164699	2	12.5	2	100	0	50	52	0	0	48	1.00
8164781--8164831	26	2.0	26	81	14	61	60	1	0	37	1.08
8175646--8175690	7	6.4	7	100	0	90	28	28	13	28	1.94
8188709--8188804	26	3.6	25	75	19	79	34	11	10	43	1.75
8188707--8188774	31	2.3	29	74	18	75	38	11	10	39	1.76
8188718--8188780	31	2.1	31	85	8	87	30	12	11	46	1.77
8188889--8188938	21	2.4	21	89	0	73	38	24	16	22	1.93
8199897--8199932	3	12.0	3	93	0	63	0	36	0	63	0.94
8201656--8201710	25	2.2	25	100	0	110	40	5	3	50	1.43
8215089--8215223	68	2.0	67	85	4	182	27	13	7	51	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8230604--8230649	20	2.3	20	85	7	58	56	4	6	32	1.45
8236740--8236829	28	3.2	28	84	6	112	43	13	4	38	1.64
8236791--8236905	58	2.0	58	89	0	176	35	13	6	45	1.68
8238791--8238836	19	2.4	19	85	7	58	47	2	2	47	1.26
8238889--8238934	18	2.4	19	85	7	58	45	2	8	43	1.47
8239163--8239203	20	2.0	20	85	0	55	46	9	2	41	1.50
8239267--8239323	26	2.3	26	84	6	73	43	14	5	36	1.67
8239538--8239591	28	1.9	28	85	7	74	50	7	7	35	1.59
8240327--8240427	35	2.7	39	72	20	97	28	4	2	63	1.30
8241812--8241946	60	2.2	60	85	0	180	21	31	19	28	1.97
8245286--8245337	26	2.0	26	85	7	70	30	3	17	48	1.65
8261686--8261723	20	2.0	20	85	10	53	52	5	0	42	1.24
8262889--8262954	31	2.1	31	94	0	114	31	0	1	66	1.01
8262904--8262960	15	3.7	15	74	4	60	42	0	0	57	0.98
8262936--8263149	92	2.3	93	81	9	226	48	1	6	43	1.38
8263618--8263692	31	2.6	28	79	8	80	44	0	0	56	0.99
8263759--8263797	13	3.0	13	82	14	53	41	7	0	51	1.31
8264425--8264450	2	13.0	2	100	0	52	50	0	0	50	1.00
8272225--8272257	15	2.1	16	88	5	50	36	0	15	48	1.45
8273204--8273234	14	2.3	14	94	5	55	48	0	3	48	1.17
8277308--8277337	2	15.0	2	92	0	51	46	0	3	50	1.18
8287862--8287892	2	15.5	2	100	0	62	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8292328--8292359	2	16.0	2	93	0	55	0	46	3	50	1.17
8294562--8294588	2	13.5	2	100	0	54	51	0	0	48	1.00
8302859--8302909	27	1.9	27	88	4	77	25	0	11	62	1.29
8303418--8303534	29	3.9	29	68	20	89	34	2	0	63	1.08
8303498--8303679	21	8.5	20	71	24	92	34	1	1	63	1.12
8303550--8303751	49	3.8	49	68	25	135	35	2	1	60	1.19
8303422--8303755	108	3.0	110	91	7	529	34	2	0	61	1.15
8303492--8303755	27	9.7	27	67	25	114	34	1	1	62	1.14
8303606--8303661	22	2.5	23	75	19	64	32	0	1	66	1.03
8303523--8303707	15	12.1	15	64	21	64	36	2	1	60	1.16
8303711--8303791	33	2.4	33	82	10	85	29	2	0	67	1.03
8303767--8303889	48	2.5	50	75	7	126	31	1	0	65	1.08
8303765--8303877	53	2.2	49	82	14	140	30	1	0	67	1.07
8303794--8303875	24	3.1	28	70	22	77	30	2	1	65	1.13
8303763--8303881	29	4.2	28	73	21	99	30	1	0	67	1.06
8303771--8303875	51	2.0	55	87	7	155	29	1	0	67	1.07
8303816--8303891	17	4.7	16	73	22	61	34	1	0	64	1.02
8303830--8303892	29	2.2	27	81	10	72	33	1	0	65	1.03
8310151--8310181	12	2.6	12	94	0	53	0	16	0	83	0.64
8310438--8310463	2	13.0	2	100	0	52	50	0	50	0	1.00
8315783--8315851	22	3.2	22	64	12	61	33	24	14	27	1.94
8316926--8316951	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8317130--8317270	22	6.5	22	71	13	96	51	21	2	24	1.59
8317187--8317270	43	2.0	43	87	0	123	51	22	3	22	1.64
8330393--8330463	12	5.7	12	71	15	54	38	7	12	42	1.70
8330396--8330462	18	3.6	18	80	11	80	37	5	13	43	1.69
8336537--8336567	2	15.5	2	93	0	53	3	51	0	45	1.17
8374283--8376078	246	7.2	244	75	10	1311	50	4	8	36	1.54
8374282--8376096	748	2.4	746	79	8	1804	50	4	8	36	1.54
8376272--8376312	11	3.6	12	84	15	52	65	0	0	34	0.93
8379630--8379676	15	3.1	15	100	0	94	25	12	27	34	1.92
8383386--8383416	2	15.5	2	100	0	62	48	0	0	51	1.00
8395288--8395316	12	2.5	12	94	5	51	72	0	0	27	0.85
8395282--8395324	21	2.0	21	82	8	52	74	0	0	25	0.82
8395752--8395797	20	2.4	19	85	7	58	47	8	6	36	1.60
8396394--8397663	251	5.1	250	82	3	1297	49	6	9	34	1.60
8395731--8397741	978	2.1	968	80	7	2179	49	6	9	34	1.60
8398405--8398450	22	2.1	22	88	8	67	39	8	6	45	1.61
8399695--8399740	20	2.4	19	85	10	58	15	4	8	71	1.26
8399706--8399745	20	2.1	20	90	9	66	12	2	5	80	0.98
8406249--8406301	25	2.2	24	83	10	63	43	0	3	52	1.19
8406260--8406301	21	2.0	21	85	0	57	45	0	4	50	1.23
8413450--8413515	34	1.9	34	93	0	114	36	7	10	45	1.67
8433103--8433291	101	1.9	98	91	3	306	34	22	15	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8434675--8434721	24	2.0	24	83	8	60	17	2	6	74	1.12
8434675--8434722	25	2.0	24	83	4	60	16	2	6	75	1.11
8435478--8435544	28	2.4	28	100	0	134	25	26	17	29	1.98
8445637--8445670	6	5.7	6	100	0	68	14	17	35	32	1.91
8449731--8449801	37	1.9	37	100	0	142	29	14	21	35	1.92
8468885--8468924	12	3.4	12	89	6	64	30	0	0	70	0.88
8468890--8468938	23	2.1	23	81	7	55	34	0	2	63	1.06
8475233--8475300	30	2.3	31	80	12	79	48	5	10	35	1.61
8475244--8475341	30	3.3	30	76	12	94	41	7	15	35	1.74
8481450--8481489	20	2.0	21	85	5	55	42	7	10	40	1.67

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