genome.fa.s3.2.7.7.80.10.50.1000.18.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  18  of  29  ( 3437 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)
6678017--6678123	33	2.9	38	73	17	109	68	0	0	29	1.02
6678034--6678099	31	2.1	31	82	15	91	72	0	0	27	0.85
6678322--6678378	15	3.8	15	88	0	78	29	22	10	36	1.88
6678751--6678786	13	2.8	13	95	0	63	66	0	0	33	0.92
6678615--6679127	200	2.5	200	83	5	615	44	8	12	34	1.74
6683483--6683532	3	16.7	3	100	0	100	0	32	0	68	0.90
6697015--6697039	2	12.5	2	100	0	50	0	52	0	48	1.00
6699174--6699245	28	2.6	29	71	4	76	37	11	19	31	1.87
6717042--6717070	2	14.5	2	100	0	58	48	0	0	51	1.00
6721965--6722001	17	2.1	18	90	5	58	40	5	0	54	1.24
6730338--6730362	5	5.0	5	100	0	50	20	0	0	80	0.72
6742054--6742091	19	2.0	19	100	0	76	47	10	15	26	1.78
6751296--6751328	13	2.6	13	90	4	50	9	12	0	78	0.95
6751668--6751715	26	1.9	26	87	8	73	47	0	2	50	1.12
6758889--6758922	18	1.9	18	88	5	52	38	5	8	47	1.59
6764973--6765003	2	15.5	2	93	0	53	45	0	0	54	0.99
6767006--6767031	3	8.7	3	100	0	52	69	0	0	30	0.89
6778524--6778575	25	2.1	25	85	0	68	53	15	9	21	1.70
6779877--6780052	87	2.0	87	97	0	334	32	19	6	40	1.78
6780313--6780364	16	3.4	15	76	12	61	50	0	1	48	1.12
6784604--6784654	3	16.7	3	95	4	93	31	1	0	66	1.03
6799997--6800023	2	13.5	2	100	0	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)
6805643--6805817	76	2.3	76	77	13	178	37	12	14	35	1.85
6807170--6807256	23	3.8	23	82	0	93	52	19	6	20	1.68
6809677--6809775	34	3.0	34	89	2	148	40	1	20	38	1.59
6814786--6814863	5	16.0	5	75	10	63	74	1	1	23	0.97
6814782--6814852	25	2.7	26	76	10	72	76	1	0	22	0.87
6814772--6814834	33	2.0	30	87	9	90	71	0	0	28	0.86
6814778--6814863	33	2.6	32	80	10	84	74	1	1	23	0.96
6821377--6821436	30	2.0	30	86	3	84	58	8	5	28	1.48
6832417--6832459	20	2.2	20	83	8	52	32	6	0	60	1.23
6840997--6841058	18	3.4	17	75	14	61	35	0	1	62	1.05
6841032--6841066	11	2.9	12	87	12	54	31	0	2	65	1.07
6841032--6841066	6	5.8	6	90	10	54	31	0	2	65	1.07
6841032--6841065	17	1.9	18	94	5	61	29	0	2	67	1.05
6841941--6841998	31	1.9	30	89	6	91	51	0	0	48	1.00
6855245--6855277	17	1.9	17	88	11	50	36	6	9	48	1.60
6854792--6856184	502	2.8	495	80	7	1422	47	5	11	35	1.63
6854789--6856184	252	5.6	250	80	4	1280	47	5	11	35	1.63
6858868--6858896	2	15.0	2	92	7	51	48	0	51	0	1.00
6863890--6863936	14	3.2	15	73	14	53	38	0	0	61	0.96
6865368--6865408	21	1.9	22	90	5	66	21	7	4	65	1.37
6865277--6866022	254	2.9	250	78	7	684	35	10	6	47	1.63
6866030--6866066	19	1.9	19	94	0	65	27	8	13	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6867523--6869357	252	7.3	253	80	5	1818	47	5	11	35	1.63
6867523--6869357	501	3.7	497	82	4	1940	47	5	11	35	1.63
6868834--6868862	14	2.0	15	93	6	51	55	3	0	41	1.17
6870768--6870809	20	2.1	20	90	0	66	50	21	11	16	1.77
6876313--6876372	28	2.2	27	82	5	75	25	10	6	58	1.55
6881915--6881954	15	2.7	15	92	0	62	55	2	2	40	1.27
6881980--6882029	22	2.2	24	89	7	77	64	0	0	36	0.94
6882159--6882229	33	2.4	28	75	20	79	28	2	0	69	1.03
6882170--6882259	33	2.7	33	86	3	119	27	3	0	68	1.05
6883723--6883761	20	2.0	20	100	0	78	15	30	5	48	1.66
6893866--6893896	3	10.3	3	100	0	62	67	0	32	0	0.91
6911376--6911448	32	2.3	32	100	0	146	28	6	15	49	1.70
6911376--6911468	32	3.0	30	89	6	100	26	7	13	51	1.68
6921251--6921299	22	2.3	22	85	3	64	36	4	10	48	1.56
6921354--6921466	61	1.9	60	89	7	176	38	3	12	46	1.59
6921607--6921662	22	2.5	22	77	11	60	30	8	12	48	1.72
6922565--6923592	251	4.1	248	78	8	922	36	11	6	46	1.66
6926572--6926614	2	21.5	2	100	0	86	51	0	48	0	1.00
6938587--6938621	6	5.8	6	100	0	70	34	17	17	31	1.93
6946692--6946719	2	14.0	2	100	0	56	0	50	0	50	1.00
6950751--6950793	21	2.0	21	86	8	61	46	0	0	53	1.00
6951096--6951167	21	3.3	22	75	16	69	48	4	1	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6951211--6951253	16	2.6	17	82	10	54	46	0	0	53	1.00
6953589--6953618	15	1.9	16	93	6	53	50	3	0	46	1.18
6955239--6955278	10	3.9	10	90	3	62	40	40	17	2	1.63
6960555--6960592	20	1.9	20	84	10	51	50	2	10	36	1.51
6960803--6960837	13	2.8	13	91	8	56	22	0	0	77	0.78
6960821--6960885	30	2.2	30	86	2	87	36	1	3	58	1.23
6966616--6966649	2	17.0	2	87	0	50	50	0	2	47	1.16
6981856--6981912	30	1.9	30	88	0	87	36	8	12	42	1.74
6990522--6990571	22	2.3	22	82	6	57	32	2	8	58	1.39
6998229--6998314	30	2.9	30	89	0	127	15	32	33	18	1.92
6998286--6998416	51	2.6	51	93	0	217	13	28	39	18	1.89
6998387--6998452	30	2.2	30	94	0	114	16	34	31	16	1.92
7005521--7005552	16	1.9	17	93	6	57	43	18	9	28	1.81
7006783--7006831	21	2.2	23	78	7	57	32	12	12	42	1.79
7006925--7006975	20	2.5	21	87	3	68	33	5	17	43	1.73
7019093--7019139	21	2.5	18	77	16	51	68	0	0	31	0.90
7022870--7023125	76	3.3	77	87	1	370	30	26	13	29	1.94
7024218--7024430	107	2.0	106	88	0	318	32	21	21	24	1.98
7037990--7038585	237	2.5	238	84	3	736	28	22	28	20	1.99
7044294--7044340	21	2.3	20	82	10	60	38	2	4	55	1.31
7045176--7045221	15	2.9	16	81	12	51	45	6	2	45	1.41
7044755--7045869	341	3.2	339	82	6	1316	40	7	7	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7058029--7058109	39	2.0	40	93	6	139	51	16	12	19	1.75
7061171--7061196	2	13.0	2	100	0	52	50	0	0	50	1.00
7061392--7061471	39	2.0	40	85	2	108	52	13	15	18	1.75
7061570--7061612	23	1.9	23	90	4	70	30	6	11	51	1.65
7063626--7063677	2	26.0	2	96	0	95	50	1	0	48	1.12
7070169--7070197	14	2.1	14	100	0	58	51	0	0	48	1.00
7080996--7081030	15	2.2	17	90	10	56	60	0	0	40	0.97
7081075--7081128	6	8.5	6	76	11	54	62	0	0	37	0.95
7081348--7081495	26	5.7	26	69	20	76	52	3	2	41	1.29
7081373--7081446	28	3.0	26	80	16	86	54	2	0	43	1.14
7082442--7082471	2	15.0	2	92	0	51	53	0	0	46	1.00
7094913--7095080	45	3.7	44	78	9	160	33	19	16	31	1.93
7094913--7095080	90	1.9	89	81	12	209	33	19	16	31	1.93
7095056--7095102	24	2.0	24	82	0	58	27	8	21	42	1.81
7110289--7110319	2	15.5	2	100	0	62	51	0	0	48	1.00
7122001--7122039	21	1.9	20	94	5	69	51	20	0	28	1.48
7122233--7122268	18	2.0	18	88	0	54	11	16	0	72	1.12
7124396--7124453	23	2.6	22	76	13	64	34	1	3	60	1.24
7129782--7129806	1	25.0	1	100	0	50	100	0	0	0	0.00
7147562--7147618	28	2.0	29	89	3	89	33	0	0	66	0.92
7147760--7147825	33	2.0	33	90	0	105	34	12	10	42	1.77
7148611--7148659	4	12.2	4	91	0	71	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7148611--7148659	6	8.2	6	88	0	71	44	0	2	53	1.12
7150707--7150745	18	2.2	18	90	0	60	56	5	2	35	1.35
7162692--7162745	23	2.3	23	83	0	72	48	1	12	37	1.53
7164275--7164470	101	2.0	98	88	5	295	52	11	8	28	1.66
7166185--7166221	19	1.9	19	88	0	56	48	0	2	48	1.15
7166497--7166567	20	3.3	20	75	13	54	46	5	1	46	1.35
7166513--7166565	21	2.5	19	77	19	52	49	3	0	47	1.19
7166642--7166702	32	1.9	32	83	6	79	54	0	0	45	1.00
7171616--7171771	59	2.7	59	79	7	169	38	10	12	38	1.78
7171616--7171754	59	2.4	59	84	4	174	38	10	13	38	1.79

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