genome.fa.s3.2.7.7.80.10.50.1000.19.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  19  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)
7171642--7171771	58	2.2	59	77	9	142	39	12	10	37	1.78
7173691--7173827	69	2.0	71	84	5	181	32	22	8	36	1.85
7180910--7180947	14	2.8	14	88	4	51	15	7	23	52	1.69
7183045--7183087	19	2.3	18	76	7	50	41	0	4	53	1.21
7189170--7190177	457	2.2	462	84	4	1261	35	12	15	37	1.85
7196346--7196493	72	2.1	72	83	7	185	30	10	25	33	1.90
7197904--7198007	51	2.0	52	87	5	149	25	25	11	38	1.89
7198850--7198997	72	2.1	72	80	10	160	32	16	24	27	1.96
7240594--7240689	12	8.2	12	73	11	56	38	0	42	18	1.51
7240594--7240655	3	20.7	3	77	0	52	33	0	41	24	1.55
7240616--7240655	15	2.7	15	92	0	62	27	0	45	27	1.54
7240661--7240695	15	2.3	15	95	0	61	51	0	37	11	1.38
7240724--7240762	18	2.2	18	100	0	78	38	5	30	25	1.78
7241596--7241635	15	2.7	15	84	0	62	42	5	17	35	1.71
7241788--7242195	28	14.1	29	65	20	137	34	2	0	62	1.12
7241784--7242064	16	19.1	15	64	27	58	34	2	0	61	1.13
7241846--7241992	33	4.7	33	71	19	134	34	2	0	63	1.09
7241790--7241994	91	2.3	90	95	2	374	34	2	0	62	1.10
7241861--7242120	112	2.4	112	89	7	383	34	2	0	62	1.11
7241955--7242022	21	3.3	20	72	23	61	32	0	0	67	0.91
7241928--7242195	31	8.7	33	66	21	100	33	1	0	63	1.10
7241982--7242083	29	3.6	26	69	16	69	34	1	0	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7267158--7267243	30	2.9	30	98	0	163	30	9	29	31	1.88
7276531--7276625	43	2.2	45	83	12	119	63	2	1	33	1.13
7276780--7276863	16	5.3	16	73	14	68	66	0	1	32	0.99
7276753--7276932	60	3.1	59	72	18	196	61	0	3	34	1.16
7276702--7276932	114	2.0	114	95	0	417	62	0	3	32	1.19
7276781--7276863	24	3.5	24	76	15	84	67	0	1	31	0.98
7277085--7277119	15	2.3	15	90	0	52	34	25	5	34	1.80
7277293--7277318	13	2.0	13	100	0	52	30	38	7	23	1.83
7288075--7288117	2	21.5	2	100	0	86	48	0	0	51	1.00
7292719--7292768	19	2.5	20	83	9	66	54	0	0	46	1.00
7292773--7292808	16	2.2	17	90	5	56	69	0	0	30	0.89
7300853--7300886	7	4.7	7	85	7	50	20	0	0	79	0.73
7300854--7300885	15	2.1	15	94	5	55	21	0	0	78	0.76
7300883--7300913	15	2.1	14	94	5	53	45	0	0	54	0.99
7302219--7302255	18	2.0	20	89	10	60	37	10	8	43	1.69
7304928--7304983	28	2.0	28	92	0	94	28	21	8	41	1.83
7304935--7304990	28	2.0	28	89	0	85	28	21	5	44	1.74
7304956--7305050	42	2.3	41	80	7	102	27	21	11	40	1.87
7307945--7307976	3	10.7	3	100	0	64	34	34	0	31	1.58
7310505--7310529	12	2.1	12	100	0	50	40	32	0	28	1.57
7320105--7320207	54	1.9	54	97	0	197	18	9	21	50	1.75
7323209--7323248	15	2.4	18	80	12	50	50	5	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7334197--7334305	54	2.0	54	100	0	218	35	20	12	31	1.90
7345678--7345832	84	1.8	85	81	4	197	17	32	21	28	1.96
7353370--7353445	16	4.8	16	71	9	57	44	0	3	51	1.20
7354705--7354744	21	1.9	21	89	0	62	45	5	0	50	1.23
7354666--7354738	29	2.5	28	75	14	76	50	5	0	43	1.25
7354364--7355020	339	1.9	337	83	7	832	41	6	6	46	1.54
7355056--7355089	17	2.0	17	88	0	50	47	0	2	50	1.16
7365648--7365758	55	2.0	55	85	0	150	41	17	22	18	1.90
7397500--7397962	216	2.1	218	86	5	629	47	4	6	41	1.49
7398284--7398339	18	3.2	17	80	10	60	46	0	1	51	1.11
7400367--7400391	2	12.5	2	100	0	50	48	0	0	52	1.00
7415979--7416016	19	2.0	19	85	10	51	39	10	5	44	1.61
7417360--7417429	28	2.4	29	83	2	88	52	0	0	47	1.00
7417459--7417507	25	1.9	26	83	4	64	46	10	2	40	1.49
7419418--7419552	66	2.1	65	91	4	218	31	12	18	37	1.88
7421855--7421883	4	7.2	4	100	0	58	51	24	0	24	1.48
7425873--7425931	25	2.3	27	85	11	79	45	0	5	49	1.24
7426082--7426114	4	8.2	4	93	0	57	72	0	3	24	0.98
7426213--7426273	30	2.1	30	87	9	90	55	0	0	44	0.99
7426214--7426273	10	5.9	10	72	16	52	56	0	0	43	0.99
7426790--7426837	25	1.9	25	91	0	78	27	2	2	68	1.11
7427648--7427696	2	26.0	2	80	12	59	48	2	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7427649--7428313	220	3.1	219	84	7	912	42	6	3	47	1.47
7427684--7428314	210	3.0	209	85	5	800	41	7	3	47	1.49
7429419--7429585	55	3.1	54	64	20	127	47	8	14	29	1.73
7429419--7429625	104	2.0	104	95	1	371	44	9	14	31	1.76
7432008--7432034	5	5.4	5	100	0	54	44	0	55	0	0.99
7435484--7435508	2	12.5	2	100	0	50	52	0	0	48	1.00
7457497--7457524	2	14.0	2	100	0	56	50	0	0	50	1.00
7460336--7460571	127	1.9	127	80	1	285	25	18	13	42	1.87
7461825--7461869	14	3.4	14	82	14	51	71	0	2	26	0.98
7461825--7461869	17	2.5	17	82	7	54	71	0	2	26	0.98
7468634--7468762	63	2.0	63	89	0	195	42	4	17	34	1.70
7493536--7493579	17	2.5	18	82	14	56	47	0	13	38	1.43
7511912--7511946	17	2.1	17	88	0	52	42	8	48	0	1.33
7515965--7516159	45	4.4	45	79	5	191	21	40	15	23	1.91
7516022--7516148	42	3.0	42	81	3	164	22	40	14	22	1.91
7517839--7517870	2	16.0	2	100	0	64	50	0	0	50	1.00
7527147--7527428	153	1.8	154	86	3	408	40	20	14	25	1.90
7528438--7528467	15	2.1	15	93	6	53	0	20	0	80	0.72
7530635--7530661	6	4.5	6	100	0	54	85	0	14	0	0.61
7537651--7537703	25	2.2	24	89	3	79	35	3	0	60	1.15
7537634--7537885	63	4.0	63	86	5	323	37	6	1	53	1.39
7551670--7551704	2	17.5	2	100	0	70	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7561468--7561519	24	2.2	24	82	6	61	40	1	1	55	1.22
7563406--7563433	2	14.0	2	100	0	56	50	0	0	50	1.00
7566505--7566530	2	13.0	2	100	0	52	50	0	0	50	1.00
7574884--7574925	2	21.5	2	80	4	50	52	2	45	0	1.13
7579946--7580005	18	3.3	18	75	13	52	76	0	18	5	0.96
7580314--7580348	2	18.0	2	88	5	54	54	0	0	45	0.99
7581332--7581371	17	2.4	17	87	4	55	72	5	12	10	1.26
7583571--7583625	26	2.1	26	96	0	101	43	16	3	36	1.65
7584193--7584247	28	2.0	28	92	7	94	25	1	10	61	1.39
7586239--7586269	6	5.2	6	100	0	62	83	0	0	16	0.64
7587978--7588002	2	12.5	2	100	0	50	48	0	0	52	1.00
7589505--7589556	22	2.4	22	83	3	61	34	7	9	48	1.65
7589627--7589726	22	4.5	22	72	6	78	38	24	11	27	1.88
7589695--7589748	22	2.5	22	84	3	74	46	22	9	22	1.80
7589628--7589726	44	2.2	44	80	3	110	38	24	11	26	1.88
7589694--7589783	43	2.1	43	81	8	103	43	18	12	25	1.85
7589763--7589805	22	2.0	22	85	0	59	46	9	13	30	1.75
7592598--7592655	16	3.7	16	75	13	57	50	3	0	46	1.18
7596050--7596098	2	24.5	2	82	0	62	42	0	0	57	0.99
7597993--7598061	27	2.7	26	78	13	79	40	18	15	24	1.90
7598174--7598235	31	2.0	31	100	0	124	38	25	19	16	1.92
7598173--7598242	31	2.4	29	86	13	108	37	24	20	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7598263--7598293	16	1.9	16	93	0	53	45	22	16	16	1.85
7616786--7616825	19	2.2	19	90	4	64	47	42	2	7	1.45
7618971--7619017	2	23.5	2	100	0	94	0	48	0	51	1.00
7622911--7622965	20	2.5	23	82	14	71	52	16	10	20	1.73
7626871--7626926	2	28.5	2	96	3	105	51	0	48	0	1.00
7630837--7630927	20	4.5	20	69	11	60	56	1	2	40	1.19
7630809--7631019	100	2.1	100	85	7	277	53	0	3	42	1.22
7632704--7632744	18	2.2	18	86	4	55	78	7	0	14	0.96
7633464--7633512	19	2.6	19	84	12	73	34	32	4	28	1.76
7646367--7646392	2	13.0	2	100	0	52	50	0	0	50	1.00

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