genome.fa.s1.2.7.7.80.10.50.1000.14.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   32   

This is table  14  of  32  ( 3821 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)
7659899--7659973	28	2.6	30	83	8	102	41	1	0	57	1.07
7660078--7660123	18	2.6	17	83	10	56	43	2	2	52	1.25
7660192--7660225	16	2.1	16	89	10	52	47	0	0	52	1.00
7660224--7660340	30	3.9	30	77	8	139	57	0	2	40	1.12
7661340--7661409	28	2.6	27	77	11	72	32	1	2	62	1.18
7661636--7661703	29	2.3	30	89	2	102	58	7	2	30	1.40
7667426--7667614	99	1.9	99	88	0	288	37	10	8	43	1.70
7667509--7667980	119	3.9	119	80	4	547	38	9	6	45	1.63
7667510--7667980	240	2.0	238	83	5	601	39	8	6	45	1.62
7669347--7669812	121	3.8	120	81	3	540	37	9	8	45	1.66
7670007--7670098	47	2.0	47	91	0	148	43	9	11	34	1.75
7677171--7677212	21	2.0	21	95	0	75	59	2	28	9	1.41
7687744--7687813	28	2.5	28	83	2	77	61	10	1	27	1.36
7691109--7691148	20	2.0	20	85	0	53	55	7	0	37	1.29
7705772--7705845	9	8.2	9	78	0	58	44	37	17	0	1.49
7708068--7708096	2	14.5	2	100	0	58	48	51	0	0	1.00
7715556--7715585	2	15.0	2	100	0	60	50	0	0	50	1.00
7719856--7719927	37	1.9	37	88	0	108	27	19	27	25	1.99
7727582--7727621	18	2.2	19	86	4	55	2	30	5	62	1.29
7745943--7745972	5	6.0	5	100	0	60	40	0	60	0	0.97
7746033--7746061	2	14.5	2	100	0	58	51	0	0	48	1.00
7753305--7753330	2	13.0	2	100	0	52	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7772835--7772869	17	2.1	17	88	0	52	40	5	14	40	1.69
7776745--7776801	26	2.2	25	81	12	62	64	1	7	26	1.28
7777272--7777895	210	3.0	207	85	3	809	47	5	7	40	1.53
7780690--7780794	33	3.1	34	79	8	115	65	0	3	29	1.16
7780707--7780794	35	2.6	32	75	16	88	67	1	2	29	1.10
7780760--7780823	14	4.7	14	71	21	55	65	0	3	31	1.08
7781356--7781415	13	4.5	13	76	12	50	36	0	0	63	0.95
7781523--7781577	21	2.6	21	85	8	67	40	1	0	58	1.09
7781677--7781733	14	4.0	14	78	13	62	26	0	0	73	0.83
7781659--7781733	21	3.5	21	83	10	73	25	0	2	72	0.98
7781686--7781728	4	11.5	4	80	14	56	25	0	0	74	0.82
7781681--7781733	21	2.5	21	90	3	79	28	0	0	71	0.86
7781699--7781744	22	2.1	22	87	0	65	28	4	0	67	1.10
7782280--7782316	17	2.1	19	85	10	51	45	2	5	45	1.40
7782544--7782573	2	15.0	2	100	0	60	50	0	0	50	1.00
7785033--7785089	30	1.9	30	85	0	78	45	24	3	26	1.69
7810532--7810563	15	2.1	15	94	0	55	56	15	0	28	1.40
7811091--7811116	3	8.7	3	100	0	52	65	0	0	34	0.93
7812710--7812735	13	2.0	13	100	0	52	61	0	0	38	0.96
7822699--7823079	196	1.9	197	84	3	509	45	8	13	32	1.75
7834760--7834807	12	3.9	12	83	5	51	33	2	14	50	1.55
7835668--7835717	20	2.5	20	76	3	55	36	0	2	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7836015--7836059	20	2.2	20	80	7	56	71	0	0	28	0.87
7836055--7836101	21	2.2	20	85	7	58	55	0	0	44	0.99
7836067--7836112	21	2.2	21	84	3	58	58	2	2	36	1.22
7850982--7851056	6	12.0	6	75	10	53	29	0	0	70	0.87
7851208--7851282	6	12.0	6	75	10	53	29	0	0	70	0.87
7851213--7851285	23	3.4	22	74	12	71	31	0	0	68	0.90
7850981--7851344	113	3.2	113	97	0	685	33	2	0	63	1.12
7858412--7858476	30	2.2	30	86	2	96	30	33	3	32	1.73
7858413--7858476	15	4.3	15	79	16	71	29	34	3	32	1.73
7858698--7858742	15	3.0	15	80	0	54	11	40	31	17	1.85
7858924--7859116	51	3.8	51	81	1	208	9	37	31	21	1.86
7859072--7859169	51	1.9	51	85	8	137	12	32	32	22	1.91
7859072--7859198	51	2.5	51	80	10	134	11	34	32	21	1.90
7876107--7876156	21	2.4	21	82	0	55	14	52	6	28	1.65
7876131--7876184	27	2.0	27	88	0	81	16	55	3	24	1.57
7888722--7888751	3	10.0	3	100	0	60	0	33	0	66	0.92
7889704--7889730	2	13.5	2	100	0	54	48	0	51	0	1.00
7894405--7894473	15	4.6	15	90	0	93	36	7	23	33	1.82
7894403--7894477	30	2.5	30	80	0	105	36	9	24	30	1.87
7894622--7895060	28	15.4	27	69	19	166	33	2	0	63	1.13
7894717--7894772	12	4.2	12	79	18	58	26	0	0	73	0.84
7894690--7894766	23	3.1	23	75	18	57	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7894749--7894911	40	4.2	41	66	25	113	34	3	0	61	1.16
7894796--7895076	25	10.1	27	69	23	96	33	2	1	63	1.13
7894622--7895076	111	4.0	113	90	7	687	33	2	0	63	1.12
7894931--7894999	23	3.1	23	71	25	67	34	0	0	65	0.93
7894622--7895076	224	2.0	224	89	7	708	33	2	0	63	1.12
7894691--7895115	28	14.6	30	67	23	116	32	2	0	64	1.12
7899372--7899409	19	2.0	19	94	0	67	28	26	13	31	1.93
7901571--7901634	34	2.0	33	84	9	87	35	1	3	59	1.23
7913261--7913303	22	2.0	20	86	8	59	60	2	0	37	1.10
7932533--7932604	31	2.4	32	78	15	84	52	2	0	44	1.15
7932605--7932638	17	2.0	17	88	11	52	47	0	0	52	1.00
7932568--7932628	23	2.6	23	78	19	72	47	1	0	50	1.10
7932579--7932631	24	2.2	24	83	6	72	43	1	0	54	1.11
7949902--7949983	40	2.0	40	100	0	164	34	19	7	39	1.80
7954788--7954817	2	15.0	2	92	0	51	50	0	3	46	1.18
7961828--7961864	4	9.2	4	93	0	65	72	2	24	0	0.97
7969633--7969657	5	5.0	5	100	0	50	20	0	0	80	0.72
7973417--7973462	17	2.7	17	100	0	92	28	13	17	41	1.86
7975345--7975386	22	1.9	22	90	0	66	54	0	0	45	0.99
7975345--7975388	23	2.0	22	86	4	61	54	0	0	45	0.99
7976275--7976311	19	1.9	19	94	0	65	43	21	10	24	1.84
7981789--7981814	2	13.0	2	100	0	52	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7984911--7984970	29	2.1	29	83	0	75	25	18	3	53	1.60
7988266--7988303	16	2.4	16	86	4	51	50	0	10	39	1.37
7991865--7991921	24	2.2	25	80	17	64	35	10	7	47	1.65
7991786--7991994	80	2.6	79	83	3	233	34	11	10	43	1.75
7991839--7991966	26	4.9	25	70	16	80	32	12	10	44	1.77
7999423--7999462	3	13.3	3	94	0	71	67	2	0	30	1.04
8013391--8013460	30	2.3	30	100	0	140	55	0	0	44	0.99
8022673--8022712	19	2.1	19	85	0	53	52	2	0	45	1.14
8029005--8029051	22	2.1	22	84	7	60	53	0	0	46	1.00
8033854--8033951	48	2.0	48	88	0	142	22	17	29	30	1.96
8035844--8035868	2	12.5	2	100	0	50	52	0	0	48	1.00
8038628--8038677	18	2.7	19	85	14	70	70	0	0	30	0.88
8038629--8038694	18	3.8	17	77	18	57	69	0	0	30	0.88
8038635--8038691	18	3.1	18	87	10	71	73	0	0	26	0.83
8038634--8038683	25	2.0	25	96	0	91	74	0	0	26	0.83
8040184--8040232	14	3.4	14	75	5	53	44	0	2	53	1.12
8040545--8040589	16	2.8	16	86	0	63	0	20	0	80	0.72
8041743--8041768	2	13.0	2	100	0	52	50	0	0	50	1.00
8045134--8045170	18	2.1	18	100	0	74	27	16	27	29	1.97
8063228--8063300	27	3.0	26	81	14	77	43	2	2	50	1.30
8063332--8063401	26	2.7	25	80	8	86	42	1	1	54	1.18
8063347--8063433	29	3.1	28	79	11	90	42	1	2	54	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8063083--8063615	144	3.7	141	82	9	585	41	2	3	53	1.30
8063514--8063577	27	2.3	28	86	2	94	46	1	3	48	1.27
8063547--8063605	19	2.9	20	72	18	59	42	1	1	54	1.20
8063573--8063616	14	3.3	14	75	12	56	40	0	0	59	0.98
8095820--8095926	53	2.0	53	100	0	214	42	13	16	27	1.85
8095842--8095924	25	3.2	25	71	15	87	43	13	16	26	1.85
8106256--8106284	14	2.1	14	100	0	58	93	0	6	0	0.36
8106362--8106396	2	17.5	2	87	0	52	51	0	45	2	1.16
8119947--8119984	20	1.9	20	88	0	58	26	5	18	50	1.68
8127986--8128019	16	2.1	16	100	0	68	58	0	11	29	1.33

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   32